APBIO-U03-L01 How fast: the rate of reaction
Here is a drop of hydrogen peroxide on a cut. The drop fizzes at once with bubbles of oxygen.
Here is the same hydrogen peroxide in its brown bottle. The bottle has sat for months without a single bubble.
On the cut the oxygen comes off in seconds. In the bottle the oxygen leaks out over months. How do you put a number on how fast the peroxide breaks down?
Unit 3 · Cellular Energetics
1Reactants and products
Video: Watch: Reactants and products
The peroxide reaction written out as a word equation: hydrogen peroxide → water + oxygen. The starting substance is the reactant; the new substances are the products.
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The speed of a reaction can be given a number, called the rate of reaction.
The rate of reaction is the amount of new substance formed in each minute, such as 3.0 mL of oxygen per minute.
Two tubes can be compared fairly only when each tube has a rate of reaction.
The rate of reaction says how soon the oxygen comes. The amount of peroxide at the start says how much oxygen comes in the end.
Start with the substances themselves.
The fizz on the cut is a chemical reaction. The hydrogen peroxide is turning into water and oxygen.
The bubbles are the oxygen escaping from the liquid.
Here is the reaction written out as a word equation. Read the arrow as ‘becomes’.
The peroxide reaction in words, and in formulas: two hydrogen peroxide molecules become two water molecules and one oxygen molecule
No atoms appear or vanish. The hydrogen and oxygen atoms of the peroxide are rearranged into water molecules and oxygen molecules.
Two hydrogen peroxide molecules become two water molecules and one oxygen molecule.
Hydrogen peroxide is the starting substance, the one that is changed. A starting substance that a reaction changes is called a .
Water and oxygen are the new substances formed. A new substance formed by a reaction is called a .
Here is a second reaction written out the same way: glucose + oxygen → carbon dioxide + water.
The reaction of glucose with oxygen in words, and in formulas: one glucose molecule and six oxygen molecules become six carbon dioxide molecules and six water molecules
Glucose and oxygen are the reactants. Carbon dioxide and water are the products.
What you are expected to know Pick out, in a written reaction, the reactants (the starting substances, before the arrow) and the products (the new substances formed, after the arrow).
Glucose + oxygen → carbon dioxide + water.
Is oxygen a reactant or a product?
- A. ✓ Reactant
- B. ProductOxygen is written before the arrow.
Why: Oxygen is written before the arrow.
The substances before the arrow are the starting substances.
A starting substance is a reactant.
So oxygen is a reactant.
In a leaf, carbon dioxide + water → glucose + oxygen.
Is oxygen a reactant or a product?
- A. ReactantOxygen is written after the arrow in this reaction.
- B. ✓ Product
Why: In this reaction oxygen is written after the arrow.
The substances after the arrow are the new substances formed.
A new substance formed is a product.
So here oxygen is a product.
The same substance can be a product of one reaction and a reactant of another.
Yeast in bread dough speeds up glucose → alcohol + carbon dioxide.
Is glucose a reactant or a product?
- A. ✓ Reactant
- B. ProductGlucose is written before the arrow.
Why: Glucose is written before the arrow.
The yeast changes the glucose into alcohol and carbon dioxide.
A starting substance that is changed is a reactant.
So glucose is a reactant.
Lipase in the gut speeds up fat + water → fatty acids + glycerol.
Is glycerol a reactant or a product?
- A. ReactantGlycerol is written after the arrow.
- B. ✓ Product
Why: Glycerol is written after the arrow.
The reaction forms glycerol from the fat.
A new substance formed is a product.
So glycerol is a product.
In damp air, iron + oxygen → rust.
Is iron a reactant or a product?
- A. ✓ Reactant
- B. ProductIron is written before the arrow.
Why: Iron is written before the arrow.
The reaction changes the iron into rust.
A starting substance that is changed is a reactant.
So iron is a reactant.
Rust is written after the arrow, so rust is the product.
23How fast: the rate of reaction
Video: Watch: Measuring how fast
A cube of liver in hydrogen peroxide releases 12 mL of oxygen in 4.0 minutes. The amount of product formed divided by the time taken is the rate of reaction: 3.0 mL/min.
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On the cut, the oxygen comes off in seconds. In the bottle, the oxygen leaks out so slowly that the peroxide keeps for months.
The difference between the cut and the bottle is speed.
Suppose two tubes of peroxide each release oxygen for 4.0 minutes. The tube that releases more oxygen in those 4.0 minutes is the faster tube.
Now suppose two tubes of peroxide each release 12 mL of oxygen. The tube that takes fewer minutes to release its 12 mL is the faster tube.
So the speed depends on two things: how much oxygen forms, and how long that takes.
To measure the speed, a student collects the oxygen in a measuring cylinder and times it with a stopwatch. Here a cube of liver in hydrogen peroxide releases 12 mL of oxygen in 4.0 minutes.
The amount of product formed, divided by the time taken, is called the .
Here is the equation, in words and as the AP formula sheet writes it.
dY = the amount of product formed, in mL, mg or μmol; dt = the time taken, in min
On the formula sheet, dY is the amount that changed: here, the 12 mL of oxygen formed.
And dt is the time that took: here, 4.0 minutes. So 12 mL sits on top of the fraction and 4.0 min sits underneath.
A cube of liver in hydrogen peroxide releases 12 mL of oxygen in 4.0 minutes. What is the rate of reaction?
The unit carries both measurements: milliliters of oxygen per minute, mL/min.
When the product is measured as a mass, the rate of reaction is in mg/min.
When the product is counted in moles, the rate of reaction is in μmol/min. The symbol μ means a millionth, as in μm.
What you are expected to know Calculate a rate of reaction as the amount of product formed divided by the time taken, and state its unit.
A student drops a cube of potato into hydrogen peroxide. The peroxide breaks down into water and oxygen. The tube releases 9.0 mL of oxygen in 6.0 minutes.
Calculate the rate of reaction.
Answer: 1.5 mL/min (tolerance ±0.05)
Sucrase, a substance from yeast, is splitting sucrose (table sugar) into smaller sugars in a tube. A student measures the mass of the smaller sugars as they form: 36 mg of product in 8.0 minutes.
Calculate the rate of reaction.
Answer: 4.5 mg/min (tolerance ±0.05)
42Quick quiz: rate of reaction mixed practice
What is the rate of reaction?
- A. The amount of product formed in the endThe amount formed in the end does not tell you how many minutes it took to form.
- B. ✓ The amount of product formed divided by the time taken
- C. The time taken for the reaction to finishThe time taken alone does not tell you how much product formed in that time.
Why: The rate of reaction is the amount of product formed divided by the time taken.
The liver tube released 12 mL of oxygen in 4.0 minutes: a rate of reaction of 3.0 mL/min.
A student collects the oxygen released from a tube of hydrogen peroxide with a cube of liver in it.
(a) State what is meant by the rate of a reaction. (1 pt)
- Award 1 point for: the amount of product formed (or reactant used up) divided by the time taken.
- Accept: how much oxygen forms each minute.
45Faster does not mean more
Video: Watch: Faster does not mean more
Two tubes hold the same peroxide. The faster tube reaches 12 mL of oxygen sooner, but both tubes end at the same 12 mL. The amount of peroxide at the start sets the end; the rate of reaction sets only how soon.
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Hydrogen peroxide → water + oxygen.
Which substance does the oxygen come from?
- A. ✓ The hydrogen peroxide
- B. The waterWater is a product; it is formed by the reaction, along with the oxygen.
Why: Hydrogen peroxide is the reactant.
The reaction rearranges the peroxide’s atoms into water molecules and oxygen molecules.
So the oxygen comes from the hydrogen peroxide.
Now consider two tubes that hold the same 10 mL of hydrogen peroxide. One tube fizzes faster than the other.
Here is a graph of the oxygen collected against time for the two tubes.
The faster tube’s curve is steeper. But both curves level off at the same 12 mL of oxygen.
A faster rate of reaction does not mean more oxygen in the end. The faster tube simply reaches 12 mL sooner.
The amount of peroxide at the start sets the final amount of oxygen. The rate of reaction sets only how soon that amount is reached.
What you are expected to know Predict the final amount of oxygen from the amount of peroxide at the start, whatever the rate of reaction.
Tube H and tube L each hold 10 mL of the same hydrogen peroxide. Tube H has a bigger cube of liver, so tube H fizzes faster.
Compared with tube L, how much oxygen does the peroxide in tube H release in the end?
- A. More oxygenBoth tubes hold the same 10 mL of peroxide.
So the same volume of oxygen forms in each tube. - B. ✓ The same volume of oxygen
- C. Less oxygenBoth tubes hold the same 10 mL of peroxide.
So tube H forms the same volume of oxygen, not less.
Why: The oxygen comes from the peroxide.
Both tubes hold the same 10 mL of peroxide.
So both tubes release the same volume of oxygen in the end.
Tube H only reaches that volume sooner.
Tube H fizzes faster than tube L. Both tubes hold 10 mL of the same hydrogen peroxide.
Compared with tube L, when does the peroxide in tube H reach its final volume of oxygen?
- A. ✓ Sooner
- B. At the same timeTube H forms oxygen faster than tube L.
So tube H reaches the final volume sooner. - C. LaterTube H forms oxygen faster than tube L.
So tube H reaches the final volume sooner, not later.
Why: The rate of reaction sets how soon the final volume is reached.
Tube H forms oxygen faster.
So tube H reaches the final volume sooner.
Tube 1 holds 10 mL of hydrogen peroxide. Tube 2 holds 20 mL of the same peroxide. Each tube gets the same cube of liver.
Compared with tube 1, how much oxygen does the peroxide in tube 2 release in the end?
- A. ✓ More oxygen
- B. The same volume of oxygenThe two tubes hold different amounts of peroxide.
- C. Less oxygenTube 2 holds twice the peroxide.
So tube 2 forms more oxygen, not less.
Why: The oxygen comes from the peroxide.
Tube 2 holds twice as much peroxide as tube 1.
So tube 2 releases more oxygen in the end.
Tube M and tube N each hold 10 mL of the same hydrogen peroxide. A pinch of manganese dioxide in tube M makes the peroxide in tube M fizz much faster.
Compared with tube N, how much oxygen does the peroxide in tube M release in the end?
- A. More oxygenBoth tubes hold the same 10 mL of peroxide.
So the same volume of oxygen forms in each tube. - B. ✓ The same volume of oxygen
- C. Less oxygenBoth tubes hold the same 10 mL of peroxide.
So tube M forms the same volume of oxygen, not less.
Why: The oxygen comes from the peroxide.
Both tubes hold the same 10 mL of peroxide.
So both tubes release the same volume of oxygen in the end.
Tube M only reaches that volume sooner.
Tube 1 holds 10 mL of hydrogen peroxide. Tube 3 holds 5 mL of the same peroxide. Each tube gets the same cube of liver.
Compared with tube 1, how much oxygen does the peroxide in tube 3 release in the end?
- A. More oxygenTube 3 holds half the peroxide.
So tube 3 forms less oxygen. - B. The same volume of oxygenThe two tubes hold different amounts of peroxide.
- C. ✓ Less oxygen
Why: The oxygen comes from the peroxide.
Tube 3 holds half as much peroxide as tube 1.
So tube 3 releases less oxygen in the end.
Back to the drop of hydrogen peroxide fizzing on the cut, and the same peroxide sitting still in its brown bottle.
The cut and the bottle differ in rate of reaction: the oxygen comes off the cut in seconds and leaks from the bottle over months.
The cut and the bottle do not differ in what forms. On the cut and in the bottle, the same hydrogen peroxide becomes the same water and the same oxygen.
62Mixed practice mixed practice
In the stomach, an enzyme speeds up the reaction protein + water → amino acids.
Which substances are the products?
- A. Protein onlyProtein is written before the arrow, so protein is a reactant.
- B. ✓ Amino acids only
- C. Protein and waterProtein and water are written before the arrow, so protein and water are the reactants.
- D. Protein and amino acidsProtein is written before the arrow, so protein is a reactant, not a product.
Why: The products are the new substances the reaction forms.
The new substances are written after the arrow.
Only amino acids are written after the arrow.
So the amino acids are the products.
Protein and water are written before the arrow, so protein and water are the reactants.
A student measures the mass of sugar formed in a tube each minute.
Which unit does the rate of reaction have?
- A. mgmg is the unit of the mass formed, not of the mass formed per minute.
- B. minmin is the unit of the time taken, not of the mass formed per minute.
- C. ✓ mg/min
Why: The rate of reaction is the mass of sugar formed divided by the time taken.
The mass is in mg and the time is in min.
So the rate of reaction is in mg/min.
Hydrogen peroxide with a cube of liver in it is breaking down into water and oxygen. The tube releases 21 mL of oxygen in 6.0 minutes.
Calculate the rate of reaction.
Answer: 3.5 mL/min (tolerance ±0.05)
In yeast, sucrose + water → glucose + fructose.
Which substances are the reactants?
- A. Sucrose onlyWater is also written before the arrow, so water is a reactant too.
- B. ✓ Sucrose and water
- C. Glucose and fructoseGlucose and fructose are written after the arrow, so they are the products.
Why: The reactants are the starting substances the reaction changes.
The starting substances are written before the arrow.
Sucrose and water are written before the arrow.
So sucrose and water are the reactants.
Tube W and tube C each hold 10 mL of the same hydrogen peroxide. Tube W is warmed, so tube W fizzes faster.
Compared with tube C, how much oxygen does the peroxide in tube W release in the end?
- A. More oxygenBoth tubes hold the same 10 mL of peroxide.
So the same volume of oxygen forms in each tube. - B. ✓ The same volume of oxygen
- C. Less oxygenBoth tubes hold the same 10 mL of peroxide.
So tube W forms the same volume of oxygen, not less.
Why: The oxygen comes from the peroxide.
Both tubes hold the same 10 mL of peroxide.
So both tubes release the same volume of oxygen in the end.
Tube W only reaches that volume sooner.
Hydrogen peroxide with liver in it is breaking down into water and oxygen. A student collects the oxygen and writes down the volume every two minutes.
Calculate the rate of reaction between 0 and 4 minutes.
Part 1. Subtract the volume at 0 minutes from the volume at 4 minutes. What is dY, the oxygen released?
Answer: 6.8 mL (tolerance ±0.05)
Part 2. Subtract the two times. What is dt, the time taken?
Answer: 4 min (tolerance ±0)
Answer: 1.7 mL/min (tolerance ±0.05)
Hydrogen peroxide is breaking down into water and oxygen in two tubes. Tube P releases 6.0 mL of oxygen in 2.0 minutes. Tube Q releases 6.0 mL of oxygen in 3.0 minutes.
Which tube has the faster rate of reaction?
- A. ✓ Tube P
- B. Tube QTube Q took longer to release the same 6.0 mL.
- C. Both tubes have the same rate of reactionThe two tubes took different times to release the same 6.0 mL.
Why: Both tubes released the same 6.0 mL of oxygen.
Tube P took 2.0 minutes and tube Q took 3.0 minutes.
Tube P released its oxygen in fewer minutes.
So tube P has the faster rate of reaction.
Hydrogen peroxide is breaking down into water and oxygen in two tubes. Tube A releases 15 mL of oxygen in 5.0 minutes. Tube B releases 20 mL of oxygen in 8.0 minutes.
Which tube has the faster rate of reaction?
- A. ✓ Tube A
- B. Tube BThe amount of oxygen released is not the rate of reaction.
Tube B released more oxygen, but tube B took longer. - C. Both tubes have the same rate of reactionEach amount divided by its time is a different rate: 3.0 mL/min for tube A and 2.5 mL/min for tube B.
Why: The rate of reaction is the amount of product formed divided by the time taken.
Tube A forms 3.0 mL of oxygen each minute.
Tube B forms 2.5 mL of oxygen each minute.
So tube A has the faster rate of reaction, though tube B released more oxygen.
A student drops a cube of liver into 20 mL of hydrogen peroxide. The peroxide breaks down into water and oxygen, and the student collects the oxygen released: 8.0 mL in 5.0 minutes. A second cube of liver, twice as large, in another 20 mL of the same peroxide releases 8.0 mL of oxygen in 2.5 minutes.
(a) Calculate the rate of reaction in the tube with the first cube of liver. (1 pt)
Answer: 1.6 mL/min (tolerance ±0.05)
- Award 1 point for: a rate of reaction of 1.6 mL/min, with the unit.
- Accept: 1.6 milliliters of oxygen per minute.
(b) Explain why the second tube releases the same final volume of oxygen as the first tube, even though the second tube fizzes faster. (1 pt)
Both tubes hold the same 20 mL of the same peroxide.
So both tubes release the same volume of oxygen in the end.
The larger cube of liver only makes the oxygen form faster.
So the second tube reaches that volume sooner.
- Award 1 point for: the oxygen comes from the peroxide and both tubes hold the same amount of peroxide, so the same volume of oxygen forms in the end; the faster tube only reaches it sooner.
- Accept: the amount of reactant at the start sets the final amount of product.
Slip Saying the faster tube releases more oxygen. A faster rate of reaction changes how soon the oxygen comes, not how much oxygen the peroxide can give.
Glossary
- reactant
- A starting substance that a chemical reaction changes; written before the arrow. In hydrogen peroxide → water + oxygen, hydrogen peroxide is the reactant.
- product
- A new substance formed by a chemical reaction; written after the arrow. In hydrogen peroxide → water + oxygen, water and oxygen are the products.
- rate of reaction
- How fast a reaction happens: the amount of product formed divided by the time taken, in a unit such as mL/min or mg/min. The AP formula sheet writes it as dY over dt.
APBIO-U03-L01B The energy hump
Here are two drops of hydrogen peroxide on a white tile. A student stirs a pinch of crushed catalase tablet into the right-hand drop. She starts a stopwatch.
The right-hand drop fizzes at once. Bubbles of oxygen stream out of it for about 20 seconds. The left-hand drop, plain peroxide, shows not one bubble in five minutes.
In both drops the peroxide is breaking down into water and oxygen. The peroxide molecules collide all the time. Yet plain peroxide breaks down so slowly that a bottle of it keeps for months. Why is the plain drop so slow? What does the catalase add?
Unit 3 · Cellular Energetics
1Reading an energy profile
Video: Watch: The energy of a reaction, drawn
The peroxide reaction drawn as an energy profile: energy in kJ/mol up the side, the reactants' level, the products' level, and the drop between them as the energy released.
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Why is the plain drop so slow? Follow the energy.
An energy profile is a drawing of the energy a reaction takes in and gives out.
On the drawing, the reactants must climb an energy hump before they can react.
The height of the hump is called the activation energy, measured in kJ/mol.
When the hump is high, few collisions get over it. So the peroxide in the plain drop breaks down slowly.
Catalase lowers the hump. So the same peroxide breaks down in seconds instead of months.
Start with the unit the drawing uses for energy.
Energy is measured in joules, J. Lifting an apple from the floor up onto a table takes about 1 J.
A thousand joules is called a kilojoule, kJ. Your body releases about 300 kJ from one slice of bread.
A reaction’s energy is counted for one mole of reactant. One mole is 6 × 10²³ molecules.
So the energy of a reaction is written in kilojoules per mole, kJ/mol: the kilojoules for every mole of reactant that reacts.
A reaction releases 20 kJ/mol.
What does 20 kJ/mol mean?
- A. 20 kJ for every single molecule that reactsOne mole is 6 × 10²³ molecules, so one molecule releases a tiny fraction of 20 kJ.
- B. ✓ 20 kJ for every mole of reactant that reacts
- C. 20 kJ in total, however much reactsTwice the reactant releases twice the energy; kJ/mol counts the energy for each mole.
Why: kJ/mol is kilojoules per mole.
So 20 kJ/mol means 20 kJ released for every mole of reactant that reacts.
Two moles release 40 kJ.
In both drops the same reaction is happening: hydrogen peroxide becomes water and oxygen.
The peroxide reaction in words, and in formulae
Here is the peroxide reaction drawn with energy, in kJ/mol, up the side and the progress of the reaction along the bottom.
A drawing like this, energy against the progress of a reaction, is called an .
The flat line at the left is the reactants’ level. The reactants sit at 40 kJ/mol.
The flat line at the right is the products’ level. The products sit at 20 kJ/mol.
In your cells, glucose reacts with oxygen to make carbon dioxide and water.
Does this reaction release energy overall, or take energy in overall?
- A. ✓ It releases energy overall
- B. It takes energy in overallThe products, carbon dioxide and water, hold less energy than glucose and oxygen did.
Why: The products hold less energy than the reactants did.
So the reaction releases that difference as energy.
The products of the peroxide reaction sit lower than the reactants. So the peroxide reaction releases energy overall, like the glucose reaction.
The products sit below the reactants. The drop from the reactants’ level to the products’ level is the energy the reaction releases.
On the profile of the peroxide reaction, the reactants sit at 40 kJ/mol and the products at 20 kJ/mol. How much energy does the reaction release overall?
What you are expected to know Read the energy released overall off an energy profile: how far the products’ level sits below the reactants’ level, in kJ/mol.
Here is the energy profile of a reaction.
Calculate the energy the reaction releases overall.
Part 1. Read the energy of the reactants.
Answer: 60 kJ/mol (tolerance ±0.5)
Part 2. Read the energy of the products.
Answer: 35 kJ/mol (tolerance ±0.5)
Answer: 25 kJ/mol (tolerance ±0.5)
Here is the energy profile of another reaction.
Calculate the energy the reaction releases overall.
Answer: 40 kJ/mol (tolerance ±0.5)
27Quick quiz: energy profile mixed practice
What is an energy profile?
- A. A table of the rate of a reaction at different temperaturesAn energy profile has energy up the side, not the rate of reaction.
- B. A graph of the amount of product against timeProduct against time is the graph of oxygen collected; an energy profile has energy up the side.
- C. ✓ A drawing of energy against the progress of a reaction
Why: An energy profile is a drawing with energy, in kJ/mol, up the side and the progress of the reaction along the bottom.
A student draws the energy profile of a reaction.
(a) State what an energy profile shows. (1 pt)
- Award 1 point for: energy (in kJ/mol) against the progress of the reaction, from the reactants to the products.
30The energy hump: activation energy
Video: Watch: The climb to the peak
Between the reactants' level and the products' level the line climbs to a peak. The climb from the reactants' level to the peak is the activation energy, 50 kJ/mol here.
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Between the reactants’ level and the products’ level, the line climbs to 90 kJ/mol before it falls.
The reactants must first take in energy to reach that top. Only then can their bonds rearrange.
Here the climb is from 40 kJ/mol up to 90 kJ/mol: 50 kJ/mol.
The extra energy the reactants must take in before they can react is called the .
On the profile of the peroxide reaction, the reactants sit at 40 kJ/mol and the peak is at 90 kJ/mol. What is the activation energy?
The activation energy is separate from the energy released. The height of the peak does not set the energy released.
What you are expected to know Read the activation energy off an energy profile: the climb from the reactants’ level to the peak, in kJ/mol.
Here is the energy profile of a reaction.
Calculate the activation energy of the reaction.
Part 1. Read the energy of the reactants.
Answer: 50 kJ/mol (tolerance ±0.5)
Part 2. Read the energy at the peak.
Answer: 75 kJ/mol (tolerance ±0.5)
Answer: 25 kJ/mol (tolerance ±0.5)
Here is the energy profile of another reaction.
Calculate its activation energy.
Answer: 45 kJ/mol (tolerance ±0.5)
Here are the energy profiles of two reactions, P and Q.
Which reaction releases more energy overall?
- A. PThe energy released is the drop from the reactants’ level to the products’ level.
Reaction Q drops further, from 40 kJ/mol to 10 kJ/mol. - B. ✓ Q
- C. P and Q release the same amountReaction P ends at 20 kJ/mol and reaction Q at 10 kJ/mol.
So the two drops differ: 20 kJ/mol and 30 kJ/mol.
Why: The energy released is the drop from the reactants’ level to the products’ level.
Reaction P drops from 40 kJ/mol to 20 kJ/mol: 20 kJ/mol.
Reaction Q drops from 40 kJ/mol to 10 kJ/mol: 30 kJ/mol.
So reaction Q releases more energy, even though its hump is lower.
42Quick quiz: activation energy mixed practice
What is the activation energy of a reaction?
- A. ✓ The climb from the reactants’ level to the peak
- B. The drop from the reactants’ level to the products’ levelThe drop from the reactants’ level to the products’ level is the energy released overall.
- C. The height of the reactants’ level above zeroThe reactants’ level on its own is where the climb starts, not the size of the climb.
Why: The activation energy is the extra energy the reactants must take in before they can react.
On the profile that is the climb from the reactants’ level to the peak.
Every reaction has an activation energy.
(a) State what the activation energy of a reaction is. (1 pt)
- Award 1 point for: the extra energy the reactants must take in before they can react (the climb from the reactants’ level to the peak).
45Why a high hump means a slow reaction
Video: Watch: Collisions in the plain drop
Peroxide molecules collide all the time, but at room temperature only a rare collision carries the 50 kJ/mol activation energy, so the plain drop breaks down slowly.
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A bottle of hydrogen peroxide sits still on the shelf.
What are its peroxide molecules doing?
- A. Sitting still, like the liquidThe liquid looks still, but its molecules never stop moving.
- B. ✓ Moving all the time
Why: The molecules of any liquid move all the time, as the molecules in liquid water do.
As the peroxide molecules move, they collide.
A collision leads to a reaction only if the colliding peroxide molecules bring at least the activation energy, 50 kJ/mol, with them.
At room temperature most collisions are gentle. Only a tiny fraction carry 50 kJ/mol or more.
So the reaction does happen in the plain drop, but only when one of those rare collisions comes along.
Such collisions are so seldom that the plain drop shows no bubble in five minutes.
For the same reason, a bottle of peroxide keeps for months.
Reacting molecules must collide with at least the activation energy before their bonds can rearrange.
At a given temperature only a small fraction of collisions carry that much energy.
So the higher the activation energy, the fewer collisions succeed each second, and the slower the reaction.
The lower the activation energy, the more collisions succeed each second, and the faster the reaction.
What you are expected to know Explain why a reaction with a high activation energy is slow at ordinary temperatures.
Here are the energy profiles of two reactions, P and Q. Both reactions happen at room temperature.
Which reaction is slower?
- A. ✓ P
- B. QReaction Q has the lower hump.
Why: Reaction P has an activation energy of 50 kJ/mol.
Reaction Q has an activation energy of 20 kJ/mol.
Fewer collisions carry 50 kJ/mol than carry 20 kJ/mol.
So fewer of reaction P’s collisions succeed each second.
So reaction P is slower.
Reactions P and Q happen at the same room temperature. Reaction P is slower than reaction Q.
(a) Explain why reaction P is slower than reaction Q. (1 pt)
Reaction P has an activation energy of 50 kJ/mol.
Reaction Q has an activation energy of 20 kJ/mol.
At room temperature most collisions are gentle.
So fewer collisions carry 50 kJ/mol than carry 20 kJ/mol.
So fewer of reaction P’s collisions succeed each second.
Therefore reaction P is slower.
- Award 1 point for: molecules react only when a collision carries at least the activation energy, and fewer collisions carry reaction P’s larger activation energy, so fewer collisions succeed each second and reaction P is slower.
- Accept: ‘hump’ or ‘barrier’ for the activation energy.
In damp air, iron + oxygen → rust. The reaction releases a great deal of energy overall. A student says: ‘Rusting releases a lot of energy, so it must be a fast reaction.’
Is the student correct?
- A. YesThe energy released does not set the rate of a reaction.
- B. ✓ No
Why: The energy released is the drop from the reactants’ level to the products’ level.
The rate of reaction is set by the activation energy, the hump.
Rusting has a high activation energy.
So few collisions carry enough energy to succeed.
So a nail takes years to rust.
Wood reacts with oxygen in the air: wood + oxygen → carbon dioxide + water. The reaction releases a great deal of energy overall. A wooden table sits in a room for years and looks unchanged.
Which of the following describes the activation energy of this reaction?
- A. ✓ High
- B. LowA low activation energy would let many collisions succeed, and the table would burn away.
Why: The table looks unchanged after years.
So very few collisions between wood and oxygen molecules succeed each second.
A collision succeeds only when it carries at least the activation energy.
At room temperature few collisions carry a high activation energy.
So the activation energy of this reaction is high.
63Something lowers the hump: a catalyst
Video: Watch: The peak falls
With catalase present the peak of the peroxide profile falls from 90 kJ/mol to 60 kJ/mol; the reactants' level and the products' level stay where they were. A substance that lowers the activation energy is a catalyst.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L01Bd.mp4
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Now consider the drop with the crushed catalase tablet stirred in. The tablet adds one thing to the drop: catalase, a substance that living cells make.
With catalase present the profile changes in one place. The peak falls from 90 kJ/mol to 60 kJ/mol.
The reactants still start at 40 kJ/mol. The products still end at 20 kJ/mol.
So the activation energy is now 20 kJ/mol instead of 50 kJ/mol.
A substance that lowers the activation energy of a reaction is called a .
Catalase is a catalyst for the peroxide reaction. Manganese dioxide, a black powder, is another catalyst for the same reaction.
What you are expected to know Given two energy profiles of the same reaction, pick out the catalysed one: the profile with the lower peak.
Lactase splits lactose, the sugar in milk. Here are two energy profiles of that reaction: one with lactase present, one with no lactase.
Which profile is the one with lactase?
- A. Profile 1Profile 1 has the higher peak.
- B. ✓ Profile 2
Why: Lactase is a catalyst.
A catalyst lowers the peak of the profile.
Profile 2 peaks at 60 kJ/mol and profile 1 peaks at 90 kJ/mol.
So profile 2 is the reaction with lactase.
A student adds a catalyst to a reaction.
What happens to the peak of the energy profile?
- A. ✓ The peak falls
- B. The peak stays where it isA catalyst lowers the activation energy, the climb to the peak.
So the peak falls. - C. The peak risesA catalyst lowers the activation energy, the climb to the peak.
So the peak falls rather than rises.
Why: A catalyst lowers the activation energy.
The activation energy is the climb from the reactants’ level to the peak.
So the peak falls.
A student adds a catalyst to a reaction.
What happens to the products’ level on the energy profile?
- A. The products’ level fallsThe same products form, with the same energy.
So the products’ level stays where it is. - B. ✓ The products’ level stays where it is
- C. The products’ level risesThe same products form, with the same energy.
So the products’ level stays where it is.
Why: A catalyst lowers only the peak.
The same products form, with the same energy.
So the products’ level stays where it is.
75Quick quiz: catalyst mixed practice
What is a catalyst?
- A. ✓ A substance that lowers the activation energy of a reaction
- B. A substance that gives the reacting molecules extra energyA catalyst adds no energy to the molecules; it lowers the energy a collision needs.
- C. A substance that raises the products’ level of a reactionA catalyst leaves the products’ level where it is; it lowers only the peak.
Why: A catalyst is a substance that lowers the activation energy of a reaction.
On the energy profile, the peak falls and nothing else moves.
Warming a tube of hydrogen peroxide makes the peroxide fizz faster.
Is the warmth a catalyst?
- A. YesWarmth is not a substance.
- B. ✓ No
Why: A catalyst is a substance that lowers the activation energy of a reaction.
Warmth is not a substance, and warming the tube adds no substance to the peroxide.
So the warmth is not a catalyst.
Catalase speeds up the breakdown of hydrogen peroxide into water and oxygen.
(a) State what a catalyst is. (1 pt)
- Award 1 point for: a substance that lowers the activation energy (the peak of the energy profile) of a reaction.
79Why the catalysed reaction is faster
Video: Watch: More collisions clear the lower hump
With the activation energy lowered from 50 kJ/mol to 20 kJ/mol, far more collisions carry enough energy, so far more succeed each second and the peroxide fizzes its oxygen out in seconds.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L01Be.mp4
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On this profile, the activation energy without catalase is 50 kJ/mol. With catalase, the activation energy is 20 kJ/mol.
Far more collisions carry 20 kJ/mol than carry 50 kJ/mol. So far more collisions succeed each second.
The reaction is the same. The products are the same.
In the plain drop, hardly any collisions carry 50 kJ/mol. So the plain drop shows no bubble in five minutes.
In the drop with catalase, far more collisions carry 20 kJ/mol. So the peroxide fizzes its oxygen out in seconds.
One catalase molecule can split millions of peroxide molecules every second.
What you are expected to know Explain why a reaction with a catalyst is faster: more collisions carry the lower activation energy.
A student adds a catalyst to a reaction.
Compared with before, is the reaction now faster, slower or unchanged?
- A. ✓ Faster
- B. UnchangedA catalyst lowers the activation energy.
So more collisions succeed each second, and the reaction is faster. - C. SlowerA catalyst lowers the activation energy.
So more collisions succeed each second, and the reaction is faster, not slower.
Why: A catalyst lowers the activation energy.
So more collisions carry enough energy to react.
So more collisions succeed each second, and the reaction is faster.
A student puts two drops of hydrogen peroxide on a tile. She stirs a pinch of crushed catalase tablet into one drop. That drop fizzes at once. The plain drop shows no bubble in five minutes.
(a) Explain why the peroxide breaks down faster in the drop with catalase. (2 pt)
Frame Catalase lowers …
Peroxide molecules react only when a collision carries at least the activation energy.
With a lower activation energy, far more collisions carry enough energy to react.
So more collisions succeed each second.
So the peroxide breaks down faster in the drop with catalase.
- Award 1 point for: catalase lowers the activation energy (the peak of the energy profile).
- Award 1 point for: with a lower activation energy, more collisions carry enough energy to react, so more collisions succeed each second and the peroxide breaks down faster.
- Accept: ‘lowers the energy hump’ or ‘lowers the energy barrier’ for lowering the activation energy.
Slip Saying catalase gives the peroxide molecules extra energy, or makes them collide more often. A catalyst adds no energy to the molecules. A catalyst leaves how often the molecules collide unchanged. A catalyst lowers the energy a collision must carry.
A pinch of manganese dioxide makes hydrogen peroxide fizz hard. A student says: ‘The manganese dioxide gives each peroxide molecule extra energy, so more of them react.’
Is the student correct?
- A. Yes, the manganese dioxide gives the molecules extra energyA catalyst adds no energy to the molecules.
- B. ✓ No, the manganese dioxide lowers the energy a collision needs
Why: Manganese dioxide is a catalyst.
A catalyst lowers the activation energy.
The molecules have the same energy as before, and they collide as often as before.
But now more of those collisions carry enough energy to react.
So more collisions succeed, and the peroxide fizzes hard.
Platinum in a car’s exhaust pipe lowers the activation energy of the reaction carbon monoxide + oxygen → carbon dioxide.
Compared with the same reaction with no platinum, how much carbon monoxide reacts each second?
- A. ✓ More
- B. The same amountWith a lower activation energy, more collisions carry enough energy, so more carbon monoxide reacts each second.
- C. LessA lower activation energy never slows a reaction down.
Why: Platinum lowers the activation energy.
So more collisions between carbon monoxide and oxygen molecules carry enough energy to react.
So more collisions succeed each second, and more carbon monoxide reacts each second.
Back to the two drops of hydrogen peroxide on the white tile, one plain and one with crushed catalase stirred in.
In the plain drop, at room temperature, hardly any peroxide molecules collide with at least the activation energy.
So the plain drop shows no bubble in five minutes.
A bottle of the same peroxide keeps for months for the same reason.
In the other drop, the catalase has lowered the activation energy, here from 50 kJ/mol to 20 kJ/mol.
So far more collisions succeed each second. The same reaction fizzes its oxygen out in seconds.
98Mixed practice mixed practice
On an energy profile, which unit is on the energy axis?
- A. mgmg is a unit of mass, not of energy.
- B. mL/minmL/min is a unit of the rate of reaction, not of energy.
- C. ✓ kJ/mol
Why: Energy is measured in kilojoules, and a reaction’s energy is counted for one mole of reactant.
So the axis reads kJ/mol.
Here is the energy profile of a reaction.
Calculate the energy the reaction releases overall.
Answer: 15 kJ/mol (tolerance ±0.5)
Which of the following does a catalyst change on the energy profile of a reaction?
- A. The reactants’ levelA catalyst leaves the reactants’ level where it is.
- B. ✓ The peak
- C. The products’ levelA catalyst leaves the products’ level where it is.
Why: A catalyst lowers the activation energy, the climb from the reactants’ level to the peak.
So the peak falls, and the two levels stay where they are.
Reaction X has an activation energy of 30 kJ/mol. Reaction Y has an activation energy of 70 kJ/mol. Both reactions happen at room temperature.
Which reaction is faster?
- A. ✓ Reaction X
- B. Reaction YFewer collisions carry 70 kJ/mol than carry 30 kJ/mol.
Why: More collisions carry 30 kJ/mol than carry 70 kJ/mol.
So more of reaction X’s collisions succeed each second.
So reaction X is faster.
A candle stands unlit on a shelf for years and looks unchanged. Yet the reaction wax + oxygen → carbon dioxide + water releases a great deal of energy overall. A student says: ‘The wax must have a low activation energy, because it releases so much energy when it burns.’
Is the student correct?
- A. YesThe energy a reaction releases does not set its activation energy; the unlit candle shows that few collisions between wax and oxygen molecules succeed.
- B. ✓ No
Why: The candle looks unchanged after years.
So very few collisions between wax and oxygen molecules succeed each second.
A collision succeeds only when it carries at least the activation energy.
So the activation energy of this reaction is high, however much energy the burning releases.
A student says: ‘A catalyst makes the reacting molecules collide more often, so more of them react.’
Is the student correct?
- A. Yes, a catalyst makes the molecules collide more oftenThe molecules collide as often as before.
- B. ✓ No, a catalyst lowers the energy a collision needs
Why: A catalyst lowers the activation energy.
The molecules collide as often as before.
But now more of those collisions carry enough energy to react.
So more collisions succeed each second.
Here are two energy profiles of one reaction: with no catalyst, and with a catalyst.
By how much does the catalyst lower the activation energy?
Part 1. Calculate the activation energy with no catalyst.
Answer: 45 kJ/mol (tolerance ±0.5)
Part 2. Calculate the activation energy with the catalyst.
Answer: 15 kJ/mol (tolerance ±0.5)
Answer: 30 kJ/mol (tolerance ±0.5)
A student drops a cube of liver, which contains catalase, into 20 mL of hydrogen peroxide. The peroxide breaks down into water and oxygen, and the student collects the oxygen released: 8.0 mL in 5.0 minutes. A second tube of the same peroxide, with no liver in it, releases too little oxygen to measure in the same 5.0 minutes.
(a) Calculate the rate of reaction in the tube with liver. (1 pt)
Answer: 1.6 mL/min (tolerance ±0.05)
- Award 1 point for: a rate of 1.6 mL/min, with the unit.
- Accept: 1.6 milliliters of oxygen per minute.
(b) Explain why the tube with no liver releases too little oxygen to measure in 5.0 minutes. (1 pt)
Peroxide molecules react only when a collision carries at least the activation energy.
At room temperature hardly any collisions carry that much energy.
So hardly any collisions succeed each second, and too little oxygen forms to measure.
- Award 1 point for: with no catalyst the activation energy is high, and at room temperature few collisions carry that much energy, so few collisions succeed each second and little oxygen forms.
Slip Saying the peroxide with no liver does not react at all. The reaction does happen, but so few collisions carry the activation energy that the oxygen forms far too slowly to measure.
(c) Explain why the peroxide breaks down faster in the tube with liver. (2 pt)
A catalyst lowers the activation energy of the reaction.
With a lower activation energy, far more of the collisions between peroxide molecules carry enough energy to react.
So more collisions succeed each second.
So the oxygen forms faster in the tube with liver.
- Award 1 point for: catalase lowers the activation energy (the peak of the energy profile).
- Award 1 point for: with a lower activation energy, more collisions carry enough energy to react, so more collisions succeed and the oxygen forms faster.
- Accept: ‘lowers the energy hump’ or ‘lowers the energy barrier’ for lowering the activation energy.
Slip Saying catalase gives the peroxide molecules extra energy, or makes them collide more often. A catalyst adds no energy to the molecules. A catalyst leaves how often the molecules collide unchanged. A catalyst lowers the energy a collision must carry.
Glossary
- energy profile
- A drawing of a reaction with energy, in kJ/mol, up the side and the progress of the reaction along the bottom, from left to right, showing the reactants’ level, the hump, and the products’ level.
- activation energy
- The extra energy the reactants must take in before they can react: the climb from the reactants’ level up to the peak of the energy profile, in kJ/mol.
- catalyst
- A substance that lowers the activation energy of a reaction, so that far more collisions carry enough energy and the reaction is faster.
APBIO-U03-L02 Used again and again
Here are beads coated with catalase. A student drops them into 10 mL of hydrogen peroxide. The beads fizz.
The student rinses the beads and drops them into 10 mL of fresh peroxide. The beads fizz again. On the fifth tube of fresh peroxide the beads still fizz just as hard.
Each tube of peroxide is used up. No new catalase has been added. What happens to the catalase?
Unit 3 · Cellular Energetics
1Not used up
Video: Watch: The beads fizz again
Catalase-coated beads fizz in hydrogen peroxide, are rinsed, and fizz just as hard in fresh peroxide: the peroxide is used up, the catalase is not.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L02a.mp4
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The reaction uses the hydrogen peroxide up.
The reaction leaves the catalase exactly as it was.
So one catalase molecule works again and again.
A catalyst changes only how fast the peroxide breaks down, never what forms.
An enzyme is a catalyst that a cell makes out of protein.
So a cell can switch a reaction on or off by making more of the enzyme, or less.
Start with the beads, one tube at a time.
A student adds a catalyst to a reaction.
Which of the following does the catalyst do to the activation energy?
- A. Raises itA higher activation energy would slow the reaction down, and a catalyst speeds it up.
- B. ✓ Lowers it
- C. Leaves it unchangedIf the activation energy were unchanged, the rate of reaction would be unchanged too.
Why: A catalyst is a substance that lowers the activation energy of a reaction.
So more collisions carry enough energy to react.
So the reaction is faster.
Hydrogen peroxide breaks down into water and oxygen. Here is that reaction as a word equation.
the breakdown of hydrogen peroxide, in words and in formulae
Hydrogen peroxide breaks down into water and oxygen.
Which of the following is the reactant?
- A. ✓ Hydrogen peroxide
- B. WaterWater is on the right of the arrow, so water is a product.
- C. OxygenOxygen is on the right of the arrow, so oxygen is a product.
Why: The arrow reads “becomes”.
The substance on the left of the arrow is the reactant.
Hydrogen peroxide is on the left, so hydrogen peroxide is the reactant.
In trial one, the beads fizz until the hydrogen peroxide is gone.
The student rinses the beads and drops them into fresh peroxide.
In trial two, the beads fizz just as hard.
In trial five, the beads fizz just as hard again.
Hydrogen peroxide is the reactant. Each trial uses the peroxide up.
Catalase is not a reactant.
Catalase comes out of every reaction unchanged, ready for the next peroxide molecule.
A catalyst is not used up by the reaction it speeds up.
So one catalase molecule can act again and again.
What you are expected to know Say that a catalyst is not used up by the reaction it speeds up, so one molecule acts again and again.
A pinch of manganese dioxide dropped into a tube of hydrogen peroxide makes the peroxide fizz until the peroxide is gone. A student filters the powder out and drops it into a tube of fresh peroxide.
Does the fresh peroxide fizz less hard, harder, or just as hard as the first tube did?
- A. Less hardA catalyst is not used up.
- B. HarderThe reaction makes no new manganese dioxide.
- C. ✓ Just as hard
Why: Manganese dioxide is a catalyst.
A catalyst is not used up by the reaction it speeds up.
Manganese dioxide comes out of every reaction unchanged.
So the same amount of manganese dioxide breaks down the fresh peroxide.
So the fresh peroxide fizzes just as hard.
A dairy adds 1.0 mg of lactase to each liter of milk to split the lactose. A day later, most of the lactose has been split.
How much active lactase is in each liter now?
- A. Less than 1.0 mgA catalyst is not used up.
- B. ✓ The same, 1.0 mg
- C. More than 1.0 mgA catalyst is not a product.
Why: Lactose is the reactant, so the reaction uses the lactose up.
Lactase is the catalyst.
Lactase is not a reactant and not a product.
Lactase comes out of every reaction unchanged.
So the same 1.0 mg of lactase is there after the day.
A cube of liver makes hydrogen peroxide fizz. The student rinses the cube and drops it into fresh peroxide.
Does the fresh peroxide fizz just as hard, or less?
- A. ✓ Just as hard
- B. LessA catalyst comes out of every reaction unchanged, so none is used up.
Why: The catalase in the liver is a catalyst, so the reaction does not use it up.
The same catalase breaks down the fresh peroxide.
So the fresh peroxide fizzes just as hard.
26The same products, the same energy released
Video: Watch: The same products, the same energy
The peroxide reaction with catalase and without: the same water and oxygen form, and on the profiles drawn here both start at 40 kJ/mol and end at 20 kJ/mol; only the peak differs.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L02b.mp4
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On an energy profile, the reactants sit at one level and the products sit at a lower level.
Which of the following is the energy released overall?
- A. The climb from the reactants’ level to the peakThe climb from the reactants’ level to the peak is the activation energy.
- B. The height of the peak above zeroThe height of the peak is not an energy the reaction gives out.
- C. ✓ The drop from the reactants’ level to the products’ level
Why: The reactants sit at one level.
The products sit at a lower level.
The energy released overall is the drop from the reactants’ level to the products’ level.
Now look at what forms.
With catalase, the hydrogen peroxide becomes water and oxygen.
Without catalase, the hydrogen peroxide becomes water and oxygen.
Nothing else forms either way.
A catalyst changes how fast the peroxide breaks down, never what forms.
Here are the two energy profiles of the peroxide reaction, without catalase and with catalase.
With catalase, the peak is lower.
The reactants still start at 40 kJ/mol.
The products still end at 20 kJ/mol.
So the energy released overall is the same, 20 kJ/mol, with catalase or without.
Here is a table comparing what a catalyst changes and what it leaves unchanged.
| quantity | when a catalyst is added |
|---|---|
| the rate of reaction | faster |
| the peak of the energy profile | lower |
| the reactants’ level | unchanged |
| the products’ level | unchanged |
| which products form | unchanged |
| the energy released overall | unchanged |
a catalyst changes the first two rows only
What you are expected to know Say that a catalyst changes only the rate of reaction: the same products form, and the same energy is released overall.
A student adds a catalyst to a reaction.
Does the reactants’ level on the energy profile now stay where it is, fall, or rise?
- A. ✓ It stays where it is
- B. It fallsA catalyst takes no energy from the reactants.
- C. It risesA catalyst gives the reactants no energy.
Why: A catalyst lowers only the peak.
The reactants are the same substances, with the same energy as before.
So the reactants’ level stays where it is.
A student adds a catalyst to a reaction.
Is the energy released overall now smaller, the same, or larger?
- A. SmallerA catalyst does not move the products’ level.
- B. ✓ The same
- C. LargerA catalyst does not move the reactants’ level.
Why: The energy released is the drop from the reactants’ level to the products’ level.
A catalyst lowers only the peak.
A catalyst moves neither level.
So the energy released overall is the same.
A student adds a catalyst to a reaction.
Do different products now form, or the same products?
- A. Different productsA catalyst does not change what forms.
- B. ✓ The same products
Why: A catalyst lowers only the activation energy.
The reactants still become the same new substances.
So the products are the same.
Here is the energy profile of a reaction with no catalyst. A student adds a catalyst.
Which set of levels, reactants → peak → products, now describes the reaction?
- A. 50 → 95 → 10 kJ/molThis set keeps the peak at 95 kJ/mol and lowers the products.
A catalyst does the opposite. - B. 50 → 70 → 10 kJ/molThis set lowers the products along with the peak.
The products stay at 30 kJ/mol. - C. 30 → 70 → 30 kJ/molThis set lowers the reactants.
A catalyst supplies no energy to the reactants and takes none from them. - D. ✓ 50 → 70 → 30 kJ/mol
Why: A catalyst lowers the peak and changes nothing else.
So the reactants still start at 50 kJ/mol and the products still end at 30 kJ/mol.
So the energy released overall is unchanged.
Only the set 50 → 70 → 30 kJ/mol keeps both levels and lowers the peak.
Lactase splits lactose, the sugar in milk. Here are two energy profiles of that reaction. Profile 2 is the reaction with lactase, and it is the faster one.
(a) Explain why the reaction with lactase releases the same energy overall as the reaction with no lactase. (1 pt)
Lactase is a catalyst.
A catalyst lowers only the activation energy, the climb to the peak.
So lactase moves the peak and nothing else.
Both profiles start at 60 kJ/mol and end at 30 kJ/mol.
So the drop is 30 kJ/mol with lactase and 30 kJ/mol without it.
Therefore the reaction releases the same energy overall.
- Award 1 point for: the energy released is the drop from the reactants’ level to the products’ level, and a catalyst lowers only the peak, so both levels stay where they are and the drop is the same.
- Accept: ‘lactase moves only the hump’ for lowering only the activation energy.
46Enzymes: the cell’s protein catalysts
Video: Watch: Is it an enzyme?
Catalase and lactase are enzymes: proteins made by a cell that each speed up one reaction. Manganese dioxide speeds up a reaction but is a mineral; keratin is a protein but speeds up nothing. Neither is an enzyme.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L02c.mp4
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Catalase is a protein.
Which of the following is a protein made of?
- A. A chain of sugarsA chain of sugars is a polysaccharide, such as starch.
- B. ✓ A chain of amino acids folded into a shape
- C. A chain of nucleotidesA chain of nucleotides is DNA or RNA.
Why: A protein is a chain of amino acids.
The chain folds into one particular shape.
Here is catalase: a chain of amino acids folded into one particular shape.
A lysosome breaks large molecules into small ones.
What inside the lysosome does the breaking?
- A. ✓ Proteins that speed up the reactions
- B. The membrane around the lysosomeThe membrane only holds the contents in; the proteins inside do the breaking.
Why: The lysosome is full of proteins that speed up the breaking of large molecules into small ones.
Those proteins are enzymes.
Catalase is an enzyme too.
A catalyst that a cell makes out of protein is called an .
The protein’s folded shape lowers the activation energy of one particular reaction.
So biologists also call an enzyme a biological catalyst.
Your cells make hydrogen peroxide as a waste. Left alone, the peroxide would damage the cells.
Catalase in your liver and blood destroys the peroxide as fast as the peroxide forms.
Lactase, in the lining of your gut, splits lactose, the sugar in milk, into two smaller sugars.
Each enzyme speeds up one reaction, or a few closely similar ones.
Two tests decide whether a substance is an enzyme.
1 Is it a protein made by a cell?
2 Does it speed up one reaction?
Both answers must be yes.
For example, catalase is an enzyme, because catalase is a protein made by a cell that speeds up one reaction.
And lactase is an enzyme, because lactase is a protein made by a cell that speeds up one reaction.
But manganese dioxide is not an enzyme, because manganese dioxide is a mineral, not a protein made by a cell.
Manganese dioxide is a catalyst all the same: it speeds the peroxide reaction up.
And keratin, the protein of your hair and nails, is not an enzyme, because keratin speeds up no reaction.
Here is a table sorting the four substances into enzymes and not enzymes.
| an enzyme | not an enzyme |
|---|---|
| catalase a protein made by liver cells speeds up the peroxide reaction | manganese dioxide a mineral, not a protein speeds up the peroxide reaction |
| lactase a protein made by gut cells speeds up the lactose reaction | keratin a protein made by skin cells speeds up no reaction |
an enzyme passes both tests: a protein made by a cell, and it speeds up one reaction
So a substance is an enzyme only when both tests are passed: it is a protein made by a cell, and it speeds up one reaction.
What you are expected to know Decide whether a substance is an enzyme: a protein made by a cell whose folded shape lowers the activation energy of one reaction.
What is an enzyme?
- A. ✓ A catalyst that a cell makes out of protein
- B. Any protein that a cell makesKeratin is a protein a cell makes, and keratin speeds up no reaction.
So not every protein is an enzyme. - C. Any substance that speeds up a reactionManganese dioxide speeds up the peroxide reaction, but no cell makes it.
So it is a catalyst, not an enzyme.
Why: An enzyme is a catalyst that a cell makes out of protein.
Its folded shape lowers the activation energy of one reaction.
Red blood cells make hemoglobin, a protein. Hemoglobin picks up oxygen in the lungs and lets it go in the tissues. The oxygen is the same molecule when hemoglobin lets it go as when it picked it up.
Is hemoglobin an enzyme?
- A. YesThe oxygen leaves hemoglobin unchanged.
So hemoglobin speeds up no reaction. - B. ✓ No
Why: An enzyme is a protein made by a cell that speeds up one reaction.
Hemoglobin is a protein made by a cell.
But the oxygen leaves hemoglobin unchanged, so no reaction happens.
So hemoglobin speeds up no reaction.
So hemoglobin is not an enzyme: being a protein is not enough.
Amylase is a protein made by cells in your salivary glands. Amylase speeds up the breakdown of starch.
Is amylase an enzyme?
- A. ✓ Yes
- B. NoAmylase is a protein made by a cell that speeds up a reaction.
Why: An enzyme is a protein made by a cell that lowers the activation energy of one reaction.
Amylase is a protein.
Salivary gland cells make amylase.
Amylase speeds up one reaction.
So amylase is an enzyme.
Cells in your stomach lining make pepsin, a protein. Pepsin speeds up the breakdown of protein in food.
Is pepsin an enzyme?
- A. ✓ Yes
- B. NoPepsin is a protein made by a cell that speeds up a reaction.
Why: An enzyme is a protein made by a cell that lowers the activation energy of one reaction.
Pepsin is a protein.
Stomach lining cells make pepsin.
Pepsin speeds up one reaction.
So pepsin is an enzyme.
Sulfuric acid speeds up the breakdown of table sugar in a laboratory flask.
Is sulfuric acid an enzyme?
- A. YesSulfuric acid is not a protein.
- B. ✓ No
Why: An enzyme is a protein made by a cell.
Sulfuric acid is not a protein, and no cell makes it.
So sulfuric acid is a catalyst, but not an enzyme.
Platinum, a metal, speeds up the breakdown of exhaust gases inside a car’s exhaust pipe.
Is platinum an enzyme?
- A. YesPlatinum is a metal, not a protein made by a cell.
- B. ✓ No
Why: An enzyme is a protein made by a cell.
Platinum is a metal.
No cell makes platinum.
So platinum is a catalyst, but not an enzyme.
74Why a cell needs enzymes
Video: Watch: Too slow without them
At 37 °C, few collisions carry a high activation energy, so most of a cell’s reactions would be far too slow on their own; each enzyme lowers the activation energy of its own reaction.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L02d.mp4
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A reaction has a high activation energy.
At 37 °C, how many collisions carry that much energy?
- A. ✓ Few
- B. About halfAt 37 °C, only a few collisions carry a high activation energy.
- C. MostAt 37 °C, most collisions carry far less energy than a high activation energy.
Why: Molecules react only when a collision carries at least the activation energy.
At 37 °C, the molecules move gently.
So few collisions carry a high activation energy.
Suppose a cell had no enzymes.
Each of its reactions has a high activation energy.
So at 37 °C, few collisions carry enough energy to react.
So most of the cell’s reactions would be far too slow to keep it alive.
Now consider the same cell with its enzymes.
Each enzyme lowers the activation energy of its own reaction.
So far more collisions carry enough energy to react.
So each reaction is fast enough for the cell to live.
That is why a cell needs enzymes: at 37 °C, few of its reactions would be fast enough without one.
What you are expected to know Explain why a cell needs enzymes: at 37 °C, few of its reactions are fast enough without one.
A mixture of starch and water sits at 37 °C with no amylase in it.
Which of the following happens to the starch?
- A. It is split into sugar within minutesWithout an enzyme, few collisions at 37 °C carry the activation energy.
- B. ✓ It stays almost all whole for a day or more
Why: Without amylase, the activation energy of the starch reaction is high.
At 37 °C, few collisions carry that much energy.
So almost no starch is split, even after a day.
Amylase in saliva turns starch into sugar within minutes at 37 °C. A mixture of starch and water with no amylase shows no sugar after a whole day.
(a) Explain how amylase lets the starch be split within minutes at 37 °C. (1 pt)
Amylase lowers the activation energy of the starch reaction.
Molecules react only when a collision carries at least the activation energy.
At 37 °C, far more collisions carry the lowered activation energy than carried the original one.
So far more collisions succeed each second.
So the starch is split in minutes instead of taking longer than a day.
- Award 1 point for: amylase lowers the activation energy, so far more collisions at 37 °C carry enough energy to react, so more collisions succeed and the starch is split faster.
- Accept: ‘lowers the hump’ or ‘lowers the barrier’ for lowering the activation energy. Do not award the point for ‘amylase gives the starch energy’ or ‘amylase is used up splitting the starch’.
89A cell controls a reaction by controlling its enzyme
Video: Watch: Switching a reaction on and off
Infants make lactase and split the lactose in milk; most adults stop making lactase, and their lactose passes whole to gut bacteria. The reaction is the same; only the amount of the enzyme changed.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L02e.mp4
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A reaction in a cell is fast enough to matter only while its enzyme is present and active.
So whatever controls the enzyme controls the reaction.
Infants make lactase in the lining of the gut.
So the lactose in milk is split into two smaller sugars and absorbed.
the lactose reaction; lactase speeds it up
Most adults worldwide stop making lactase after childhood.
So their lactose passes on whole to the large intestine.
There, gut bacteria break the lactose down and make gas.
The lactose reaction is the same in infants and adults.
Only the amount of lactase changed.
So a cell controls which reactions happen, and how fast, in two ways.
1 The cell makes more of the enzyme, or less.
2 The cell switches the enzyme on, or off.
What you are expected to know Explain why a cell can control which reactions happen, and how fast, by controlling how much of each enzyme it makes and whether that enzyme is active.
A bacterium grown on glucose makes almost none of the enzyme that splits lactose. A student moves the bacterium into a lactose solution. Within minutes the bacterium is making that enzyme, and the lactose begins to be split.
Which of the following did the bacterium change?
- A. The shape of the lactoseThe lactose is the same molecule before and after.
- B. The products of the reactionThe reaction forms the same products whenever it happens.
- C. ✓ How much of the enzyme it makes
Why: On glucose, the bacterium made almost none of the enzyme.
In lactose solution, the bacterium began making the enzyme.
The reaction began only once the enzyme was there.
So the bacterium changed how much of the enzyme it makes.
A bacterium grown on glucose makes almost none of the enzyme that splits lactose. Moved into a lactose solution, the bacterium starts making the enzyme, and the lactose begins to be split.
(a) Explain how the bacterium’s change shows that a cell controls a reaction by controlling its enzyme. (1 pt)
At 37 °C, almost no collisions carry that much energy.
So the lactose is not split.
The enzyme lowers the activation energy.
So far more collisions carry enough energy, and the lactose is split.
The bacterium decides how much of the enzyme to make.
So the bacterium controls whether the lactose reaction happens.
- Award 1 point for: without the enzyme the activation energy is too high for the reaction to happen at a useful rate; the enzyme lowers the activation energy, so more collisions succeed and the lactose is split; so the cell controls the reaction by making (or not making) the enzyme.
- Accept: ‘the reaction happens only when its enzyme is present’ with the activation-energy reason.
Most adults stop making lactase after childhood. A student says: ‘In adults the lactose reaction itself has changed, so the lactose stays whole.’
Which of the following statements about the student’s claim is correct?
- A. The student is right: the lactose reaction itself changes once a person is an adultThe reaction is the same in infants and adults.
- B. The student is wrong: adults still make lactase, but less lactose reaches the gutMost adults have stopped making lactase, and the lactose does reach the gut.
- C. ✓ The student is wrong: the reaction is unchanged; the gut lining stopped making lactase
Why: The lactose reaction is the same in infants and adults.
What changed is the enzyme.
The adult’s gut lining has stopped making lactase.
Without lactase, the lactose is not split in the small intestine.
So the lactose passes on whole to the gut bacteria.
Two people drink the same glass of milk. Person A digests the lactose. Person B has gas an hour later.
Whose gut lining is making lactase?
- A. ✓ Person A’s only
- B. Person B’s onlyPerson B’s lactose reached the gut bacteria whole, which happens only when no lactase splits it.
- C. BothPerson B’s lactose was not split.
Why: Lactase splits lactose in the small intestine.
Person A digests the lactose, so person A’s gut lining makes lactase.
Person B’s lactose passed on whole to the gut bacteria.
The gut bacteria broke the lactose down and made gas.
So person B’s gut lining is not making lactase.
Back to the beads coated with catalase, dropped into tube after tube of fresh hydrogen peroxide with no new catalase added.
Each tube’s peroxide was used up.
The catalase came out of every reaction unchanged, ready for the next peroxide molecule.
So the beads fizzed just as hard in the fifth tube as in the first.
Your liver keeps a supply of catalase.
So hydrogen peroxide never builds up to harmful levels in your cells.
112Mixed practice mixed practice
Sucrase, a protein made by gut cells, splits sucrose.
Which word fits sucrase?
- A. ReactantSucrase is not changed by the reaction, so it is not a reactant.
- B. ProductThe reaction forms sugars, not sucrase.
- C. ✓ Enzyme
Why: Sucrase is a protein made by a cell that speeds up one reaction.
So sucrase is an enzyme.
Adults who stop making lactase pass lactose through undigested, though the lactose reaction is the same as in infants.
What changed?
- A. The reactionThe lactose reaction is identical in infants and adults.
- B. ✓ How much lactase the cells make
Why: The adult’s gut cells have stopped making lactase.
So the reaction has no enzyme, and the lactose is not split.
A catalyst lowers a reaction’s activation energy from 60 kJ/mol to 25 kJ/mol.
What happens to the energy released overall?
- A. ✓ It stays the same
- B. It falls by 35 kJ/molA catalyst moves only the peak, not the products’ level.
- C. It rises by 35 kJ/molA catalyst adds no energy to the products.
Why: The energy released is the drop from reactants to products.
A catalyst lowers only the peak, so the drop is unchanged.
A liver cell starts making twice as much catalase.
Which of the following changes?
- A. Which products formCatalase changes how fast the peroxide breaks down, never what forms.
- B. ✓ How fast the peroxide breaks down
- C. The energy released overallThe energy released overall is set by the reactants’ and products’ levels, which no catalyst moves.
Why: Catalase is an enzyme, a catalyst.
More catalase means more peroxide molecules break down each second.
So the rate of reaction is faster; the products and the energy released are unchanged.
In a yeast cell, one invertase molecule splits sucrose after sucrose. That one invertase molecule has split 1000 sucrose molecules so far.
How many invertase molecules have been used up?
- A. 1000Each sucrose molecule is used up; the invertase that split it is not.
- B. OneNot even one invertase molecule is used up; each comes out unchanged.
- C. ✓ None
Why: Invertase is an enzyme, a catalyst.
A catalyst is not used up by the reaction it speeds up.
So the same invertase molecule is there after 1000 sucrose molecules, unchanged.
A cell stops making the enzyme for one of its reactions.
At 37 °C, does that reaction now happen quickly, or very slowly?
- A. QuicklyWithout its enzyme, the activation energy is high, and at 37 °C few collisions carry it.
- B. ✓ Very slowly
Why: Without the enzyme, the activation energy of the reaction is high.
At 37 °C, few collisions carry that much energy.
So the reaction happens very slowly.
A yeast cell makes the enzyme invertase, which splits sucrose. Growing on glucose alone, the cells make very little invertase; growing on sucrose, they make a lot.
(a) Explain how making more invertase lets the yeast use sucrose. (1 pt)
Invertase lowers the activation energy of the sucrose reaction.
So far more collisions between sucrose and water molecules succeed each second.
So the yeast splits sucrose fast enough to use it.
The enzyme is not used up, so each invertase molecule splits sucrose after sucrose.
- Award 1 point for: invertase lowers the activation energy of the sucrose reaction, so the reaction happens at a useful rate only when the cell makes the enzyme; the enzyme is not used up.
Slip Saying the yeast ‘needs energy from invertase’. An enzyme supplies no energy; it lowers the activation energy so more collisions succeed.
Glossary
- enzyme
- A catalyst that a cell makes out of protein. Its folded shape lowers the activation energy of one reaction, so that reaction is fast enough for the cell to live. Catalase and lactase are enzymes; biologists also call an enzyme a biological catalyst.
APBIO-U03-L03 Why catalase ignores sugar
A student drops catalase into 10 mL of hydrogen peroxide. The tube fizzes at once.
She drops the same catalase into 10 mL of sugar solution. The sugar solution stays still.
She drops amylase from saliva into starch paste, and the paste thins into sugar. She drops the same amylase into hydrogen peroxide, and the peroxide stays still.
Why does each enzyme act on one substance and ignore the other?
Unit 3 · Cellular Energetics
1The substrate
Video: Watch: The molecule an enzyme acts on
Catalase drawn as a folded protein, with a hydrogen peroxide molecule beside it. Hydrogen peroxide is the reactant catalase acts on: its substrate.
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Every enzyme has a pocket on its surface.
Only a molecule of the right shape and charge binds in that pocket.
A molecule is held in the pocket only if its shape fits.
The molecule’s charges must also match the charges lining the pocket.
So catalase holds hydrogen peroxide and never holds sugar.
That one rule decides which reaction each enzyme speeds up. Start with the molecule catalase acts on.
Catalase speeds up one reaction: hydrogen peroxide becomes water and oxygen.
Here is the reaction catalase speeds up, written out.
Which substance is the reactant?
- A. ✓ Hydrogen peroxide
- B. WaterWater sits on the right of the arrow, so water is a product.
- C. OxygenOxygen sits on the right of the arrow, so oxygen is a product.
Why: The reactant sits on the left of the arrow.
Hydrogen peroxide sits on the left.
So hydrogen peroxide is the reactant, and water and oxygen are the products.
Here is catalase drawn as a rounded shape with a pocket in its surface, and a hydrogen peroxide molecule beside it.
Catalase acts on the hydrogen peroxide molecule and splits it.
The reactant molecule an enzyme acts on is called its .
Hydrogen peroxide is catalase’s substrate.
Amylase, the enzyme in saliva, speeds up a different reaction: starch and water become smaller sugars.
Amylase acts on the starch. So starch is amylase’s substrate.
The smaller sugars are amylase’s products, not its substrate.
What you are expected to know Identify the substrate on a drawing of an enzyme with the molecule it acts on: the reactant molecule the enzyme acts on.
An enzyme is drawn with four positions marked W, X, Y and Z.
Which position marks the substrate?
- A. WW marks the enzyme’s own body, not a molecule the enzyme acts on.
- B. XX marks the side of the pocket, a part of the enzyme.
- C. ✓ Y
- D. ZZ marks a different molecule, floating free of the enzyme, not the molecule the enzyme acts on.
Why: The substrate is the reactant molecule the enzyme acts on.
The enzyme acts on the molecule held in its pocket.
Y marks that molecule.
So Y marks the substrate.
Amylase in saliva breaks starch into smaller sugars.
What is amylase’s substrate?
- A. ✓ Starch
- B. The smaller sugarsThe smaller sugars are the products.
Amylase makes the smaller sugars rather than acting on them. - C. SalivaSaliva is the liquid amylase is dissolved in.
Amylase does not act on saliva.
Why: The substrate is the reactant molecule the enzyme acts on.
Amylase acts on starch.
So starch is amylase’s substrate.
The smaller sugars are amylase’s products.
Catalase splits hydrogen peroxide into water and oxygen.
What is catalase’s substrate?
- A. WaterWater is a product.
Catalase makes water rather than acting on it. - B. ✓ Hydrogen peroxide
- C. OxygenOxygen is a product.
Catalase makes oxygen rather than acting on it.
Why: The substrate is the reactant molecule the enzyme acts on.
Catalase acts on hydrogen peroxide.
So hydrogen peroxide is catalase’s substrate.
Water and oxygen are the products.
22Quick quiz: substrate mixed practice
What is an enzyme’s substrate?
- A. ✓ The reactant molecule the enzyme acts on
- B. The pocket on the enzyme’s surfaceThe pocket is part of the enzyme; the substrate is a molecule the enzyme acts on.
- C. The product the enzyme makesThe product forms after the reaction; the enzyme acts on the reactant.
Why: The reactant molecule an enzyme acts on is called its substrate.
Hydrogen peroxide is catalase’s substrate; starch is amylase’s.
Lactase is an enzyme in the lining of the gut.
(a) State what is meant by the substrate of an enzyme. (1 pt)
- Award 1 point for: the reactant (the molecule) the enzyme acts on.
25The active site
Video: Watch: The pocket where the substrate binds
The hydrogen peroxide molecule settles into a pocket on catalase’s surface, and the rest of the surface does not hold it. The pocket is the active site.
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Look at the surface of the folded protein. One place on the surface is a pocket.
The hydrogen peroxide molecule fits into the pocket.
The rest of the surface does not hold the hydrogen peroxide.
The pocket on the enzyme’s surface where the substrate binds is called the .
Every enzyme has an active site. Here is amylase, with a piece of starch in its active site.
A piece of starch is wider than a hydrogen peroxide molecule. So amylase’s active site is a wider pocket than catalase’s.
What you are expected to know Identify the active site on a drawing of an enzyme: the pocket on the enzyme’s surface where the substrate binds.
An enzyme is drawn with four positions marked W, X, Y and Z.
Which position marks the active site?
- A. WW marks the body of the folded protein, away from the pocket.
- B. ✓ X
- C. YY marks the molecule sitting in the pocket, not the pocket itself.
- D. ZZ marks a different molecule floating free of the enzyme, not part of the enzyme.
Why: The active site is the pocket on the enzyme’s surface where the substrate binds.
X marks the side of that pocket.
So X marks the active site.
Amylase is drawn with three positions marked P, Q and R.
Which position marks the active site?
- A. ✓ P
- B. QQ marks the piece of starch sitting in the pocket, not the pocket itself.
- C. RR marks the body of the folded protein, away from the pocket.
Why: The active site is the pocket on the enzyme’s surface where the substrate binds.
The starch sits in the pocket, and P marks the side of that pocket.
So P marks the active site.
Lactase splits lactose, the sugar in milk.
Where on the lactase does the lactose bind?
- A. ✓ At the active site
- B. Anywhere on the surfaceThe rest of the enzyme’s surface does not hold the substrate.
Why: The active site is the pocket on the enzyme’s surface where the substrate binds.
Lactose is lactase’s substrate.
So lactose binds at the active site, and the rest of the surface does not hold it.
37Quick quiz: active site mixed practice
What is an enzyme’s active site?
- A. The whole surface of the enzymeOnly one pocket on the surface holds the substrate; the rest of the surface does not.
- B. The reactant molecule the enzyme acts onThe reactant molecule the enzyme acts on is the substrate.
- C. ✓ The pocket where the substrate binds
Why: The pocket on the enzyme’s surface where the substrate binds is called the active site.
The rest of the surface does not hold the substrate.
Catalase is an enzyme in liver cells.
(a) State what is meant by the active site of an enzyme. (1 pt)
- Award 1 point for: the pocket (the place) on the enzyme’s surface where the substrate binds.
40Shape must fit
Video: Watch: The right shape and the wrong shape
A molecule with the pocket’s shape settles into the active site. A wider molecule of a different shape hovers above the same pocket and is not held.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L03c.mp4
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Why does hydrogen peroxide fit catalase’s active site, and sugar not? Start with shape.
The pocket has one particular shape.
Here is a molecule with the pocket’s shape. The pocket holds it.
Here is a wider molecule. The pocket does not hold it, because the molecule is too wide to fit.
So a molecule is held in the active site only if its shape fits the pocket.
What you are expected to know Explain why a molecule of the wrong shape is not held at the active site.
Three molecules, 1, 2 and 3, are drawn above an active site.
Does the active site hold molecule 1?
- A. ✓ Yes
- B. NoMolecule 1 has the pocket’s shape.
Why: A molecule is held in the active site only if its shape fits the pocket.
Molecule 1 has the pocket’s shape.
So the active site holds molecule 1.
Three molecules, 1, 2 and 3, are drawn above an active site.
Does the active site hold molecule 2?
- A. YesMolecule 2 is too wide for the pocket.
- B. ✓ No
Why: A molecule is held in the active site only if its shape fits the pocket.
Molecule 2 is too wide for the pocket.
So the active site does not hold molecule 2.
Three molecules, 1, 2 and 3, are drawn above an active site.
Does the active site hold molecule 3?
- A. YesMolecule 3 is too big for the pocket.
- B. ✓ No
Why: A molecule is held in the active site only if its shape fits the pocket.
Molecule 3 is twice the size of the pocket.
So the active site does not hold molecule 3.
51Charge must match
Video: Watch: Opposite charges attract, like charges push apart
A pocket lined with positively charged R groups holds a negatively charged molecule of the right shape, and pushes a positively charged molecule of the same shape away.
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Now consider charge. The pocket is lined with the R groups of the amino acids in the folded chain.
The pocket of an active site is lined with R groups.
What charge can an R group carry?
- A. ✓ A full charge, a partial charge, or neither
- B. No charge of any kindThe R groups of acidic and basic amino acids carry a full charge, and polar R groups carry a partial charge.
Why: Some R groups carry a full charge, some a partial charge, and some carry none.
So the lining of a pocket can be charged.
Opposite charges attract. Like charges push apart.
Here is a pocket lined with positively charged R groups.
A molecule with the pocket’s shape and a negative charge arrives. The pocket holds it, because opposite charges attract.
A molecule with the pocket’s shape and a positive charge arrives. The pocket does not hold it, because like charges push apart.
Partial charges attract in the same way. A polar part of the substrate is pulled towards a polar R group of the opposite partial charge in the pocket.
So a substrate binds only when its shape fits the active site and its charges match the R groups lining it.
A molecule of the wrong shape is not held. A molecule of the wrong charge is not held.
What you are expected to know Explain why a molecule whose charges do not match the R groups lining the active site is not held.
An active site is lined with negatively charged R groups. A molecule with the pocket’s shape arrives. The molecule carries a positive charge.
Does the active site hold the molecule?
- A. ✓ Yes
- B. NoThe shape fits and the charges are opposite.
Why: The molecule has the pocket’s shape, so the molecule fits.
The molecule is positive and the lining is negative.
Opposite charges attract.
So the active site holds the molecule.
An active site is lined with negatively charged R groups. A molecule with the pocket’s shape arrives. The molecule carries a negative charge.
Does the active site hold the molecule?
- A. YesThe molecule and the lining carry the same charge.
- B. ✓ No
Why: The molecule fits the pocket’s shape.
But the molecule is negative and the lining is negative.
Like charges push apart.
So the lining pushes the molecule away, and the active site does not hold it.
A different active site is lined with positively charged R groups. A molecule with the pocket’s shape arrives. The molecule carries a negative charge.
Does the active site hold the molecule?
- A. ✓ Yes
- B. NoThe shape fits and the charges are opposite.
Why: The molecule has the pocket’s shape, so the molecule fits.
The molecule is negative and the lining is positive.
Opposite charges attract.
So the active site holds the molecule.
An active site is lined with negatively charged R groups. A wide molecule of a different shape arrives. The molecule carries a positive charge.
Does the active site hold the molecule?
- A. YesThe molecule does not fit the pocket.
- B. ✓ No
Why: The negative lining attracts the molecule’s positive charge.
But the molecule is too wide for the pocket.
A molecule is held only if its shape fits and its charge is opposite to the lining’s.
So the active site does not hold the molecule.
An active site is lined with positively charged R groups. Three molecules, 1, 2 and 3, are drawn with their charges.
Which molecule does the active site hold?
- A. Molecule 1Molecule 1 is positive and the lining is positive.
Like charges push apart, so the lining pushes molecule 1 away. - B. Molecule 2Molecule 2 is too wide for the pocket.
The positive lining attracts molecule 2’s negative charge, but molecule 2 does not fit. - C. ✓ Molecule 3
Why: Molecule 3 fits the pocket.
Molecule 3 is negative and the lining is positive, so the active site holds molecule 3.
Molecule 1 is positive, so the positive lining pushes molecule 1 away.
Molecule 2 is too wide to fit.
An active site is lined with positively charged R groups. A molecule arrives that has the pocket’s shape and carries a positive charge. The active site does not hold this molecule.
(a) Explain why the molecule stays out of the active site. (1 pt)
But the molecule carries a positive charge.
The R groups lining the pocket also carry a positive charge.
Like charges push apart.
So the lining pushes the molecule away.
So the active site does not hold the molecule, even though it fits.
- Award 1 point for: the molecule and the R groups lining the pocket carry the same charge, and like charges push apart, so the molecule is pushed away even though its shape fits.
- Accept: ‘the pocket repels the molecule’ for the lining pushing it away.
69One enzyme, one kind of substrate
Video: Watch: Why catalase ignores sugar
A sugar unit rests above catalase’s pocket and is never held; a hydrogen peroxide molecule hovers above amylase’s wide pocket and is never held. Each enzyme acts only on what fits its active site.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L03e.mp4
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Here are the two pockets, each with the wrong molecule above it.
Hydrogen peroxide has the shape of catalase’s active site. So catalase holds hydrogen peroxide and splits it.
Sugar does not have the shape of catalase’s active site. So catalase never holds sugar, and nothing happens to the sugar.
Starch has the shape of amylase’s active site. So amylase holds starch and splits it.
Hydrogen peroxide does not have the shape of amylase’s active site. So amylase never holds hydrogen peroxide, and nothing happens to the peroxide.
Each enzyme acts on one substrate, or on a small group of closely similar ones.
The active site decides which reaction the enzyme speeds up. Only a molecule that fits the active site is acted on.
An enzyme that does nothing to a molecule is not working slowly, and the enzyme has not been used up. The molecule does not fit.
What you are expected to know Predict whether a named enzyme acts on a molecule from whether that molecule fits its active site: each enzyme acts on one substrate or a few closely similar ones.
Catalase’s active site fits hydrogen peroxide. A sucrose molecule collides with catalase.
Does catalase split the sucrose?
- A. YesSucrose does not fit catalase’s active site.
- B. ✓ No
Why: An enzyme acts only on a molecule that fits its active site.
Sucrose is the wrong shape for catalase’s pocket.
So catalase never holds sucrose, and nothing happens to the sucrose.
Amylase’s active site fits a stretch of starch. A starch molecule collides with amylase.
Does amylase act on the starch?
- A. ✓ Yes
- B. NoStarch fits amylase’s active site.
Why: An enzyme acts on a molecule that fits its active site.
Starch fits amylase’s pocket.
So amylase holds the starch and splits it.
A protease is an enzyme whose active site fits protein. A fat molecule collides with the protease.
Does the protease act on the fat?
- A. YesFat does not fit the protease’s active site.
- B. ✓ No
Why: An enzyme acts only on a molecule that fits its active site.
Fat is the wrong shape for the protease’s pocket.
So the protease never holds the fat, and nothing happens to the fat.
Lipase is an enzyme whose active site fits fat. A starch molecule collides with lipase.
Does lipase act on the starch?
- A. YesStarch does not fit lipase’s active site.
- B. ✓ No
Why: An enzyme acts only on a molecule that fits its active site.
Starch is the wrong shape for lipase’s pocket.
So lipase never holds the starch, and nothing happens to the starch.
Lactase’s active site fits lactose. A lactose molecule from a glass of milk collides with lactase.
Does lactase act on the lactose?
- A. ✓ Yes
- B. NoLactose fits lactase’s active site.
Why: An enzyme acts on a molecule that fits its active site.
Lactose fits lactase’s pocket.
So lactase holds the lactose and splits it.
A student mixes a protease with starch. After 10 minutes the starch is unchanged. The student says: ‘The protease did nothing, so the protease must have been used up.’
Is the student correct?
- A. Yes, the protease was used upAn enzyme is not used up by any reaction, and the protease never bound the starch.
- B. ✓ No, the protease was not used up
Why: A catalyst is not used up by the reaction it speeds up.
And no reaction happened here: starch is the wrong shape for the protease’s pocket.
So the protease never held the starch, and the protease is unchanged.
A student mixes a protease with starch. After 10 minutes the starch is unchanged.
(a) Explain why the starch is unchanged. (1 pt)
Starch does not have the shape of the protease’s active site.
So the protease never holds the starch.
So nothing happens to the starch.
- Award 1 point for: starch does not fit the protease’s active site, so the protease never binds it and nothing happens to the starch.
Slip Saying the protease is acting on the starch slowly, or was used up. An enzyme that does not fit a molecule does not act on it at all, and a catalyst is not used up.
Back to the student’s four tubes at the start: catalase in hydrogen peroxide, catalase in sugar solution, amylase in starch paste, and amylase in hydrogen peroxide.
She dropped catalase into hydrogen peroxide, and the tube fizzed at once. Hydrogen peroxide fits catalase’s active site, so catalase holds it and splits it.
She dropped the same catalase into sugar solution, and the sugar solution stayed still. Catalase ignores sugar because sugar does not fit its active site.
She dropped amylase into starch paste, and the paste thinned into sugar. Starch fits amylase’s active site.
She dropped the same amylase into hydrogen peroxide, and the peroxide stayed still. Amylase’s active site is shaped for starch, not for hydrogen peroxide.
92Mixed practice mixed practice
Catalase is drawn with a hydrogen peroxide molecule sitting in the pocket on its surface.
What is the hydrogen peroxide molecule called?
- A. The active siteThe active site is the pocket the molecule sits in, not the molecule itself.
- B. The catalystCatalase is the catalyst; the hydrogen peroxide is the molecule catalase acts on.
- C. The productThe products, water and oxygen, form only after the reaction; the hydrogen peroxide has not reacted yet.
- D. ✓ The substrate
Why: The substrate is the reactant molecule an enzyme acts on.
Catalase acts on hydrogen peroxide.
So the hydrogen peroxide molecule is the substrate.
The pocket the hydrogen peroxide sits in is the active site.
Sucrase is an enzyme whose active site fits sucrose. A lactose molecule collides with sucrase.
Does sucrase act on the lactose?
- A. YesLactose does not fit sucrase’s active site.
- B. ✓ No
Why: An enzyme acts only on a molecule that fits its active site.
Lactose is the wrong shape for sucrase’s pocket.
So sucrase never holds lactose, and nothing happens to the lactose.
A student adds lipase, an enzyme that breaks down fat, to three tubes under the same conditions. The tubes hold fat, starch and protein.
In which tubes do breakdown products appear?
- A. ✓ The fat tube only
- B. The fat and protein tubesProtein is the wrong shape for lipase’s active site.
- C. The fat and starch tubesStarch is the wrong shape for lipase’s active site.
Why: An enzyme acts only on the substrate that fits its active site.
Fat fits lipase’s pocket.
Starch and protein are the wrong shape for lipase’s pocket.
So lipase never holds them, and only the fat is broken down.
An active site is lined with positively charged R groups. A molecule with the pocket’s shape arrives. The molecule carries a positive charge.
Does the active site hold the molecule?
- A. YesThe molecule and the lining carry the same charge.
- B. ✓ No
Why: The molecule fits the pocket’s shape.
But the molecule is positive and the lining is positive.
Like charges push apart.
So the lining pushes the molecule away, and the active site does not hold it.
Pepsin, an enzyme in the stomach, breaks protein into smaller pieces.
What is pepsin’s substrate?
- A. The smaller piecesThe smaller pieces are the products; pepsin makes them rather than acting on them.
- B. ✓ Protein
- C. The stomach liningPepsin acts on the protein in food, not on the stomach lining.
Why: The substrate is the reactant molecule the enzyme acts on.
Pepsin acts on protein.
So protein is pepsin’s substrate.
A student adds the same amount of catalase to two tubes at 25 °C. Tube 1 holds hydrogen peroxide solution. Tube 2 holds sucrose solution. Tube 1 fizzes at once. Tube 2 stays still for the whole hour. Catalase’s active site has the shape of a hydrogen peroxide molecule, and the R groups lining it match the partial charges on hydrogen peroxide.
(a) Explain how the two tubes demonstrate that an enzyme acts on one kind of substrate. (1 pt)
So catalase holds hydrogen peroxide and splits it, and tube 1 fizzes.
Sucrose does not have the shape of catalase’s active site.
So catalase never holds sucrose, and nothing happens in tube 2.
The same catalase acts on hydrogen peroxide and not on sucrose.
So an enzyme acts on one kind of substrate.
- Award 1 point for: hydrogen peroxide fits catalase’s active site by shape and charge and is split, while sucrose does not fit and is not held, so the same enzyme acts on one substrate and not the other.
- Accept: shape and charge named in either order, with the fit applied to hydrogen peroxide or to sucrose.
Slip Saying that catalase ‘recognizes’ hydrogen peroxide, or that the two ‘match’, with shape and charge left out. Name the two things that have to fit.
(b) A classmate says the catalase in tube 2 was used up before it could act on the sucrose. Evaluate the classmate’s claim. (1 pt)
A catalyst is not used up by any reaction, and no reaction happened in tube 2.
Sucrose does not have the shape of catalase’s active site.
So catalase never holds sucrose.
So nothing happens to the sucrose, however much catalase is in the tube.
- Award 1 point for: the claim is wrong because sucrose does not fit catalase’s active site, so catalase never binds it; the catalase was not used up (a catalyst is not used up).
Slip Saying the catalase acted on the sucrose slowly. An enzyme that does not fit a molecule does not act on it at all.
Glossary
- substrate
- The reactant molecule an enzyme acts on. Hydrogen peroxide is catalase’s substrate; starch is amylase’s.
- active site
- The pocket on an enzyme’s surface where the substrate binds. Its shape, and the R groups lining it, decide which molecule fits.
APBIO-U03-L03B What happens in the pocket
Here is one catalase molecule. This one molecule splits millions of hydrogen peroxide molecules every second.
After every one of them, the catalase is exactly as it was. Hydrogen peroxide goes into the pocket. Water and oxygen come out.
What happens inside the pocket in between? How does the catalase come out unchanged every time?
Unit 3 · Cellular Energetics
1The enzyme–substrate complex model
Video: Watch: What happens in the pocket
Three panels: the substrate binds and forms the enzyme–substrate complex, the reaction happens there with a lower activation energy, the products leave, and the empty active site binds the next substrate.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L03Ba.mp4
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Catalase splits hydrogen peroxide into water and oxygen.
Where on the catalase does the hydrogen peroxide bind?
- A. ✓ At the active site
- B. Anywhere on the surfaceThe rest of the enzyme’s surface does not hold the substrate.
Why: The active site is the pocket on the enzyme’s surface where the substrate binds.
Hydrogen peroxide is catalase’s substrate.
So the hydrogen peroxide binds at the active site.
A catalyst lowers the activation energy of a reaction.
What happens to the number of collisions that carry enough energy to react?
- A. FewerA lower activation energy is a lower hump, and more collisions clear a lower hump.
- B. The same numberThe molecules move exactly as before, but the hump they must clear is lower, so more of them clear it.
- C. ✓ More
Why: The activation energy is the energy a collision must carry to react.
A catalyst lowers it.
So more collisions carry enough energy, and more of them react each second.
Biologists draw what happens in the pocket as three panels. The three panels answer both questions from the start: what happens inside the pocket, and how the catalase comes out unchanged.
The same picture explains why the fizz is fast. The same picture explains why the catalase is never used up.
The same picture explains why only hydrogen peroxide reacts at catalase. So one drawing tells the whole story of one enzyme.
Here is the drawing. Panel 1: two hydrogen peroxide molecules bind in catalase’s active site.
An enzyme with its substrate bound in the active site is called an .
In the enzyme–substrate complex the activation energy is lower. So the reaction happens there, in the pocket.
Panel 2: the two peroxide molecules have become two water molecules and one oxygen molecule. The products leave the active site.
Written out, the reaction in the pocket reads hydrogen peroxide → water + oxygen.
Panel 3: the active site is empty. The catalase is exactly as it was, ready for the next peroxide molecules.
The empty active site binds the next two peroxide molecules. So the three panels repeat, millions of times every second.
The three panels together are called the enzyme–substrate complex model.
What you are expected to know Describe, on a drawing of an enzyme with its substrate, the sequence of the reaction from the substrate binding to the empty active site binding the next substrate.
Here are the three panels of the catalase model, numbered 1 to 3.
Which panel shows the enzyme–substrate complex?
- A. ✓ Panel 1
- B. Panel 2In panel 2 the products are leaving; the peroxide has already reacted.
- C. Panel 3In panel 3 the active site is empty.
Why: An enzyme–substrate complex is an enzyme with its substrate bound in the active site.
In panel 1 the two peroxide molecules are bound in catalase’s active site.
So panel 1 shows the enzyme–substrate complex.
Here is a drawing of amylase.
What does the drawing show?
- A. The products leaving the active siteThe starch is still one whole piece in the pocket.
The reaction has not happened yet, so there are no products to leave. - B. ✓ An enzyme–substrate complex
- C. The empty enzyme after the reactionThe pocket is not empty; a piece of starch is sitting in it.
Why: The starch is the substrate.
The starch is sitting in amylase’s active site.
An enzyme with its substrate bound in the active site is an enzyme–substrate complex.
So the drawing shows an enzyme–substrate complex.
Starch is bound in amylase’s active site.
Where is the starch split into sugars?
- A. ✓ In the enzyme–substrate complex
- B. Anywhere in the solutionThe activation energy is lowered only in the complex.
Why: In the enzyme–substrate complex the activation energy is lower.
So the starch is split in the active site, while it is bound there.
Amylase has just split a starch molecule into smaller sugars.
What happens to the sugars?
- A. The sugars stay boundThe products do not stay in the pocket.
- B. ✓ The sugars leave
Why: After the reaction the products leave the active site.
The sugars are the products.
So the sugars leave, and the active site is empty again.
The sugars have left amylase’s active site.
What is the amylase like now?
- A. Used up by the reactionAn enzyme is not a reactant, so the reaction does not use it up.
- B. Changed in shape by the reactionThe reaction changes the starch into sugars and leaves the amylase exactly as it was.
- C. ✓ Unchanged, with an empty active site
Why: The amylase comes out of the reaction exactly as it was.
Its active site is empty.
So the empty active site binds the next starch molecule, and one amylase molecule acts again and again.
22Quick quiz: the enzyme–substrate complex mixed practice
What is an enzyme–substrate complex?
- A. ✓ An enzyme with its substrate bound in the active site
- B. A substrate floating beside its enzyme, not yet boundA substrate beside the enzyme is not bound, so no complex has formed yet.
- C. An enzyme on its own, after the products have leftAn enzyme on its own has no substrate bound, so there is no complex.
Why: An enzyme–substrate complex is an enzyme with its substrate bound in the active site.
The reaction happens there, with a lowered activation energy.
A lactose molecule is bound in lactase’s active site.
Is this an enzyme–substrate complex?
- A. ✓ Yes
- B. NoLactose is lactase’s substrate, and the lactose is bound in the active site.
Why: Lactose is lactase’s substrate.
The lactose is bound in the active site.
So the lactase and the lactose together are an enzyme–substrate complex.
Pepsin has just split a protein molecule. The pieces have left, and pepsin’s active site is empty.
Is this an enzyme–substrate complex?
- A. YesAn empty active site holds no substrate.
- B. ✓ No
Why: An enzyme–substrate complex is an enzyme with its substrate bound in the active site.
Pepsin’s active site is empty.
So there is no complex until the next protein molecule binds.
Sucrase splits sucrose, table sugar, into two smaller sugars. A sucrose molecule is bound in sucrase’s active site.
(a) State what an enzyme–substrate complex is. (1 pt)
- Award 1 point for: an enzyme with its substrate bound in the active site.
27How an enzyme speeds a reaction
Video: Watch: How amylase speeds the starch reaction
Starch binds at amylase’s active site by shape and charge; in the complex the activation energy is lower, so more collisions succeed; the sugars leave and the unchanged amylase binds the next starch; the products and the energy released overall are the same as without amylase.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L03Bb.mp4
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Amylase is an enzyme that splits starch into smaller sugars.
Is the amylase used up as the starch is split?
- A. YesA catalyst is not a reactant, so the reaction does not use it up.
- B. ✓ No
Why: Amylase is a catalyst.
The reaction uses up the starch, the reactant.
The reaction leaves the amylase exactly as it was.
So the amylase is not used up.
Starch binds at amylase’s active site.
Which of the following must fit for the starch to be held there?
- A. Its shape onlyA molecule of the right shape but the wrong charge is pushed away by the R groups lining the pocket.
- B. Its charges onlyA molecule of the right charge but the wrong shape does not fit the pocket.
- C. ✓ Its shape and its charges
Why: A substrate is held only when its shape fits the active site and its charges match the R groups lining it.
So both the shape and the charges of the starch must fit.
Now consider amylase and starch. Amylase in saliva splits starch into smaller sugars: starch + water → smaller sugars.
Here is a graph of the energy profile of that reaction, with amylase and without amylase.
What you are expected to know Explain, for a named enzyme and its reaction, how the enzyme speeds the reaction up.
What you are expected to know Identify what the enzyme leaves unchanged: the products and the energy released overall.
Amylase in saliva splits starch into smaller sugars. Here are the energy profiles of the starch reaction with amylase and without amylase.
(a) Identify what amylase leaves unchanged about the reaction. (1 pt)
So the energy released overall is the same with amylase as without it.
The products, the smaller sugars, are the same too.
The amylase itself is unchanged: after the sugars leave, it binds the next starch molecule.
- Award 1 point for any two of: the same products form; the reactants’ level and the products’ level, and so the energy released overall, are the same; the amylase is unchanged and binds the next starch molecule.
(b) Explain how amylase speeds up the breakdown of starch. (1 pt)
So starch binds, forming an enzyme–substrate complex.
In the enzyme–substrate complex the activation energy is lower.
So more collisions carry enough energy to react.
So more starch molecules are split each second, and the smaller sugars form faster.
- Award 1 point for: starch binds at the active site by shape and charge, forming an enzyme–substrate complex, and in the complex the activation energy is lower, so more collisions succeed and sugars form faster.
- Accept: ‘lowers the hump’ for lowering the activation energy.
Here are the two profiles of the starch reaction. Read the reactants’ level and the peak of the curve with amylase.
Calculate the activation energy of the reaction with amylase present.
Answer: 10 kJ/mol (tolerance ±0.5)
Back to the one catalase molecule that splits millions of hydrogen peroxide molecules every second.
Each hydrogen peroxide molecule fits the active site and binds. The catalase splits it into water and oxygen.
The water and oxygen leave. The active site is empty again for the next peroxide molecule, and the catalase is exactly as it was.
40Mixed practice: what happens in the pocket mixed practice
Here are the two profiles of the starch reaction. Both profiles start at the reactants’ level and end at the products’ level.
Calculate the energy released by the reaction.
Answer: 20 kJ/mol (tolerance ±0.5)
Here are three panels of the catalase model, numbered 1 to 3.
Which panel shows the products leaving the active site?
- A. Panel 1In panel 1 the two peroxide molecules are still bound; nothing has left yet.
- B. ✓ Panel 2
- C. Panel 3In panel 3 the active site is already empty; the products have gone.
Why: After the reaction the products leave the active site.
In panel 2 two water molecules and one oxygen molecule move away from the pocket.
So panel 2 shows the products leaving.
Suppose a reaction happens in two tubes: one tube with its enzyme, one tube with no enzyme.
Which quantity is different with the enzyme present?
- A. The energy of the reactantsThe reactants sit at the same level with or without the enzyme; an enzyme supplies no energy to the reactants and takes none from them.
- B. The energy of the productsThe products sit at the same level with or without the enzyme; an enzyme does not change what forms or how much energy the products hold.
- C. The energy released overallThe energy released is the drop from the reactants’ level to the products’ level, and the enzyme moves neither level.
- D. ✓ The activation energy
Why: An enzyme lowers the activation energy and changes nothing else on the profile.
So the reactants’ level and the products’ level stay where they were.
So the energy released overall is the same.
Here are the two profiles of the starch reaction.
Calculate how much amylase lowers the activation energy of the reaction.
Part 1. Calculate the activation energy without amylase.
Answer: 40 kJ/mol (tolerance ±0.5)
Part 2. Calculate the activation energy with amylase.
Answer: 10 kJ/mol (tolerance ±0.5)
Answer: 30 kJ/mol (tolerance ±0.5)
Lipase has just split a fat molecule into its products, and the products have left.
Which of the following describes the lipase now?
- A. Used up by the reactionA catalyst is not a reactant, so the reaction does not use it up.
- B. ✓ Unchanged, with an empty active site
- C. Still holding the fat’s productsThe products leave the active site after the reaction.
Why: The lipase comes out of the reaction exactly as it was.
Its products have left, so its active site is empty.
So the lipase binds the next fat molecule.
After an hour, a tube of catalase and hydrogen peroxide has stopped fizzing. Adding more hydrogen peroxide makes it fizz again at once.
Why had the fizzing stopped?
- A. ✓ The hydrogen peroxide had all been split
- B. The catalase had lost its shape during the reactionA catalase that had lost its shape would not split fresh peroxide, and this catalase made the fresh peroxide fizz at once.
- C. The catalase had been used up by the reactionA catalyst is not used up, and the fresh fizzing shows the catalase still working.
- D. The oxygen made had filled the active sitesThe products leave the active site after each reaction, so oxygen does not block the active site, and the fresh peroxide bound at once.
Why: The fresh peroxide fizzed at once.
So the catalase was unchanged and still working.
So the catalase had not been used up; the hydrogen peroxide had.
The hydrogen peroxide had all been split into water and oxygen, so the fizzing stopped.
A student adds the same amount of lactase to two tubes at 37 °C: tube 1 holds lactose solution, tube 2 holds sucrose (table sugar) solution. A third tube, tube 3, holds lactose solution with no lactase. After 10 minutes, the smaller sugars that lactase makes are detected in tube 1 only. The student then recovers the lactase from tube 1, rinses it, and adds it to fresh lactose solution; the smaller sugars form again.
(a) Explain why lactase splits lactose in tube 1 but does nothing to sucrose in tube 2. (1 pt)
Lactose has the shape of lactase’s active site.
So lactose binds, and lactase splits it in tube 1.
Sucrose has a different shape.
So lactase never holds sucrose, and nothing happens in tube 2.
- Award 1 point for: binding needs both a matching shape and matching charges (opposite charges attract), so lactose fits the active site and sucrose does not.
- Accept: shape and charge named in either order, with the fit applied to lactose or to sucrose.
Slip Saying that lactase ‘recognizes’ lactose, or that the two ‘match’, with shape and charge left out. Name the two things that have to fit.
(b) Explain how the binding of lactose to lactase speeds up the reaction in tube 1. (1 pt)
In the enzyme–substrate complex the activation energy is lower.
So far more collisions carry enough energy to react.
So more collisions succeed each second, and the smaller sugars form faster.
- Award 1 point for: the enzyme–substrate complex lowers the activation energy, so more collisions succeed and the products form faster.
- Accept: ‘lowers the hump’ for the activation energy.
Slip Saying the enzyme gives the lactose energy or speeds the molecules up. A catalyst supplies no energy to the molecules. A catalyst lowers the hump the molecules must clear.
(c) Explain why the recovered lactase still splits fresh lactose. (1 pt)
So the reaction does not use lactase up.
After each reaction the smaller sugars leave the active site.
The lactase is unchanged, and its active site is empty.
So the recovered lactase binds the next lactose molecule and splits it.
- Award 1 point for: the enzyme is not used up; it comes out of each reaction unchanged, so it binds and splits more lactose.
- Accept: ‘the active site is empty again’ as the reason it can bind more lactose.
Slip Treating the enzyme as a reactant that is used up, or saying the rinse ‘refreshed’ the enzyme. Nothing happened to the lactase; the lactase was unchanged all along.
(d) Predict how the energy released per molecule of lactose split in tube 1 compares with the energy released per molecule split in tube 3, and justify your prediction. (2 pt)
Lactase lowers only the activation energy.
The reactants’ level and the products’ level are the same with lactase as without it.
The energy released is the drop from the reactants’ level to the products’ level.
So the energy released per molecule is the same in tube 1 and tube 3.
Tube 1 reaches the products sooner, and that is the only difference.
- Award 1 point for: the same energy is released per molecule of lactose split in both tubes.
- Award 1 point for: the enzyme lowers only the activation energy; the reactants and products sit at the same levels, and the energy released is the drop between them.
- Accept: ‘the enzyme changes the rate, not the products or the overall energy change’.
Slip Predicting that the faster reaction releases more energy. The height of the hump sets the speed. The levels of the reactants and the products set the energy released.
Glossary
- enzyme–substrate complex
- An enzyme with its substrate bound in the active site. In the complex the activation energy is lower, so the reaction happens there; then the products leave and the enzyme is unchanged.
APBIO-U03-L04 What to change, measure and keep the same
Photos: Ben Harris, Wikimedia Commons, CC0 (potato, cropped and resized); Javier Lastras, Wikimedia Commons, CC BY 2.0 (liver, cropped).
Here is a student with a potato and a piece of liver. Both tissues are rich in catalase.
Her question: which tissue releases more oxygen from 10 mL of hydrogen peroxide in 4 minutes? Beside her sit a rack of tubes of peroxide and a stopwatch.
Before she fills a single tube, she must decide three things: what to change, what to measure and what to keep the same.
Unit 3 · Cellular Energetics
1What she changes
Video: Watch: The one condition she changes
Three potato tubes and three liver tubes of hydrogen peroxide. The source of the catalase is the one condition she changes: the independent variable.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L04a.mp4
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A fair test changes one condition.
The test measures one quantity.
Every other condition stays the same in every tube.
One extra tube gets everything except the tissue.
Without that extra tube, 9.0 mL of oxygen from a potato tube proves nothing. Some of that oxygen may have come from the peroxide on its own.
With that extra tube, the difference can be credited to the catalase.
Here is her plan: three tubes get a cube of potato, three get a cube of liver, each in 10 mL of peroxide. She collects the oxygen from each tube for 4 minutes.
A student compares catalase from potato and from liver. The source of the catalase, potato or liver, is the condition she deliberately changes.
Which name does a fair test give to that condition?
- A. ✓ The independent variable
- B. The dependent variableThe dependent variable is the quantity measured to see the effect.
- C. A control variableA control variable is a condition kept the same in every tube.
Why: The independent variable is the condition the experimenter deliberately changes.
She deliberately changes the source of the catalase.
So the source of the catalase is the independent variable.
The condition an experimenter deliberately changes is called the .
The source of the catalase is the independent variable, because she deliberately sets it to potato in three tubes and liver in three.
Now consider a second experiment. Tubes of the same tissue stand in water baths at 5, 25, 37 and 55 °C, and she collects the oxygen from each for 4 minutes.
Temperature is the independent variable, because she deliberately sets it to four values.
The volume of peroxide is not the independent variable, because she keeps it at 10 mL in every tube.
So the independent variable is a condition the experimenter sets to several values.
What you are expected to know Name the independent variable in a described enzyme experiment.
A student holds equal samples of lactase at 5, 20, 37 and 60 °C. She records the mass of lactose each sample splits in 15 minutes.
Which is the independent variable?
- A. ✓ Temperature
- B. Mass of lactose splitThe mass of lactose split is the result she measures.
- C. Amount of lactaseThe amount of lactase is the same in every sample.
Why: The independent variable is the condition the experimenter deliberately sets to several values.
She sets the temperature to 5, 20, 37 and 60 °C.
So temperature is the independent variable.
A gardener gives pea plants 0, 1, 2 or 3 g of fertilizer a week. After a month she measures the height of each plant.
Which is the independent variable?
- A. Height of the plantThe height is the result she measures.
The height is the dependent variable. - B. Kind of pea plantThe kind of pea plant is the same for every plant.
- C. ✓ Mass of fertilizer given each week
Why: The independent variable is the condition the experimenter deliberately sets to several values.
She sets the fertilizer to 0, 1, 2 or 3 g a week.
So the mass of fertilizer is the independent variable.
A baker adds 5, 10 or 15 g of yeast to identical doughs. He measures how high each dough rises in an hour.
Which is the independent variable?
- A. Height the dough risesThe height is the result he measures.
The height is the dependent variable. - B. Kind of flourThe flour is the same in every dough.
- C. Time allowedThe time, an hour, is the same for every dough.
- D. ✓ Mass of yeast
Why: The independent variable is the condition the experimenter deliberately sets to several values.
He sets the yeast to 5, 10 or 15 g.
So the mass of yeast is the independent variable.
21What she measures
Video: Watch: The one quantity she measures
The oxygen collected from each tube for 4 minutes. The volume of oxygen, in mL, is the quantity she measures to see the effect: the dependent variable.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L04b.mp4
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In the potato and liver experiment, she collects the oxygen from each tube for 4 minutes. The volume of oxygen released in 4 minutes is the quantity she measures, to see the effect.
Which name does a fair test give to the quantity measured to see the effect?
- A. The independent variableThe independent variable is the condition the experimenter deliberately changes.
- B. ✓ The dependent variable
- C. A control variableA control variable is a condition kept the same in every tube.
Why: The dependent variable is the quantity measured to see the effect.
She measures the volume of oxygen to see the effect of the tissue.
So the volume of oxygen is the dependent variable.
The quantity measured to see the effect is called the .
The volume of oxygen released in 4 minutes is the dependent variable, because she measures it to see the effect of the tissue.
In the temperature experiment, she again collects the oxygen from each tube for 4 minutes.
The volume of oxygen released in 4 minutes is again the dependent variable, because she measures it to see the effect of the temperature.
Temperature is not the dependent variable, because she sets it rather than measuring it as the result.
So the dependent variable is a result, measured with a unit: here, a volume of oxygen in mL.
What you are expected to know Name the dependent variable, with its unit, in a described enzyme experiment.
Students put 1, 2, 3 or 4 drops of amylase into equal volumes of starch solution. They record the time until the starch is gone.
Which is the dependent variable?
- A. Number of drops of amylaseThe students deliberately set the number of drops.
The number of drops is the independent variable. - B. ✓ Time until the starch is gone
- C. Volume of starch solutionThe volume of starch solution is the same in every tube.
Why: The dependent variable is the quantity measured to see the effect.
The students measure the time until the starch is gone.
So the time until the starch is gone is the dependent variable.
A student times how long catalase takes to release 10 mL of oxygen from hydrogen peroxide at pH 5, 6, 7 and 8.
Which is the dependent variable?
- A. pH of the peroxideThe student deliberately sets the pH to 5, 6, 7 and 8.
The pH is the independent variable. - B. Volume of hydrogen peroxideThe volume of hydrogen peroxide is the same in every tube.
- C. ✓ Time to release 10 mL of oxygen
Why: The dependent variable is the quantity measured to see the effect.
The student measures the time to release 10 mL of oxygen.
So that time is the dependent variable.
A student adds a cube of liver to hydrogen peroxide at 1%, 2%, 3% and 4% concentration. She counts the bubbles of oxygen released in 1 minute.
Which is the dependent variable?
- A. ✓ Number of bubbles in 1 minute
- B. Concentration of the peroxideThe student deliberately sets the concentration to 1%, 2%, 3% and 4%.
The concentration is the independent variable. - C. Size of the liver cubeThe size of the liver cube is the same in every tube.
Why: The dependent variable is the quantity measured to see the effect.
The student counts the bubbles released in 1 minute.
So the number of bubbles in 1 minute is the dependent variable.
35What she keeps the same
Video: Watch: Everything else the same
The same peroxide, the same volume, the same cube size, the same time and the same temperature in every tube: the control variables.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L04c.mp4
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In the potato and liver experiment, everything else stays the same in every tube:
1 the concentration of the peroxide
2 the volume of the peroxide
3 the size of the tissue cube
4 the time
5 the temperature.
In a fair test, the experimenter deliberately changes one condition.
What does she do with every other condition?
- A. Measures it to see the effectThe experimenter measures one quantity, the dependent variable, to see the effect.
- B. Lets it differ from tube to tubeIf a second condition differed from tube to tube, a difference in the result could be due to either condition.
- C. ✓ Keeps it the same in every tube
Why: A fair test changes one condition.
Every other condition is kept the same in every tube.
So only the changed condition can explain any difference in the result.
A condition kept the same in every tube is called a .
The volume of peroxide is a control variable, because she keeps it at 10 mL in every tube.
The time, 4 minutes, is a control variable, because she keeps it the same in every tube.
The source of the catalase is not a control variable, because she deliberately changes it.
Because the control variables are the same in every tube, only the source of the catalase can explain any difference.
What you are expected to know Name the control variables in a described enzyme experiment.
In the amylase experiment, students put 1, 2, 3 or 4 drops of amylase into tubes that each hold the same volume of starch solution.
Is the volume of starch solution a control variable?
- A. ✓ Yes
- B. NoThe students keep the volume the same in every tube.
Why: A control variable is a condition kept the same in every tube.
The students keep the volume of starch solution the same in every tube.
So the volume of starch solution is a control variable.
In the amylase experiment, students put 1, 2, 3 or 4 drops of amylase into equal volumes of starch solution, all at room temperature.
Is the number of drops of amylase a control variable?
- A. YesThe number of drops differs from tube to tube.
- B. ✓ No
Why: A control variable is a condition kept the same in every tube.
The students deliberately set the number of drops to 1, 2, 3 or 4.
So the number of drops changes from tube to tube, and it is not a control variable.
It is the independent variable.
A student times how long catalase takes to release 10 mL of oxygen from hydrogen peroxide at pH 5, 6, 7 and 8. Every tube stands in the same water bath at 25 °C.
Is the temperature a control variable?
- A. ✓ Yes
- B. NoThe student keeps every tube at 25 °C.
Why: A control variable is a condition kept the same in every tube.
The student keeps every tube in the same water bath at 25 °C.
So the temperature is a control variable.
The pH is the condition she changes.
48The tube she compares against
Video: Watch: The tube with no tissue
One extra tube of hydrogen peroxide with no tissue, given everything the other tubes get: the control. It shows what the peroxide does on its own.
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One more tube gets everything the others get, 10 mL of the same peroxide for 4 minutes, but no tissue at all.
A tube given the same treatment as the others but lacking the factor under test is called the .
The control shows what peroxide does on its own.
The tube with no tissue is the control, because it gets the same peroxide for the same time but lacks the tissue.
In the temperature experiment, the control at each temperature is a tube of peroxide with no tissue in it.
The volume of peroxide is not the control, because it is a condition kept the same, not a tube.
Two different things share a word. Here is a table comparing control variables with the control.
| control variables | the control | |
|---|---|---|
| what each is | a condition, such as the volume of peroxide | a whole tube, the one with no tissue |
| how many | several in one experiment | one, with the tested factor left out |
| what each does | keep every condition except the tested one the same in every tube | shows what the peroxide does on its own |
control variables are conditions kept the same; the control is a tube
What you are expected to know Identify the control in a described enzyme experiment.
In the amylase experiment, students put 1, 2, 3 or 4 drops of amylase into equal volumes of starch solution. One tube of starch solution gets no amylase.
Is the tube with no amylase the control?
- A. ✓ Yes
- B. NoThe tube with no amylase gets the same treatment as the others but lacks the amylase.
Why: The control is the tube given the same treatment as the others but lacking the factor under test.
The factor under test is the amylase.
The tube with no amylase gets the same starch solution at the same temperature.
So that tube is the control.
A student compares catalase from potato and from liver. Every tube holds 10 mL of the same hydrogen peroxide, and one tube holds peroxide with no tissue.
Is the volume of peroxide the control?
- A. YesThe control is a whole tube, not a condition.
- B. ✓ No
Why: The control is a whole tube, the one lacking the factor under test.
The volume of peroxide is not a tube; it is a condition kept the same in every tube.
So the volume of peroxide is a control variable.
The control is the tube with no tissue.
Two cell-free mixtures hold the same enzyme and the same substrate, at the same temperature and volume. One mixture also has dissolved copper ions. The other mixture has no copper ions.
Which mixture is the control?
- A. The mixture with copper ionsThe mixture with copper ions is the mixture being tested.
- B. ✓ The mixture with no copper ions
Why: The factor under test is the copper.
The control is the mixture given the same treatment as the other but lacking the factor under test.
The copper-free mixture has the same enzyme, substrate, temperature and volume, and lacks the copper.
So the copper-free mixture is the control.
61Quick quiz: the control mixed practice
What is the control in an experiment?
- A. ✓ The tube that lacks only the factor under test
- B. A condition kept the same in every tubeA condition kept the same in every tube is a control variable.
- C. The condition the experimenter deliberately changesThe condition the experimenter deliberately changes is the independent variable.
Why: The control is a whole tube.
It gets the same treatment as the other tubes but lacks the factor under test.
So it shows the result with that factor absent.
Every well-designed enzyme experiment has a control.
(a) State what the control in an experiment is. (1 pt)
- Award 1 point for: the tube (or group) given the same treatment as the others but lacking the factor under test.
- Accept: ‘the tube with the tested factor left out, everything else the same’.
64Why she needs that tube
Video: Watch: Why the no-tissue tube matters
9.0 mL of oxygen from the potato tube and 0.5 mL from the no-tissue tube. Without the no-tissue tube, the 9.0 mL could not be credited to the catalase.
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Suppose the potato tubes release 9.0 mL of oxygen and the no-tissue tubes release 0.5 mL. The 0.5 mL is what peroxide does on its own in 4 minutes.
Without the no-tissue tube, the 9.0 mL could not be credited to the potato. Some of the 9.0 mL might have come from the peroxide alone.
The control shows the result when the tested factor is absent. So any difference from the control can be credited to that factor: here, 8.5 mL to the potato’s catalase.
To justify a control, say what it shows.
The no-tissue tube shows how much oxygen the peroxide releases by itself. So any extra oxygen must have come from the catalase.
What you are expected to know Explain what a named control shows, and why the result cannot be read without it.
A student tests whether a bean extract speeds up the breakdown of starch. Beside her extract tubes she keeps a tube of starch solution with no extract, under the same conditions.
What does the no-extract tube show?
- A. ✓ How much starch breaks down with no extract
- B. That the extract contains a working enzymeThe no-extract tube on its own does not show what the extract does.
Only the comparison with the extract tubes shows that. - C. How much starch each tube held at the startThe no-extract tube does not measure the starting amount of starch.
Why: The tested factor is the extract.
The no-extract tube is the control, the tube lacking the tested factor.
So the no-extract tube shows how much starch breaks down with no extract at all.
A student tests whether a bean extract speeds up the breakdown of starch. Beside her extract tubes she keeps a tube of starch solution with no extract, under the same conditions.
(a) Explain why the student needs the no-extract tube before she can credit any breakdown to the extract. (1 pt)
The no-extract tube shows how much starch breaks down with no extract at all.
The extract tubes differ from it only in the extract.
So any extra breakdown in the extract tubes, above the no-extract tube, can be credited to the extract.
Without the no-extract tube, she could not tell how much breakdown the starch would have done anyway.
- Award 1 point for: the no-extract tube shows the result with the extract absent, so the difference between it and the extract tubes can be credited to the extract; without it the student could not tell how much breakdown happens on its own.
- Accept: ‘it rules out the starch breaking down by itself as the cause’.
In the temperature experiment, tubes of peroxide with potato tissue sit at four temperatures. Beside them at each temperature sits a tube of peroxide with no tissue. A classmate says: ‘The no-tissue tubes can be left out. The tissue tubes already show the effect of temperature.’
Is the classmate correct?
- A. YesPeroxide releases some oxygen on its own, and more at higher temperatures.
- B. ✓ No
Why: The no-tissue tubes are the controls.
A no-tissue tube shows how much oxygen the peroxide releases by itself at that temperature.
Without them, the oxygen from a tissue tube cannot be split into the peroxide’s share and the catalase’s share.
So temperature’s effect on the catalase could not be read.
A tube of hydrogen peroxide with yeast in it releases 7.5 mL of oxygen in 4 minutes. A tube of the same peroxide with no yeast releases 0.3 mL in the same 4 minutes.
Calculate the volume of oxygen that can be credited to the yeast’s catalase.
Answer: 7.2 mL (tolerance ±0.05)
Back to the student with her potato, her piece of liver and her rack of tubes of hydrogen peroxide. The source of the catalase, potato or liver, is the one condition she changes.
The volume of oxygen released in 4 minutes is the one quantity she measures. Every other condition stays the same in every tube.
One extra tube holds peroxide with no tissue: her control. Whatever oxygen that tube releases, the peroxide made on its own.
79Mixed practice mixed practice
A student adds lipase to tubes of milk at 20, 30 and 40 °C. She measures how long each tube takes to turn acidic.
Which is the dependent variable?
- A. TemperatureThe student deliberately sets the temperature to 20, 30 and 40 °C.
The temperature is the independent variable. - B. ✓ Time for the milk to turn acidic
- C. Volume of milkThe volume of milk is the same in every tube.
Why: The dependent variable is the quantity measured to see the effect.
The student measures the time for the milk to turn acidic.
So that time is the dependent variable.
A student compares how fast pepsin digests egg white at pH 2, 4 and 6. Every tube holds the same mass of egg white.
Is the mass of egg white a control variable?
- A. ✓ Yes
- B. NoThe student keeps the mass of egg white the same in every tube.
Why: A control variable is a condition kept the same in every tube.
The student keeps the mass of egg white the same in every tube.
So the mass of egg white is a control variable.
A gardener waters tomato plants with 100, 200 or 300 mL of water a day. After a month she measures the mass of tomatoes each plant has grown.
Which is the independent variable?
- A. Mass of tomatoes grownThe mass of tomatoes is the result she measures.
The mass of tomatoes is the dependent variable. - B. Kind of tomato plantThe kind of tomato plant is the same for every plant.
- C. ✓ Volume of water a day
Why: The independent variable is the condition the experimenter deliberately sets to several values.
She sets the water to 100, 200 or 300 mL a day.
So the volume of water a day is the independent variable.
A student compares how fast pepsin digests egg white at pH 2, 4 and 6. One extra tube of egg white at pH 2 gets no pepsin.
Is the pepsin tube at pH 6 the control?
- A. YesThe pepsin tube at pH 6 has the factor under test in it.
- B. ✓ No
Why: The control is the tube given the same treatment as the others but lacking the factor under test.
The factor under test is the pepsin.
The tube at pH 6 has pepsin in it, so it is one of the tested tubes.
The control is the tube with no pepsin.
A student tests whether a mouthwash kills bacteria. Beside her mouthwash dishes she keeps a dish of the same bacteria with no mouthwash, under the same conditions.
What does the no-mouthwash dish show?
- A. ✓ How the bacteria grow with no mouthwash
- B. That the mouthwash kills bacteriaThe no-mouthwash dish on its own does not show what the mouthwash does.
Only the comparison with the mouthwash dishes shows that. - C. How many bacteria each dish held at the startThe no-mouthwash dish does not count the bacteria at the start.
Why: The tested factor is the mouthwash.
The no-mouthwash dish is the control, the dish lacking the tested factor.
So the no-mouthwash dish shows how the bacteria grow with no mouthwash at all.
A student compares catalase from apple and from carrot. Every tube holds 5 mL of the same hydrogen peroxide at 25 °C for 2 minutes, and one tube holds peroxide with no tissue.
Is the temperature the control?
- A. YesThe control is a whole tube, not a condition.
- B. ✓ No
Why: The control is a whole tube, the one lacking the factor under test.
The temperature is not a tube; it is a condition kept the same in every tube.
So the temperature is a control variable.
The control is the tube with no tissue.
Glossary
- independent variable
- The condition the experimenter deliberately changes, setting it to several values: the source of the catalase (potato or liver), or the temperature (5, 25, 37 and 55 °C).
- dependent variable
- The quantity measured to see the effect, with its unit: here, the volume of oxygen released in 4 minutes, in mL.
- control variable
- A condition kept the same in every tube, such as the volume of peroxide or the time. Because the control variables are the same everywhere, only the changed condition can explain a difference in the result.
- control
- In an experiment, the tube or group given the same treatment as the others but lacking the factor under test. It shows the result with that factor absent, so any difference from it can be credited to the factor. (Control variables are different: the conditions kept the same in every tube.)
APBIO-U03-L04B Writing the prediction down
Here is the student from the potato and liver experiment: a potato, a piece of liver, both rich in catalase, and a rack of tubes of hydrogen peroxide. She expects the liver to release oxygen faster than the potato. Liver cells make a great deal of catalase.
Before she fills a tube, she writes her expectation down: liver catalase releases a larger volume of oxygen, in mL, in 4 minutes than potato catalase.
But suppose the two tissues release the same volume of oxygen. Her test must be able to show her wrong. What does she write down for that case?
Unit 3 · Cellular Energetics
1Writing the hypothesis
Video: Watch: Writing the hypothesis
Before she fills a tube, the student writes her expected result down: liver catalase releases a larger volume of oxygen in 4 minutes than potato catalase. Her hypothesis names the condition she changes and the quantity she measures.
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A hypothesis writes the expected result down before the student fills a tube.
Then the result can be checked against the prediction, not fitted to it.
She also writes down what she would see if the source of the catalase made no difference at all. That second statement is called the null hypothesis.
The test needs both statements. A test that can only agree with the tester is not a test.
Before an experiment, a student writes down the result she expects to find.
What is a written prediction like this called?
- A. A conclusionA conclusion is written after the experiment, from the results.
- B. ✓ A hypothesis
- C. A resultA result is what the measurement gave.
Why: A hypothesis is a testable prediction.
The student writes the result she expects before the experiment.
So her written prediction is a hypothesis.
Here is the student’s plan again. Three tubes hold a cube of potato and three hold a cube of liver, each in 10 mL of hydrogen peroxide.
She collects the oxygen from each tube for 4 minutes.
She expects the liver to release oxygen faster. Liver cells make a great deal of catalase.
Before she fills a tube, she writes that expectation down as a prediction her test can check.
She writes: liver catalase releases a larger volume of oxygen in 4 minutes than potato catalase.
A prediction written down so that a test can check it is called a .
Her hypothesis names the condition she changes: the source of the catalase, potato or liver.
Her hypothesis also names the quantity she measures: the volume of oxygen released in 4 minutes.
A hypothesis names both variables, so that a measurement can check it.
‘Liver is better’ names no quantity that a tube can measure. So no test can check it.
Now consider the temperature experiment: tubes of the same tissue at 5, 25, 37 and 55 °C, with the oxygen collected for 4 minutes.
Her hypothesis for that experiment is: catalase releases a larger volume of oxygen in 4 minutes at 37 °C than at 5 °C.
That hypothesis names the temperature, the condition changed, and the volume of oxygen in 4 minutes, the quantity measured.
What you are expected to know Write a hypothesis for a described enzyme experiment, naming the condition changed and the quantity measured.
A student tests whether the concentration of hydrogen peroxide changes how much oxygen yeast catalase releases in 2 minutes.
Which of the following statements is a hypothesis that names both variables?
- A. Yeast catalase works better on more concentrated hydrogen peroxide‘Better’ names no quantity that a tube can measure.
- B. Yeast catalase releases oxygen quickly from hydrogen peroxide in 2 minutesThis statement names no condition that changes between the tubes.
- C. ✓ Yeast catalase releases more oxygen in 2 minutes from more concentrated hydrogen peroxide
Why: A hypothesis names the condition changed and the quantity measured.
The condition changed is the concentration of the peroxide.
The quantity measured is the volume of oxygen released in 2 minutes.
Only one statement names both and predicts which way the oxygen changes.
23Writing the null hypothesis
Video: Watch: Writing the null hypothesis
Suppose the source of the catalase made no difference. The student writes that case down too: there is no difference in the volume of oxygen released in 4 minutes between liver and potato catalase. That statement is the null hypothesis, and her data will be checked against it.
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Now suppose the two tissues release the same volume of oxygen in 4 minutes.
Then her hypothesis is wrong.
A fair test must be able to show her wrong. So she also writes down what she would see if the source of the catalase made no difference at all.
She writes: there is no difference in the volume of oxygen released in 4 minutes between liver catalase and potato catalase.
The statement that the tested factor makes no difference to the measured result is called the .
‘Null’ means none. The null hypothesis predicts no difference and no effect.
A null hypothesis names both variables, just like the hypothesis.
The hypothesis says ‘releases a larger volume than’. The null hypothesis says ‘there is no difference in’.
The null hypothesis is the statement the data will be checked against.
For example: ‘Liver catalase releases a larger volume of oxygen in 4 minutes than potato catalase.’ This is a hypothesis, because it predicts a difference.
‘There is no difference in the volume of oxygen released in 4 minutes between liver and potato catalase.’ This is a null hypothesis, because it predicts no difference.
‘Catalase releases a larger volume of oxygen in 4 minutes at 37 °C than at 5 °C.’ This is a hypothesis, because it predicts a difference.
‘Temperature has no effect on the volume of oxygen catalase releases in 4 minutes.’ This is a null hypothesis, because it predicts no effect.
Here is a table comparing the hypothesis with the null hypothesis for the two experiments.
| hypothesis | null hypothesis | |
|---|---|---|
| what it predicts | the tested factor makes a difference to the measured result | the tested factor makes no difference to the measured result |
| the verb | releases a larger volume than | there is no difference in |
| potato and liver | liver catalase releases a larger volume of oxygen in 4 minutes than potato catalase | there is no difference in the volume of oxygen released in 4 minutes between liver and potato catalase |
| temperature | catalase releases a larger volume of oxygen in 4 minutes at 37 °C than at 5 °C | temperature has no effect on the volume of oxygen catalase releases in 4 minutes |
both statements name the condition changed and the quantity measured; only the verb differs
What you are expected to know Write the null hypothesis for a described enzyme experiment: the tested factor makes no difference to the measured result, with both variables named.
Students test whether the number of drops of amylase affects how quickly starch disappears. One statement reads: ‘The number of drops of amylase has no effect on how quickly the starch disappears.’
Which of the following is this statement?
- A. A hypothesisThe statement predicts no effect.
- B. ✓ A null hypothesis
Why: A null hypothesis says the tested factor makes no difference to the measured result.
The tested factor is the number of drops.
The measured result is how quickly the starch disappears.
This statement says the drops make no difference.
So the statement is a null hypothesis.
A student tests whether crushing a potato changes how fast it releases oxygen from peroxide. One statement reads: ‘Crushed potato releases oxygen faster than whole potato.’
Which of the following is this statement?
- A. ✓ A hypothesis
- B. A null hypothesisThe statement predicts an effect.
Why: A hypothesis is a testable prediction.
This statement predicts that crushed potato releases oxygen faster.
So the statement is a hypothesis.
A baker tests whether 5 g or 10 g of yeast makes dough rise higher in an hour. One statement reads: ‘There is no difference in how high the dough rises between 5 g and 10 g of yeast.’
Which of the following is this statement?
- A. A hypothesisThe statement predicts no difference.
- B. ✓ A null hypothesis
Why: A null hypothesis says the tested factor makes no difference to the measured result.
The tested factor is the mass of yeast.
The measured result is how high the dough rises.
This statement says the mass of yeast makes no difference.
So the statement is a null hypothesis.
Students test whether the number of drops of amylase affects how quickly starch disappears. One statement reads: ‘More drops of amylase make the starch disappear faster than fewer drops do.’
Which of the following is this statement?
- A. ✓ A hypothesis
- B. A null hypothesisThe statement predicts an effect.
Why: A hypothesis is a testable prediction.
This statement predicts that more drops make the starch disappear faster.
So the statement is a hypothesis.
Here is the student again with her rack of tubes: three tubes hold a cube of potato and three hold a cube of liver, each in 10 mL of hydrogen peroxide, and her stopwatch is set for 4 minutes.
Her hypothesis is that liver catalase releases a larger volume of oxygen in 4 minutes than potato catalase.
Her null hypothesis is that there is no difference in the volume of oxygen released in 4 minutes between liver and potato catalase.
The null hypothesis is what her data will test.
48Quick quiz: null hypothesis mixed practice
What does a null hypothesis say?
- A. ✓ The tested factor makes no difference to the measured result
- B. The tested factor makes the measured result largerA prediction that the tested factor makes the result larger is a hypothesis.
- C. The tube lacking the tested factor is left outThe tube lacking the tested factor is the control, and the control stays in.
Why: A null hypothesis says the tested factor makes no difference to the measured result.
It names both variables and says ‘no difference’ or ‘no effect’.
A student tests whether the concentration of lactase changes the mass of glucose released from milk in 10 minutes.
(a) State the null hypothesis for this experiment, naming both variables. (1 pt)
- Award 1 point for: a statement that the concentration of lactase makes no difference to the mass of glucose released, with both variables named.
- Accept: ‘there is no difference in the mass of glucose released at the different concentrations of lactase’.
51Scientific Investigation practice mixed practice
A student predicts that catalase from yeast releases a larger volume of oxygen from hydrogen peroxide in 3 minutes at 30 °C than at 10 °C. To test his prediction he stands tubes of hydrogen peroxide, each with yeast in it, in water baths at 10, 20, 30 and 40 °C, and collects the oxygen from each tube for 3 minutes. At each temperature he also stands a tube of the same hydrogen peroxide with no yeast in it.
(a) Identify the independent variable and the dependent variable in the student’s hypothesis. (1 pt)
The student sets the temperature to 10, 20, 30 and 40 °C.
The dependent variable is the volume of oxygen released in 3 minutes.
The student measures that volume to see the effect of the temperature.
- Award 1 point for: temperature as the independent variable and the volume of oxygen released (in 3 minutes) as the dependent variable, both named.
- Accept: ‘amount of oxygen collected’ for the dependent variable.
Slip Naming the yeast, or the peroxide, as the independent variable. The yeast and the peroxide must be kept the same in every tube; the condition he changes is temperature.
(b) State the null hypothesis for this experiment, naming both variables. (1 pt)
- Award 1 point for: a statement that temperature has no effect on the volume (or rate) of oxygen released, with both variables named.
- Accept: ‘there is no difference in the oxygen released at the four temperatures’.
Slip Writing the hypothesis instead (‘catalase works faster at 30 °C’), or a null that predicts a decline. A null hypothesis predicts no effect.
(c) Identify two conditions the student must keep the same in every tube, and explain how keeping them the same lets him credit a difference in oxygen to the temperature. (1 pt)
The mass of yeast must be the same in every tube.
His hypothesis predicts what temperature alone does to the volume of oxygen.
If the mass of yeast differed as well, more oxygen at 30 °C could be due to more yeast.
When only the temperature differs between the tubes, a difference in oxygen can be credited to the temperature.
- Award 1 point for: two control variables named (peroxide volume or concentration, mass of yeast, time) with the reason that only temperature may differ, so any difference in oxygen can be credited to temperature.
- Accept: any two of the volume of peroxide, the concentration of peroxide, the mass of yeast, the kind of yeast and the collection time, with the reason.
Slip Naming temperature as something to keep the same. Temperature is the independent variable; temperature is the one condition that must differ between the tubes.
(d) Explain how comparing each yeast tube with the no-yeast tube at the same temperature lets the student test his hypothesis. (2 pt)
The amount it releases on its own may differ from one temperature to another.
The no-yeast tube at each temperature is the control.
The control shows how much oxygen the peroxide releases by itself at that temperature.
So the oxygen from the yeast tube above the oxygen from the no-yeast tube can be credited to the yeast’s catalase.
Only then can he tell whether temperature changed what the catalase did.
- Award 1 point for: the no-yeast tube at each temperature is the control, and it shows how much oxygen the peroxide releases by itself at that temperature.
- Award 1 point for: the oxygen from a yeast tube above the no-yeast tube at the same temperature is the catalase’s share, so a difference between 30 °C and 10 °C in that share can be credited to the catalase and the hypothesis can be tested.
- Accept: ‘it rules out the peroxide breaking down on its own as the source of the extra oxygen’.
Slip Listing the control variables (same volume, same yeast, same time) when asked about the control, or saying ‘it is the control’ with no statement of what it shows.
Glossary
- hypothesis
- A prediction, written down before the test, that names the condition changed and the quantity measured, so that a measurement can check it: ‘liver catalase releases a larger volume of oxygen in 4 minutes than potato catalase’.
- null hypothesis
- The statement that the tested factor makes no difference to the measured result, naming both variables, such as ‘there is no difference in the volume of oxygen released in 4 minutes between liver and potato catalase’. It is what the data are checked against.
APBIO-U03-P31 Practice questions: Topic 3.1
Answer every question. For each multiple-choice question, pick one option and press Check; the feedback gives the reasoning. For the free-response questions, write one short sentence per step of your reasoning, in order, and show any calculation. In the exam, write the steps as a paragraph: a bulleted list is not scored. The first free-response question walks you through the reasoning one part at a time, and you can open a hint for each part; the second is at the level of the test. When you finish a question, open the scoring guide and mark your own work against it. Energy values on the energy profiles are in kJ/mol.
Video: Watch first: Topic 3.1 summary, part 1: enzymes
Rate is the product formed divided by the time; an enzyme lowers the activation energy and comes out unchanged; the active site fits one substrate by shape and charge.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-T31-summary.mp4
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Bacteria in a vinegar barrel speed up the reaction alcohol + oxygen → acetic acid + water. Over a month, the alcohol in the barrel is used up while the liquid turns sour as acetic acid builds up.
Which substances are the reactants in this reaction, and how can you tell?
- A. ✓ Alcohol and oxygen; they are the starting substances that are changed
- B. Acetic acid and water; they are the substances that build up in the barrelAcetic acid and water build up as the reaction forms them.
So acetic acid and water are the products. - C. The bacteria; they are added to the barrel to start the reactionThe bacteria speed the reaction up and come out unchanged.
The bacteria are written on neither side of the arrow, so they are not reactants. - D. Alcohol and acetic acid; both are present in the barrel during the monthAcetic acid is a product: acetic acid builds up as the alcohol is used.
Being present in the barrel does not make a substance a reactant.
Why: The reactants are the starting substances that the reaction changes, written before the arrow: alcohol and oxygen.
Their amounts fall as the reaction happens.
The products are the new substances the reaction forms: acetic acid and water.
Their amounts build up.
Pectinase is an enzyme that breaks down pectin, the substance that holds the juice inside crushed fruit. A student adds pectinase to 50 g of apple pulp and collects 36 mL of juice in 15 minutes.
What is the rate of juice release?
- A. 0.42 mL/min0.42 comes from dividing the time by the volume, 15 divided by 36.
That fraction is the wrong way up: the time on top and the volume underneath. - B. ✓ 2.4 mL/min
- C. 36 mL/min36 mL is the volume collected, with the time left out.
A rate is an amount per minute. - D. 540 mL/min540 comes from multiplying the volume by the time.
A rate is a division, not a multiplication.
Why: The rate of juice release is the volume of juice released divided by the time taken.
36 mL of juice divided by 15 min is 2.4 mL/min.
The unit, mL/min, says how much juice was released each minute.
Two tubes each hold 50 g of the same apple pulp. The juice is already in the pulp; pectinase only releases it. Tube 1 receives four drops of pectinase and tube 2 receives one drop. The graph shows the volume of juice collected from each tube over 10 minutes.
What is the rate of juice release from tube 1 over the first 6 minutes, and how will the final volumes of juice from the two tubes compare once both have finished?
- A. 4.0 mL/min; tube 1 ends with more juice than tube 2More enzyme does not make more juice.
Both tubes hold the same 50 g of pulp, so the same juice is there to be released. - B. 2.0 mL/min; tube 1 ends with more juice than tube 22.0 mL/min is tube 2's rate: the dashed line, 12 mL in 6 minutes.
More enzyme does not make more juice. - C. 2.0 mL/min; both tubes end with 24 mL, tube 2 reaching it later2.0 mL/min is tube 2's rate: the dashed line, 12 mL in 6 minutes.
Tube 1 is the solid line. - D. ✓ 4.0 mL/min; both tubes end with 24 mL, tube 2 reaching it later
Why: Tube 1 reaches 24 mL at 6 minutes, so its rate of juice release is 4.0 mL/min, as the working below shows.
A faster rate of reaction does not make more juice in the end.
Both tubes hold the same pulp, so tube 2 also reaches 24 mL, only later.
The figure shows the energy profile for the breakdown of a plant pigment with no enzyme present, with energy in kJ/mol.
Which of the following is the energy the reaction releases overall?
- A. 25 kJ/mol25 kJ/mol is the products' level read from zero.
- B. ✓ 35 kJ/mol
- C. 50 kJ/mol50 kJ/mol is the climb from the reactants to the peak.
That climb is the activation energy. - D. 85 kJ/mol85 kJ/mol is the drop from the peak to the products.
The reaction starts at the reactants' level, not at the peak.
Why: The energy released overall is the drop from the reactants' level, 60 kJ/mol, to the products' level, 25 kJ/mol: 35 kJ/mol.
The climb to the peak at 110 kJ/mol is the activation energy, 50 kJ/mol.
The activation energy does not set how much energy the reaction releases.
Cells in the pancreas make lipase. Lipase speeds up the reaction fat + water → fatty acids + glycerol in the small intestine, where the temperature is 37 °C.
Why does the body need lipase for this reaction?
- A. ✓ Few collisions at 37 °C carry the activation energy, so without lipase the reaction is far too slow
- B. Without lipase, fat and water would react to form different products at 37 °CA catalyst does not change which products form.
Fat and water become fatty acids and glycerol with or without lipase; without lipase they do so far more slowly. - C. Lipase supplies the energy that the reactants must take in before they can reactA catalyst does not hand energy to the reactants.
A catalyst lowers the amount of energy a collision must carry for the reaction to happen. - D. Without lipase, the reaction would release too little energy overall to be usefulThe energy released overall is set by the reactants' level and the products' level.
Lipase changes neither level, and the energy released does not set the rate of reaction.
Why: Molecules react only when a collision carries at least the activation energy.
At 37 °C few collisions carry that much energy.
So without lipase the fat is split far too slowly to feed the body.
Lipase lowers the activation energy, so far more collisions succeed.
A juice factory passes cloudy apple juice through a column of beads coated in pectinase. After six weeks the beads carry the same mass of pectinase as at the start, and the juice leaving the column still contains the same breakdown products as in week one.
What do these observations show about the pectinase?
- A. The pectinase is used up in each reaction, and the beads are recoated as fast as it goesNothing was added to the beads, yet the mass of pectinase is unchanged after six weeks.
So the pectinase was not used up. - B. The pectinase becomes part of the breakdown products that leave in the juiceThe mass of pectinase on the beads has not fallen, so none left in the juice.
The products are the same in week six as in week one. - C. The pectinase is a reactant that the juice's sugars remake after each reactionA reactant is changed by the reaction, so a reactant's amount falls.
The mass of pectinase stayed the same, and nothing remade it. - D. ✓ The pectinase is unchanged by each reaction, so each molecule acts again and again
Why: A catalyst is not used up by the reaction it speeds up.
So one pectinase molecule acts again and again, and the mass on the beads is the same after six weeks.
A catalyst also does not change which products form, so the juice carries the same breakdown products throughout.
A bird's gut cells make an enzyme that splits a sugar in ripe berries. In autumn the cells make large amounts of the enzyme, and the sugar is digested. In spring the same cells make hardly any of it, and the same sugar passes through the gut unchanged.
What do these observations show about how the bird's cells control the digestion of this sugar?
- A. ✓ The cells control the reaction by controlling how much of its enzyme they make
- B. The sugar reacts on its own in autumn because ripe berries hold more of itThe sugar does not react at a useful rate on its own in either season.
In spring the sugar passes through the gut unchanged. - C. The enzyme made in autumn is used up by spring, so digestion stopsAn enzyme is not used up by the reactions it speeds up.
In spring the cells simply make almost none of the enzyme. - D. In spring the cells make the enzyme, but the sugar in the berries changes shapeThe sugar is the same molecule in both seasons.
What changes is how much of the enzyme the cells make.
Why: A cell's reaction is fast only while its enzyme is present.
In autumn the cells make plenty of the enzyme, so the sugar is digested.
In spring they make almost none, so the sugar passes through unchanged.
So the cells control the reaction by how much enzyme they make.
An enzyme's active site fits its substrate. The substrate carries a negative charge, and one R group lining the pocket carries a positive charge. A researcher replaces that R group with a negatively charged one. The pocket keeps its shape, yet the substrate stays unbound.
What stops the substrate binding to the changed enzyme?
- A. The changed pocket is now too small for the substrate to enterThe pocket kept its shape.
So size is not the problem. - B. The substrate's own shape changed when the enzyme was alteredSwapping an R group on the enzyme does nothing to the substrate molecule.
The substrate is unchanged. - C. ✓ The negative charges on the R group and on the substrate push apart
- D. The substrate now binds elsewhere on the enzyme's surface insteadA substrate binds only where its shape and charge match, and that place is the active site.
The rest of the enzyme's surface does not hold the substrate.
Why: A substrate binds only when its shape fits the active site and its charges match the pocket’s lining.
Like charges push apart.
Swapping the positive R group for a negative one leaves a negative pocket facing a negative substrate.
So the pocket pushes the substrate away, although the shape fits.
Which of the following substances is an enzyme?
- A. Nickel, a metal that speeds up the hardening of vegetable oil into margarineNickel speeds a reaction up, but nickel is not a protein and no cell makes it.
Nickel is a catalyst, not an enzyme. - B. ✓ Lactase, a protein made by gut cells that speeds up the splitting of lactose in milk
- C. Keratin, a protein made by skin cells that hair and nails are made ofKeratin is a protein, but keratin speeds up no reaction.
An enzyme is a protein that lowers the activation energy of one reaction. - D. Sucrose, a sugar made by plant cells that stores energy in a sugar beetSucrose is neither a protein nor a catalyst.
Sucrose speeds up no reaction.
Why: An enzyme is a protein, made by a cell, that lowers the activation energy of one reaction.
Lactase is a protein, gut cells make it, and it speeds up one reaction.
So lactase is an enzyme.
Keratin speeds up no reaction; nickel is not a protein.
A student compares how fast pectinase releases juice from apple pulp at 20, 30 and 40 °C. Each flask holds 50 g of the same pulp and receives four drops of pectinase. One extra flask of pulp at 30 °C receives no pectinase. She collects the juice from each flask for 10 minutes.
Which of the following is a control variable in this experiment?
- A. The temperature of the pulpThe temperature is the one condition the student deliberately changes.
So the temperature is the independent variable, not a control variable. - B. The flask with no pectinaseThe flask with no pectinase is the control: the flask lacking the factor under test.
A control variable is a condition kept the same in every flask. - C. ✓ The mass of pulp in each flask
- D. The volume of juice collected in 10 minutesThe volume of juice is the quantity measured to see the effect.
So the volume of juice is the dependent variable, not a control variable.
Why: Control variables are the conditions kept the same in every flask, so that only the temperature differs.
Every flask holds 50 g of pulp, so the mass of pulp is a control variable.
The temperature is changed, the juice is measured, and the no-pectinase flask is the control.
Actinidin is an enzyme in kiwi fruit. It speeds up the reaction gelatin + water → smaller protein pieces (gelatin is a protein). A dessert made by stirring fresh kiwi juice into warm gelatin never sets: within an hour the gelatin has been broken into pieces too small to form a gel. The same gelatin with no kiwi juice sets firmly and is still firm a week later. The figure shows the energy profile of the reaction with and without actinidin, with energy in kJ/mol.
(a) Identify actinidin's substrate, and identify the part of the enzyme where that substrate binds. (1 pt)
Frame Actinidin's substrate is …, and it binds at the enzyme's …
Hint Which molecule in the dessert does actinidin act on, and what is the name of the place on an enzyme where its substrate sits?
Gelatin is the protein actinidin acts on.
The active site is the pocket on the enzyme's surface whose shape and charges fit the gelatin chain.
- Award 1 point for: gelatin (the protein) is the substrate, and it binds at the active site.
- Accept 'the protein in the dessert' for the substrate, and accept 'gelatin and water'. Do not award the point for water alone, with no gelatin named, or for 'the enzyme's surface' with no active site named.
Slip Naming water alone as the substrate. Water is a reactant in this hydrolysis, but the molecule the enzyme holds in its active site is the gelatin.
(b) Calculate the activation energy of the reaction on its own and with actinidin. (1 pt)
Frame Without actinidin the activation energy is … kJ/mol; with actinidin it is … kJ/mol.
Hint Which two levels on the energy profile does the activation energy lie between? Read both peaks off the gridlines.
With actinidin the activation energy is 90 − 70 = 20 kJ/mol.
So the enzyme lowers the activation energy by 30 kJ/mol.
- Award 1 point for both values: 120 − 70 = 50 kJ/mol without actinidin and 90 − 70 = 20 kJ/mol with actinidin.
- Accept values within ±2 kJ/mol read from the figure. Do not award the point for the peak heights (120 and 90 kJ/mol) given as the activation energies.
Slip Reading the height of each peak above zero, 120 and 90 kJ/mol. The activation energy is the climb from the reactants' level, 70 kJ/mol, up to the peak.
(c) Describe the effect of actinidin on the reactants' level and the products' level of the energy profile, and calculate the energy the reaction releases overall. (1 pt)
Frame Without actinidin the reactants sit at … kJ/mol and the products at … kJ/mol; with actinidin the reactants sit at … kJ/mol and the products at … kJ/mol; so the energy released overall is … kJ/mol without actinidin and … kJ/mol with it.
Hint Compare the two curves from left to right. Read where each curve starts and where each curve ends. Between which two levels is the energy released overall measured?
Actinidin moves only the peak.
Actinidin leaves the start and the end of the energy profile where they were.
- Award 1 point for: the reactants' level (70 kJ/mol) and the products' level (45 kJ/mol) are the same on both curves, so the energy released overall, 70 − 45 = 25 kJ/mol, is unchanged by the enzyme.
- Accept 'the start and end of the curve stay where they were' with the 25 kJ/mol calculated. Do not award the point for an answer that has actinidin lowering the products or changing the energy released.
Slip Saying that with the enzyme more energy is released because the curve is lower. Only the peak is lower. The products sit at 45 kJ/mol either way, so the energy released is the same.
(d) Explain how actinidin makes the gelatin break down within an hour when the gelatin with no kiwi juice is still firm a week later. (1 pt)
Frame Molecules react only when a collision brings at least …; with actinidin the activation energy is only … kJ/mol, so a far larger fraction of …, and …
Hint The molecules in both desserts are colliding all the time. What decides whether one of those collisions ends in a reaction, and what did you find in (b) that changes it?
Without actinidin the activation energy is 50 kJ/mol; few collisions carry that much, so the plain gelatin stays firm for a week.
Gelatin bound in actinidin's active site forms an enzyme–substrate complex, and in the enzyme–substrate complex the activation energy is 20 kJ/mol.
So far more collisions carry enough energy, and far more succeed each second.
So the gelatin is broken down within the hour.
- Award 1 point for: reacting molecules must collide with at least the activation energy; with the activation energy lowered from 50 to 20 kJ/mol, a far larger fraction of the collisions already happening carry enough energy, so many more succeed each second and the gelatin is broken down faster. Accept the fuller chain: gelatin binds at the active site, the enzyme–substrate complex lowers the activation energy, the pieces leave and the unchanged actinidin binds the next stretch.
- Do not award the point for 'actinidin lowers the activation energy' alone with no link to collisions succeeding, or for 'actinidin heats the dessert' or 'actinidin supplies energy'.
Slip Stopping at 'the enzyme lowers the activation energy'. The point needs the next step: with a lower barrier, more of the collisions carry enough energy, so more of them succeed each second.
(e) A cook stirs the same kiwi juice into a starch pudding (starch and water, no protein). Predict what happens to the starch over the next hour, and justify your prediction using the structure of actinidin. (1 pt)
Frame The starch will be …, because a molecule is held in the active site only if …, and starch …
Hint What two things about a molecule decide whether it is held in an active site, and how does starch compare with gelatin on each?
A molecule is held in the active site only if its shape fits the pocket and its charges match the R groups lining it.
Starch has a different shape from a protein chain, so actinidin never binds the starch chain.
No enzyme–substrate complex forms, so the activation energy of the starch's reaction is not lowered.
Actinidin does nothing to the pudding.
- Award 1 point for: the starch is unchanged (no reaction is sped up) because a molecule is held in the active site only if its shape and charges fit, and a starch chain has a different shape from a protein chain, so it is never bound and its activation energy is not lowered.
- Accept 'nothing happens to the starch because it does not fit actinidin's active site'. Do not award the point for 'the starch breaks down more slowly' or for 'actinidin only works on protein' with no reference to fit at the active site.
Slip Predicting a slow breakdown instead of none. An enzyme that does not fit a molecule does not act on that molecule slowly. The enzyme does not act on that molecule at all.
Urease, an enzyme made by many soil bacteria, speeds up the reaction urea + water → ammonia + carbon dioxide. A student asks whether compost bacteria release ammonia from urea faster than garden-soil bacteria. Three flasks each receive 50 mL of the same urea solution at 25 °C. Flask C gets 1.0 g of compost, flask G gets 1.0 g of garden soil, and flask S gets 1.0 g of clean sand, which contains no living things. She measures the mass of ammonia formed in each flask in 10.0 minutes; the results are in the table. In a separate check, 1.0 g of the same compost is stirred into water and filtered, so that no cells pass through. This cell-free extract added to 50 mL of urea solution gives off ammonia. The same extract added to 50 mL of glucose solution leaves the glucose unchanged.
(a) Identify the independent variable, the dependent variable, and the flask that is the control. (1 pt)
The dependent variable is the mass of ammonia formed in 10.0 minutes.
The control is flask S.
Flask S was treated the same way as flasks C and G but received sand, which contains no living things.
- Award 1 point for all three: independent variable, the source of the material added (compost, garden soil or sand); dependent variable, the mass of ammonia formed in 10.0 minutes (or the rate of ammonia formation); control, flask S (urea solution with sand, no living things).
- Accept 'what is added to the urea' for the independent variable. Do not award the point if the independent and dependent variables are reversed, or if a control variable (the 25 °C temperature, the 50 mL of urea solution, the 10.0 minutes) is named as the control.
Slip Naming a control variable, such as the 25 °C temperature or the 50 mL of urea solution, as 'the control'. Control variables are the conditions kept the same in every flask. The control is the flask that lacks the factor under test.
(b) State the student's hypothesis and the null hypothesis for the comparison between compost and garden soil. (1 pt)
The null hypothesis is that there is no difference in the mass of ammonia formed in 10.0 minutes between urea solution given compost and urea solution given garden soil.
- Award 1 point for both: the hypothesis, that urea solution given compost forms a larger mass of ammonia in 10.0 minutes than urea solution given garden soil (or forms it faster); and the null hypothesis, that there is no difference in the mass of ammonia formed in 10.0 minutes (or in the rate of ammonia formation) between the two. Both statements must name the tested factor (the source of the bacteria) and the measured result (the mass of ammonia, or its rate).
- Accept 'the source of the soil bacteria has no effect on the rate of ammonia formation' for the null hypothesis. Do not award the point for a hypothesis or a null hypothesis that names only one variable ('compost is better'), for a null hypothesis that predicts a difference in either direction, or for 'urease has no effect on urea'.
Slip Writing 'compost is better' as the hypothesis. A hypothesis names both variables: the source of the bacteria and the mass of ammonia formed in 10.0 minutes. The null hypothesis predicts no difference, and names both too.
(c) Calculate the rate of ammonia formation in each of the three flasks. Support the claim that most of the ammonia in flask C came from urease in the compost, using the rates. (1 pt)
Flask S was treated the same way as the other two flasks but received sand with no living things in it.
So flask S shows that the urea solution on its own gives off only 0.02 mg/min at 25 °C.
Flask C gave 0.78 mg/min more than flask S.
Therefore that extra 0.78 mg/min is credited to the urease in the compost.
- Award 1 point for: the three rates (0.80 mg/min for flask C, 0.30 for flask G and 0.02 for flask S) AND the evidence linked to the claim: flask S, treated the same way but with no living things, gives off only 0.02 mg/min, so the extra 0.78 mg/min in flask C is credited to the compost's urease.
- Support a claim needs the evidence (the rates, with flask S as the comparison) AND the reasoning that links it to the claim. Accept a comparison of the masses (8.0 mg against 0.2 mg) given alongside the rates. Do not award the point for the rates alone, or for a comparison of flask C against flask G alone.
Slip Giving the rates without the link to the claim. Support a claim needs the evidence and the reasoning: flask S shows the urea's own rate, so the extra in flask C is the urease's.
(d) Explain why the cell-free extract of the compost releases ammonia from urea but leaves the glucose unchanged. (1 pt)
Urease has an active site whose shape and charges match urea.
So urea binds in the active site, and urease splits it into ammonia and carbon dioxide.
A glucose molecule has a different shape from urea.
So glucose is never held in the active site, no enzyme–substrate complex forms, and the glucose is left unchanged.
- Award 1 point for: a glucose molecule has a different shape from urea, so it is never held in urease's active site and is left unchanged, while urea fits the active site by shape and charge and is split.
- Accept 'glucose does not fit urease's active site, so urease does nothing to it'. Do not award the point for 'urease is specific' or 'urease only works on urea' with no reference to fit at the active site.
Slip Writing 'urease is specific to urea' and stopping. The point is earned by the reason: glucose does not fit the active site, so urease never binds it.
APBIO-U03-T31 End-of-topic test: Enzymes
Answer every question. For each multiple-choice question, pick one option and press Check; the feedback gives the reasoning. For the two free-response questions, write one short sentence per step of your reasoning, in order, and show any calculation. In the exam, write the steps as a paragraph: a bulleted list is not scored. Then open the scoring guide and mark your own work against it. Energy values on the energy profiles are in kJ/mol.
In red blood cells, carbonic anhydrase speeds up the reaction carbon dioxide + water → carbonic acid. As blood passes through a working muscle, the red blood cells take up carbon dioxide, and the amount of carbonic acid in each cell rises.
Which substance is a product of this reaction, and how can you tell?
- A. Carbon dioxide; it is the gas the working muscle gives offCarbon dioxide is written before the arrow.
The reaction changes carbon dioxide into carbonic acid, so carbon dioxide is a reactant. - B. Water; it is the liquid the reaction takes place inWater is written before the arrow.
The reaction changes water and carbon dioxide into carbonic acid, so water is a reactant. - C. ✓ Carbonic acid; its amount rises as the reaction forms it
- D. Carbonic anhydrase; it is made by the red blood cellCarbonic anhydrase speeds the reaction up and is unchanged when the reaction ends.
Carbonic anhydrase is written on neither side of the arrow, so it is not a product.
Why: Products are the new substances a reaction forms; reactants are the starting substances it changes.
Read the arrow as ‘become’: carbon dioxide and water become carbonic acid.
Carbonic acid appears, so carbonic acid is the product.
Carbon dioxide and water are used up, so they are the reactants.
Yeast cells speed up the reaction glucose → alcohol + carbon dioxide. A flask of glucose solution with yeast in it releases 18 mL of carbon dioxide in 6.0 minutes.
What is the rate of reaction?
- A. 0.33 mL/min0.33 comes from dividing the time by the volume, 6.0 divided by 18.
That fraction is the wrong way up: the time on top and the volume underneath. - B. ✓ 3.0 mL/min
- C. 12 mL/min12 is 18 minus 6.
A rate of reaction is not a difference. - D. 108 mL/min108 is 18 multiplied by 6.
A rate of reaction is a division, not a multiplication.
Why: The rate of reaction is the amount of product formed divided by the time taken.
18 mL of carbon dioxide divided by 6.0 min is 3.0 mL/min.
The unit, milliliters per minute, says how much carbon dioxide appears each minute.
Two flasks each hold 100 mL of the same glucose solution. Flask 1 has twice as much yeast in it as flask 2. Flask 1 releases carbon dioxide at 4.0 mL/min and flask 2 at 2.0 mL/min. Both flasks are left until the bubbling stops.
How do the total volumes of carbon dioxide released by the two flasks compare, and which flask finishes first?
- A. Flask 1 releases twice as much carbon dioxide in total, and finishes soonerTwice the rate of reaction means twice as much carbon dioxide each minute, not twice as much carbon dioxide in the end.
- B. Flask 2 releases more in total because it bubbles for longerBubbling for longer does not make more product.
Flask 2 is slow, so flask 2 takes longer to release the carbon dioxide its 100 mL of glucose solution can give. - C. Both flasks release the same total, and both finish at the same timeFlask 1 releases carbon dioxide twice as fast, so flask 1 reaches the total in half the time flask 2 needs.
The two flasks do not finish together. - D. ✓ Both flasks release the same total, and flask 1 finishes sooner
Why: The total amount of product is set by how much reactant there was at the start.
Both flasks began with 100 mL of the same glucose solution, so both release the same total of carbon dioxide.
A faster rate of reaction changes only how soon that total is reached.
The figure shows the energy profile for the reaction fat + water → fatty acids + glycerol with no enzyme present, with energy in kJ/mol.
What is the activation energy of the reaction?
- A. 20 kJ/mol20 kJ/mol is how far the products sit below the reactants.
That drop is the energy released overall, not the activation energy. - B. ✓ 50 kJ/mol
- C. 70 kJ/mol70 kJ/mol is the drop from the peak down to the products.
The activation energy is the climb up to the peak, not the drop after it. - D. 80 kJ/mol80 kJ/mol is the height of the peak read from zero.
The reactants already sit at 30 kJ/mol, so the climb is less than 80 kJ/mol.
Why: The activation energy is the climb from the reactants' level to the peak: 50 kJ/mol, as the working below shows.
The energy released overall is the drop from the reactants' level to the products' level: 20 kJ/mol.
The activation energy is a separate quantity from the energy released.
The figure shows two energy profiles for the reaction sucrose + water → glucose + fructose, with energy in kJ/mol. One curve is the reaction on its own; the other is the same reaction with sucrase present.
Which curve shows the reaction with sucrase, and why is the reaction faster with sucrase?
- A. Curve 1; more collisions carry enough energyCurve 1 has the higher peak, 90 kJ/mol.
So curve 1 is the reaction with the higher activation energy: the reaction on its own. - B. Curve 1; the reaction releases more energy overallCurve 1 is the reaction on its own.
Neither curve releases more energy than the other: both curves start at 40 kJ/mol and end at 20 kJ/mol. - C. ✓ Curve 2; more collisions carry enough energy
- D. Curve 2; the reaction releases more energy overallBoth curves start at 40 kJ/mol and end at 20 kJ/mol.
So the energy released overall is the same with or without sucrase.
Why: A catalyst lowers the activation energy, so curve 2, with the lower peak, is the reaction with sucrase.
With a lower activation energy, far more collisions carry enough energy, so the reaction is faster.
The start and end levels are unchanged, so the energy released is the same.
Paper is mostly cellulose. Cellulose and the oxygen in the air can react: cellulose + oxygen → carbon dioxide + water, releasing a great deal of energy. Yet a book kept on a shelf at room temperature lasts for centuries.
Why is the reaction so slow at room temperature?
- A. The reaction releases too little energy overall to happen on its ownThe reaction releases a great deal of energy overall.
The energy released overall is the drop from reactants to products, and that drop does not set the rate of reaction. - B. ✓ Few collisions at room temperature carry at least the activation energy
- C. Cellulose molecules in paper are still, so they never collide with oxygenParticles are always moving, in a sheet of paper as anywhere else.
So the cellulose molecules do collide with oxygen molecules. - D. A catalyst must be present before any reaction can begin at allThis reaction does happen on its own, extremely slowly.
A catalyst speeds a reaction up; it does not permit a reaction that could not otherwise happen.
Why: Molecules react only when a collision carries at least the activation energy.
Only a small fraction of collisions carry that much energy.
So a high activation energy means very few successful collisions each second, and a slow reaction.
The energy released overall does not set the rate of reaction.
A dairy adds lipase to cream to split the fat: fat + water → fatty acids + glycerol. At the start the cream holds 300 g of fat per liter and 5.0 mg of active lipase per liter. A day later it holds 20 g of fat per liter and still 5.0 mg of active lipase per liter.
What do the measurements show about the lipase?
- A. The lipase was used up in step with the fatIf the lipase were used up in step with the fat, the amount of lipase would have fallen along with the fat.
The amount of lipase did not fall. - B. The lipase became part of the fatty acids and glycerol that formedLipase is not a reactant, so no lipase ends up in the fatty acids or the glycerol.
The amount of active lipase after the day is what it was before. - C. The lipase was turned into a product and then made againNothing in the measurements shows lipase disappearing and reappearing.
The amount of active lipase simply never changed. - D. ✓ The lipase is still there, unchanged, after splitting most of the fat
Why: A catalyst is not used up by the reaction it speeds up.
The fat fell from 300 g to 20 g per liter while the active lipase stayed at 5.0 mg per liter.
So each lipase molecule split many fat molecules and came out of each reaction unchanged.
Papain, an enzyme from papaya, speeds up the reaction protein + water → amino acids. With papaya juice, the protein in a piece of meat is split within an hour. With no papaya juice, the same protein takes weeks to break down.
How do the products and the overall energy released compare in the two cases?
- A. Same products; less energy is released overall with papainPapain lowers the activation energy.
Papain does not lower the products' level, so the energy released overall is not smaller. - B. Same products; more energy is released overall with papainA faster reaction releases its energy sooner, not more of it.
- C. ✓ Same products; the same energy is released overall
- D. Different products; the same energy is released overallA catalyst does not change which products form.
With or without papain, protein and water become amino acids.
Why: A catalyst changes neither the reactants' energy level nor the products' energy level.
A catalyst lowers only the peak between them.
So the products are the same, amino acids, and the energy released overall is the same.
The reaction just finishes in an hour instead of weeks.
Cells lining the small intestine make maltase, a protein folded into a specific shape. Maltase speeds up the reaction maltose + water → glucose. With no maltase present, maltose passes through the small intestine almost unchanged at body temperature.
What does maltase do that lets the reaction happen fast enough in the gut?
- A. Maltase raises the temperature of the gut contentsEnzymes do not heat their surroundings.
The gut stays at body temperature with or without maltase. - B. ✓ Maltase lowers the activation energy of the reaction
- C. Maltase supplies the energy the reactants must take inA catalyst does not hand energy to the reactants.
A catalyst lowers the amount of energy the reactants need. - D. Maltase raises the energy released when maltose splitsThe energy released overall is set by the reactants' level and the products' level.
An enzyme changes neither level.
Why: An enzyme is a protein that lowers the activation energy of one reaction.
With the activation energy lowered, far more of the collisions at body temperature carry enough energy to succeed.
So the reaction is fast enough for the cell to use.
Muscle cells and skin cells from one person both contain a stored sugar. A researcher measured the enzyme that breaks this sugar down in both cell types: the muscle cells made large amounts of it; the skin cells made hardly any.
In which cells does the breakdown happen at a useful rate, and why?
- A. ✓ Muscle cells only; the reaction is fast only where its enzyme is present
- B. Skin cells only; the muscle enzyme is used up as fast as it is madeAn enzyme is not used up by the reactions it speeds up.
So the muscle enzyme keeps working. - C. Both cell types; the sugar is present in both, so it reacts on its ownWithout its enzyme the activation energy is too high for the reaction to happen at a useful rate at body temperature.
So the sugar sits almost untouched in skin cells. - D. Both cell types; every cell in one person carries the same working enzymesCells of different types make different sets of enzymes, even in one person.
Why: A reaction in a cell is fast only while its enzyme is present.
Muscle cells make a lot of the enzyme, so the breakdown is fast.
Skin cells make hardly any, so the sugar sits almost untouched.
A cell controls its reactions by how much of each enzyme it makes.
The figure shows a folded maltase molecule and a molecule of maltose near its surface, with three parts labeled 1, 2 and 3.
What are the parts labeled 1 and 2?
- A. Active site at 1, substrate at 2The active site is a pocket in the enzyme's surface, not a free molecule.
Number 1 marks a free molecule. - B. Product at 1, active site at 2Maltose is the molecule maltase acts on, so maltose is the substrate.
The product, glucose, forms only after the maltose has bound. - C. ✓ Substrate at 1, active site at 2
- D. Active site at 1, product at 2The product is not part of the enzyme.
The product is a new molecule that leaves after the reaction.
Number 2 marks a pocket in the enzyme.
Why: The substrate is the reactant molecule an enzyme acts on: here, the maltose molecule, at 1.
The active site is the pocket on the enzyme's surface where the substrate binds, at 2.
The rest of the enzyme's surface, at 3, does not bind the substrate.
An enzyme's active site is a pocket lined with R groups that carry negative charges. The figure shows the shape of the pocket and the three molecules tested, X, Y and Z, drawn to the same scale, with the charge each carries.
Judging by shape and by charge, which molecules are held in the active site?
- A. ✓ X only
- B. Y onlyY and the pocket both carry negative charges.
Like charges push apart, so Y is not held. - C. X and YY has the right shape but carries a negative charge.
The R groups lining the pocket are also negative, so the pocket pushes Y away. - D. X and ZZ is the wide oval, the wrong shape for the tall, narrow pocket.
So Z cannot enter the pocket, even though the negative lining attracts Z's positive charge.
Why: A substrate binds only if its shape fits the pocket and its charge matches.
X fits and is positive against the negative lining, so X is held.
Y fits but is negative, so it is pushed away.
Z has the right charge but the wrong shape, so it cannot enter.
The figure is a three-panel model of an enzyme acting on its substrate. One substrate molecule enters the reaction, and two product molecules leave it.
Which panel shows the enzyme–substrate complex, and what is happening in it?
- A. Panel 1; the substrate is drawn to the active site by its chargesIn panel 1 the substrate molecule has not yet bound.
It is still approaching the active site, so no enzyme–substrate complex exists yet. - B. Panel 2; the enzyme is being used up as the products formThe enzyme is not used up in the enzyme–substrate complex.
In panel 3 the enzyme's active site is empty and the enzyme is unchanged, ready for the next substrate molecule. - C. Panel 3; the products stay bound so the enzyme can be reusedIn panel 3 the products are leaving and the active site is empty.
The enzyme–substrate complex is the stage before that, panel 2. - D. ✓ Panel 2; the reaction happens there with a lowered activation energy
Why: The enzyme with its substrate bound is the enzyme–substrate complex: panel 2, the substrate in the pocket.
In the enzyme–substrate complex the enzyme lowers the activation energy, so the reaction happens there.
The products then leave, and the active site is empty again: panel 3.
Urease from soil bacteria has an active site that fits a urea molecule. Urease speeds up the reaction urea + water → ammonia + carbon dioxide. A student adds the same amount of urease to three tubes at 25 °C: one of urea, one of sucrose (table sugar), and one of protein.
In which tubes does urease speed up a reaction?
- A. ✓ Urea only
- B. Urea and sucroseA sucrose molecule has a different shape from a urea molecule.
So sucrose does not fit urease's active site, and urease does nothing to it. - C. Urea and proteinA protein is a chain of amino acids.
A protein chain is nothing like a urea molecule, so a protein chain does not fit urease's active site. - D. Urea, sucrose and proteinUrease's active site fits only a urea molecule.
So the sucrose tube and the protein tube show no reaction.
Why: Only a molecule that fits the active site is held, so each enzyme acts on one substrate.
A urea molecule fits urease's pocket.
A sucrose molecule and a protein chain have different shapes, so urease never binds them.
So nothing happens to the sucrose or the protein.
A student asks whether the concentration of sucrose changes how fast yeast releases carbon dioxide. She puts 10 mL of 2%, 4%, 6% or 8% sucrose solution into four flasks at 30 °C, adds the same 1.0 g of yeast to each, and records the volume of carbon dioxide collected in 10 minutes.
What are the independent and dependent variables?
- A. Independent: mass of yeast; dependent: carbon dioxide collectedThe mass of yeast was the same, 1.0 g, in every flask.
The yeast is a condition kept the same, not the condition deliberately changed. - B. Independent: carbon dioxide collected; dependent: sucrose concentrationThe sucrose concentration was set before the experiment started, so it is the independent variable.
The carbon dioxide collected is what the student measured: the dependent variable. - C. Independent: sucrose concentration; dependent: time allowedThe time, 10 minutes, was kept the same for every flask.
The time is not the quantity measured. - D. ✓ Independent: sucrose concentration; dependent: carbon dioxide collected
Why: The independent variable is the condition the experimenter deliberately changes: the concentration of sucrose, 2% to 8%.
The dependent variable is the quantity measured to see the effect: the volume of carbon dioxide collected in 10 minutes.
Temperature, mass of yeast, volume of solution and time are kept the same.
A student compares protease from pineapple and from papaya. Each tube holds a 5.0 g cube of gelatin (a protein) in 10 mL of water at 25 °C; the table shows what she adds to each tube. She records the mass of gelatin left in each tube after 30 minutes.
Which tube is the control, and what is one control variable?
- A. Tube 1; the kind of fruit juiceTube 1 is one of the two tubes being compared.
The kind of fruit juice is deliberately changed, so it is the independent variable, not a control variable. - B. Tube 3; the kind of fruit juiceThe kind of fruit juice is what changes between tube 1 and tube 2.
So the kind of fruit juice is the independent variable, not a control variable. - C. ✓ Tube 3; the mass of gelatin
- D. Tube 2; the volume of liquid addedTube 2 is being compared with tube 1.
Tube 2 is a tested tube, not the control.
Why: Control variables are the conditions kept the same in every tube: the mass of gelatin, the temperature and the time.
The control is the tube given the same treatment but lacking the factor under test.
Tube 3 holds gelatin with no fruit juice, so tube 3 is the control.
In an experiment at 37 °C, a tube of hydrogen peroxide with a drop of blood in it released 14.0 mL of oxygen in 4 minutes. A tube of the same hydrogen peroxide with no blood released 0.5 mL in the same 4 minutes.
What does the no-blood tube show?
- A. That the experiment worked, because oxygen was collected from both tubesCollecting gas from both tubes does not by itself show anything about catalase.
- B. That the peroxide broke down on its own, so the blood made no differenceThe peroxide broke down only a little on its own: 0.5 mL of oxygen, against 14.0 mL with blood.
So the blood made a large difference. - C. That temperature was kept the same for both tubes, which is what a control doesKeeping the temperature the same is a control variable, not the control.
The control is the tube that lacks the factor under test. - D. ✓ How much oxygen the peroxide gives off on its own, with no blood added
Why: The control shows the result with the tested factor absent: peroxide alone releases 0.5 mL in 4 minutes.
The tubes differ only in the blood, so the extra 13.5 mL is credited to the blood's catalase.
Without the control, nothing would show how much oxygen the peroxide released anyway.
A student tests whether the concentration of a starch solution changes the mass of maltose that amylase forms in 5 minutes.
Which of the following statements is a hypothesis predicting that the concentration of starch affects the mass of maltose formed?
- A. ✓ A higher concentration of starch gives a larger mass of maltose in 5 minutes
- B. Amylase splits starch into maltoseThis statement names no condition that changes between the tubes and predicts no result.
A hypothesis predicts the result she expects. - C. More starch is better for the amylase‘Better’ names no quantity a tube can measure.
A hypothesis names the quantity measured: the mass of maltose in 5 minutes. - D. The concentration of starch makes no difference to the mass of maltose formed in 5 minutesThis statement predicts no difference, so it is the null hypothesis.
Her hypothesis predicts the difference she expects.
Why: A hypothesis names the condition changed and the quantity measured, and predicts the result.
The condition changed is the concentration of starch.
The quantity measured is the mass of maltose formed in 5 minutes.
Only one statement names both and predicts more maltose from more starch.
Which of the following substances is an enzyme?
- A. Collagen, a protein made by skin cells that gives skin its strength and stretchCollagen is a protein, but collagen speeds up no reaction.
An enzyme is a protein that lowers the activation energy of one reaction. - B. Manganese dioxide, a black powder that speeds up the breakdown of hydrogen peroxide into water and oxygenManganese dioxide speeds a reaction up, but manganese dioxide is not a protein and no cell makes it.
Manganese dioxide is a catalyst, not an enzyme. - C. ✓ Lysozyme, a protein made by tear-gland cells that speeds up the breakdown of bacterial cell walls
- D. Starch, a chain of glucose units that a potato cell stores for later useStarch is neither a protein nor a catalyst.
Starch speeds up no reaction.
Why: An enzyme is a protein, made by a cell, that lowers the activation energy of one reaction.
Lysozyme is a protein, tear-gland cells make it, and it speeds up one reaction.
So lysozyme is an enzyme.
Collagen speeds up no reaction; manganese dioxide is not a protein.
Amylase, an enzyme in saliva, speeds up the reaction starch + water → maltose (a sugar made of two glucose units). A student stirs a drop of saliva into a tube of thick starch paste at 37 °C; within a few minutes the paste has thinned and tests show maltose. A second tube of the same starch paste with no saliva is still thick after a day. The figure shows the energy profile of the reaction with and without amylase, with energy in kJ/mol.
(a) Describe the effect of amylase on the activation energy of the reaction and on the energy the reaction releases overall. (1 pt)
The peak falls from 95 kJ/mol to 65 kJ/mol, so the activation energy drops from 45 kJ/mol to 15 kJ/mol.
Amylase leaves the reactants' level and the products' level unchanged: the reactants still sit at 50 kJ/mol and the products at 30 kJ/mol.
So the energy released overall, 20 kJ/mol, is unchanged.
- Award 1 point for: amylase lowers the activation energy (the peak falls from 95 kJ/mol to 65 kJ/mol, so the activation energy drops from 45 kJ/mol to 15 kJ/mol) while the energy levels of the reactants (50 kJ/mol) and products (30 kJ/mol), and so the energy released overall (20 kJ/mol), are unchanged.
- Accept a description in words with no numbers ("the peak is lower; the start and end are the same"). Do not award the point for an answer that says amylase lowers the products or changes the energy released.
Slip Saying the enzyme lowers the whole curve, or that less energy is released. Only the peak moves. The start level and the end level stay where they were.
(b) Explain how amylase makes maltose form faster at 37 °C. (1 pt)
Without amylase the activation energy is 45 kJ/mol; few collisions at 37 °C carry that much, so few succeed.
Starch bound in amylase's active site forms an enzyme–substrate complex, in which the activation energy is only 15 kJ/mol.
Far more of the collisions already happening carry 15 kJ/mol, so far more succeed each second.
Therefore maltose forms faster.
- Award 1 point for: with a lower activation energy, a far larger fraction of the collisions already happening at 37 °C carry enough energy to react, so more collisions succeed each second and maltose forms faster. Accept the fuller chain: starch binds at the active site, the enzyme–substrate complex lowers the activation energy, the products leave and the unchanged amylase is reused.
- Do not award the point for "amylase lowers the activation energy" alone, with no link to collisions or to how many succeed, or for "amylase heats the paste" or "amylase supplies energy".
Slip Stopping at "amylase lowers the activation energy". The point needs the next step: with a lower activation energy, more of the collisions carry enough energy, so more of them succeed each second.
(c) The student adds the same amount of saliva to a third tube holding protein instead of starch, at 37 °C. Make a claim about what happens in this tube over the next day. (1 pt)
It is unchanged after a day, just as the starch paste with no saliva was unchanged.
- Award 1 point for: a correct, specific claim: nothing happens to the protein; it is unchanged after a day.
- Make a claim earns the point for the assertion; the reasoning is scored in part (d). Do not award the point for "the protein breaks down more slowly" or "it breaks down once the amylase has finished with the starch".
Slip Predicting a slow reaction instead of none. An enzyme that does not fit a molecule does not act on it slowly; it does not act on it at all.
(d) Support your claim using the structure of amylase. (1 pt)
A protein chain has a different shape from a stretch of starch.
So amylase never binds the protein chain.
No enzyme–substrate complex forms, so the activation energy for breaking the protein down is not lowered.
- Award 1 point for: the evidence (a protein chain has a different shape from a stretch of starch) AND the reasoning that links it to the claim: a substrate is held only if its shape fits the active site and its charges are opposite to those of the R groups lining it, so the protein is never bound, no enzyme–substrate complex forms, and its activation energy is not lowered.
- Support a claim needs the evidence and the link to the claim. Do not award the point for "amylase is specific to starch" with no reference to fit at the active site, or for "the amylase was used up on the starch".
Slip Writing "amylase only works on starch" as if that supported the claim. The support is the reason: the protein does not fit the active site, so it is never bound.
Catalase speeds up the reaction hydrogen peroxide → water + oxygen. A student compares catalase from two sources. She mashes 2.0 g of mushroom in 10 mL of water and, separately, 2.0 g of radish in 10 mL of water. Three tubes each receive 10 mL of 3% hydrogen peroxide at 25 °C. Tube M gets 1.0 mL of the mushroom mash, tube R gets 1.0 mL of the radish mash, and tube W gets 1.0 mL of water. She collects the oxygen released from each tube over 4.0 minutes; the results are in the table. In a separate check, 1.0 mL of the radish mash added to 10 mL of sugar solution gives off no gas and leaves the sugar unchanged.
(a) Identify the independent variable, the dependent variable, and the tube that is the control. (1 pt)
The dependent variable is the volume of oxygen collected in 4.0 minutes.
The control is tube W.
Tube W was treated the same way as tubes M and R but received water instead of mash.
- Award 1 point for all three: independent variable, the source of the catalase (mushroom or radish); dependent variable, the volume of oxygen collected in 4.0 minutes (or the rate of oxygen release); control, tube W (peroxide with water and no mash).
- Accept "the tissue added" for the independent variable. Do not award the point if the independent and dependent variables are reversed, or if a control variable (the 25 °C temperature, the 10 mL of peroxide, the 4.0 minutes) is named as the control.
Slip Naming a control variable, such as the 25 °C temperature, as "the control". Control variables are the conditions kept the same in every tube. The control is the tube that lacks the factor under test.
(b) State the null hypothesis for the comparison between mushroom and radish. (1 pt)
- Award 1 point for: there is no difference in the volume of oxygen released in 4.0 minutes (or in the rate of oxygen release) between catalase from mushroom and catalase from radish. The statement must name the tested factor (the source of the catalase) and the measured result (oxygen released or its rate).
- Accept "the source of the catalase has no effect on the rate of oxygen release". Do not award the point for a prediction of a difference in either direction ("radish is faster", "mushroom is slower"), for a null hypothesis about the water tube alone ("the mash has no effect compared with tube W"), or for "catalase has no effect on peroxide".
Slip Writing the opposite prediction ("mushroom releases oxygen faster") as the null hypothesis. The null hypothesis predicts no difference. It names both the factor changed and the quantity measured.
(c) Explain why the radish mash releases oxygen from hydrogen peroxide but leaves the sugar unchanged. (1 pt)
So hydrogen peroxide binds in the active site, and catalase splits it into water and oxygen.
A sugar molecule has a different shape from hydrogen peroxide.
So the sugar molecule is never held in the active site, and the sugar is left unchanged.
- Award 1 point for: catalase's active site fits hydrogen peroxide by shape and charge, so peroxide binds there and is split into water and oxygen, while a sugar molecule has a different shape, is never held in the active site, and so is left unchanged.
- Accept "sugar does not fit catalase's active site, so catalase does nothing to it". Do not award the point for "catalase is specific" or "catalase only works on peroxide" with no reference to fit at the active site.
Slip Writing "catalase is specific to peroxide" and stopping. The point is earned by the reason: the sugar does not fit the active site, so it is never bound.
(d) Support the claim that most of the oxygen in tube R came from the catalase in the radish. Use the rate of oxygen release in each of the three tubes as your evidence, showing how you calculated each rate. (1 pt)
Tube W was treated the same way as the other two tubes but received no tissue.
So tube W shows that the peroxide on its own gives off only 0.1 mL/min at 25 °C.
Tube R gave 3.4 mL/min more than tube W.
Therefore that extra 3.4 mL/min is credited to the catalase in the radish.
- Award 1 point for: the three rates (1.5 mL/min for tube M, 3.5 for tube R and 0.1 for tube W) AND the evidence linked to the claim: tube W, treated the same way but with no tissue, releases only 0.1 mL/min, so the extra 3.4 mL/min in tube R is credited to the radish's catalase.
- Support a claim needs the evidence (the rates, with tube W as the comparison) AND the reasoning that links it to the claim. Accept a comparison of the volumes (14.0 mL against 0.4 mL) given alongside the rates. Do not award the point for the rates alone, or for a comparison of tube R against tube M alone.
Slip Giving the rates without the link to the claim. Tube W shows how much oxygen the peroxide gives off by itself, so the extra in tube R is the catalase's.
APBIO-U03-L05 Warm the tube
Here are five tubes of hydrogen peroxide, one drop of catalase in each, standing in water baths at 5, 25, 37, 55 and 70 °C.
The 5 °C tube fizzes slowly. The 25 °C tube fizzes faster. The 37 °C tube fizzes fastest of all. The 55 °C tube fizzes slower again. The 70 °C tube does not fizz at all.
Why does warming speed the enzyme up, and only up to a point?
Unit 3 · Cellular Energetics
1Warmer, faster: more collisions
Video: Watch: Warmer, faster: more collisions
Lactase in cold milk and in warm milk. Warming the milk makes its molecules move faster, so the lactase and its substrate collide more often and with more energy, and the rate rises.
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Why does an enzyme work faster in a warmer tube?
Warmer molecules move faster.
So the substrate hits the active site more often and harder.
So the rate rises with temperature, up to one temperature where the enzyme works fastest.
Each enzyme has a temperature of its own at which it works fastest.
At that temperature an enzyme, in a body or in a tube, does its most work.
A beaker of water is warmed from 5 °C to 15 °C.
What happens to its water molecules?
- A. ✓ They move faster
- B. They move at the same speedWarming a substance makes its molecules move faster.
- C. They move more slowlyWarming a substance makes its molecules move faster, not more slowly.
Why: Warming a substance makes its molecules move faster.
Here is lactase, the enzyme that splits the sugar in milk, in two portions of milk.
At 4 °C the lactase releases 2 mg of glucose in ten minutes. At 22 °C the same lactase releases 8 mg.
Warming a solution makes its molecules move faster.
So the enzyme and the substrate collide more often.
Each collision also carries more energy.
An enzyme molecule and a substrate molecule collide.
When does the collision lead to a reaction?
- A. ✓ Only if it carries at least the activation energy
- B. Every time, whatever energy it carriesA gentle collision does not react; the colliding molecules must bring at least the activation energy.
Why: A collision succeeds only if it carries at least the activation energy.
More collisions now carry at least the activation energy.
So more collisions succeed each second.
So the rate rises.
The cold lactase was never damaged. Warmed to 22 °C, the cold lactase releases 8 mg too.
What you are expected to know Explain why warming raises the rate of an enzyme’s reaction: the molecules move faster, so enzyme and substrate collide more often and with more energy, and more collisions succeed each second.
A student gives a digestive enzyme from a fish the same substrate at 5 °C and at 15 °C.
Which of the following is the rate at 15 °C, compared with the rate at 5 °C?
- A. LowerWarming makes the molecules move faster, and faster molecules collide more often.
- B. The sameWarming changes how fast the molecules move, and that changes how often they collide.
- C. ✓ Higher
Why: Warming the solution makes its molecules move faster.
So the enzyme and the substrate collide more often.
Each collision also carries more energy.
So more collisions carry the activation energy.
So more collisions succeed each second, and the rate rises.
A student gives a lipase from a cow the same substrate at 20 °C and at 30 °C. Both temperatures are lower than the lipase’s optimal temperature. The rate at 30 °C is three times the rate at 20 °C.
(a) Explain why the rate is greater at 30 °C. (1 pt)
So the enzyme and the substrate collide more often.
Each collision also carries more energy.
So more collisions carry at least the activation energy.
So more collisions succeed each second, and the rate rises.
- Award 1 point for: the molecules move faster, so enzyme and substrate collide more often (or with more energy), so more collisions succeed each second and the rate rises.
A student says: “Warmth speeds the reaction up because the enzyme takes in extra energy and works harder.”
Is the student correct?
- A. YesThe enzyme molecule is the same molecule at both temperatures; the enzyme does not work harder.
- B. ✓ No
Why: The enzyme is the same molecule at 5 °C and at 15 °C.
Warmth makes every molecule move faster, so the enzyme and the substrate collide more often.
So more collisions succeed each second, and the rate rises.
The enzyme does not work harder; the molecules simply collide more often.
A student cools a tube of lipase and its substrate from 30 °C to 10 °C.
Which of the following happens to the number of collisions between lipase and substrate each second?
- A. It risesCooling makes the molecules move more slowly, and slower molecules collide less often.
- B. It stays the sameThe speed of the molecules sets how often they collide, and cooling changes that speed.
- C. ✓ It falls
Why: Cooling the solution makes its molecules move more slowly.
So the lipase and its substrate collide less often each second.
Each collision also carries less energy.
So fewer collisions succeed each second, and the rate falls.
25The optimal temperature, read from a curve
Video: Watch: The optimal temperature, read from a curve
The rate of the catalase reaction drawn against temperature. The curve peaks at about 37 °C. The temperature at which an enzyme’s rate is greatest is called its optimal temperature.
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Here is a graph of the rate of the catalase reaction at many temperatures, drawn as a curve of rate against temperature.
The rate is greatest at about 37 °C. The temperature at which an enzyme’s rate is greatest is called its .
Some books call it the optimum temperature.
Most human enzymes have an optimal temperature near 37 °C, the temperature of your body.
The rates can also be listed in a table, one row for each temperature. Then the optimal temperature is the temperature with the greatest rate.
What you are expected to know Read an enzyme’s optimal temperature from a graph of its rate against temperature, or from a table of its rates.
What is an enzyme’s optimal temperature?
- A. The highest temperature at which the enzyme still worksAt the highest temperature an enzyme survives, its rate has already fallen well below its peak.
- B. The temperature of the organism the enzyme comes fromDifferent enzymes have different optimal temperatures; each is read from the enzyme’s own rate curve.
- C. ✓ The temperature at which the enzyme’s rate is greatest
Why: The optimal temperature is the temperature at which the enzyme’s rate is greatest.
It is the peak of the rate–temperature curve.
Here is the rate–temperature curve of an enzyme from an Arctic sea-ice bacterium.
Which of the following is the enzyme’s optimal temperature?
- A. ✓ 10 °C
- B. 15 °CThe curve has already fallen at 15 °C.
- C. 20 °CThe curve is near the axis at 20 °C.
Why: The optimal temperature is the temperature at the peak of the curve.
The peak sits at 10 °C. So the sea-ice bacterium’s enzyme has an optimal temperature of 10 °C.
Here is a table of a laundry protease at four temperatures.
Which of the following is closest to the protease’s optimal temperature?
- A. 40 °CThe protease removed 58% of the stain at 40 °C and 76% at 60 °C.
- B. ✓ 60 °C
- C. 80 °CThe protease removed only 31% of the stain at 80 °C; the highest temperature tested is not the optimal temperature.
Why: The optimal temperature is the temperature at which the rate is greatest.
The protease removed the most stain, 76%, at 60 °C. So 60 °C is closest to the optimal temperature.
Here is a table of an amylase from a mold at four temperatures.
Which of the following is closest to the amylase’s optimal temperature?
- A. 25 °CThe rate at 25 °C, 3.1 mg/min, is the second lowest in the table.
- B. 35 °CThe rate at 35 °C, 5.4 mg/min, is lower than the rate at 45 °C, 6.2 mg/min.
- C. ✓ 45 °C
Why: The optimal temperature is the temperature at which the rate is greatest.
The rate is greatest, 6.2 mg/min, at 45 °C. So 45 °C is closest to the optimal temperature.
Here is the rate–temperature curve of an enzyme from a soil bacterium.
Which of the following is the enzyme’s optimal temperature?
- A. ✓ 55 °C
- B. 65 °CThe curve has already fallen at 65 °C.
- C. 75 °CThe curve is near the axis at 75 °C.
Why: The optimal temperature is the temperature at the peak of the curve.
The peak sits at 55 °C. So the soil enzyme’s optimal temperature is 55 °C.
Here is a table of a plant enzyme at five temperatures.
Which of the following is closest to the enzyme’s optimal temperature?
- A. 20 °CThe rate at 20 °C, 9 μmol/min, is lower than the rate at 30 °C, 14 μmol/min.
- B. ✓ 30 °C
- C. 40 °CThe rate at 40 °C, 11 μmol/min, is lower than the rate at 30 °C, 14 μmol/min.
Why: The optimal temperature is the temperature at which the rate is greatest.
The rate is greatest, 14 μmol/min, at 30 °C. So 30 °C is closest to the optimal temperature.
39Different enzymes, different optimal temperatures
Video: Watch: Different enzymes, different optimal temperatures
A human enzyme’s curve beside a hot-spring enzyme’s curve. The human enzyme peaks near 37 °C. The hot-spring enzyme peaks near 75 °C. Each enzyme has its own optimal temperature.
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Here is a graph of two rate–temperature curves: a human enzyme, and an enzyme from a bacterium that lives in a hot spring.
The human enzyme’s curve peaks near 37 °C. The hot-spring enzyme’s curve peaks near 75 °C.
So different enzymes have different optimal temperatures.
At 37 °C, where the human enzyme is at its fastest, the hot-spring enzyme barely works.
What you are expected to know Say that different enzymes have different optimal temperatures, each read from its own curve.
Here are the curves of a human enzyme and a hot-spring enzyme. A student says: “Every enzyme works fastest near 37 °C.”
Is the student correct?
- A. YesThe hot-spring enzyme’s curve peaks far to the right of the human enzyme’s curve.
- B. ✓ No
Why: Not every enzyme works fastest near 37 °C.
The human enzyme’s curve peaks near 37 °C.
The hot-spring enzyme’s curve peaks near 75 °C.
So the hot-spring enzyme works fastest near 75 °C, not near 37 °C.
Different enzymes have different optimal temperatures.
Here are the curves of a human enzyme and a hot-spring enzyme.
A student claims that every enzyme works fastest near 37 °C. Which of the following readings from the curves decides whether the claim is true?
- A. ✓ The hot-spring enzyme’s rate is greatest near 75 °C
- B. The human enzyme’s rate is greatest near 37 °CThe human enzyme’s peak agrees with the claim, but one enzyme agreeing cannot show that every enzyme does.
- C. Both curves have fallen to zero by 100 °CBoth curves falling to zero by 100 °C does not show where each peak is.
Why: The claim says every enzyme works fastest near 37 °C.
One enzyme that works fastest elsewhere shows the claim is false.
The hot-spring enzyme’s curve peaks near 75 °C.
So that one reading decides it: the claim is false.
Different enzymes have different optimal temperatures.
Back to the five tubes of hydrogen peroxide, one drop of catalase in each, in water baths at 5, 25, 37, 55 and 70 °C.
From 5 °C to 37 °C the tubes fizz faster and faster.
The warmer molecules collide more often and harder.
So more collisions succeed each second.
The 37 °C tube fizzes fastest of all. So 37 °C is this catalase’s optimal temperature.
53Mixed practice mixed practice
A student reads the rate–temperature curve of an enzyme from a frog. The curve peaks at 25 °C and has fallen to 10% of its peak by 38 °C. The student says: “The enzyme’s optimal temperature is 38 °C, the highest temperature at which it still works.”
Is the student correct?
- A. YesThe optimal temperature is the temperature at which the rate is greatest, and the frog enzyme’s rate is greatest at 25 °C.
- B. ✓ No
Why: The optimal temperature is the temperature at which the enzyme’s rate is greatest.
The frog enzyme’s curve peaks at 25 °C.
By 38 °C its rate has fallen to 10% of the peak.
So the optimal temperature is 25 °C, not 38 °C.
A student measures the glucose that lactase releases from milk in ten minutes: 2 mg at 4 °C and 8 mg from the same milk at 22 °C.
Calculate how many times as much glucose the lactase releases at 22 °C as at 4 °C.
Answer: 4 (tolerance ±0)
A student measures the glucose that lactase releases from milk at 22 °C: 8 mg in 10 minutes.
Calculate the rate of the reaction in milligrams of glucose per minute.
Answer: 0.8 mg/min (tolerance ±0.005)
Glossary
- optimal temperature
- The temperature at which an enzyme’s rate of reaction is greatest. Different enzymes have different optimal temperatures; most human enzymes peak near 37 °C.
APBIO-U03-L05B Past the optimum
Here are two tubes of hydrogen peroxide, one drop of catalase in each. The 37 °C tube fizzes fast. The 70 °C tube does not fizz at all.
Cool the 70 °C tube back to 37 °C, as the drawing shows on the right. The tube still does not fizz.
At 70 °C the catalase and peroxide molecules were colliding more often than at 37 °C. So why did the rate fall to zero? And why does the rate not come back?
Unit 3 · Cellular Energetics
1Denaturation: the fold is lost
Video: Watch: Denaturation: the fold is lost
An enzyme’s fold, with the pocket it shapes, beside the same chain with its fold lost. The chain is whole, but the pocket is gone. This loss of a protein’s working shape is called denaturation.
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Why does heat above the optimal temperature stop an enzyme, when cold only slows it?
An enzyme’s active site is a pocket held in shape by the fold of the whole protein.
Strong heat pulls that fold apart. The pocket loses its shape.
The substrate no longer fits. So the enzyme stops working.
After strong heat the fold does not come back.
Cold leaves the fold in place and only slows the molecules down.
A protein chain folds into one particular shape.
What holds that fold in place?
- A. ✓ Hydrogen bonds and other weak interactions between R groups
- B. The covalent peptide bonds of the backboneThe peptide bonds join the chain end to end; the weak interactions between parts of the chain hold most of its fold.
Why: Hydrogen bonds and other weak interactions between parts of the chain hold most of a protein’s fold.
Here is a drawing of an enzyme’s fold, with the active site it shapes, beside the same chain with its fold lost.
With the fold lost there is no pocket. So the substrate has nowhere to fit.
Heat does the same to an egg white.
Its proteins lose their shape.
So the egg white turns from clear to solid white.
This loss of a protein’s working shape is called . A protein that has lost its shape is denatured.
The chain itself is still there. The covalent bonds along its backbone are intact.
Any disulfide bridges stay as well. They are covalent too.
What is lost is the fold. The active site goes with the fold.
What you are expected to know Say what denaturation is: the protein’s fold is lost, the chain is intact, and the active site goes with the fold.
A protease from a snow alga makes 27 μmol of product per minute at 10 °C and 8 μmol per minute at 20 °C.
Which of the following has happened to many of the protease molecules at 20 °C?
- A. Their chain has been cut into piecesHeat at 20 °C disrupts the weak interactions between R groups, not the covalent bonds of the backbone; the chain is whole.
- B. They have been used upA catalyst is never used up by the reaction it speeds up.
- C. ✓ Their fold has been lost
Why: Hydrogen bonds and other weak interactions hold the protease’s fold.
Above 10 °C the heat disrupts those weak interactions.
So the fold is lost, and the active site loses its shape.
A student says: “Above the optimal temperature, the heat breaks the peptide bonds, so the chain falls apart into amino acids.”
Is the student correct?
- A. YesThe covalent peptide bonds along the backbone are far stronger than the weak interactions between R groups, and heat near the optimal temperature does not break them.
- B. ✓ No
Why: Hydrogen bonds and other weak interactions hold the fold.
Heat above the optimal temperature disrupts those weak interactions.
So the fold is lost, and the active site loses its shape.
The covalent peptide bonds along the backbone are not broken, so the chain is whole; it has only unfolded.
22Quick quiz: denaturation mixed practice
What is denaturation?
- A. ✓ A protein losing its fold
- B. A protein chain being cut into amino acidsDenaturation leaves the covalent peptide bonds intact; the chain is whole.
- C. An enzyme being used up by its reactionA catalyst is never used up; denaturation is a loss of shape, not of molecules.
Why: Denaturation is the loss of a protein’s working shape.
The fold is lost, so the active site loses its shape.
The chain itself is still whole.
A student heats a solution of amylase to 90 °C for ten minutes. Afterwards the amylase is denatured.
(a) State what has happened to the amylase molecules. (1 pt)
So each active site has lost its shape.
The amino-acid chain of each molecule is still whole.
- Award 1 point for: the fold (the working shape) is lost, so the active site loses its shape; the chain is not broken.
- Accept: the molecules have unfolded and their active sites are gone.
25Why heat above the optimal temperature denatures
Video: Watch: Why heat above the optimal temperature denatures
Heat above the optimal temperature disrupts the hydrogen bonds and other weak interactions that hold the protein’s fold. So the active site loses its shape, the substrate no longer fits, and the enzyme can no longer catalyze its reaction.
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Now consider an enzyme heated past its optimal temperature. Here is the same drawing, with the heat step named.
Past the optimal temperature, the heat disrupts the hydrogen bonds and other weak interactions that hold the protein’s fold. So the active site loses its shape.
So the substrate no longer fits, and the enzyme can no longer catalyze its reaction.
Suppose catalase is held at 75 °C for fifteen minutes, then cooled back to 37 °C. The catalase releases no oxygen.
Its fold, once pulled apart by that much heat, does not come back.
What you are expected to know Explain why the rate falls steeply above the optimal temperature: the hydrogen bonds and other weak interactions that hold the protein’s fold are disrupted, so the active site loses its shape, the substrate no longer fits, and the enzyme can no longer catalyze its reaction.
A protease from a snow alga makes 27 μmol of product per minute at 10 °C and 8 μmol per minute at 20 °C. Every tube holds the same substrate concentration.
(a) Explain why the rate falls above 10 °C. (1 pt)
Above 10 °C the heat disrupts those weak interactions.
So the fold is lost, and the active site loses its shape.
So the substrate no longer fits the active site.
So the protease can no longer catalyze its reaction, and the rate falls.
- Award 1 point for: the heat disrupts the hydrogen bonds (or weak interactions) that hold the fold, so the active site loses its shape and the substrate no longer fits (the enzyme is denatured).
A student heats pepsin, an enzyme with an optimal temperature near 37 °C, to 80 °C for ten minutes, then cools the pepsin to 37 °C.
Which of the following is the pepsin’s rate back at 37 °C?
- A. Its full rateA fold pulled apart at 80 °C does not re-form on cooling, so the active sites are still gone at 37 °C.
- B. About half its full rateA fold lost to strong heat does not come back on cooling.
- C. ✓ Near zero
Why: 80 °C is far above pepsin’s optimal temperature.
The heat disrupts the weak interactions that hold the fold, so the fold is lost.
A fold lost to strong heat does not re-form on cooling.
So the active sites are still gone at 37 °C, and the rate stays near zero.
35Two causes, one curve
Video: Watch: Two causes, one curve
The whole catalase curve. Below 37 °C the rate rises because the molecules collide more often. Above 37 °C the rate falls because denaturation removes working enzymes. Hotter is faster only below the optimal temperature.
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Here is a graph of the whole catalase curve, with its two halves named.
Below the optimal temperature, warming makes the molecules move faster.
So enzyme and substrate collide more often and with more energy.
So the rate rises.
Above the optimal temperature, heat unfolds more and more enzyme molecules.
Denaturation removes working enzymes faster than the extra collisions can help.
So the rate falls.
So the curve rises gently and falls steeply.
Each degree above the optimal temperature unfolds more enzyme molecules. So the collisions that remain find fewer intact active sites to bind at.
“Hotter is always faster” is true only below the optimal temperature.
What you are expected to know Below the optimal temperature the rate rises: warming a solution makes its molecules move faster, so enzyme and substrate collide more often and with more energy. Above the optimal temperature the rate falls: denaturation removes working enzymes faster than the extra collisions can help.
Here is the rate–temperature curve for an enzyme from a pond organism. The pond warms from 20 °C to 35 °C over a summer.
Which of the following happens to the enzyme’s rate as the pond warms?
- A. It rises throughoutThe curve falls past 25 °C.
- B. It falls throughoutThe curve rises from 20 °C to 25 °C before it falls.
- C. ✓ It rises, then falls
Why: The curve peaks at 25 °C.
From 20 °C to 25 °C the curve rises.
From 25 °C to 35 °C the curve falls.
So the rate rises, then falls, as the pond warms.
Here is the rate–temperature curve for an enzyme from a pond organism. The pond warms from 20 °C to 35 °C over a summer, and the enzyme’s rate rises and then falls.
(a) Explain why the rate rises and then falls as the pond warms. (2 pt)
Frame From 20 °C to 25 °C, …
So the enzyme and the substrate collide more often and with more energy.
So more collisions succeed each second, and the rate rises.
From 25 °C to 35 °C, the heat disrupts the weak interactions that hold the enzyme’s fold.
So the active site loses its shape, and the enzyme is denatured.
So fewer enzyme molecules can work, and the rate falls.
- Award 1 point for: below 25 °C, warming makes the molecules move faster, so enzyme and substrate collide more often, so the rate rises.
- Award 1 point for: above 25 °C, the heat disrupts the weak interactions that hold the fold, so the active site loses its shape (denaturation), so the rate falls.
A student says: “For an enzyme, hotter is always faster.”
Is the student correct?
- A. YesEvery rate–temperature curve falls past its peak.
- B. ✓ No
Why: Below the optimal temperature, warming makes the molecules collide more often, so the rate rises.
Above the optimal temperature, heat disrupts the weak interactions that hold the fold, so active sites are lost and the rate falls.
So hotter is faster only below the optimal temperature.
Here is the rate–temperature curve of an enzyme from a soil bacterium. A researcher warms the enzyme from 55 °C to 70 °C.
Which of the following happens to the number of enzyme molecules with a working active site?
- A. It risesHeat above the optimal temperature unfolds enzyme molecules; heat never adds working ones.
- B. It stays the sameThe curve falls from 55 °C to 70 °C, and the curve falls because working enzyme molecules are being lost.
- C. ✓ It falls
Why: The soil enzyme’s optimal temperature is 55 °C.
Above 55 °C the heat disrupts the weak interactions that hold the fold.
So each degree of warming unfolds more enzyme molecules.
So the number of enzyme molecules with a working active site falls, and the rate falls with it.
52Slowed by cold, or denatured by heat?
Video: Watch: Slowed by cold, or denatured by heat?
Two tubes of lactase have almost stopped: one chilled to 5 °C, one heated to 75 °C. Brought back to 37 °C, the chilled lactase releases its full 24 mg of glucose again; the heated lactase still releases none. The test is recovery.
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The rate after a return to 37 °C tells you whether an enzyme was chilled or cooked.
Now consider two tubes of lactase. Both tubes have almost stopped making product: one tube was chilled to 5 °C, the other was heated to 75 °C.
Which tube holds denatured lactase?
Bring both tubes back to 37 °C and measure the glucose released again. Here is a table of the glucose released in 10 minutes by lactase held at 5, 37 or 75 °C, and then back at 37 °C.
At 5 °C the chilled tube released 4 mg of glucose in 10 minutes.
Back at 37 °C the chilled tube released 24 mg, the same as lactase that was never chilled.
So the fold of the chilled lactase was never lost. The cold had only slowed the lactase.
Cold is different from heat. Cooling below the optimal temperature slows an enzyme.
Its fold is not lost. So the rate returns as soon as the enzyme warms.
The heated tube released 0 mg of glucose in 10 minutes at 75 °C, and still 0 mg back at 37 °C.
So the fold of the heated lactase is gone, and after heating that strong the fold does not re-form. The heated lactase is denatured.
So the way to tell cold from heat is to check whether the rate recovers.
A rate that returns on rewarming means the enzyme was slowed by cold. A rate that stays at zero after strong heating means the enzyme was denatured.
What you are expected to know Decide from before-and-after data whether an enzyme whose rate fell was slowed by cold, because its rate returns on rewarming, or denatured by heat, because its rate does not return.
Here is a table of the rates of two portions of one maltase.
Which of the following describes the portion held at 80 °C?
- A. Only slowed80 °C is far above the maltase’s optimal temperature, and the rate did not return back at 37 °C.
- B. ✓ Denatured
Why: The rate stayed at 0 mg/min back at 37 °C. So the fold did not re-form.
A rate that does not return after strong heating means the enzyme was denatured.
Here is a table of the rates of two portions of one maltase.
Which of the following describes the portion held at 4 °C?
- A. ✓ Only slowed
- B. DenaturedThe rate came back to 20 mg/min, the full rate, back at 37 °C.
Why: The rate returned to 20 mg/min, the full rate, back at 37 °C. So the fold was never lost.
A rate that returns on rewarming means the enzyme was slowed by cold.
Here is a table of the rates of two portions of one catalase.
Which of the following describes the portion held at 65 °C?
- A. Only slowed65 °C is far above the catalase’s optimal temperature, and the rate stayed at 2 mL/min back at 37 °C.
- B. ✓ Denatured
Why: The rate stayed at 2 mL/min back at 37 °C, far below the 30 mL/min of the portion kept at 37 °C. So the fold did not re-form.
A rate that does not return after strong heating means the enzyme was denatured.
Here is a table of the rates of two portions of one sucrase.
Which of the following describes the portion held at 6 °C?
- A. ✓ Only slowed
- B. DenaturedThe rate came back to 18 mg/min, the full rate, back at 37 °C.
Why: The rate returned to 18 mg/min, the full rate, back at 37 °C. So the fold was never lost.
A rate that returns on rewarming means the enzyme was slowed by cold.
Here is a table of the rates of two portions of one trypsin, a protease from the pancreas.
Which of the following describes the portion held at 70 °C?
- A. Only slowed70 °C is far above the trypsin’s optimal temperature, and the rate stayed at 0 mg/min back at 37 °C.
- B. ✓ Denatured
Why: The rate stayed at 0 mg/min back at 37 °C. So the fold did not re-form.
A rate that does not return after strong heating means the enzyme was denatured.
Here is a table of the rates of two portions of a fruit enzyme whose optimal temperature is 20 °C.
Which of the following describes the portion held at 2 °C?
- A. ✓ Only slowed
- B. DenaturedThe rate came back to 96 μmol/min, almost the full rate, back at 20 °C.
Why: The rate returned to 96 μmol/min, almost the full 100 μmol/min, back at 20 °C. So the fold was never lost.
A rate that returns on rewarming means the enzyme was slowed by cold.
Back to the tube of hydrogen peroxide with a drop of catalase in the 70 °C water bath, the tube that did not fizz.
At 70 °C the heat pulled the catalase’s fold apart. So its active sites were gone, and the tube did not fizz.
Cooled to 37 °C, the tube still does not fizz: a fold lost to that much heat does not come back.
A tube chilled to 5 °C is different: its catalase is only slowed, and it fizzes at full rate as soon as it warms to 37 °C.
78Mixed practice mixed practice
A student measured the rate of a yeast enzyme at six temperatures, with the same substrate concentration in every tube. Rates in μmol/min: 2 at 10 °C, 5 at 20 °C, 9 at 30 °C, 12 at 40 °C, 3 at 50 °C and 0 at 60 °C. After the 60 °C measurement, the student cooled that tube to 40 °C and measured again.
(a) Identify the optimal temperature of this enzyme among the temperatures tested. (1 pt)
- Award 1 point for: 40 °C, identified as the temperature at which the rate is greatest.
- Accept: 40 °C alone.
Slip Choosing the highest temperature tested, 60 °C, or the temperature with the biggest jump from the reading before it. The optimal temperature is where the rate itself is greatest.
(b) Explain why the rate rises as the temperature climbs toward the optimal temperature. (1 pt)
So the enzyme and the substrate collide more often.
Each collision also carries more energy.
So more collisions carry at least the activation energy.
So more collisions succeed each second, and the rate rises.
- Award 1 point for: warming makes the molecules move faster, so enzyme and substrate collide more often (or with more energy), so more collisions succeed and the rate rises.
- Accept: faster molecules, more frequent collisions between enzyme and substrate, with the rate rising as the result.
Slip Saying only that “heat speeds up reactions” or that heat “gives the enzyme energy”. The point needs the molecules moving faster and colliding more often.
(c) Explain why the rate falls at temperatures above the optimal temperature. (1 pt)
Above the optimal temperature, the heat disrupts those weak interactions.
So the fold is lost, and the active site loses its shape.
So the substrate no longer fits the active site.
So the enzyme can no longer catalyze its reaction; the enzyme is denatured.
Denaturation removes working enzymes faster than the extra collisions can help, so the rate falls.
- Award 1 point for: the heat disrupts the hydrogen bonds (or weak interactions) holding the enzyme’s fold, so the active site loses its shape and the substrate no longer fits: the enzyme is denatured.
- Accept: denaturation named together with the active site losing its shape.
Slip Writing “the enzyme denatures” with nothing after it, or saying the heat breaks the chain into amino acids. Name what is disrupted, the weak interactions holding the fold, and follow it to the active site and the substrate.
(d) Predict the rate of the 60 °C tube after the student cools it to 40 °C, and justify your prediction. (1 pt)
At 60 °C the heat pulled the enzyme’s fold apart.
A fold lost to strong heat does not re-form on cooling.
So the active sites are still gone at 40 °C, and the enzyme still cannot catalyze its reaction.
Only an enzyme that had been slowed by cold would recover its rate when brought back to the optimal temperature.
- Award 1 point for: the rate stays near zero, because a fold lost to strong heating (60 °C) does not re-form on cooling (the enzyme stays denatured).
- Accept: about 0 μmol/min, or “no recovery”, with the reason that the denaturation is not reversed by cooling.
Slip Predicting 12 μmol/min because the tube is back at the optimal temperature. Recovery on returning to the optimal temperature is the mark of an enzyme slowed by cold; an enzyme denatured by strong heat stays denatured.
Glossary
- denaturation
- The loss of a protein’s working shape: the hydrogen bonds and other weak interactions that hold its fold are disrupted, so the active site loses its shape and the enzyme can no longer catalyze its reaction. The covalent backbone stays intact. A protein that has lost its shape is denatured.
APBIO-U03-L06 pH: a scale for hydrogen ions
Here are three liquids: stomach fluid, tomato juice and pure water. All three contain hydrogen ions, written H⁺.
Stomach fluid holds a hundred times as many hydrogen ions per liter as tomato juice. Stomach fluid holds a hundred thousand times as many as pure water.
How do you write down a concentration of hydrogen ions that ranges that widely, in one small number?
Unit 3 · Cellular Energetics
1The pH scale
Video: Watch: The pH scale
Three liquids and their counts of hydrogen ions; the pH scale from 0 to 14; a lower pH means more hydrogen ions per liter; acidic below pH 7, neutral at pH 7, basic above it.
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The pH scale is that one number. The scale goes from pH 0 to pH 14.
A lower pH means more hydrogen ions per liter. Each step of one pH unit means ten times as many hydrogen ions per liter.
So stomach fluid is pH 2, tomato juice is pH 4 and pure water is pH 7. The whole range fits on one short scale.
An enzyme’s rate depends on the concentration of hydrogen ions around it. So a biologist needs this one number for every fluid an enzyme works in.
A hydrogen atom has one proton and one electron.
Which of the following is a hydrogen ion, H⁺?
- A. ✓ A hydrogen atom that has lost its electron
- B. A hydrogen atom that has gained an electronAn atom that gains an electron carries a negative charge, not the positive charge of H⁺.
- C. Two hydrogen atoms bonded togetherTwo hydrogen atoms bonded together make a hydrogen molecule, H₂, with no charge.
Why: A hydrogen atom has one proton and one electron.
Take the electron away, and one proton is left.
One proton carries one positive charge.
So a hydrogen ion, H⁺, is a hydrogen atom that has lost its electron.
A glass of tomato juice contains hydrogen ions.
Which of the following is the tomato juice’s concentration of hydrogen ions?
- A. The total number of hydrogen ions in the glassA total depends on the size of the glass; a concentration does not.
- B. ✓ The number of hydrogen ions in each liter of the juice
- C. How fast the hydrogen ions move through the juiceHow fast the ions move depends on the temperature, not on how many there are.
Why: A concentration is an amount in a fixed volume.
So the tomato juice’s concentration of hydrogen ions is the number of hydrogen ions in each liter of the juice.
Here is a drawing of pure water beside a solution that holds ten times as many hydrogen ions per liter.
A solution’s concentration of hydrogen ions is written as a number called its .
Pure water is pH 7. The solution with ten times its hydrogen ions is pH 6.
Pure water, at pH 7, is called neutral.
A solution below pH 7 holds more hydrogen ions per liter than pure water. A solution below pH 7 is called acidic.
A solution above pH 7 holds fewer hydrogen ions per liter than pure water. A solution above pH 7 is called basic.
Here is the pH scale, with five everyday liquids placed on it.
For example, stomach fluid is pH 2. pH 2 is below pH 7. So stomach fluid is acidic.
Lemon juice is also pH 2. pH 2 is below pH 7. So lemon juice is also acidic.
Tomato juice is pH 4. pH 4 is below pH 7. So tomato juice is still acidic.
But pure water is pH 7. pH 7 is neither below nor above pH 7. So pure water is neutral.
And the fluid in your small intestine is pH 8. pH 8 is above pH 7. So the fluid in your small intestine is basic.
The pH goes up as the number of hydrogen ions goes down. So a higher pH means fewer hydrogen ions per liter.
What you are expected to know Say whether a solution is acidic, neutral or basic from its pH.
What you are expected to know Say which of two solutions holds more hydrogen ions per liter from their pH values.
Every solution has a pH.
Which of the following is a solution’s pH?
- A. A number for its temperatureTemperature is measured in degrees Celsius, on its own scale.
- B. ✓ A number for its concentration of hydrogen ions
- C. A number for its concentration of enzymePure water has a pH of 7 with no enzyme in it at all.
Why: A solution’s concentration of hydrogen ions is written as one number.
That number is called its pH.
Vinegar is at pH 3.
Which of the following describes vinegar?
- A. ✓ Acidic
- B. NeutralOnly pH 7 is neutral.
- C. BasicA basic solution is above pH 7.
Why: Vinegar is at pH 3.
pH 3 is below pH 7.
So vinegar holds more hydrogen ions than pure water.
A solution below pH 7 is called acidic.
Seawater is at pH 8.
Which of the following describes seawater?
- A. AcidicAn acidic solution is below pH 7.
- B. NeutralOnly pH 7 is neutral.
- C. ✓ Basic
Why: Seawater is at pH 8.
pH 8 is above pH 7.
So seawater holds fewer hydrogen ions than pure water.
A solution above pH 7 is called basic.
Distilled water is at pH 7.
Which of the following describes distilled water?
- A. AcidicAn acidic solution is below pH 7.
- B. ✓ Neutral
- C. BasicA basic solution is above pH 7.
Why: Distilled water is pure water.
Pure water is pH 7. pH 7 is called neutral.
Tomato juice is at pH 4. Milk is at pH 6.
Which of the following holds more hydrogen ions per liter?
- A. ✓ Tomato juice
- B. MilkA higher pH means fewer hydrogen ions, and milk’s pH is the higher of the two.
Why: Tomato juice is at pH 4 and milk at pH 6.
A lower pH means more hydrogen ions.
So tomato juice holds more hydrogen ions per liter than milk.
Saliva is at about pH 6.8. Blood is at about pH 7.4.
Which of the following holds fewer hydrogen ions per liter?
- A. SalivaA lower pH means more hydrogen ions, and saliva’s pH is the lower of the two.
- B. ✓ Blood
Why: Blood is at pH 7.4 and saliva at pH 6.8.
A higher pH means fewer hydrogen ions.
So blood holds fewer hydrogen ions per liter than saliva.
30Ten times per pH unit
Video: Watch: Ten times per pH unit
Each step of one pH unit is a tenfold change in the concentration of hydrogen ions; two steps is a hundredfold; the factor between two solutions worked from their pH difference.
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Here again is the drawing of pure water at pH 7 beside the solution at pH 6.
One step of one pH unit is a tenfold change in the concentration of hydrogen ions.
Two steps are two tenfold changes: ten times ten, a hundred times.
So the number of steps between two pH values tells you how many tens to multiply together.
For example, take stomach fluid at pH 2 and tomato juice at pH 4.
Stomach fluid is at pH 2. Tomato juice is at pH 4. How many times greater is the concentration of hydrogen ions in stomach fluid than in tomato juice?
So stomach fluid at pH 2 has a hundred times the concentration of hydrogen ions of tomato juice at pH 4.
What you are expected to know Calculate how many times greater one solution’s concentration of hydrogen ions is than another’s from their pH values.
Stomach fluid is at pH 2. The fluid in the small intestine is at pH 8.
Calculate how many times greater the concentration of hydrogen ions in stomach fluid is than in the small intestine’s fluid.
Part 1. Subtract the lower pH from the higher pH. How many steps of one pH unit lie between them?
Answer: 6 (tolerance ±0)
Answer: 1000000 (tolerance ±0)
One solution is at pH 4 and another at pH 6.
Calculate how many times greater the concentration of hydrogen ions in the pH 4 solution is than in the pH 6 solution.
Answer: 100 (tolerance ±0)
Back to the three liquids: stomach fluid, tomato juice and pure water. Stomach fluid holds a hundred thousand times as many hydrogen ions per liter as pure water.
On the pH scale, that whole range is three short numbers. Stomach fluid is pH 2. Tomato juice is pH 4. Pure water is pH 7.
44Mixed practice: the pH scale mixed practice
Black coffee is at pH 5.
Which of the following describes black coffee?
- A. ✓ Acidic
- B. NeutralOnly pH 7 is neutral.
- C. BasicA basic solution is above pH 7.
Why: Black coffee is at pH 5.
pH 5 is below pH 7.
A solution below pH 7 is called acidic.
A solution of baking soda is at pH 9. Rainwater is at pH 5.6.
Which of the following holds fewer hydrogen ions per liter?
- A. The rainwaterA lower pH means more hydrogen ions, and the rainwater’s pH is the lower of the two.
- B. ✓ The baking soda solution
Why: The baking soda solution is at pH 9 and the rainwater at pH 5.6.
A higher pH means fewer hydrogen ions.
So the baking soda solution holds fewer hydrogen ions per liter.
Vinegar is at pH 3. Pure water is at pH 7.
Calculate how many times greater the concentration of hydrogen ions in vinegar is than in pure water.
Answer: 10000 (tolerance ±0)
Soapy water is at pH 10.
Which of the following describes soapy water?
- A. AcidicAn acidic solution is below pH 7.
- B. NeutralOnly pH 7 is neutral.
- C. ✓ Basic
Why: Soapy water is at pH 10.
pH 10 is above pH 7.
A solution above pH 7 is called basic.
Solution X is at pH 8. Solution Y is at pH 5.
Calculate how many times greater the concentration of hydrogen ions in solution Y is than in solution X.
Answer: 1000 (tolerance ±0)
Orange juice is at pH 3.5. Milk is at pH 6.5.
Which of the following holds more hydrogen ions per liter?
- A. MilkA higher pH means fewer hydrogen ions, and milk’s pH is the higher of the two.
- B. ✓ Orange juice
Why: Orange juice is at pH 3.5 and milk at pH 6.5.
A lower pH means more hydrogen ions.
So orange juice holds more hydrogen ions per liter than milk.
Glossary
- pH
- A scale for the concentration of hydrogen ions (H⁺) in a solution. Pure water is pH 7, neutral. A lower pH means more hydrogen ions. Below pH 7 a solution is acidic; above pH 7 it is basic. Each step of one pH unit is a tenfold change in the concentration of hydrogen ions.
APBIO-U03-L06B Too sour, too bitter
Here is your stomach and, below it, your small intestine. Pepsin digests protein in the stomach, in fluid at about pH 2.
The stomach empties pepsin into your small intestine, where the fluid is about pH 8. There pepsin stops working. The enzymes that digest food in the small intestine would stop in the stomach.
Why does each enzyme work at only one pH?
Unit 3 · Cellular Energetics
1The optimal pH, read from a curve
Video: Watch: The optimal pH
Pepsin’s rate against pH; the peak read from the curve; the pH at which an enzyme’s rate is greatest is its optimal pH.
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Why does pH change an enzyme’s rate?
The active site is lined with R groups that carry charges. The substrate binds to those charges.
Hydrogen ions add charges to the R groups or strip charges from them.
So a pH a little way from the pH an enzyme works best at weakens the fit between substrate and active site. The rate falls.
A pH far from the pH an enzyme works best at pulls the whole fold apart, just as heat does.
Knowing the pH an enzyme works best at tells you where in the body, or in which fluid, it can work.
Stomach fluid is at pH 2. The fluid in the small intestine is at pH 8.
Which of the following holds more hydrogen ions per liter?
- A. ✓ Stomach fluid
- B. The fluid in the small intestineA higher pH means fewer hydrogen ions, and pH 8 is the higher of the two.
Why: Stomach fluid is at pH 2 and the small intestine’s fluid at pH 8.
A lower pH means more hydrogen ions.
So stomach fluid holds more hydrogen ions per liter.
An enzyme’s rate is measured at a range of temperatures.
Which of the following is the enzyme’s optimal temperature?
- A. The highest temperature at which it still worksAbove the optimal temperature the enzyme still works for a while, but more slowly.
- B. The temperature at which it is denaturedAt the temperature where it is denatured the enzyme has stopped working.
- C. ✓ The temperature at which its rate is greatest
Why: The optimal temperature is the temperature at which an enzyme’s rate is greatest.
On a graph of rate against temperature, that is the peak.
Here is a graph of pepsin’s rate of protein digestion against pH, with the temperature the same in every tube.
Pepsin’s rate is greatest near pH 2. By pH 7 pepsin’s rate is almost nothing.
The pH at which an enzyme’s rate is greatest is called its .
So pepsin’s optimal pH is about 2. On the graph, the optimal pH is the pH at the peak of the curve.
In a table of rate against pH, the optimal pH is the pH with the greatest rate.
What you are expected to know Read an enzyme’s optimal pH from a graph or a table of its rate against pH.
An enzyme’s rate is measured at a range of pH values.
Which of the following is the enzyme’s optimal pH?
- A. ✓ The pH at which its rate is greatest
- B. The pH of pure water, 7Pepsin’s rate is greatest near pH 2, not at pH 7.
- C. The lowest pH at which it still worksAt the lowest pH where it still works, the enzyme is slow; the optimal pH is where it is fastest.
Why: The optimal pH is the pH at which an enzyme’s rate is greatest.
On a graph of rate against pH, that is the peak.
Here is the rate–pH curve of a cellulase from a fungus.
Which of the following is the cellulase’s optimal pH?
- A. pH 3The curve is still rising at pH 3.
- B. ✓ pH 5
- C. pH 7The curve has already fallen at pH 7.
Why: The optimal pH is the pH at the peak of the curve.
The peak sits at pH 5. So the cellulase’s optimal pH is 5.
Here is a table of an amylase at five pH values, all at one temperature.
Which of the following is the amylase’s optimal pH?
- A. pH 6The rate at pH 6, 7 mg/min, is lower than the rate at pH 7, 12 mg/min.
- B. ✓ pH 7
- C. pH 8The rate at pH 8, 8 mg/min, is lower than the rate at pH 7, 12 mg/min.
Why: The optimal pH is the pH at which the rate is greatest.
The amylase made 12 mg of maltose per minute at pH 7, more than at any other pH tested.
So pH 7 is the optimal pH.
Here is a table of pepsin at five pH values.
Which of the following is pepsin’s optimal pH?
- A. ✓ pH 2.0
- B. pH 4.0At pH 4.0 pepsin digested 21 mg of protein per minute, less than half the 48 mg it digested at pH 2.0.
- C. pH 6.0At pH 6.0 pepsin digested only 3 mg of protein per minute.
Why: The optimal pH is the pH at which the rate is greatest.
Pepsin digested 48 mg of protein per minute at pH 2.0, more than at any other pH tested.
So pH 2.0 is pepsin’s optimal pH.
Here is a table of a lipase from the pancreas at four pH values.
Which of the following is the lipase’s optimal pH?
- A. ✓ pH 8
- B. pH 9The rate at pH 9, 10 mg/min, is lower than the rate at pH 8, 15 mg/min.
- C. pH 10The rate at pH 10, 3 mg/min, is the lowest in the table.
Why: The optimal pH is the pH at which the rate is greatest.
The lipase made 15 mg of fatty acid per minute at pH 8, more than at any other pH tested.
So pH 8 is the optimal pH.
22Different enzymes, different optimal pH values
Video: Watch: Different enzymes, different optimal pH values
Pepsin’s curve beside an intestinal enzyme’s curve: peaks near pH 2 and near pH 8; each enzyme’s optimal pH matches the fluid it works in.
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A student measures the optimal temperature of a human enzyme and of an enzyme from a hot-spring bacterium.
Which of the following is correct?
- A. The two enzymes have the same optimal temperatureThe human enzyme works fastest near 37 °C and the hot-spring enzyme near 75 °C.
- B. ✓ The two enzymes have different optimal temperatures
Why: The human enzymes work fastest near 37 °C.
The hot-spring enzyme works fastest near 75 °C.
So the two have different optimal temperatures.
Here is a graph of pepsin’s rate against pH beside the rate of an enzyme from the small intestine.
The enzyme from the small intestine has its greatest rate near pH 8. At pH 2 the enzyme from the small intestine barely works.
So pepsin’s optimal pH is near 2, and the intestinal enzyme’s optimal pH is near 8.
Different enzymes have different optimal pH values. Each enzyme’s optimal pH matches the fluid it works in: pepsin’s matches the stomach, the intestinal enzyme’s matches the small intestine.
What you are expected to know Say that different enzymes have different optimal pH values, each matched to the fluid the enzyme works in.
Here are the curves of pepsin and an enzyme from the small intestine.
Which of the following is the optimal pH of the enzyme from the small intestine?
- A. pH 2Pepsin’s curve peaks at pH 2, and the intestinal enzyme’s curve is near the axis there.
- B. pH 7The intestinal enzyme’s curve is still rising at pH 7.
- C. ✓ pH 8
Why: The optimal pH is the pH at the peak of the curve.
The intestinal enzyme’s curve peaks at pH 8. So its optimal pH is 8.
A student says: “Pepsin would digest protein just as well in the small intestine at pH 8.”
Is the student correct?
- A. YesPepsin’s curve is near the axis at pH 8.
- B. ✓ No
Why: Pepsin’s curve peaks near pH 2 and is near the axis at pH 8.
So pepsin is almost inactive at pH 8.
Different enzymes have different optimal pH values: pepsin’s matches the stomach, the intestinal enzyme’s matches the small intestine.
32Near the optimal pH: the charges change
Video: Watch: Near the optimal pH
Charged R groups line the active site; hydrogen ions attach to R groups and leave them; a pH a little off the optimal pH changes the charges, the substrate binds less well, the rate falls, and the fold holds.
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Why should the number of hydrogen ions in the fluid change what a protein does?
The R groups lining an active site carry a negative charge. Two substrates arrive; each has the pocket’s shape.
Which substrate does the active site hold?
- A. ✓ The one with a positive charge on the part facing the lining
- B. The one with a negative charge on the part facing the liningLike charges push apart, so the negative lining pushes a negative substrate away.
Why: Opposite charges attract.
So the substrate with a positive charge facing the negative lining is attracted and held.
A substrate with the same charge as the lining is pushed away.
So the charges on the R groups lining the active site decide whether the substrate binds.
Hydrogen ions attach to R groups and leave them again.
Now change the concentration of hydrogen ions around an enzyme.
Some of its R groups gain a charge. Others lose one.
Near the optimal pH, only the charges change. The fold itself still holds.
The changed charges in and around the active site match the substrate’s charges less well. So the substrate binds less well, and the rate falls.
For example, suppose pepsin is moved from pH 2 to pH 5, with the same substrate concentration.
The pepsin digests protein at 0.8 mg per minute instead of 3.0 mg per minute.
At pH 5 there are fewer hydrogen ions around the pepsin. So the charges on its R groups have changed, and the protein fits pepsin’s active site less well.
What you are expected to know Explain why a pH near but off an enzyme’s optimal pH lowers its rate while the fold still holds.
Salivary amylase has an optimal pH of 7. A student moves the amylase from pH 7 to pH 5.5, a little way from its optimal pH, and its rate falls from 12 to 5 mg of maltose per minute. Back at pH 7 the rate returns to 12.
Which of the following changed in the amylase at pH 5.5?
- A. ✓ The charges on R groups in and around the active site
- B. The fold of the amylase, which has been lostpH 5.5 is close to the optimal pH of 7; that close, only the charges on R groups change and the fold holds.
- C. The speed at which the amylase molecules moveThe temperature did not change, so the molecules moved at the same speed.
Why: pH 5.5 is close to the amylase’s optimal pH of 7.
Near the optimal pH, the extra hydrogen ions change only the charges on R groups around the active site.
The fold still holds.
So the rate returns in full at pH 7.
Salivary amylase has an optimal pH of 7. A student moves the amylase from pH 7 to pH 5.5, a little way from its optimal pH, and its rate falls from 12 to 5 mg of maltose per minute, with the same substrate concentration and temperature. Back at pH 7 the rate returns to 12.
(a) Explain why the amylase’s rate is lower at pH 5.5 than at pH 7. (1 pt)
Hydrogen ions attach to R groups and leave them again.
So the extra hydrogen ions change the charges on the R groups in and around the active site.
The substrate binds only when its charges match the charges lining the active site.
So the substrate binds less well, and the rate falls.
- Award 1 point for: the changed concentration of hydrogen ions changes the charges on R groups in (or around) the active site, so the substrate’s charges match less well and it binds less well, so the rate falls.
Salivary amylase has an optimal pH of 7. Moved from pH 7 to pH 5.5, a little way from its optimal pH, the amylase slows down, and its full rate returns at pH 7. A student says: “At pH 5.5 the amylase has been denatured.”
Is the student correct?
- A. YespH 5.5 is close to the optimal pH of 7; that close, the extra hydrogen ions change only the charges on R groups, and the fold holds.
- B. ✓ No
Why: pH 5.5 is close to the optimal pH of 7.
That close, the extra hydrogen ions change only the charges on R groups around the active site.
The fold still holds.
Denaturation is the loss of the fold.
So the amylase is not denatured.
49Far from the optimal pH: denatured
Video: Watch: Far from the optimal pH
Far from the optimal pH many R groups change charge; the weak interactions holding the fold are disrupted; the active site loses its shape; the enzyme is denatured, by the same mechanism as heat.
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An enzyme is heated well above its optimal temperature. Its rate falls to zero and stays at zero after cooling.
Which of the following has happened to the enzyme?
- A. ✓ The weak interactions holding its fold have been disrupted
- B. Its chain has been cut into pieces by the heatDenaturation leaves the covalent backbone whole; the chain is not cut.
- C. Its molecules have slowed down and collide less oftenHeat makes molecules move faster, not slower.
Why: Strong heat disrupts the hydrogen bonds and other weak interactions that hold the fold.
So the active site loses its shape, and the substrate no longer fits.
The enzyme is denatured.
Now consider a pH far from the optimal pH.
Far from the optimal pH, many more R groups change charge.
The changed charges disrupt the hydrogen bonds and other weak interactions that hold the protein’s fold.
So the active site loses its shape.
So the substrate no longer fits, and the enzyme can no longer catalyze its reaction. The enzyme is denatured.
Heat and the wrong pH denature an enzyme in the same way.
Heat and the wrong pH each pull apart the weak interactions that hold the fold.
The active site goes with the fold.
What you are expected to know Explain why a pH far from an enzyme’s optimal pH denatures it: the weak interactions holding the fold are disrupted, so the active site loses its shape and the substrate no longer fits.
An enzyme from the small intestine, whose optimal pH is 8, is carried into stomach fluid at pH 2. Its rate falls to nearly zero.
Which of the following has happened to the enzyme?
- A. Its molecules have slowed down in the acidThe temperature is unchanged, so the molecules move no more slowly in the acid.
- B. Its chain has been cut into pieces by the acidDenaturation leaves the covalent backbone whole; the chain is not cut.
- C. ✓ Its fold has been disrupted
Why: pH 2 is six units from the enzyme’s optimal pH of 8.
So many of its R groups have changed charge.
The changed charges disrupt the weak interactions that hold the fold.
So the active site loses its shape.
The enzyme is denatured.
One sample of an enzyme was denatured by heat, another by a pH far from its optimal pH.
What is the same in the two denatured samples?
- A. ✓ In both, the active site has lost its shape with the fold
- B. In both, the chain has fallen into separate piecesDenaturation by heat or by pH leaves the covalent backbone whole.
- C. In both, the molecules move too slowly to collide with the substrateHeat makes molecules move faster, and pH does not change their speed.
Why: Heat and the wrong pH denature an enzyme in the same way.
Heat and the wrong pH each pull apart the hydrogen bonds and other weak interactions that hold the fold.
So in both samples the active site has lost its shape, and the substrate no longer fits.
Back to pepsin, emptied from your stomach at pH 2 into your small intestine at pH 8. In the small intestine there are far fewer hydrogen ions around the pepsin.
So the charges on pepsin’s R groups change. So the weak interactions holding pepsin’s fold are disrupted, and protein no longer fits pepsin’s active site.
Pepsin’s active site keeps its shape only in the acid of the stomach. In the same way, the small intestine’s enzymes keep their shape only in the fluid at pH 8, and the stomach’s acid would denature them.
66Mixed practice: enzymes and pH mixed practice
Here is a table of a protease from a soil fungus at four pH values.
Which of the following is the protease’s optimal pH?
- A. pH 3The rate at pH 3, 6 mg/min, is lower than the rate at pH 4, 14 mg/min.
- B. ✓ pH 4
- C. pH 5The rate at pH 5, 9 mg/min, is lower than the rate at pH 4, 14 mg/min.
Why: The optimal pH is the pH at which the rate is greatest.
The protease digested 14 mg of protein per minute at pH 4, more than at any other pH tested.
So pH 4 is the optimal pH.
An enzyme has an optimal pH of 6. Tube A holds it at pH 7 and tube B at pH 8, with the same substrate concentration and temperature in both.
In which tube is the rate lower?
- A. Tube ATube A at pH 7 is one unit from the optimal pH of 6; tube B at pH 8 is two units from it.
Tube A is the faster tube. - B. ✓ Tube B
- C. Neither tube; the rate is the same in bothTube A at pH 7 is one unit from the optimal pH of 6; tube B at pH 8 is two units from it.
Why: Tube A at pH 7 is one unit from the optimal pH of 6. Tube B at pH 8 is two units from it.
Further from the optimal pH, more R groups change charge.
So in tube B the substrate binds less well, and the rate is lower.
An enzyme from the pancreas has an optimal pH of 8. Suppose the enzyme is dropped into stomach fluid at pH 2.
Which of the following describes the enzyme’s active site in the stomach fluid?
- A. It keeps its shape, and only its charges have changedpH 2 is six units from the enzyme’s optimal pH; that far off, the fold itself is disrupted.
- B. It is unchangedAt pH 2 there are a million times as many hydrogen ions as at pH 8; the R groups’ charges cannot stay unchanged.
- C. ✓ It has lost its shape with the fold
Why: pH 2 is six pH units from the enzyme’s optimal pH of 8.
So many of the enzyme’s R groups change charge.
The changed charges disrupt the weak interactions that hold the fold.
So the active site loses its shape with the fold.
Pepsin has an optimal pH of 2. Three tubes hold pepsin with the same protein, at the same temperature: one at pH 2, one at pH 5 and one at pH 8.
In which tube does pepsin digest protein fastest?
- A. The tube at pH 5pH 5 is three units from pepsin’s optimal pH; the charges on its R groups have changed and the protein binds less well.
- B. The tube at pH 8pH 8 is six units from pepsin’s optimal pH; that far off, pepsin is denatured.
- C. ✓ The tube at pH 2
Why: An enzyme’s rate is greatest at its optimal pH.
Pepsin’s optimal pH is 2.
So pepsin digests protein fastest in the tube at pH 2.
Lactase has an optimal pH of 6. In a tube at pH 7, one unit from its optimal pH, its rate falls from 10 to 7 mg of glucose per minute. Back at pH 6 the rate returns to 10.
Which of the following changed in the lactase at pH 7?
- A. The fold of the lactase, which has been lostpH 7 is one unit from the optimal pH of 6; that close, only the charges on R groups change and the fold holds.
- B. ✓ The charges on R groups in and around the active site
- C. The speed at which the lactase molecules moveThe temperature did not change, so the molecules moved at the same speed.
Why: pH 7 is one unit from the lactase’s optimal pH of 6.
Near the optimal pH, the changed concentration of hydrogen ions changes only the charges on R groups in and around the active site.
The fold still holds.
So the rate returns in full at pH 6.
Catalase from the liver has an optimal pH of 7. A student measures its rate at pH 7, then at pH 9, two units from its optimal pH, then again at pH 7. The rates are 30, 24 and 30 μmol of oxygen per minute.
Was the catalase denatured at pH 9?
- A. YespH 9 is two units from the optimal pH of 7; that close, only the charges on R groups change and the fold holds.
- B. ✓ No
Why: pH 9 is two units from the catalase’s optimal pH of 7.
That close, the fewer hydrogen ions change only the charges on the catalase’s R groups.
The fold holds.
So the catalase is not denatured.
Sucrase, an enzyme from the small intestine, has an optimal pH of 7.5. A student moves sucrase from pH 7.5 to pH 5.5, two units from its optimal pH, and its rate falls from 20 to 8 mg of glucose per minute, with the same substrate concentration and temperature. Back at pH 7.5 the rate returns to 20 mg of glucose per minute.
(a) Explain why the sucrase’s rate is lower at pH 5.5 than at pH 7.5. (1 pt)
pH 5.5 is two units from the optimal pH, so the extra hydrogen ions change only the charges on R groups in and around the active site.
The fold holds.
The substrate binds only when its charges match the charges lining the active site.
So the substrate binds less well, and the rate falls.
- Award 1 point for: the higher concentration of hydrogen ions changes the charges on R groups in (or around) the active site, so the substrate binds less well and the rate falls; the fold holds.
(b) Explain why the rate returns to 20 mg of glucose per minute at pH 7.5. (1 pt)
So the charges on the R groups return to what they were.
The fold held throughout, so the active site still has its shape.
So the substrate binds well again, and the rate returns to 20 mg of glucose per minute.
- Award 1 point for: back at pH 7.5 the R groups regain their charges (the hydrogen ions leave), and the fold held, so the substrate binds well again and the rate returns.
Glossary
- optimal pH
- The pH at which an enzyme’s rate of reaction is greatest. Different enzymes have different optimal pH values, matched to where they work: pepsin near pH 2 in the stomach, an intestinal enzyme near pH 8.
APBIO-U03-L07 Sometimes the fold comes back
Here is a fried egg. Its white set solid in the pan and stays solid however long it cools.
Now consider an enzyme in a solution of a mild chemical. The chemical unfolds the enzyme. Its rate falls to 2% of normal, and a count of its molecules finds only 5% still folded.
Wash the chemical out. Within an hour the rate is back to 90% of normal, and 88% of the molecules have refolded.
Why does the egg protein stay wrecked while the enzyme comes back?
Unit 3 · Cellular Energetics
1Sometimes the fold comes back
Video: Watch: Which denatured enzymes recover?
An enzyme unfolded by a mild chemical, then rinsed: its chain folds again and its rate returns. A fried egg’s tangled chains never do.
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Which denatured enzymes recover, and which are lost for good?
An enzyme recovers if its chain can find its fold again once the cause is removed.
After strong heat, the fold does not re-form.
After a mild chemical is washed out, the fold re-forms and the rate returns.
Salt, metal ions, alcohol and detergents can all pull a fold apart, not only heat and pH.
Knowing whether a denaturation is reversible tells you whether an enzyme, in a washing machine or in a liver, can be rescued.
An enzyme with an optimal temperature of 37 °C is heated to 75 °C for ten minutes, then cooled back to 37 °C.
How much product does it make now?
- A. ✓ None
- B. As much as beforeStrong heat pulls the fold apart, and the fold does not return on cooling.
Why: The heat disrupted the weak interactions that hold the fold.
The fold did not re-form on cooling.
So the enzyme makes no product.
That enzyme is denatured. Is the fold always lost for good?
Here is an enzyme in a solution of a mild chemical.
The chemical pulls apart the weak interactions that hold the enzyme’s fold.
Its rate falls to 2% of normal.
A count of how many of the enzyme’s molecules still hold their normal fold is called a folding test.
The folding test finds 5% still folded.
Now wash the chemical out.
Within an hour the rate is back to 90% of normal.
The folding test finds 88% of the molecules folded again.
The chemical pulled the fold apart, but it did not break the chain.
The fold is set by the order of the chain’s amino acids.
So, freed of the chemical, the chain folded again.
Now consider the fried egg again. Strong heat unfolded every protein chain in the white.
The unfolded chains tangled together as the white set.
A tangled chain cannot find its fold again.
So the egg white stays solid however long it cools.
So denaturation is sometimes reversible. If the disrupting condition is removed before the unfolded chains tangle, some enzymes refold and regain their rate.
For many other enzymes, and for strongly heated proteins, the loss is permanent.
A student says: “Once an enzyme has been denatured, its fold is lost for good.”
Is the student correct?
- A. YesThe enzyme washed clean of the mild chemical regained 90% of its rate, and 88% of its molecules refolded.
- B. ✓ No
Why: The fold is set by the order of the enzyme’s amino acids.
So if the disrupting condition is removed before the unfolded chains tangle, the chain can fold again.
Some enzymes do refold and regain their rate.
For many others, and for strongly heated proteins, the loss is permanent.
You cannot tell by looking which enzymes refold. You measure the rate three times: before the chemical, with the chemical present, and an hour after the chemical is removed.
If the rate comes back after the chemical is removed, the fold re-formed. The denaturation was reversible.
A rate that recovers shows the shape is back. On its own it does not say whether the shape was ever lost: a small shift in pH lowers the rate and leaves the fold whole.
If the rate stays low after the chemical is removed, the fold did not re-form. The denaturation was permanent.
What you are expected to know Decide from an enzyme’s rate before, with and after a disrupting chemical whether its denaturation was reversible or permanent.
Here is a table of the rates of a purified urease before, with and after lead ions. Fresh urease added to the same lead-free solution has a rate of 98 units.
Which of the following describes the denaturation of the urease?
- A. ReversibleAn hour after the lead was removed the rate had climbed only from 26 to 29 units.
- B. ✓ Permanent
Why: The rate fell to 26 units while the lead was present.
An hour after the lead was removed it was still 29 units.
Fresh urease reaches 98 units in the same solution, so no lead is left.
So the exposed urease did not refold: permanent.
Here is a table of the rates of a purified enzyme before, with and after a 2% alcohol solution.
Which of the following describes the denaturation of the enzyme?
- A. ✓ Reversible
- B. PermanentThe rate returned to 95 units within an hour of the alcohol being removed.
Why: The rate fell to 30 units while the alcohol was present.
So the alcohol disrupted the fold.
The rate returned to 95 units when the alcohol was removed.
So the fold re-formed.
The denaturation is reversible.
Here is a table of the rates of a lipase before, with and after 15% alcohol.
Which of the following describes the denaturation of the lipase?
- A. ReversibleAn hour after the alcohol was removed the lipase had a rate of only 9 units of its former 100.
- B. ✓ Permanent
Why: The rate fell to 8 units while the alcohol was present.
An hour after the alcohol was removed the rate was still only 9 units.
So the lipase molecules did not refold.
The denaturation is permanent.
Here is a table of the rates of an amylase before, with and after 1.5% salt.
Which of the following describes the denaturation of the amylase?
- A. ✓ Reversible
- B. PermanentThe rate returned to 96 units within an hour of the salt being removed.
Why: The rate fell to 45 units while the salt was present.
So the salt disrupted the fold.
The rate returned to 96 units when the salt was removed.
So the fold re-formed.
The denaturation is reversible.
Here is a table of the rates of a protease before, during and after ten minutes at 80 °C.
Which of the following describes the denaturation of the protease?
- A. ReversibleThe rate stayed at 0 units an hour after the protease was cooled.
- B. ✓ Permanent
Why: The rate fell to 0 units at 80 °C.
An hour after cooling the rate was still 0 units.
Strong heat unfolds the chains, and the unfolded chains tangle.
So the fold does not re-form.
The denaturation is permanent.
39Salt, metals, alcohol and detergents change the shape too
Video: Watch: Four chemicals that pull a fold apart
Salt, a metal ion, alcohol and a detergent each lower an enzyme’s rate with the temperature and pH unchanged, because each disrupts the weak interactions that hold the fold.
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An enzyme is moved from its optimal pH to a pH far from it. The temperature stays the same.
What happens to the enzyme’s fold?
- A. ✓ The fold is pulled apart
- B. The fold stays the sameFar from the optimal pH, the changed charges disrupt the weak interactions that hold the fold.
Why: Far from the optimal pH, the charges on the R groups change.
The changed charges disrupt the hydrogen bonds and other weak interactions that hold the fold.
So the fold is pulled apart, and the active site loses its shape.
Heat and the wrong pH are two conditions that pull a fold apart.
Chemicals dissolved around the enzyme can pull a fold apart too, with the temperature and pH unchanged.
Here is a table comparing four such chemicals: salt, a metal ion, alcohol and a detergent.
| salt | a metal ion | alcohol | a detergent | |
|---|---|---|---|---|
| the enzyme | an enzyme from a microbe living where a river enters the sea | urease | catalase | an enzyme from a pond |
| the condition | 3.0% salt | lead ions, 5 mg/L | 15% alcohol | detergent, 6 mg/L |
| rate without the chemical | 96 nmol/min (at 0.2% salt) | 100 units | 100% of normal | 100% of normal |
| rate with the chemical | 17 nmol/min (at 3.0% salt) | 26 units | 24% of normal | 17% of normal |
| temperature and pH | unchanged | unchanged | unchanged | unchanged |
Four chemicals, four enzymes: in every column the rate fell with the chemical present, and the temperature and pH did not change.
In every column, the temperature and the pH were the same with and without the chemical. So the chemical is what lowered the rate.
Here is a bar chart of the microbe enzyme’s rate at four salt concentrations. As the salt rises, the rate falls.
An enzyme’s rate is also called its activity. The exam uses both words.
Here is a bar chart of the pond enzyme’s activity, as a percentage of its rate with no detergent, at four detergent concentrations. As the detergent rises, the rate falls.
Each of these chemicals disrupts the hydrogen bonds and other weak interactions that hold the fold.
So the active site changes shape, and the substrate fits it less well.
So fewer reactions happen each second, and the rate falls.
What you are expected to know Predict that salt, a metal ion, alcohol or a detergent dissolved around an enzyme lowers its rate with the temperature and pH unchanged, because the chemical disrupts the weak interactions that hold the fold.
Suppose a student adds a detergent to a tube of a lipase and its fat substrate. The temperature and pH match those of a detergent-free tube.
Which of the following happens to the lipase’s rate?
- A. ✓ The rate falls
- B. The rate stays the sameThe detergent disrupts the weak interactions that hold the lipase’s fold, so the active site changes shape.
- C. The rate risesA chemical that disrupts the fold lowers the rate; only a better-fitting active site would raise it.
Why: The temperature and pH did not change, so only the detergent differs between the tubes.
The detergent disrupts the weak interactions that hold the fold.
So the active site changes shape, and the fat fits it less well.
So the rate falls.
A student places equal amounts of a purified enzyme and its substrate in three tubes at one temperature and one pH. Only the salt concentration differs: 0.5%, 1.5% and 2.5%. The rates are in the table.
(a) Explain why the rate falls as the salt concentration rises. (1 pt)
Dissolved salt disrupts those weak interactions.
So the fold changes.
The active site changes shape with the fold.
So the substrate fits the active site less well.
So fewer reactions happen each second, and the rate falls.
More salt disrupts more of the interactions, so the rate falls further.
- Award 1 point for: the salt disrupts the weak interactions that hold the fold, so the active site changes shape and the substrate fits less well, so the rate falls.
55A fallen rate alone does not prove the shape changed
Video: Watch: What the folding test adds
A rate measures how fast product forms, not the enzyme’s shape. The folding test counts the molecules still folded; when that count falls with the rate, the shape changed.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L07C.mp4
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A tube of an enzyme and its substrate is cooled from 37 °C to 5 °C. Its rate falls to a quarter.
What happened to the enzyme’s fold?
- A. The fold was pulled apartCold slows the molecules; it does not disrupt the weak interactions that hold the fold.
- B. ✓ The fold stayed the same
Why: Cold makes the molecules move more slowly.
So enzyme and substrate collide less often.
The weak interactions that hold the fold are not disrupted.
So the fold stays the same, and the rate returns on rewarming.
So a rate can fall while the fold stays whole.
A rate measures how fast product forms. It does not measure the enzyme’s shape.
So when a chemical lowers the rate, the fallen rate alone does not show that the chemical changed the enzyme’s shape.
The folding test measures the shape itself: it counts the molecules still holding their normal fold.
Here is a pair of bar charts for the pond enzyme at four detergent concentrations.
The left chart shows its rate, labelled activity. The right chart shows the percentage of its molecules still folded.
At 6 mg/L of detergent, the rate is 17% of normal and only 15% of the molecules still hold their normal fold.
The rate fell and the fold was lost together, tube by tube.
That pairing shows the detergent changed the enzyme’s shape.
What you are expected to know Explain why a fallen rate on its own does not show that an enzyme’s shape changed.
What you are expected to know Say what a folding test adds: a count of the molecules still holding their normal fold, which measures the shape itself.
Suppose a student places equal amounts of a purified enzyme and its substrate in three tubes at one temperature and one pH. Only the salt concentration differs. The student measures each tube’s rate and the percentage of its molecules still folded. Here is a table of the results.
Which of the following happened to the enzyme’s fold as the salt rose?
- A. ✓ The fold was disrupted
- B. The fold stayed the sameThe folding test found fewer and fewer molecules holding their normal fold as the salt rose: 96%, then 55%, then 17%.
- C. The fold was pulled tighterSalt does not pull a fold tighter; dissolved salt disrupts the weak interactions that hold the fold.
Why: Only the salt differed between the tubes.
The folding test found 96% of the molecules folded at 0.5% salt, 55% at 1.5% and 17% at 2.5%.
So the salt disrupted the fold in more and more molecules.
The active site changed shape with the fold, and the rate fell.
A student places equal amounts of a purified enzyme and its substrate in three tubes at one temperature and one pH. Only the salt concentration differs: 0.5%, 1.5% and 2.5%. The student measures each tube’s rate and the percentage of its molecules still folded. The results are in the table.
(a) Explain why a folding test is needed to show that the salt changed the enzyme’s shape. (1 pt)
It does not measure the enzyme’s shape.
A rate can fall while the fold stays whole: cold slows the molecules and leaves the weak interactions that hold the fold intact.
So the fall in rate on its own leaves the shape unknown.
A folding test counts the molecules still holding their normal fold, so it measures the shape itself.
- Award 1 point for: a rate measures how fast product forms, not the shape, and a rate can fall with the fold whole (as cold shows); a folding test counts the molecules still folded, so it measures the shape itself.
(b) Explain how the folding-test results show that the salt changed the enzyme’s shape. (1 pt)
That count fell from 96% to 55% to 17% as the salt rose.
The rate fell with it, tube by tube.
So the salt changed the enzyme’s shape.
- Award 1 point for: the folding test counts the molecules still folded; that count fell with the rate as the salt rose, so the salt changed the shape.
An enzyme’s rate fell from 80 to 12 nmol/min as the salt concentration in its tubes rose, with the temperature and pH unchanged. A student says: “The rate fell as the salt rose. That proves the salt changed the enzyme’s shape.”
Is the student correct?
- A. YesA fallen rate on its own does not show that the shape changed: cold lowers a rate and leaves the fold whole.
- B. ✓ No
Why: A rate measures how fast product forms, not the enzyme’s shape.
Cold lowers a rate and leaves the fold whole.
So the fallen rate alone does not prove that the salt changed the shape.
A folding test whose count fell with the rate would.
A researcher measures the activity of a stream enzyme at 0, 1 and 2 mg/L of copper ions, with the temperature and pH the same in every tube, and counts the molecules still folded in each tube. Here is a table of the results.
Which of the following does the folding test show?
- A. The copper cut the enzyme’s chain into piecesA folding test counts the molecules still holding their normal fold; an unfolded chain is still one whole chain, because denaturation leaves the covalent backbone whole.
- B. The copper slowed the molecules downThe temperature was the same in every tube, and slowing molecules would leave the fold untouched; the test shows fewer molecules holding their fold.
- C. The copper used up the substrateEvery tube held the same substrate, and a folding test measures the enzyme, not the substrate.
- D. ✓ The copper changed the enzyme’s shape
Why: A folding test counts the molecules still holding their normal fold.
That count fell from 97% to 60% to 18% as the copper rose.
The rate fell with it, tube by tube.
So the copper changed the enzyme’s shape.
Now consider the fried egg and the rinsed enzyme again.
The egg white was heated hard in the pan. Its unfolded chains tangled as the white set, and a tangled chain cannot refold.
So the egg white stays solid: its denaturation is permanent.
The enzyme sat in a mild chemical. The chemical pulled its fold apart but did not break its chain.
Rinsed clean, the chain folded again and the rate returned: its denaturation was reversible.
78Mixed practice mixed practice
A brewer’s amylase makes 80 units of product per minute. In 8% alcohol it makes 16 units. The brewer removes the alcohol. An hour later the amylase makes 18 units, and a folding test finds 20% of its molecules folded.
Which of the following describes what the alcohol did to the amylase?
- A. Denatured it reversiblyThe rate is still 18 units an hour after the alcohol was removed, and only 20% of the molecules are folded.
- B. ✓ Denatured it permanently
- C. Slowed it without denaturing itAlcohol does not slow molecules the way cold does, and the folding test found only 20% of the molecules holding their fold; a slowed molecule keeps its fold.
Why: The rate fell from 80 to 16 units while the alcohol was present, so the alcohol disrupted the fold.
An hour after the alcohol was removed the rate was still 18 units, and only 20% of the molecules were folded.
So the fold did not re-form: the denaturation is permanent.
Here is a table of the rates of a purified enzyme before, with and after 1% salt.
Which of the following describes the denaturation of the enzyme?
- A. ✓ Reversible
- B. PermanentThe rate returned to 97 units within an hour of the salt being removed.
Why: The rate fell to 40 units while the salt was present.
So the salt disrupted the fold.
The rate returned to 97 units when the salt was removed.
So the fold re-formed.
The denaturation is reversible.
A researcher measures a river enzyme’s activity at 0, 1, 2 and 3 mg/L of zinc ions, with the temperature and pH the same in every tube. Here is a table of the results.
Which of the following would show that the zinc changed the enzyme’s shape?
- A. The activity falling as the zinc risesA fallen rate on its own does not show that the shape changed; cold lowers a rate and leaves the fold whole.
- B. The temperature staying the same in every tubeAn unchanged temperature rules out heat as the cause, but does not show whether the enzyme’s shape changed.
- C. ✓ A folding test count falling as the zinc rises
- D. The pH staying the same in every tubeAn unchanged pH rules out pH as the cause, but does not show whether the enzyme’s shape changed.
Why: The temperature and pH were the same in every tube, so the zinc lowered the rate.
A fallen rate alone does not show that the shape changed.
A folding test counts the molecules still folded.
When that count falls with the rate, tube by tube, the zinc changed the shape.
Suppose a student adds a detergent to a tube of catalase and hydrogen peroxide. The temperature and pH match those of a detergent-free tube.
Which of the following happens to the catalase’s rate?
- A. The rate risesA chemical that disrupts the fold lowers the rate; only a better-fitting active site would raise it.
- B. The rate stays the sameThe detergent disrupts the weak interactions that hold the catalase’s fold, so the active site changes shape.
- C. ✓ The rate falls
Why: The temperature and pH did not change, so only the detergent differs between the tubes.
The detergent disrupts the weak interactions that hold the fold.
So the active site changes shape, and the hydrogen peroxide fits it less well.
So the rate falls.
Egg white heated in a pan sets solid and stays solid after it cools.
Which of the following explains why the egg white stays solid?
- A. ✓ The unfolded chains tangled together as the egg white set
- B. The heat cut the chains into separate amino acidsHeat disrupts the weak interactions that hold the fold; the covalent bonds of the backbone stay whole.
- C. Cooling removed the weak interactions that hold the foldCooling does not remove weak interactions; heat disrupted them, and cooling would let them re-form if the chains were free to fold.
- D. The proteins were used up as the egg white cookedCooking changes the proteins’ shape; it does not use them up.
Why: Heat disrupted the weak interactions that hold each protein’s fold.
So the chains unfolded.
The unfolded chains tangled together as the egg white set.
A tangled chain cannot fold back into its shape.
So the loss is permanent, and the egg white stays solid.
A student says: “Salt cannot denature an enzyme. Only heat and the wrong pH can.”
Is the student correct?
- A. YesDissolved salt disrupts the weak interactions that hold the fold, with the temperature and pH unchanged.
- B. ✓ No
Why: Hydrogen bonds and other weak interactions hold the fold.
Dissolved salt disrupts those weak interactions, as do metal ions, alcohol and detergents.
So salt can pull the fold apart with the temperature and pH unchanged.
The enzyme is denatured.
A laundry protease is stirred into a wash that contains a mild detergent, at the protease’s optimal temperature and pH. Its rate falls to 10% of normal, and a folding test finds 12% of its molecules still folded. The protease is then rinsed in clean water for an hour. Its rate is back to 85% of normal, and the folding test finds 84% of its molecules folded.
(a) Explain how these results demonstrate that denaturation is sometimes reversible. (1 pt)
The temperature and pH were at the optimum, so the detergent was the cause.
After the rinse, the rate returned to 85% and 84% of the molecules were folded again.
So the chains refolded once the detergent was removed.
This denaturation was reversible.
- Award 1 point for: activity and fold were lost with the detergent present and regained after it was rinsed out, so the fold re-formed once the cause was removed (reversible).
(b) A second sample of the same protease is boiled for ten minutes and cooled. An hour later its rate is 0% of normal. Explain why this denaturation is permanent. (1 pt)
The unfolded chains tangled together.
A tangled chain cannot find its fold again, even after cooling.
So the rate stays at 0%: the denaturation is permanent.
- Award 1 point for: strong heat unfolds the chains and they tangle, so the fold cannot re-form on cooling (permanent).
APBIO-U03-L08 More substrate
Here is one drop of catalase in a tube of dilute hydrogen peroxide. The tube fizzes gently.
Double the hydrogen peroxide concentration, and the tube fizzes faster. Double it again, and the tube fizzes faster still. Keep doubling, and past a point the fizz gets no faster at all.
Why does more substrate stop helping?
Unit 3 · Cellular Energetics
1The units on the tubes
Video: Watch: Reading the units
The prefixes milli, micro and nano in front of mol: a thousandth, a millionth, a billionth of a mole. Then the units on the tubes: mmol/L and μM for a concentration, nmol for an amount, μmol/min for a rate, mg/mL for a mass in each milliliter.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L08a.mp4
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Why does an enzyme speed up when you add substrate, and then stop speeding up?
The answer comes from measured rates. So the units the measurements use come first.
What is a mole?
- A. ✓ A fixed count of molecules
- B. A mass of one gramA gram is a unit of mass, not a count of molecules.
- C. A volume of one literA liter is a volume of solution, not a count of molecules.
Why: A mole is a fixed count of molecules, the same count for any substance.
Amounts of substrate and product are counted in moles. A whole mole is far more than a tube holds, so the amount is written with a prefix in front of mol.
The prefix milli, written m, means a thousandth. A millimole, mmol, is a thousandth of a mole.
The prefix micro, written μ, means a millionth. A micromole, μmol, is a millionth of a mole.
The prefix nano, written n, means a billionth. A nanomole, nmol, is a billionth of a mole.
Each prefix is a thousand times smaller than the one before it: milli, then micro, then nano. So a millimole is a larger amount than a micromole, and a micromole is a larger amount than a nanomole.
Which is the larger amount?
- A. ✓ 1 mmol
- B. 1 μmolMicro means a millionth, and a millionth is smaller than a thousandth.
Why: Milli means a thousandth and micro means a millionth.
A thousandth of a mole is more than a millionth of a mole.
So 1 mmol is the larger amount.
A concentration says how much is dissolved in each liter of solution. A substrate concentration of 4 mmol/L means 4 millimoles of substrate in each liter.
Chemists write mol/L as M. So μM is short for μmol/L: micromoles of solute in each liter.
An enzyme extract is measured on a balance as a mass, not counted in moles. So its concentration is written as a mass in each milliliter: mg/mL, milligrams of extract in each milliliter of solution.
A rate has per minute in its unit. A rate of 10 μmol/min means 10 micromoles of product form each minute.
Here is a table of the three prefixes, what each one means, and the amount, concentration and rate units you will read on the tubes and graphs.
What you are expected to know Read the units mmol/L, μM, nmol, μmol/min and mg/mL: what the prefix means, and whether the unit is an amount, a concentration or a rate.
18Quick quiz: reading the units mixed practice
What does the prefix nano mean?
- A. A thousandthA thousandth is milli.
- B. A millionthA millionth is micro.
- C. ✓ A billionth
Why: Nano means a billionth.
So a nanomole is a billionth of a mole.
Which of these units is a rate?
- A. mmol/Lmmol/L is an amount in each liter: a concentration.
- B. ✓ μmol/min
- C. nmolnmol is an amount with no time in it.
Why: A rate is an amount formed in each minute.
μmol/min has per minute in it.
So μmol/min is the rate.
A substrate solution has a concentration of 5 μM.
Which of the following is that concentration in words?
- A. 5 millimoles of substrate in each literμ means micro, a millionth, not milli.
- B. 5 micromoles of substrate in each minuteM stands for mol/L, so the unit has liters in it, not minutes.
- C. ✓ 5 micromoles of substrate in each liter
Why: M stands for mol/L.
The prefix μ means a millionth.
So 5 μM is 5 micromoles of substrate in each liter.
Which is the larger amount?
- A. 3 nmolNano means a billionth, and a billionth is smaller than a millionth.
- B. ✓ 3 μmol
Why: Micro means a millionth and nano means a billionth.
A millionth of a mole is more than a billionth of a mole.
So 3 μmol is the larger amount.
A bottle of enzyme extract has a concentration of 2 mg/mL.
What does 2 mg/mL tell you?
- A. ✓ The mass of extract in each milliliter of solution
- B. The number of moles of extract in each liter of solutionmg is a mass, and mL is a volume of solution; neither is a count of moles.
- C. The mass of product formed each minutemg/mL has no time in it, so it is not a rate.
Why: mg is milligrams, a mass.
mL is milliliters, a volume of solution.
So 2 mg/mL is 2 milligrams of extract in each milliliter of solution.
A student measures the rate of an enzyme-catalyzed reaction as 12 μmol/min.
(a) State what this rate measures. (1 pt)
- Award 1 point for: the amount of product formed each minute (micromoles per minute).
25More substrate: faster
Video: Watch: Why more substrate speeds the enzyme up
Four enzyme molecules with a few substrate molecules around them: two active sites empty. More substrate is added, and substrate molecules land in empty active sites more often, so more substrate becomes product each second and the rate rises.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L08b.mp4
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Back to the question: why does an enzyme speed up when you add substrate, and then stop speeding up?
An enzyme can only work on a substrate molecule that has landed in an empty active site.
With more substrate, substrate molecules land in empty active sites more often. So the rate rises.
Once nearly every active site is occupied all the time, extra substrate has no empty site to land in. So the rate levels off.
That is why every graph of rate against substrate concentration bends flat. Here is the rise first.
Here is a graph of rate against substrate concentration for a fixed amount of an enzyme. At 1, 2, 4 and 8 mmol/L of substrate, its rate at the start is 10, 17, 26 and 35 μmol/min.
Doubling the substrate raised the rate every time.
Why the rise? Here is a drawing of four enzyme molecules at a low substrate concentration.
A substrate molecule lands in an empty active site only now and then, so two of the four active sites are empty.
Add substrate, and substrate molecules land in empty active sites more often.
So more substrate is converted into product each second, and the rate rises.
What you are expected to know Explain why raising the substrate concentration raises the rate while most active sites are empty.
A student gives a fixed amount of lactase its substrate at 0.5 mmol/L, then doubles the substrate to 1 mmol/L. At these low concentrations most active sites are empty.
Which of the following happens to the rate?
- A. ✓ It rises
- B. It stays the sameThe rate stays the same only when nearly every active site is occupied, and at these low concentrations most active sites are empty.
- C. It fallsMore substrate never lowers the rate.
Why: At a low substrate concentration most active sites are empty.
Doubling the substrate means substrate molecules land in empty active sites more often.
So more substrate is converted each second, and the rate rises.
A student gives a fixed amount of sucrase its substrate, sucrose, at 1 mmol/L and then at 2 mmol/L. At these low concentrations most active sites are empty. The rate at 2 mmol/L is roughly double the rate at 1 mmol/L.
(a) Explain why doubling the sucrose concentration roughly doubled the rate. (1 pt)
Doubling the sucrose to 2 mmol/L puts twice as many sucrose molecules in each liter.
So a sucrose molecule lands in an empty active site twice as often.
So twice as much sucrose is converted each second, and the rate roughly doubles.
- Award 1 point for: with most active sites empty, twice the substrate means substrate molecules land in empty active sites twice as often, so the rate roughly doubles.
41The plateau: saturated
Video: Watch: Why the rate levels off
The same four enzyme molecules at a high substrate concentration: every active site holds a substrate molecule and more wait around them. A substrate molecule that arrives finds every site taken, so adding still more substrate no longer raises the rate. The enzyme is saturated.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L08c.mp4
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Here is the same graph with one more point. At 16 mmol/L of substrate the rate is 41 μmol/min.
Doubling the substrate from 8 to 16 mmol/L gained only 6 μmol/min, the smallest gain yet.
The curve is leveling off. The flat part of a curve is called a plateau.
Why the plateau? Here is a drawing of the same four enzyme molecules at a high substrate concentration.
Nearly every active site is occupied all the time.
A substrate molecule that arrives finds every active site taken.
Only when an active site clears can that substrate molecule bind.
When every active site of an enzyme is busy, the enzyme is called , because it is full: it can hold no more substrate.
This “saturated” has nothing to do with saturated fats, where the word meant a tail with no double bonds.
Past the plateau, more substrate does not speed the reaction up: every active site is already busy.
What you are expected to know Explain why the rate levels off at high substrate concentrations: nearly every active site is occupied all the time, so the enzyme is saturated.
Here is a table of the rates a student measured with a fixed amount of an enzyme at five substrate concentrations.
Predict the rate at 16 mmol/L of substrate.
- A. About 11 μmol/minMore substrate never lowers the rate here; past the plateau it simply stops raising it.
- B. ✓ About 23 μmol/min
- C. About 46 μmol/minThe rate does not double with the substrate once the enzyme is saturated.
Why: From 4 to 8 mmol/L the rate rose by only 1 μmol/min, from 22 to 23 μmol/min.
So the curve has leveled off.
Nearly every active site is already occupied all the time.
So doubling the substrate to 16 mmol/L adds almost nothing: about 23 μmol/min.
A student measures an enzyme’s rate at the start of the reaction at rising substrate concentrations with the amount of enzyme fixed. The rate climbs, then stops climbing.
(a) Explain why the rate stops rising. (1 pt)
At a high substrate concentration nearly every active site is occupied all the time.
So a substrate molecule that arrives finds no free site.
So the enzyme is saturated, and adding more substrate cannot raise the rate.
- Award 1 point for: the number of active sites is fixed and at high substrate concentration nearly every active site is occupied all the time (the enzyme is saturated), so more substrate cannot raise the rate.
A student says: “Past the plateau, adding more substrate still speeds the reaction up a little.”
Which of the following statements about the student’s claim is correct?
- A. The student is correct: every extra substrate molecule adds a little rateAn extra substrate molecule can only add rate if it finds an empty active site, and past the plateau there are none.
- B. The student is wrong: past the plateau more substrate slows the enzymeMore substrate never lowers the rate; past the plateau it simply stops raising it.
- C. ✓ The student is wrong: past the plateau every active site is already busy, so the rate stays put
Why: Past the plateau the enzyme is saturated.
Nearly every active site is occupied all the time.
So a substrate molecule that arrives finds every site taken.
So more substrate does not speed the reaction up, and the rate stays put.
Back to the drop of catalase in the tube of dilute hydrogen peroxide. Each time the peroxide concentration doubled, peroxide molecules landed in empty active sites more often, so the fizz sped up.
Past a point, every catalase molecule already had a peroxide molecule in its active site. Adding peroxide only added more peroxide molecules waiting for a free active site, so the fizz got no faster.
59Quick quiz: saturated mixed practice
What does it mean for an enzyme to be saturated?
- A. ✓ Every active site is occupied nearly all the time
- B. The enzyme has been used upA catalyst is never used up.
- C. The enzyme’s fold has come apartAn enzyme whose fold has come apart is denatured, not saturated.
Why: A saturated enzyme has every active site occupied nearly all the time.
So it is full: adding more substrate no longer raises the rate.
A student adds more and more substrate to a fixed amount of an enzyme, and the rate stops rising.
(a) State what it means for the enzyme to be saturated. (1 pt)
- Award 1 point for: every active site is occupied nearly all the time (the enzyme is full), so more substrate cannot raise the rate.
62Mixed practice mixed practice
With a fixed amount of enzyme, doubling the substrate from 16 mmol/L to 32 mmol/L raises the rate from 61 μmol/min to 62 μmol/min.
Why does the rate rise so little?
- A. ✓ Nearly every active site is already occupied
- B. The enzyme is being used upA catalyst is never used up.
Why: At a high substrate concentration the enzyme is saturated.
A substrate molecule that arrives finds no free site, so more substrate barely raises the rate.
At a low substrate concentration most active sites are empty.
What happens to the rate when the substrate concentration doubles?
- A. It stays the sameSubstrate molecules land in empty active sites more often when the substrate doubles.
- B. ✓ It roughly doubles
Why: With most sites empty, doubling the substrate means substrate molecules land in empty active sites twice as often.
So more substrate is converted each second, and the rate roughly doubles.
A student doubles the substrate concentration from 2 mmol/L to 4 mmol/L with the amount of enzyme fixed. The rate rises from 15 μmol/min to 24 μmol/min.
Is the enzyme saturated at 2 mmol/L?
- A. YesA saturated enzyme gains almost no rate when the substrate doubles, and this rate rose by 9 μmol/min.
- B. ✓ No
Why: Doubling the substrate raised the rate from 15 to 24 μmol/min.
So many active sites were still empty at 2 mmol/L.
So the enzyme is not saturated at 2 mmol/L.
Which of these units is a concentration?
- A. μmol/minμmol/min has per minute in it: a rate.
- B. nmolnmol is an amount with no volume of solution in it.
- C. ✓ μM
Why: M stands for mol/L, an amount in each liter of solution.
So μM, micromoles in each liter, is a concentration.
A student says: “Adding more substrate to a saturated enzyme slows the reaction down.”
Is the student correct?
- A. YesMore substrate never lowers the rate; past the plateau it simply stops raising it.
- B. ✓ No
Why: A saturated enzyme has every active site occupied nearly all the time.
Extra substrate molecules wait for a free active site.
So the rate stays put; it does not fall.
Which is the larger amount?
- A. ✓ 2 mmol
- B. 2 nmolNano means a billionth, and a billionth is smaller than a thousandth.
Why: Milli means a thousandth and nano means a billionth.
A thousandth of a mole is more than a billionth of a mole.
So 2 mmol is the larger amount.
A student gives a fixed amount of lactase lactose at concentrations from 2 mmol/L to 64 mmol/L and measures the rate of glucose formation at the start of each reaction. The rate rises steeply at first and levels off at about 40 μmol/min from 32 mmol/L upward.
(a) Explain why the rate of glucose formation levels off above 32 mmol/L of lactose. (1 pt)
Above 32 mmol/L of lactose, nearly every active site holds a lactose molecule all the time.
So a lactose molecule that arrives finds no free site.
So the lactase is saturated, and more lactose cannot raise the rate of glucose formation.
- Award 1 point for: with a fixed amount of lactase, nearly every active site is occupied above 32 mmol/L (the lactase is saturated), so extra lactose finds no free site and the rate cannot rise.
Slip Saying the lactase is used up or the lactose has all been used up. The lactase is intact and lactose is plentiful; the active sites are simply all busy.
Glossary
- saturated (enzyme)
- An enzyme whose active sites are all occupied nearly all the time, so adding more substrate no longer raises the rate. A different use of the word from a saturated fatty acid, which is a tail with no double bonds.
APBIO-U03-L08B More enzyme, more product?
Here are two tubes. Each tube holds 20 μmol of substrate.
Tube H has twice the enzyme concentration of tube L. Everything else is the same.
In which tube is the substrate converted faster? And which tube ends with more product?
Unit 3 · Cellular Energetics
1More enzyme: faster at the start
Video: Watch: Twice the enzyme, twice the active sites
Tube L and tube H side by side, the same substrate molecules in each, twice as many enzyme molecules in tube H. A substrate molecule lands in an empty active site twice as often in tube H, so tube H converts substrate into product twice as fast at the start.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L08Ba.mp4
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Does adding enzyme give you more product, or only the same product sooner?
The amount of enzyme sets how fast the substrate is converted. The amount of substrate sets how much product there can be.
Each substrate molecule becomes one product molecule. So 20 μmol of substrate can give at most 20 μmol of product, however much enzyme is present.
In a sealed tube the product also builds up, and some of it is turned back into substrate. So the product levels off before the substrate is gone.
A cell keeps a reaction going forward by removing the product as it forms.
Knowing both lets you predict where a reaction ends, not only how fast it starts. The speed comes first.
Now consider the amount of enzyme, with the substrate concentration fixed.
Here is a graph of rate at the start against enzyme concentration. With yeast extract at 0.5, 1.0, 1.5 and 2.0 mg/mL, the rate at the start is 3, 6, 9 and 12 μmol/min.
Twice the enzyme is twice the number of active sites.
So a substrate molecule lands in an empty active site twice as often.
So twice as much substrate is converted into product each second: the rate at the start doubles.
What you are expected to know Predict that adding more enzyme to a fixed amount of substrate raises the rate at the start, because there are more active sites.
Two tubes hold 20 μmol of substrate S. An enzyme converts each molecule of S into one molecule of product P. Tube H has twice the enzyme concentration of tube L; everything else is the same.
Which of the following is tube H’s rate at the start, compared with tube L’s?
- A. The sameTwice the enzyme is twice the active sites, so substrate finds a free site twice as often in tube H.
- B. ✓ Higher
Why: Tube H has twice the enzyme, so it has twice the active sites.
So substrate finds a free site twice as often in tube H.
So tube H’s rate at the start is higher.
Two tubes hold 30 μmol of sucrose. Tube 2 has twice the sucrase concentration of tube 1; everything else is the same. Tube 2’s rate at the start is higher than tube 1’s.
(a) Explain why tube 2’s rate at the start is higher. (1 pt)
So tube 2 has twice as many active sites.
So a sucrose molecule lands in an empty active site twice as often in tube 2.
So tube 2 converts sucrose faster at the start.
- Award 1 point for: twice the enzyme is twice the active sites, so sucrose molecules land in empty active sites more often in tube 2 and more sucrose is converted each second.
17More enzyme: the same final amount
Video: Watch: The substrate sets the end
Product against time for two protease doses on the same substrate: the higher dose climbs faster, and both curves level off at the same 100 units. Every product molecule was a substrate molecule first, so the substrate sets the final amount.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L08Bb.mp4
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Two tubes hold the same amount of hydrogen peroxide. In one tube the peroxide breaks down faster than in the other.
Which tube releases more oxygen in the end?
- A. ✓ Neither: both release the same
- B. The faster tubeThe faster tube reaches the same amount of oxygen sooner; the amount of peroxide at the start sets the end.
Why: Every oxygen molecule released came from a peroxide molecule.
Both tubes hold the same amount of peroxide.
So both tubes release the same amount of oxygen; the faster tube gets there sooner.
Here is a graph of product against time for two tubes with the same amount of substrate. One tube has twice the enzyme of the other: a high dose and a low dose.
Both tubes end with the same 100 units of product.
The tube with more enzyme reaches 100 units sooner.
More enzyme speeds the reaction up; it does not make more product than the substrate can supply.
Every product molecule was a substrate molecule first. So the amount of substrate sets the final amount of product.
What you are expected to know Predict that adding more enzyme to a fixed amount of substrate leaves the final amount of product unchanged, because the substrate sets it.
Two tubes hold 20 μmol of substrate S. An enzyme converts each molecule of S into one molecule of product P. Tube H has twice the enzyme concentration of tube L; everything else is the same. Both tubes are left until all the S has been converted. Tube H has the higher rate at the start.
(a) Predict how the final amount of P in tube H compares with tube L, and justify your prediction. (1 pt)
Both tubes hold 20 μmol of S, and each S becomes one P.
So the S sets the final amount of P.
Tube H has twice the active sites, so tube H converts its S sooner, but tube H cannot make more P than its S can supply.
- Award 1 point for: the same final amount of P, because both tubes started with 20 μmol of S; the enzyme only speeds the conversion and does not change how much S there is to convert.
A student says: “Twice the enzyme makes twice as much product.”
Which of the following statements about the student’s claim is correct?
- A. The student is correct: more active sites make more productEvery product molecule was a substrate molecule first; more active sites convert the substrate sooner, not into more product.
- B. ✓ The student is wrong: the amount of substrate sets the final amount of product
- C. The student is wrong: more enzyme makes less productMore enzyme does not make less product; the final amount is the same.
Why: Every product molecule was a substrate molecule first.
So the amount of substrate sets the final amount of product.
Twice the enzyme is twice the active sites, so the reaction is faster at the start.
So twice the enzyme reaches the same final amount sooner, not twice as much.
Two lipase doses act on the same amount of fat, everything else the same. Both tubes level off at the same amount of product.
Which of the following set that final amount of product?
- A. ✓ The amount of fat
- B. The amount of lipaseThe two doses of lipase were different and both tubes still ended at 80 units.
- C. The time the tubes were leftBoth tubes had stopped rising by 12 minutes and stayed at 80 units at 16 minutes; more time added nothing.
Why: Every product molecule was a fat molecule first.
Both tubes held the same amount of fat.
So both tubes ended with the same 80 units of product.
The higher dose had more active sites, so it reached 80 units sooner.
29When product piles up
Video: Watch: Product piles up
Product against time in a sealed tube: the curve levels off at 75 units while a dashed line at 100 marks all the substrate as product. The reaction also goes backward: as product accumulates, more of it is turned back into substrate, until product is made and unmade at equal rates. The rate at the very start, before any product has built up, is the initial rate.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L08Bc.mp4
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In tube H and tube L, the amount of product leveled off because all the substrate had been converted.
Now consider a sealed tube. Nothing leaves the tube, so the product stays in with the enzyme and the substrate.
Here is a graph of product against time in that sealed tube. The amount of product levels off at 75 units.
All the substrate would have made 100 units of product. So substrate worth 25 units is still in the tube when the product stops rising.
After an enzyme has converted a substrate molecule into product, what has happened to the enzyme?
- A. It has been used upA catalyst is never used up.
- B. ✓ It is unchanged
Why: An enzyme is a catalyst.
A catalyst speeds a reaction up and comes out unchanged.
So the enzyme is ready for the next substrate molecule.
So the enzyme has not been used up. Why does the product stop rising while substrate is left?
The reaction an enzyme speeds up can also go backward.
The enzyme lowers the activation energy in both directions.
So a product molecule that finds the active site can be turned back into substrate.
At the start there is no product. So the reaction goes forward only.
As product accumulates, more of it is turned back into substrate.
So the net forward rate falls.
A drop of dye has spread evenly through a beaker of water. From then on the color stays even.
What are the dye molecules doing?
- A. ✓ Still moving, with as many crossing each way
- B. Standing still, each where it landedThe molecules never stop; the color stays even because as many cross one way as the other.
Why: In a dynamic equilibrium the molecules keep moving, but as many go one way as the other, so the amounts stay level.
Given long enough, the enzyme makes and unmakes product at equal rates: a dynamic equilibrium, like the one for diffusion.
So in a sealed tube the amount of product levels off before the substrate is gone.
At the very start of a reaction there is no product yet. So none is turned back, and the rate is the highest it will be.
That is why rates are compared at the very start. The rate measured at the very start, before any product has built up, is called the .
So tube H had the higher initial rate, and the yeast extract at 2.0 mg/mL had an initial rate of 12 μmol/min.
What you are expected to know Explain why the amount of product levels off in a sealed tube before the substrate is gone: the reaction also goes backward, so as product accumulates more of it is turned back into substrate, until the two rates are equal.
In a sealed tube an enzyme converts substrate S into product P. After thirty minutes the amount of P has stopped rising, yet 25% of the S remains.
Which of the following is happening in the tube?
- A. The enzyme has been used up turning S into PA catalyst is never used up.
- B. ✓ P is being turned back into S as fast as S is being turned into P
- C. The remaining S molecules cannot reach the active sites25% of the S is still there and still reaching active sites.
Why: The enzyme lowers the activation energy in both directions.
After thirty minutes a lot of P has built up.
So P is turned back into S as fast as S is turned into P.
So the amount of P stops rising with 25% of the S left.
In a sealed tube an enzyme converts substrate S into product P. After thirty minutes the amount of P has stopped rising, yet 25% of the S remains. A sample of the enzyme from the tube works at its full initial rate in fresh S, and the same enzyme, given pure P, turns some of it back into S.
(a) Explain why the amount of P stops rising before the S is gone. (1 pt)
So a P molecule that finds the active site can be turned back into S.
At the start there is no P, so the reaction goes forward only.
As P accumulates, more P is turned back into S.
So the net forward rate falls.
After thirty minutes P is turned back into S as fast as S is turned into P.
So the amount of P stops rising while S remains.
- Award 1 point for: the reaction also goes backward (the enzyme lowers the activation energy in both directions), so as P builds up more P is turned back into S, until P is made and unmade at equal rates (a dynamic equilibrium).
In a sealed tube an enzyme converts substrate S into product P. The amount of P has stopped rising while some S remains. A student says: “The amount of P has stopped rising, so the enzyme has stopped working.”
Is the student correct?
- A. YesThe enzyme is still converting S into P, and P back into S, at equal rates; the amount of P only looks still.
- B. ✓ No
Why: The enzyme is intact: a catalyst is never used up.
The enzyme keeps converting S into P.
It also turns P back into S, and after thirty minutes the two happen at equal rates.
So the amount of P stays level while the enzyme keeps working.
53Quick quiz: initial rate mixed practice
What is the initial rate of a reaction?
- A. The rate once the enzyme is saturated with substrateSaturation is about the substrate concentration, not the time the rate is measured.
- B. The average rate over the whole of the reactionThe average over the whole reaction includes the slow end, after product has built up.
- C. ✓ The rate at the very start, before any product has built up
Why: The initial rate is the rate measured at the very start.
No product has built up yet, so none is turned back into substrate.
A student measures how fast an enzyme converts substrate into product over the first minute of a reaction.
(a) State what the initial rate of a reaction is. (1 pt)
- Award 1 point for: the rate at the very start of the reaction, before product has built up.
56Removing the product keeps the reaction going
Video: Watch: How a cell keeps a reaction going forward
Product made against time when the product is carried away as it forms: the line keeps climbing at close to its starting slope until little substrate is left. With the product removed, there is none to turn back into substrate.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L08Bd.mp4
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Now consider a cell. In a cell, the product of one enzyme is usually the substrate of the next enzyme, or is carried out of the cell.
So the product is removed as it forms, and never piles up.
Here is a graph of product made against time when the product is carried away as it forms.
The product is removed as soon as it forms. So there is none to turn back into substrate.
So the enzyme keeps converting substrate at close to its initial rate until little substrate is left.
This is how a cell keeps a reaction going forward: it removes the product as the product forms.
What you are expected to know Explain how a cell keeps a reaction going forward: it removes the product as it forms, so there is no product to turn back into substrate.
An enzyme converts substrate S into product P. In a sealed tube the rate of P formation falls as P builds up. In a second tube a pump carries P away as soon as it forms.
Which of the following happens to the rate of P formation in the second tube over the first thirty minutes?
- A. ✓ It stays near its initial value until little S is left
- B. It falls faster than in a sealed tubeWhen P builds up, some P is turned back into S; carrying P away removes that.
- C. It falls at the same pace as in a sealed tubeWith P carried away, there is no P to turn back into S.
- D. It rises steadily as more P is carried awayRemoving P stops the fall but adds no substrate or active sites, so the rate cannot climb.
Why: In the second tube P is carried away as soon as it forms.
So there is no P to turn back into S.
So the enzyme keeps converting S at close to its initial rate until little S is left.
In a sealed tube an enzyme converts substrate S into product P, and the amount of P stops rising with 25% of the S left. A second tube is the same, but P is carried away as soon as it forms.
What happens to the S in the second tube?
- A. It stops at 25% remaining, as in the sealed tubeWith P carried away, there is no P to turn back into S.
- B. ✓ It is converted until almost all of it is used up
Why: In the second tube P is carried away as soon as it forms.
So there is no P to turn back into S.
So the enzyme keeps converting S until almost all of it is used up.
Back to the two tubes, each with 20 μmol of substrate S, tube H with twice the enzyme concentration of tube L. Tube H’s initial rate is higher, because tube H has twice as many active sites.
Both tubes end with the same 20 μmol of P, because every P molecule was an S molecule first. More enzyme makes the same product sooner, not more product.
69Mixed practice mixed practice
Tube H holds twice as much enzyme as tube L; both hold 20 μmol of substrate.
Which tube makes more product in the end?
- A. Tube HEvery product molecule was a substrate molecule first, and both tubes hold the same substrate.
- B. Tube LTube L has fewer active sites, so it is slower at the start; it still converts all its substrate.
- C. ✓ Neither: both make the same
Why: The substrate sets the final amount of product.
Tube H has more active sites, so it converts its substrate sooner, not into more.
Tube 2 has a higher dose of lipase than tube 1; both hold the same fat.
Which tube reaches its final amount of product first?
- A. Tube 1More lipase is more active sites, so tube 2 converts its fat sooner.
- B. ✓ Tube 2
Why: More enzyme means more active sites.
So substrate finds a free site more often, and tube 2 gets to the same final amount sooner.
In a sealed tube, glucose isomerase converts glucose into fructose. After an hour the amount of fructose has stopped rising, though some glucose remains.
Why has the fructose stopped rising?
- A. The glucose isomerase molecules have all been used up by the reactionA catalyst is never used up.
- B. The remaining glucose molecules no longer reach the glucose isomerase’s active sitesThe remaining glucose still reaches the active sites.
- C. ✓ Fructose is turned back into glucose as fast as glucose is converted
Why: Glucose isomerase lowers the activation energy in both directions.
The tube is sealed, so the fructose stays in with the glucose isomerase.
As the fructose builds up, more of it is turned back into glucose.
After an hour the two rates are equal, so the fructose stays level.
A student doubles the enzyme concentration with the substrate concentration fixed.
What happens to the initial rate?
- A. ✓ It doubles
- B. It stays the sameTwice the enzyme is twice the active sites, so substrate finds a free site twice as often.
- C. It halvesMore enzyme never lowers the rate.
Why: Twice the enzyme is twice the number of active sites.
So a substrate molecule lands in an empty active site twice as often.
So the initial rate doubles.
In a sealed tube an enzyme converts substrate S into product P. The amount of P has leveled off with S left.
Why does the amount of P stay level?
- A. ✓ P is being made and unmade at equal rates
- B. The enzyme has been used upA catalyst is never used up.
- C. The S has all goneSubstrate is left in the tube: the question says the product leveled off with substrate left.
Why: The tube is sealed, so the P stays in with the enzyme.
As P built up, more of it was turned back into S.
Now P is turned back into S as fast as S is turned into P, so the amount of P stays level.
A student says: “If the product is carried away as it forms, the enzyme will make more product than the substrate can supply.”
Is the student correct?
- A. YesEvery product molecule was a substrate molecule first, however the product is handled.
- B. ✓ No
Why: Carrying the product away keeps the reaction going forward at close to its initial rate.
But every product molecule was a substrate molecule first.
So the substrate still sets the final amount of product.
In a liver cell, enzyme 1 converts substrate S into product P. Enzyme 2 uses P as its substrate as soon as P forms, so P never builds up in the cell.
(a) Explain how the action of enzyme 2 keeps enzyme 1 converting S at close to its initial rate. (1 pt)
Enzyme 2 uses P as soon as P forms.
So P never builds up around enzyme 1.
So no P is turned back into S, and enzyme 1 keeps converting S at close to its initial rate.
- Award 1 point for: enzyme 2 removes P as it forms, so P does not build up and none is turned back into S; enzyme 1 keeps converting S at close to its initial rate.
Glossary
- initial rate
- The rate of a reaction measured at the very start, before any product has built up to be turned back into substrate.
APBIO-U03-L09 Blocking the door
Here is a liver enzyme. A researcher adds a drug shaped almost exactly like the enzyme’s substrate. The drug sits in the active site.
The enzyme’s rate halves, from 48 to 24 nmol of product a minute. Then the researcher raises the substrate concentration from 2 μM to 20 μM. Without the drug, the enzyme’s rate at 20 μM is 92 nmol/min. With the drug still present, the rate is 84 nmol/min. Why does extra substrate undo the drug?
Unit 3 · Cellular Energetics
1A molecule that slows an enzyme
How can a drug slow an enzyme? And how can more substrate undo it?
Here is the whole answer, in three steps:
- A molecule that binds an enzyme and lowers its rate is called an inhibitor.
- A drug shaped like the substrate sits in the active site for a while. While the drug is there, the substrate cannot enter.
- Add more substrate, and the substrate reaches the active site more often than the drug. So the rate comes back.
An enzyme makes a certain amount of product each minute.
What is that amount a measure of?
- A. The enzyme’s activation energyThe activation energy is the energy a collision must carry; the product made each minute is the rate.
- B. ✓ The enzyme’s rate
Why: An enzyme’s rate is the product it makes each minute.
The substrate binds at the active site.
Here is a liver enzyme at work. Each minute it makes 48 nmol of product.
The enzyme makes 48 nmol of product a minute.
What is 1 nmol?
- A. ✓ A billionth of a mole
- B. A millionth of a moleA millionth of a mole is a micromole, μmol.
- C. A thousandth of a moleA thousandth of a mole is a millimole, mmol.
Why: nano- means a billionth.
So 1 nmol is a billionth of a mole.
A researcher adds a drug shaped almost exactly like the substrate. The enzyme now makes 24 nmol a minute: half the rate.
The drug bound to the enzyme and lowered its rate. An enzyme’s rate is also called its activity, and the exam uses both words.
A molecule that binds to an enzyme and lowers its rate is called an , because it inhibits, that is, holds back, the enzyme’s work.
Many medicines and many poisons work exactly this way: each one binds to a particular enzyme and slows it.
What you are expected to know Recognize an enzyme inhibitor from what it does: it binds to an enzyme and lowers the enzyme’s rate.
Video: Watch: A molecule that slows an enzyme
The liver enzyme makes 48 nmol of product a minute. A drug shaped like the substrate binds in its active site, and the enzyme makes 24 nmol a minute. A molecule that binds an enzyme and lowers its rate is an inhibitor.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L09a.mp4
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A researcher tests a stream enzyme in two mixtures that differ only in dissolved copper ions. The rate is 42 μmol/min with no copper and 17 μmol/min with copper.
Which of the following best describes the copper ions?
- A. A substrateA substrate is changed into product by the enzyme; the copper ions lowered the rate instead.
- B. A productA product is what the enzyme makes; the copper ions were added, and they lowered the rate.
- C. ✓ An inhibitor
Why: The copper ions were the only difference between the two mixtures.
The rate fell from 42 to 17 μmol/min.
So the copper ions bound the enzyme and lowered its rate.
A molecule that does this is called an inhibitor.
15Quick quiz: inhibitor mixed practice
What is an enzyme inhibitor?
- A. A molecule that the enzyme changes into productThe molecule the enzyme changes into product is the substrate.
- B. ✓ A molecule that binds to an enzyme and lowers its rate
- C. A molecule that binds to an enzyme and raises its rateAn inhibitor holds the enzyme back: the enzyme’s rate falls, not rises.
Why: An inhibitor binds to an enzyme.
The enzyme’s rate falls.
So an enzyme inhibitor is a molecule that binds to an enzyme and lowers its rate.
Many medicines are enzyme inhibitors.
(a) State what an enzyme inhibitor does to the enzyme it binds. (1 pt)
- Award 1 point for: it lowers (slows, holds back) the enzyme’s activity or rate.
18Blocking the door: competitive inhibitors
Here is a drawing of the liver enzyme with the drug in its active site and two substrate molecules outside.
The drug and the substrate have almost the same shape. So the drug fits the active site.
While the drug sits in the active site, the substrate cannot bind there. So that enzyme molecule makes no product.
The drug does not stay. The drug comes and goes, and each time the drug leaves, either a substrate or another drug molecule takes the empty site.
So the two kinds of molecule compete for the same door, and whichever reaches an empty active site first gets in.
An inhibitor that resembles the substrate and binds, for a while, at the active site is called a , because it competes with the substrate for the same site.
A competitive inhibitor comes and goes; it does not destroy the enzyme.
What you are expected to know Explain how a competitive inhibitor slows a reaction.
Video: Watch: Blocking the door
The drug and the substrate side by side, almost the same shape. The drug sits in the active site for a while, then leaves, and a substrate or another drug molecule takes the empty site: the two compete for the same door.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L09b.mp4
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A drug shaped almost exactly like an enzyme’s substrate slows the enzyme.
Where does the drug bind?
- A. ✓ In the enzyme’s active site
- B. On the substrateThe drug binds the enzyme, not the substrate; the drug fits the active site because it is shaped like the substrate.
- C. At a second site on the enzyme, on its sideThe drug is shaped like the substrate, so the drug fits the active site itself.
Why: The drug is shaped almost exactly like the substrate.
The substrate fits the active site.
So the drug fits the active site too, and binds there.
A drug shaped like an enzyme’s substrate lowers the enzyme’s rate. When the drug is washed out, the rate returns to normal. A student says: “The drug destroys every enzyme molecule it binds, so those molecules are finished for good.”
Which of the following statements about the student’s claim is correct?
- A. The student is correct: a bound enzyme molecule is destroyedThe drug comes and goes; each time the drug leaves, that enzyme molecule binds substrate again.
- B. ✓ The student is wrong: the drug sits in the active site for a while, then leaves
- C. The student is wrong: the drug stays in the active site for good, but the enzyme is not destroyedThe drug does not stay; the drug leaves the active site, and a substrate or another drug molecule takes the empty site.
Why: The drug is a competitive inhibitor.
A competitive inhibitor sits in the active site for a while, then leaves.
Each time the drug leaves, the enzyme molecule can bind substrate again.
So the enzyme is not destroyed.
30Quick quiz: competitive inhibitor mixed practice
What is a competitive inhibitor?
- A. An inhibitor that binds the substrate so the substrate cannot reach the enzymeA competitive inhibitor binds the enzyme, at its active site, not the substrate.
- B. An inhibitor that destroys the enzyme molecule it binds, so that molecule never works againA competitive inhibitor comes and goes; the enzyme is not destroyed.
- C. ✓ An inhibitor that resembles the substrate and binds, for a while, at the active site
Why: A competitive inhibitor resembles the substrate.
So it fits the active site and binds there for a while.
It competes with the substrate for that site: a competitive inhibitor.
A cancer drug is a competitive inhibitor of an enzyme in fast-dividing cells.
(a) Explain why this drug is called a competitive inhibitor. (1 pt)
So the drug binds at the active site for a while.
While the drug sits there, the substrate cannot bind.
So the drug and the substrate compete for the same active site.
- Award 1 point for: the drug resembles the substrate and binds at the active site, so it competes with the substrate for that site.
33More substrate brings the rate back
The substrate concentration in the tube is 2 μM.
What is 1 μM?
- A. 1 millimole of substrate in each liter of solution1 millimole in each liter is 1 mmol/L, a thousand times more concentrated than 1 μM.
- B. ✓ 1 micromole of substrate in each liter of solution
- C. 1 micromole of substrate in the whole tubeA concentration is an amount in each liter of solution, whatever the tube holds.
Why: μM is short for micromoles per liter.
So 1 μM is 1 micromole of substrate in each liter of solution.
Here is a drawing of the same enzyme at two substrate concentrations, 2 μM and 20 μM, with the same amount of drug in each.
With 2 μM of substrate, the drug wins often. The rate halves, 48 to 24 nmol/min.
With 20 μM of substrate, the substrate wins almost every time. The rate falls only from 92 to 84 nmol/min.
When substrate molecules far outnumber drug molecules, a substrate reaches the empty active site almost every time, and the drug barely matters.
A competitive inhibitor comes and goes; it does not destroy the enzyme, so more substrate restores the rate.
What you are expected to know Explain why raising the substrate concentration brings the rate back when a competitive inhibitor is present.
Video: Watch: More substrate brings the rate back
The same enzyme at 2 μM and at 20 μM of substrate, the same drug in each. At 2 μM the drug wins often and the rate halves; at 20 μM a substrate reaches the empty active site almost every time and the rate is nearly back to normal.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L09c.mp4
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A tube holds a liver enzyme, its substrate and a drug shaped like the substrate. The drug has halved the rate. A researcher raises the substrate concentration tenfold.
Which of the following happens to the rate?
- A. It falls furtherMore substrate means a substrate molecule reaches each empty active site more often, so the drug wins less often.
- B. It stays halvedThe drug comes and goes, and with far more substrate present a substrate molecule takes the empty site almost every time.
- C. ✓ It rises toward the rate with no drug
Why: The drug and the substrate compete for the same active site, and the drug comes and goes.
When the substrate concentration is raised tenfold, substrate molecules far outnumber drug molecules.
So a substrate molecule reaches each empty active site almost every time.
So the rate rises back toward normal.
A tube holds a liver enzyme, its substrate and a drug shaped like the substrate. The drug has halved the rate. A researcher raises the substrate concentration tenfold, and the rate rises toward the rate with no drug.
(a) Explain why raising the substrate concentration brings the rate back up. (1 pt)
The drug comes and goes.
Each time the drug leaves, a substrate or another drug molecule takes the empty site, so the two compete for the same site.
When the researcher raises the substrate concentration, substrate molecules far outnumber drug molecules.
So a substrate molecule reaches each empty active site almost every time.
So the rate rises toward the rate with no drug.
- Award 1 point for: the drug and the substrate compete for the same active site and the drug comes and goes, so when substrate molecules far outnumber drug molecules a substrate takes each empty site almost every time and the rate returns.
Back to the liver enzyme and the drug shaped like its substrate. At 2 μM of substrate, the drug halved the rate, 48 to 24 nmol/min.
At 20 μM of substrate, the rate fell only from 92 to 84 nmol/min.
Substrate molecules far outnumbered drug molecules, so a substrate took each empty active site almost every time. The drug was outcompeted.
47Mixed practice mixed practice
Ibuprofen binds to an enzyme in your cells that makes a pain signal, and the enzyme’s rate falls.
Which of the following best describes ibuprofen’s effect on this enzyme?
- A. ✓ An inhibitor
- B. A substrateA substrate is turned into product; ibuprofen binds and lowers the rate.
- C. A productA product is what the enzyme makes; ibuprofen is added from outside and lowers the rate.
Why: Ibuprofen binds to the enzyme.
The enzyme’s rate falls.
A molecule that binds to an enzyme and lowers its rate is called an inhibitor.
Many medicines work this way.
A molecule from green tea slows an enzyme in the stomach lining. With a little substrate present, the molecule cuts the rate from 30 to 12 units. With a lot of substrate present, the molecule cuts the rate only from 88 to 82 units.
Which of the following is the green-tea molecule doing?
- A. Destroying enzyme molecules for goodDestroyed enzyme molecules would stay destroyed however much substrate was added, yet with a lot of substrate the rate is almost back to normal.
- B. Unfolding the enzyme so the active site loses its shapeAn unfolded active site would stay useless, but extra substrate brought the rate back to 82 of 88.
- C. ✓ Sitting in the active site for a while, then leaving
Why: With a lot of substrate the rate is almost back to normal: 82 of 88 units.
So the substrate pushes the green-tea molecule aside: the two compete for the active site.
The green-tea molecule sits in the active site for a while, then leaves: it is a competitive inhibitor.
Glossary
- inhibitor (enzyme inhibitor)
- A molecule that binds to an enzyme and lowers its rate (its activity). Many drugs and poisons act this way.
- competitive inhibitor
- An inhibitor that resembles the substrate and binds, for a while, at the active site, blocking the substrate while it sits there. Because it comes and goes, raising the substrate concentration restores the rate.
APBIO-U03-L09B Bending the frame
Here is an insect enzyme with a pesticide stuck to its side.
A pesticide that looks nothing like any substrate halves an insect enzyme’s rate, from 96 to 48 nmol/min. A researcher raises the substrate concentration from 5 μM to 5,000 μM. At every concentration the rate stays at half. Why does extra substrate not undo this inhibitor?
Unit 3 · Cellular Energetics
1Bending the frame: noncompetitive inhibitors
Why does a flood of substrate rescue an enzyme from one inhibitor and not from another?
Here is the whole answer, in three steps:
- Some inhibitors bind the enzyme at a second site, away from the active site. When an inhibitor binds there, the enzyme’s shape changes. So the active site no longer fits its substrate well.
- The substrate is not competing for that second site. So adding substrate cannot push the inhibitor off.
- The rate at the highest substrate concentration tells you which kind of inhibitor you have.
A drug shaped like an enzyme’s substrate sits in the active site for a while, then leaves.
Which of the following is the drug?
- A. ✓ A competitive inhibitor
- B. A substrateA substrate is changed into product; the drug only blocks the active site while it sits there.
Why: The drug competes with the substrate for the active site, so it is a competitive inhibitor.
Here is a drawing of the insect enzyme with the pesticide bound.
The pesticide is nothing like the substrate. So the pesticide never enters the active site.
The pesticide binds to the enzyme at a different place, on its side.
This enzyme is a chain of amino acids folded into one particular shape, with its active site on the surface.
What holds the enzyme’s fold in place?
- A. ✓ Hydrogen bonds and other weak interactions between R groups
- B. The covalent peptide bonds of the backboneThe peptide bonds join the chain end to end; the weak interactions between parts of the chain hold most of its fold.
Why: Hydrogen bonds and other weak interactions between parts of the chain hold most of the enzyme’s fold.
The pesticide binds to R groups on the enzyme’s surface.
So the weak interactions between those R groups and their neighbours change.
So the fold shifts, and the active site changes shape with it.
The substrate now fits the bent active site poorly, or not at all. So the enzyme works slowly or stops.
A site on an enzyme other than the active site, where a molecule can bind, is called an , because allo- means ‘other’: it is the enzyme’s other site.
An inhibitor that binds at an allosteric site and changes the enzyme’s shape so that the active site works poorly is called a , because it never competes with the substrate for the active site.
What you are expected to know Explain how a noncompetitive inhibitor slows a reaction from a site other than the active site.
Video: Watch: Bending the frame
The pesticide binds the insect enzyme on its side, away from the active site. Its binding shifts the enzyme’s fold, the active site bends, and the substrate no longer fits. That side site is an allosteric site; the pesticide is a noncompetitive inhibitor.
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A molecule binds an insect enzyme at an allosteric site.
What happens to the enzyme’s active site?
- A. It is blocked by the moleculeThe molecule binds at the allosteric site, away from the active site, so the molecule does not block the active site.
- B. ✓ It changes shape
- C. Nothing: the molecule is not in the active siteThe molecule’s binding shifts the enzyme’s fold, and the active site changes shape with the fold.
Why: The molecule binds at the allosteric site.
Its binding shifts the enzyme’s fold.
The active site is part of that fold.
So the active site changes shape.
A pesticide halves an insect enzyme’s rate at every substrate concentration tested, from 5 μM to 5,000 μM. A student says: “The pesticide halves the rate, so it must be blocking the active site.”
Which of the following statements about the student’s claim is correct?
- A. The student is correct: only a blocked active site halves a rateA molecule bound away from the active site can also halve the rate, by bending the active site out of shape.
- B. The student is wrong: the pesticide sits in the active site, so more substrate will restore the rateThe rate stays halved even at 5,000 μM, so extra substrate does not restore it.
- C. ✓ The student is wrong: the pesticide binds an allosteric site and bends the active site
Why: The rate stays halved at every substrate concentration, up to 5,000 μM.
That much substrate would outcompete a molecule blocking the active site.
So the pesticide binds at an allosteric site, not the active site.
Its binding shifts the enzyme’s fold, so the active site changes shape and works poorly.
19Quick quiz: allosteric site and noncompetitive inhibitor mixed practice
What is an allosteric site?
- A. ✓ A site on an enzyme other than the active site, where a molecule can bind
- B. The site on an enzyme where the substrate binds and is changed into productThe site where the substrate binds is the active site.
- C. A site on the substrate where the enzyme binds to it and changes itAn allosteric site is on the enzyme, not on the substrate.
Why: Allo- means ‘other’.
So an allosteric site is the enzyme’s other site: a site other than the active site, where a molecule can bind.
What is a noncompetitive inhibitor?
- A. An inhibitor that binds at the active site for a while, then leavesAn inhibitor that binds at the active site competes with the substrate: a competitive inhibitor.
- B. An inhibitor that binds the substrate so the substrate cannot reach the enzymeA noncompetitive inhibitor binds the enzyme, at an allosteric site.
- C. ✓ An inhibitor that binds at an allosteric site and changes the enzyme’s shape
Why: A noncompetitive inhibitor binds at an allosteric site.
Its binding changes the enzyme’s shape, so the active site works poorly.
It never competes with the substrate for the active site: noncompetitive.
A molecule in a snake’s venom is a noncompetitive inhibitor of an enzyme in muscle.
(a) State where the venom molecule binds. (1 pt)
- Award 1 point for: an allosteric site (a site other than the active site).
(b) Explain how the venom molecule lowers the enzyme’s rate. (1 pt)
The active site changes shape with the fold.
So the substrate fits the active site poorly.
So the enzyme works slowly.
- Award 1 point for: binding at the allosteric site changes the enzyme’s shape, so the active site works poorly (the substrate fits poorly).
23More substrate does not help
The researcher raises the substrate concentration to 5,000 μM.
What is 1 μM?
- A. ✓ 1 micromole of substrate in each liter of solution
- B. 1 millimole of substrate in each liter of solution1 millimole in each liter is 1 mmol/L, a thousand times more concentrated than 1 μM.
Why: μM is short for micromoles per liter.
So 1 μM is 1 micromole of substrate in each liter of solution.
Here is a drawing of the insect enzyme at two substrate concentrations, 5 μM and 5,000 μM, with the pesticide bound in both.
The substrate binds only at the active site. The pesticide binds only at the allosteric site.
So the substrate and the pesticide are not competing for the same place.
So adding more substrate cannot push the pesticide off. The active site stays bent.
Here is a table of the insect enzyme’s rates with and without the pesticide, from 5 μM to 5,000 μM of substrate. At every substrate concentration tested, the rate stayed at half.
What you are expected to know Explain why raising the substrate concentration leaves the rate lowered when a noncompetitive inhibitor is present.
Video: Watch: More substrate does not help
The insect enzyme at 5 μM and at 5,000 μM of substrate, the pesticide bound in both. The substrate binds only at the active site and the pesticide only at the allosteric site, so a flood of substrate cannot push the pesticide off: the rate stays at half.
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A molecule binds a yeast enzyme at a site away from the active site and changes the enzyme’s shape. A researcher raises the substrate concentration step by step in two sets of tubes, one set with the molecule added and one set lacking it.
Which of the following is the rate in the tubes with the molecule, compared with the tubes lacking it?
- A. Lower only at low substrate concentrationsSubstrate can outcompete a molecule only when both bind the same site; this molecule binds elsewhere, so extra substrate does not push it off.
- B. Lower only at high substrate concentrationsEven at low substrate the bent active site works poorly, and raising the substrate does not straighten it.
- C. The same at every substrate concentrationAn empty active site is not a working one here: the molecule bends the enzyme’s fold, and the active site changes shape with it.
- D. ✓ Lower at every substrate concentration
Why: The molecule binds at an allosteric site and bends the enzyme, so the active site works poorly.
The substrate binds only at the active site, so it never competes with the molecule for the allosteric site.
So more substrate cannot push the molecule off, and the rate stays lower.
A molecule binds a yeast enzyme at a site away from the active site and changes the enzyme’s shape. The rate is lower at every substrate concentration, however much substrate the researcher adds.
(a) Explain why the rate stays lowered when the researcher adds more substrate. (1 pt)
The molecule’s binding shifts the enzyme’s fold.
So the active site changes shape, and the substrate fits poorly.
The substrate binds only at the active site.
So the substrate never competes with the molecule for the allosteric site.
So adding more substrate cannot push the molecule off, and the active site stays bent.
So the rate stays lowered.
- Award 1 point for: the molecule binds at an allosteric site (away from the active site) and changes the enzyme’s shape so the active site works poorly; the substrate does not compete for that site, so extra substrate cannot displace the molecule.
A poison binds a nerve enzyme at an allosteric site. A doctor gives the patient extra substrate for that enzyme.
Which of the following is the enzyme’s rate after the extra substrate?
- A. RestoredThe substrate and the poison do not compete for the same site, so extra substrate cannot push the poison off.
- B. ✓ Still lowered
Why: The poison binds at an allosteric site and bends the enzyme, so the active site works poorly.
The substrate binds only at the active site.
So the substrate never competes with the poison for its site.
So extra substrate cannot push the poison off, and the rate stays lowered.
35Which kind? Read the rates
Here is a table of an enzyme’s rates with and without an inhibitor, as the substrate concentration rises from 1 to 8 mmol/L.
At the highest substrate concentration, 8 mmol/L, the inhibited rate is 36 μmol/min against 40 μmol/min without the inhibitor.
The inhibited rate has nearly caught up. So extra substrate restored the rate.
This inhibitor is competitive.
Now back to the insect enzyme and its pesticide. Here is a table of its rates with and without the pesticide, as the substrate concentration rises from 5 μM to 5,000 μM.
At the highest substrate concentration, 5,000 μM, the inhibited rate is 48 nmol/min against 96 nmol/min without the inhibitor.
The inhibited rate is still half. So extra substrate did not restore the rate.
This inhibitor is noncompetitive.
Here is a table comparing the two kinds of inhibitor: where each binds, its shape, what extra substrate does to it, and the rate at the highest substrate concentration.
To decide which kind you have, look at the highest substrate concentration. Compare the rate with the inhibitor to the rate without it.
What you are expected to know Classify an inhibitor as competitive or noncompetitive from rates with and without it at rising substrate concentrations.
Video: Watch: Which kind? Read the rates
Two rate tables. In the first the inhibited rate nearly catches up at the highest substrate concentration: competitive. In the second the inhibited rate is still half at the highest concentration: noncompetitive.
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Here are the rates of an enzyme from a mold alone and with a molecule added, equal enzyme in every tube.
Which of the following is the molecule?
- A. A competitive inhibitorAt the highest concentration, 1,000 μM, the inhibited rate is 42 nmol/min against 84: still half.
- B. ✓ A noncompetitive inhibitor
Why: Look at the highest substrate concentration, 1,000 μM.
The inhibited rate is 42 nmol/min against 84 without the molecule, still half.
So extra substrate did not restore the rate.
So the molecule is a noncompetitive inhibitor.
Here are the rates of a bacterial enzyme alone and with an antibiotic added, equal enzyme in every tube.
Which of the following is the antibiotic?
- A. ✓ A competitive inhibitor
- B. A noncompetitive inhibitorAt the highest concentration, 128 μM, the inhibited rate is 63 nmol/min against 66: the gap has almost closed.
Why: Look at the highest substrate concentration, 128 μM.
The inhibited rate is 63 nmol/min against 66 without the antibiotic.
So extra substrate restored the rate.
So the antibiotic is a competitive inhibitor.
Here are the rates of a fungal enzyme alone and with a fungicide added, equal enzyme in every tube.
Which of the following is the fungicide?
- A. A competitive inhibitorAt the highest concentration, 320 μM, the inhibited rate is 42 nmol/min against 84: still half.
- B. ✓ A noncompetitive inhibitor
Why: Look at the highest substrate concentration, 320 μM.
The inhibited rate is 42 nmol/min against 84 without the fungicide, still half.
So extra substrate did not restore the rate.
So the fungicide is a noncompetitive inhibitor.
Here are the rates of a heart enzyme alone and with a drug added, equal enzyme in every tube.
Which of the following is the drug?
- A. ✓ A competitive inhibitor
- B. A noncompetitive inhibitorAt the highest concentration, 30 mmol/L, the inhibited rate is 68 μmol/min against 70: the gap has almost closed.
Why: Look at the highest substrate concentration, 30 mmol/L.
The inhibited rate is 68 μmol/min against 70 without the drug.
So extra substrate restored the rate.
So the drug is a competitive inhibitor.
Here are the rates of a liver enzyme alone and with a cholesterol-lowering drug added, equal enzyme in every tube.
Which of the following is the drug?
- A. ✓ A competitive inhibitor
- B. A noncompetitive inhibitorAt the highest concentration, 32 mmol/L, the inhibited rate is 58 μmol/min against 60: the gap has almost closed.
Why: Look at the highest substrate concentration, 32 mmol/L.
The inhibited rate is 58 μmol/min against 60 without the drug.
So extra substrate restored the rate.
So the drug is a competitive inhibitor.
Here are the rates of an aphid enzyme alone and with an insecticide added, equal enzyme in every tube.
Which of the following is the insecticide?
- A. A competitive inhibitorAt the highest concentration, 250 μM, the inhibited rate is 22 nmol/min against 66: still a third.
- B. ✓ A noncompetitive inhibitor
Why: Look at the highest substrate concentration, 250 μM.
The inhibited rate is 22 nmol/min against 66 without the insecticide, still a third.
So extra substrate did not restore the rate.
So the insecticide is a noncompetitive inhibitor.
An enzyme extracted from pond algae was tested at four substrate concentrations, with and without a fixed amount of a molecule Q. Enzyme amount, temperature and pH were the same in every tube. The rates are in the table.
(a) Make a claim about the kind of inhibitor Q is. (1 pt)
- Award 1 point for: the claim that Q is a noncompetitive inhibitor. Make a claim earns the point for the assertion; the reasoning is scored in (b).
Slip Calling Q competitive because the rate with Q does rise as the researcher adds substrate. Both kinds of inhibited rate rise; the question is whether it catches up.
(b) Support your claim using the data. (1 pt)
The rate with Q is still well below the rate without Q.
So raising the substrate did not restore the rate.
So Q cannot be competing with the substrate for the active site.
- Award 1 point for: the evidence (at high substrate, 20 or 50 mmol/L, the rate with Q stays far below the rate without it, about 38 against 94) AND the reasoning that links it to the claim: more substrate does not restore the rate, so Q is not competing with the substrate for the active site.
- Accept: any comparison of the two rates at the highest concentration that names both numbers or the fraction.
Slip Quoting only the low-concentration rates (7 against 18). Both kinds of inhibitor cut the rate at low substrate; the deciding comparison is at the highest concentration.
(c) Explain, in terms of where Q binds, why raising the substrate concentration had the effect on the rate that the data show. (1 pt)
Q’s binding changes the enzyme’s shape.
So the active site works poorly.
The substrate binds only at the active site.
So the substrate never competes with Q for Q’s site.
So adding more substrate cannot push Q off, and the active site stays bent.
- Award 1 point for: Q binds at an allosteric site (away from the active site) and changes the enzyme’s shape so the active site works poorly; substrate does not compete for that site, so extra substrate cannot displace Q.
Slip Saying Q blocks the active site. If it did, extra substrate would outcompete it and the rate would climb back toward 94.
(d) A different molecule, Z, is a competitive inhibitor of this same enzyme. Predict, roughly, the rate at 50 mmol/L of substrate with a fixed amount of Z present, and justify your prediction. (1 pt)
Z is a competitive inhibitor, so Z sits in the active site only for a while and then leaves.
At 50 mmol/L the substrate molecules far outnumber the Z molecules.
So a substrate molecule reaches each empty active site almost every time.
So Z barely lowers the rate.
- Award 1 point for: a rate close to 94 μmol/min (roughly 85 to 94), because at high substrate concentration the substrate outcompetes a competitive inhibitor for the active site.
Slip Predicting exactly 94 with no justification, or predicting a rate still around 38. The rate approaches the uninhibited rate because the substrate wins the competition for the active site, not because the inhibitor disappears.
Back to the insect enzyme and the pesticide that looks nothing like its substrate. At every substrate concentration from 5 μM to 5,000 μM, the pesticide halved the rate.
The pesticide never bound the active site. The pesticide bound an allosteric site and bent the active site out of shape.
So no amount of substrate could push the pesticide off.
Glossary
- allosteric site
- A binding site on an enzyme other than the active site.
- noncompetitive inhibitor
- An inhibitor that binds at an allosteric site and changes the enzyme’s shape so that the active site works poorly or not at all. Extra substrate does not restore the rate, because the substrate and the inhibitor do not compete for the same site.
APBIO-U03-P32 Practice questions: Topic 3.2a
Answer every question. For each multiple-choice question, pick one option and press Check; the feedback gives the reasoning. For the free-response questions, write one short sentence for each step of your reasoning, each on its own line, and make every link clear (so, because, therefore). That is what the exam’s ‘paragraph form’ means for you: linked sentences, not bullet points. The first free-response question walks you through the reasoning one part at a time, and you can open a hint for each part; the second and third are at the level of the test. When you finish a question, open the scoring guide and mark your own work against it. Where a question gives mean rates from repeated trials, it also tells you that the differences between conditions were larger than the variation between trials, so you can compare the means directly.
Video: Watch first: Topic 3.2a summary: everything around an enzyme
Temperature and pH act through collisions, charges and the fold; substrate, enzyme and product set how often an active site is filled; a competitive inhibitor binds the active site, a noncompetitive inhibitor an allosteric site.
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Amylase speeds up the reaction starch → maltose. A student adds mercury ions to a tube of purified amylase and starch at 25 °C and pH 7. The temperature and pH do not change, and the mercury ions take part in no reaction. The rate falls from 20 to 4 mg of maltose released per minute.
Which of the following explains how the mercury ions could lower the rate, and what measurement would confirm it?
- A. The mercury ions lower the temperature of the solution; a second thermometer reading of the tube would confirm itThe temperature stayed at 25 °C.
Fewer collisions each second would need a colder tube. - B. The mercury ions are turned into product in place of the starch; measuring the mercury ions left would confirm itThe mercury ions take part in no reaction, so they are not a substrate.
Only starch is turned into maltose. - C. The mercury ions pull the amylase's fold apart; the fall in rate on its own is enough to confirm that the fold changedA fallen rate shows only that the amylase worked more slowly, not why.
A count of how many molecules still hold their fold shows whether the fold changed. - D. ✓ The mercury ions disrupt the weak interactions that hold the fold; a folding test (a count of molecules still folded) would confirm it
Why: Metal ions can disrupt the weak interactions that hold an enzyme's fold, with temperature and pH unchanged.
The active site then loses its shape, so the rate falls.
The fall in rate alone does not show that the shape changed.
A count of molecules still folded shows it directly.
The graph shows the rate of the same kind of reaction catalyzed by two enzymes: one from a fish that lives in the icy seas around Antarctica and one from a desert lizard.
What is the optimal temperature of each enzyme, and what is happening to the Antarctic fish's enzyme at 35 °C?
- A. ✓ Antarctic fish 15 °C, lizard 40 °C; at 35 °C the fish's enzyme is denatured
- B. Antarctic fish 15 °C, lizard 40 °C; at 35 °C the fish's enzyme is slowed by too few collisionsAt 35 °C collisions are more frequent than at any lower temperature.
The rate is near zero because heat has disrupted the enzyme's fold, not because collisions are too few. - C. Antarctic fish 35 °C, lizard 40 °C; at 35 °C the fish's enzyme is at its optimumAt 35 °C the fish's enzyme's rate is almost zero, its lowest reading, not its greatest.
- D. Both 40 °C; at 35 °C the fish's enzyme is still warming toward its optimumThe two curves peak at different temperatures, 15 °C and 40 °C.
Different enzymes have different optimal temperatures.
Why: The optimal temperature is where the rate is greatest: about 15 °C for the fish's enzyme, 40 °C for the lizard's.
Different enzymes have different optimal temperatures.
At 35 °C the fish's enzyme is 20 °C above its optimal temperature.
So heat has disrupted its fold: the enzyme is denatured.
Papain, a protease from papaya fruit, speeds up the reaction protein → shorter pieces of protein. A student heats a sample of papain to 85 °C for 10 minutes and cools it to 25 °C. Afterwards the sample's rate is zero, and the rate stays at zero however long the sample is left.
Which of the following describes the papain molecules after the heating?
- A. Each chain of amino acids has been broken into separate amino acidsHeat at 85 °C does not break the covalent peptide bonds of the chain.
The chain is still there; only its fold is lost. - B. ✓ Each chain is still whole, but its fold has been lost, and the active site with it
- C. The papain has been used up as a reactant in the reactionAn enzyme is not a reactant, so it is not used up.
No protein was present while the sample was heated. - D. The papain molecules have stopped moving, so they no longer collide with proteinAt 25 °C the heated molecules move exactly as fast as unheated ones.
They collide with protein as often; the active site no longer fits it.
Why: Strong heat disrupts the weak interactions that hold the papain's fold.
The chain of amino acids stays whole, but the fold is lost.
The active site is part of the fold, so it loses its shape too.
The protein no longer fits: the papain is denatured.
Cola has a pH of about 3. Black tea has a pH of about 5.
How do the concentrations of hydrogen ions (H⁺) in the two drinks compare?
- A. The tea has a hundred times the concentration of hydrogen ions of the colaA lower pH means a higher concentration of hydrogen ions.
The cola, at pH 3, has the higher concentration. - B. The cola has two times the concentration of hydrogen ions of the teaThe pH scale is not a count of hydrogen ions.
Each step of one pH unit is a tenfold change, so two steps is not two times. - C. The cola has ten times the concentration of hydrogen ions of the teaFrom pH 5 to pH 3 is two steps.
Each step is tenfold, so two steps is a hundredfold. - D. ✓ The cola has a hundred times the concentration of hydrogen ions of the tea
Why: A lower pH means a higher concentration of hydrogen ions.
Each step of one pH unit is a tenfold change.
The cola is two pH units below the tea.
So the cola has a hundred times the concentration of hydrogen ions, as the working below shows.
A researcher tests an enzyme from a bacterium that lives in acidic mine water and an enzyme from a bacterium that lives in a soda lake. Both enzymes speed up the same kind of reaction. The researcher measures each enzyme's rate at 30 °C, with the same substrate concentration, at pH 3, 6 and 9. The rates are in the table.
Which of the following do the results support?
- A. Every enzyme works best near pH 7, so both enzymes give their greatest rate at pH 6, the value nearest to neutralNeither rate is greatest at pH 6: 9 and 11 μmol/min there, against 38 and 40 at the two ends.
- B. A lower pH always gives a higher rate, so both enzymes give their greatest rate at pH 3, the lowest value testedThe soda-lake enzyme's rate at pH 3 is 2 μmol/min, its lowest.
A lower pH does not help every enzyme. - C. ✓ Each enzyme's optimal pH matches where it works: about pH 3 for the mine enzyme, about pH 9 for the soda-lake enzyme
- D. Both enzymes share the same optimal pH, because both speed up the same kind of reaction on the same substrateThe mine enzyme's rate is greatest at pH 3 and the soda-lake enzyme's at pH 9.
Their optimal pH values differ.
Why: An enzyme's optimal pH is the pH at which its rate is greatest.
The mine enzyme's rate is greatest at pH 3; the soda-lake enzyme's at pH 9.
Different enzymes have different optimal pH values.
Each optimal pH matches where the enzyme works: acidic mine water, basic lake water.
A student gave a fixed amount of a purified enzyme its substrate at five concentrations, with temperature and pH the same in every tube. The initial rates are in the table.
Why does the rate rise steeply from 1 to 4 mmol/L of substrate, yet barely change from 8 to 16 mmol/L?
- A. From 1 to 4 mmol/L doubling the substrate doubles the rate; from 8 to 16 mmol/L the extra substrate has begun to denature the enzymeThe rate went 36, 44, 45 μmol/min: it leveled off at its highest value.
A denatured enzyme's rate falls, and substrate does not denature its own enzyme. - B. ✓ From 1 to 4 mmol/L added substrate molecules find empty active sites; by 8 mmol/L nearly every active site is already occupied all the time
- C. From 1 to 4 mmol/L the enzyme is still being made; by 8 mmol/L the extra substrate has used the enzyme upNothing in the tube makes enzyme, and an enzyme is not used up by its reaction.
All the enzyme is still there, simply busy. - D. From 1 to 4 mmol/L no product has built up yet; by 8 mmol/L product is being turned back into substrate as fast as it formsThese are initial rates, measured before any product has built up.
So no product is there to be turned back.
Why: With a fixed amount of enzyme, more substrate means substrate molecules reach empty active sites more often.
So from 1 to 4 mmol/L the rate rises steeply.
By 8 mmol/L nearly every active site is occupied all the time: the enzyme is saturated.
More substrate then barely raises the rate.
A weedkiller lowers the rate of a plant enzyme. In leaf extracts with equal amounts of the enzyme, the weedkiller cuts the rate to about half at every substrate concentration tested, from 2 μM to 2,000 μM.
Why does raising the substrate concentration leave the weedkiller's effect unchanged?
- A. The substrate and the weedkiller compete for the active site, and the weedkiller binds it more tightlyA molecule that competed for the active site would be outcompeted at high substrate concentrations.
The rate would then climb back toward the uninhibited value. - B. ✓ The weedkiller binds at an allosteric site, so more substrate cannot displace it
- C. More substrate denatures the enzyme, canceling any gain from the extra collisionsSubstrate does not denature its own enzyme.
Without the weedkiller the rate stays high at 2,000 μM. - D. The weedkiller has permanently denatured every enzyme molecule in the extractIf every enzyme molecule were denatured the rate would be near zero, not half.
Why: An effect that stays at half at every substrate concentration marks a noncompetitive inhibitor.
The weedkiller binds at an allosteric site and bends the enzyme, so the active site works poorly.
The weedkiller does not compete with the substrate, so raising the substrate concentration does not push it off.
In a closed tube, an enzyme speeds up the reaction fumarate → malate (two small molecules of the cell's energy pathway). After 40 minutes the amount of malate has stopped rising, though 33% of the fumarate remains. A sample of the enzyme taken from the tube converts fresh fumarate at its full initial rate.
Which change to the tube would keep the reaction going forward until all of the fumarate is converted?
- A. ✓ Removing malate from the tube as fast as it forms
- B. Adding more of the enzyme to the tubeThe enzyme is intact and working.
More enzyme would speed up both directions of the reaction equally. - C. Warming the tube to speed the molecules upWarming speeds up both directions of the reaction.
Warming does not remove the malate that is being turned back into fumarate, so the tube still stalls with fumarate left. - D. Sealing the tube more tightly so that nothing escapesNothing is escaping.
The malate kept in the tube is what is turned back into fumarate.
Why: The enzyme speeds up both directions, so the reaction goes backward too.
As malate builds up, more of it turns back into fumarate.
Malate levels off when it is made and unmade at equal rates.
Removing malate as it forms leaves none to turn back, so the enzyme keeps converting.
The graph shows the initial rate of an enzyme from a tapeworm (a gut parasite) at rising substrate concentrations, with and without a fixed amount of a new worm-killing drug. Enzyme amount, temperature and pH were the same in every tube.
Which kind of inhibitor is the drug, and what in the graph shows it?
- A. Competitive; the inhibited rate stays about half at every concentrationThe inhibited rate does not stay about half: at 1 mmol/L it is 4 against 12, and by 16 mmol/L it is 52 against 56.
The gap closes. - B. Noncompetitive; the inhibited rate nearly reaches the uninhibited rate at high substrate concentrationAn inhibited rate that catches up at high substrate is the mark of a competitive inhibitor, not a noncompetitive one.
- C. ✓ Competitive; the inhibited rate nearly reaches the uninhibited rate at high substrate concentration
- D. Noncompetitive; the inhibited rate stays about half at every concentrationAt 16 mmol/L the inhibited rate is 52 against 56 μmol/min, almost the same.
A noncompetitive inhibitor holds the rate well below at every concentration.
Why: A competitive inhibitor sits reversibly in the active site, so raising the substrate concentration outcompetes it.
Here the inhibited rate climbs from 4 against 12 at 1 mmol/L to 52 against 56 at 16 mmol/L.
A noncompetitive inhibitor's effect would stay at every concentration.
A results table lists an enzyme's rate as 30 nmol/min and its substrate concentration as 2 μM (micromoles per liter).
Which of the following states what 30 nmol/min means?
- A. 30 millionths of a mole of product formed each minuteThe prefix nano, written n, means a billionth.
Micro, written μ, means a millionth. - B. 30 nanometers moved by each product molecule every minutenmol is a nanomole, an amount of substance.
A nanometer, nm, is a length. - C. 30 billionths of a mole of product in each liter of solutionThe unit nmol/min has a time in it: per minute.
An amount per minute is a rate, not a concentration. - D. ✓ 30 billionths of a mole of product formed each minute
Why: The prefix nano, written n, means a billionth.
So a nanomole, nmol, is a billionth of a mole.
The /min means each minute.
So 30 nmol/min is 30 billionths of a mole of product formed each minute: a rate.
Amylase in saliva begins breaking starch down into the sugar maltose in the mouth: it speeds up the reaction starch → maltose. A student mixed a fixed amount of her own saliva with a starch solution at five temperatures, three trials at each, and measured the rate of maltose release. The table gives the mean rate at each temperature; the differences between temperatures were far larger than the variation between her three trials at any one temperature. She then brought the 65 °C tube down to 37 °C and measured 0.1 mg/min again, and brought the 10 °C tube up to 37 °C and measured 5.9 mg/min. The amylase's optimal pH is about 7.
(a) Identify the optimal temperature of the amylase among those tested. (1 pt)
Frame The optimal temperature is … °C, because …
Hint The optimal temperature is the temperature at which the enzyme's rate is greatest. Compare the rows before you answer.
- Award 1 point for: 37 °C, identified as the temperature at which the rate is greatest (6.0 mg/min).
- Accept 37 °C alone. Do not award the point for 65 °C (the hottest tube) or for 25 °C (the biggest jump from the reading before).
Slip Choosing the highest temperature tested, or the temperature with the biggest jump from the reading before it. The optimal temperature is where the rate itself is greatest.
(b) Explain why the rate at 37 °C is higher than the rate at 25 °C. (1 pt)
Frame At 37 °C the molecules …, so enzyme and starch …, so …
Hint Think about how an amylase molecule and a starch molecule have to collide before anything happens, and what warming changes about that.
So the amylase molecules and the starch molecules collide more often and with more energy.
More of those collisions carry at least the activation energy, so more collisions succeed each second.
Therefore the rate rises from 3.4 mg/min to 6.0 mg/min.
- Award 1 point for: warming makes the molecules move faster, so amylase and starch collide more often (or with more energy), so more collisions carry at least the activation energy and more succeed each second.
- Accept faster molecules and more frequent collisions, with the rate rising as the result. Do not award the point for "heat gives the enzyme energy" or "heat lowers the activation energy".
Slip Saying only that "heat speeds up reactions". The point needs the molecules moving faster and colliding more often, with more of the collisions succeeding.
(c) Explain, in terms of the enzyme's structure, why the rate at 65 °C is close to zero. (1 pt)
Frame At 65 °C the heat disrupts …, so the active site …, so …
Hint Think about what holds the amylase's fold together, and what the active site needs in order to hold starch.
So the active site loses its shape.
The starch no longer fits the active site, so the enzyme can no longer catalyze the reaction: the amylase is denatured.
Denaturation removes working enzymes faster than the extra collisions can help, so the rate is close to zero.
- Award 1 point for: the heat disrupts the hydrogen bonds (or other weak interactions) holding the amylase's fold, so the active site loses its shape and the starch no longer fits: the enzyme is denatured.
- Accept "denatured" together with the active site losing its shape. Do not award the point for "the peptide bonds break" or for "denatured" with nothing after it.
Slip Writing "the enzyme denatures" and stopping, or saying the heat breaks the chain into amino acids. Name what is disrupted, the weak interactions holding the fold. Then follow it to the active site and the substrate.
(d) Evaluate the claim that the 10 °C sample was slowed rather than denatured, using the results after both tubes were brought to 37 °C. (1 pt)
Frame The claim is …, because when the 10 °C tube was brought to 37 °C its rate …, whereas the 65 °C tube …
Hint Compare what each tube did when it was brought to 37 °C. What does a rate that returns tell you about the fold?
When the 10 °C tube was brought to 37 °C, its rate came back to 5.9 mg/min, almost the full 6.0 mg/min.
So its fold was never lost: the cold had only slowed its molecules.
The 65 °C tube stayed at 0.1 mg/min at 37 °C.
So its fold was lost, because heating that strong pulls the fold apart and it does not re-form.
Therefore the 10 °C sample was slowed, not denatured.
- Award 1 point for: the judgement (the claim is supported) AND the ground for it: at 37 °C the 10 °C tube released maltose at 5.9 mg/min, close to the full 6.0 mg/min, so its fold was never lost and the cold had only slowed it, whereas the 65 °C tube stayed at 0.1 mg/min, so its fold was lost and did not re-form.
- Evaluate needs the judgement and the ground for it. Do not award the point for 'supported' with no data, or for quoting the 10 °C rate alone with no comparison to the 65 °C tube.
Slip Giving the judgement without the ground, or the data without the judgement. Evaluate needs both: the claim is supported, because the 10 °C tube recovered and the 65 °C tube did not.
(e) Predict what happens to the amylase's rate when the saliva is swallowed into the stomach, where the pH is about 2, and justify your prediction. (1 pt)
Frame In the stomach the rate …, because the change in the concentration of hydrogen ions …
Hint Is pH 2 close to this enzyme's optimal pH or far from it? Which stage of the pH effect applies at that distance?
pH 2 is five units below the amylase's optimal pH of about 7, so the concentration of hydrogen ions is a hundred thousand times higher.
The changed concentration of hydrogen ions alters the charges on the R groups.
It also disrupts the hydrogen bonds and other weak interactions that hold the fold.
So the active site loses its shape, and the starch no longer fits.
The amylase is denatured.
- Award 1 point for: the rate falls to close to zero, because pH 2 is five units below the optimal pH: the far higher concentration of hydrogen ions (H⁺) alters the charges on the R groups and disrupts the weak interactions that hold the fold, so the active site loses its shape and the starch no longer fits (the amylase is denatured).
- Accept "denatured" with the active site losing its shape, or the two-stage account (charges in the active site changed, then the fold lost). Do not award the point for "the rate rises because there are more hydrogen ions to react" or for "lower" with no reason.
- Accept: the far higher concentration of hydrogen ions changes the charges on the R groups in the active site, so the starch no longer binds and the rate falls to close to zero, with or without the fold being named as lost.
Slip Predicting a faster rate because there are more hydrogen ions. Hydrogen ions do not take part in the reaction. They change the charges on the R groups and, this far from the optimal pH, pull the fold apart.
An enzyme from a yogurt bacterium digests milk protein: it speeds up the reaction milk protein → amino acids. A researcher measured its rate (mg of protein digested per minute) at 37 °C with the same protein concentration at five pH values; the rates are in the table. A fold test showed the enzyme's overall fold intact at pH 5 and at pH 6. The researcher then moved a sample to pH 8: its rate fell to 1 mg/min and the fold test found only 15% of its molecules folded normally. Returned to pH 5 for 30 minutes, the same sample digested protein at 38 mg/min and 92% of its molecules were folded normally.
(a) Determine the enzyme's optimal pH from the data, and describe how the rate changes on either side of it, using values. (1 pt)
On either side of pH 5 the rate falls.
Below pH 5 the rate falls to 30 mg/min at pH 4 and 8 mg/min at pH 3.
Above pH 5 the rate falls to 20 mg/min at pH 6 and 4 mg/min at pH 7.
- Award 1 point for: the decision (the optimal pH is 5) AND the observation it rests on (42 mg/min is the greatest rate in the table), with the fall on both sides described with values: 30 and 8 mg/min at pH 4 and 3; 20 and 4 mg/min at pH 6 and 7.
- Determine needs the decision and the observation it rests on. Accept 'about pH 5' with at least two values quoted for the fall. Do not award the point for pH 7 because it is neutral, or for an optimum with no values.
Slip Deciding on pH 7 because pH 7 is neutral, or naming pH 5 with no value to rest it on. Determine needs the decision and the reading it rests on: pH 5 gives 42 mg/min, the greatest rate.
(b) Explain why the rate at pH 6 is lower than at pH 5, given that the fold test shows the enzyme's overall fold intact at both. (1 pt)
The changed concentration of hydrogen ions alters the charges on the R groups in and around the active site.
So the milk protein's charges no longer match the pocket as well, and the milk protein binds less well.
Therefore the rate falls to 20 mg/min.
The fold as a whole is intact, so the enzyme is slowed by mismatched charges, not denatured.
- Award 1 point for: at pH 6 the concentration of hydrogen ions (H⁺) is lower than at pH 5, which alters the charges on the R groups in and around the active site, so the substrate's charges no longer match the pocket as well and it binds less well; the fold as a whole still holds, so this is not denaturation.
- Accept 'the changed concentration of hydrogen ions changes the charges in the active site so the protein binds less well'. Do not award the point for 'the enzyme is denatured at pH 6' (the fold test rules that out) or for 'fewer collisions'.
Slip Saying the enzyme is denatured at pH 6. The fold test shows the fold intact. Near the optimum it is the charges in the active site that change, not the shape of the whole protein.
(c) Explain what the results at pH 8 and after the return to pH 5 show about this enzyme. (1 pt)
Far from its optimal pH, the changed concentration of hydrogen ions disrupted the weak interactions holding the fold.
Back at pH 5, 92% of the molecules were folded again and the rate returned to 38 mg/min.
So the denaturation was reversible: the pH was restored before the unfolded chains tangled.
- Award 1 point for: at pH 8 the enzyme was denatured (only 15% folded, rate 1 mg/min), because far from the optimal pH the weak interactions holding the fold are disrupted and the active site loses its shape; the return of the fold (92%) and the rate (38 mg/min) at pH 5 shows that this denaturation was reversible: the disrupting condition was removed before the unfolded chains tangled, so the molecules refolded.
- Accept 'denatured at pH 8, but reversibly'. Do not award the point for 'the enzyme was destroyed and replaced' (no cell is present to make new enzyme) or for 'the enzyme was only slowed at pH 8' (the fold test shows the fold lost).
Slip Stopping at 'the enzyme was denatured at pH 8'. The point needs the second half: the fold and the rate came back at pH 5, so this denaturation was reversible.
(d) At pH 5, the amount of enzyme is doubled while the tube keeps the same 200 mg of milk protein. Predict how the initial rate and the final amount of protein digested will compare with the original tube, and justify your prediction. (1 pt)
Doubling the enzyme doubles the number of active sites the milk protein can bind to, so the protein is converted twice as fast at the start.
The final amount digested will be the same, 200 mg, because 200 mg is all the protein there is.
More enzyme gets to the end sooner, not further.
- Award 1 point for: the initial rate roughly doubles (about 84 mg/min), because there are twice as many active sites, but the final amount of protein digested is the same, 200 mg, because it is set by the substrate available, so the richer tube finishes sooner.
- Accept 'faster at first, same total in the end' with both reasons. Do not award the point for 'more protein is digested in the end' or for 'the rate is the same because the substrate is the same'.
Slip Predicting that more enzyme digests more protein in the end. The final amount is set by the substrate available. The enzyme changes only how quickly that amount is reached.
An enzyme from the gut of a locust speeds up the reaction sucrose → glucose + fructose. A molecule found in the leaves the locust eats, L, has almost the same shape as sucrose. A researcher measured the enzyme's rate (nmol of glucose per minute) at 30 °C with 5 μM of sucrose, once with no L and once with L present. The enzyme, the temperature and the pH were the same in both tests. The rates are in the table. With no L, the rate at 500 μM of sucrose is 90 nmol/min and rises no further with more sucrose.
(a) Explain how the results at 5 μM of sucrose show that L is an enzyme inhibitor. (1 pt)
The enzyme, the sucrose, the temperature and the pH are the same in both tests.
So the only change is the added L.
Therefore L binds to the enzyme and lowers its rate.
A molecule that binds to an enzyme and lowers its rate is an enzyme inhibitor.
- Award 1 point for: with L present the rate falls from 30 to 10 nmol/min while the enzyme, the sucrose concentration, the temperature and the pH are unchanged, so L must bind to the enzyme and lower its rate, which is what an enzyme inhibitor does.
- Accept the evidence (only L was added and the rate fell) with the conclusion that L binds the enzyme and lowers its rate (its activity). Do not award the point for "the rate falls" alone, or for "L destroys the enzyme" or "L uses up the sucrose".
Slip Writing "the rate falls, so L is an inhibitor" with no link to the enzyme. The point needs the evidence (only L changed) and the conclusion that L binds the enzyme and lowers its rate.
(b) Explain, using L's shape, why fewer sucrose molecules are converted each second when L is present. (1 pt)
So L fits into the active site and sits there for a while.
While L sits in the active site, no sucrose molecule can enter it.
So fewer sucrose molecules are converted each second, and the rate falls.
L is a competitive inhibitor.
- Award 1 point for: because L resembles sucrose, L fits into the active site and sits there for a while; while L is in the active site sucrose cannot enter, so fewer sucrose molecules are converted each second (L is a competitive inhibitor).
- Accept "L competes with sucrose for the active site". Do not award the point for "L changes the enzyme's shape" or "L binds elsewhere on the enzyme" (that is a noncompetitive inhibitor), or for "L is turned into product".
Slip Saying L "changes the enzyme's shape". A molecule shaped like the substrate acts by sitting in the active site itself. The point needs L in the active site, blocking sucrose while it is there.
(c) Predict the rate with L present at 500 μM of sucrose, and justify your prediction. (1 pt)
L leaves the active site after a while, so the active site is often empty.
At 500 μM there are a hundred times as many sucrose molecules as at 5 μM.
So a sucrose molecule reaches each empty active site far more often than L does.
L is outcompeted, and the rate rises close to the uninhibited rate.
- Award 1 point for: a rate close to 90 nmol/min (accept 80 to 90 nmol/min), because L comes and goes from the active site, and with a hundred times as much sucrose, sucrose molecules reach each empty active site far more often than L does, so L is outcompeted.
- Accept "close to the uninhibited rate" with the competition reasoning. Do not award the point for a rate near 30 nmol/min (a third, as at 5 μM) or for "L is used up" or "L is washed away".
Slip Predicting about 30 nmol/min, as at 5 μM. L does not hold a fixed share of the enzyme. With far more sucrose, the empty active site is filled by sucrose almost every time.
APBIO-U03-T32 End-of-topic test: Environmental Impacts
Answer every question. For each multiple-choice question, pick one option and press Check; the feedback gives the reasoning. For the two free-response questions, write one short sentence for each step of your reasoning, each on its own line, and make every link clear (so, because, therefore). That is what the exam’s ‘paragraph form’ means for you: linked sentences, not bullet points. Then open the scoring guide and mark your own work against it. Where a question gives mean rates from repeated trials, it also tells you that the differences between conditions were larger than the variation between trials, so you can compare the means directly.
The graph shows the rate of the same kind of reaction catalyzed by two enzymes, one from a mouse and one from a bacterium that lives in a compost heap.
What is the optimal temperature of each enzyme?
- A. Mouse 37 °C; bacterium 37 °CThe bacterial enzyme's rate is still rising at 37 °C.
The bacterial curve peaks near 75 °C.
Different enzymes have different optimal temperatures. - B. Mouse 25 °C; bacterium 75 °CAt 25 °C the mouse enzyme is on the rising part of its curve.
The mouse curve peaks at 37 °C. - C. ✓ Mouse 37 °C; bacterium 75 °C
- D. Mouse 37 °C; bacterium 90 °CAt 90 °C the bacterial enzyme's rate has fallen almost to zero.
The optimal temperature is the peak of the curve, not the highest temperature tested.
Why: An enzyme's optimal temperature is the temperature at which its rate is greatest: the peak of its curve.
The mouse enzyme's curve peaks at about 37 °C.
The bacterial enzyme's curve peaks at about 75 °C.
Different enzymes have different optimal temperatures.
Sucrase speeds up the reaction sucrose → glucose + fructose. A student holds a sample of sucrase at 78 °C for 20 minutes, cools the sample back to 37 °C and adds the sample to a sucrose solution. No glucose is released. A second sample of the same sucrase, kept at 37 °C throughout, releases glucose quickly.
What happened to the heated sucrase?
- A. The covalent bonds of the sucrase's amino-acid chain were broken, so the chain fell apartHeat at 78 °C does not break the covalent peptide bonds of the chain.
The amino-acid chain is still there.
Only the fold is lost. - B. ✓ The weak interactions holding the sucrase's fold were disrupted, so the active site lost its shape
- C. The sucrase was used up catalyzing the reaction while it was hotAn enzyme is not a reactant, so an enzyme is not used up.
Also, no sucrose was present while the sample was heated. - D. The sucrase molecules were still moving too slowly after cooling to collide with the substrateOnce the sample is cooled to 37 °C its molecules move exactly as fast as the molecules in the unheated sample.
The unheated sample works.
Why: Above the optimal temperature, heat disrupts the weak interactions that hold the fold.
So the active site loses its shape and the substrate no longer fits: the sucrase is denatured.
After strong heating the fold does not re-form on cooling, so the rate does not return.
Amylase speeds up the reaction starch → maltose. A student held four equal samples of amylase at 4, 25, 37 or 70 °C for 15 minutes. He measured each sample's rate twice: at its holding temperature, then after returning every sample to 37 °C. The table gives the rates in mg of maltose, a sugar, released per minute.
Which treatment denatured the amylase?
- A. 4 °CThe 4 °C sample's rate came back to 22 as soon as the sample was rewarmed.
So its fold was never lost.
Cold only slows an enzyme. - B. 25 °CThe 25 °C sample recovered fully to 22 at 37 °C.
A rate that returns on rewarming means the enzyme was slowed, not denatured. - C. 37 °C37 °C is this amylase's working temperature.
Its rate did not change at all. - D. ✓ 70 °C
Why: A denatured enzyme has lost its fold; after strong heating the fold does not re-form.
The 70 °C sample gave 0 before and 0 after being returned to 37 °C, so heat denatured it.
The cold samples were only slowed: their rates came back to 22 once rewarmed.
Plain yogurt has a pH of about 4. The water in a swimming pool has a pH of about 7.
How do the concentrations of hydrogen ions (H⁺) in the two liquids compare?
- A. The yogurt has three times the concentration of hydrogen ions of the pool waterThe pH scale is not a count of hydrogen ions.
Each step of one pH unit is a tenfold change, so three steps is not three times. - B. The yogurt has a hundred times the concentration of hydrogen ions of the pool waterFrom pH 7 to pH 4 is three steps.
Two steps would be a hundredfold; three steps is a thousandfold. - C. ✓ The yogurt has a thousand times the concentration of hydrogen ions of the pool water
- D. The pool water has a thousand times the concentration of hydrogen ions of the yogurtA lower pH means a higher concentration of hydrogen ions.
The yogurt, at pH 4, has the higher concentration.
Why: A lower pH means a higher concentration of hydrogen ions.
Each step of one pH unit is a tenfold change.
The yogurt is three pH units below the pool water.
So the yogurt has a thousand times the concentration of hydrogen ions, as the working below shows.
A student tests a digestive enzyme from the gut of a caterpillar at 37 °C, with the same substrate concentration, in solutions of pH 4, 6, 8 and 10. The rates are in the table. The student expects the enzyme to work best at pH 7, because pH 7 is neutral.
Of the pH values tested, which is closest to the enzyme's optimal pH, and what do the results show?
- A. pH 4; a higher concentration of hydrogen ions always speeds an enzyme upAt pH 4 the rate was the lowest measured, 1 mg/min.
So a higher concentration of hydrogen ions does not always speed an enzyme up. - B. pH 6, the value nearest to neutral; every enzyme works best near pH 7pH 6 gave 14 mg/min, against 38 mg/min at pH 8.
Neutral is not automatically the optimal pH. - C. ✓ pH 8; different enzymes have different optimal pH values
- D. pH 10; a lower concentration of hydrogen ions always speeds an enzyme upThe rate at pH 10 was 12 mg/min, well below the 38 mg/min at pH 8.
So a lower concentration of hydrogen ions does not always help.
Why: An enzyme's optimal pH is the pH at which its rate is greatest.
pH 8 gave the greatest rate, 38 mg/min, so the optimal pH is near pH 8.
Different enzymes have different optimal pH values, matched to where they work.
A caterpillar's gut fluid is basic.
An amylase from a bacterium that ferments cabbage into sauerkraut has an optimal pH of 5. Amylase speeds up the reaction starch → maltose. A student gives two equal samples of the amylase the same starch solution at 30 °C, one at pH 5 and one at pH 7. At pH 5 the initial rate is 2.4 mg of starch broken down per minute; at pH 7 it is 0.6 mg/min. At pH 7 the amylase keeps its overall fold.
Why is the rate lower at pH 7?
- A. ✓ The lower concentration of hydrogen ions (H⁺) alters the charges on R groups at the active site, so the starch binds less well
- B. The lower concentration of hydrogen ions means there is less acid to break the starch down alongside the amylaseAcid does not break starch down at a useful rate.
The amylase breaks the starch down. - C. At pH 7 the hydrogen bonds holding the amylase's fold break, so the whole enzyme loses its shapeThe amylase kept its overall fold at pH 7.
So the fall is not denaturation. - D. The lower concentration of hydrogen ions means fewer collisions between amylase and starch molecules each secondThe concentration of hydrogen ions does not change how often molecules collide.
Temperature does that, and both samples were at 30 °C.
Why: pH 7 is two units from the amylase's optimal pH of 5.
That close, the changed concentration of hydrogen ions alters only the charges on R groups around the active site.
So the active site holds the starch less well.
The rate falls, but the fold as a whole holds.
A researcher dissolves a purified ribonuclease, an enzyme that speeds up the reaction RNA → shorter pieces of RNA, in a strong urea solution at 25 °C. Its rate falls to 3% of normal, and a folding test (a count of how many enzyme molecules still hold their fold) finds 6% folded. The researcher then lets the urea diffuse out through a membrane. The rate returns to 95% of normal, and 93% of the molecules are folded.
What do these results show?
- A. The enzyme was only slowed by the urea; its fold was never lostOnly 6% of the molecules were folded while the urea was present.
So the fold was lost.
An enzyme that is only slowed keeps its fold. - B. The urea destroyed the enzyme, and new enzyme molecules were madeThe solution held no cells.
Nothing in a cell-free solution can make new enzyme.
The same molecules folded back up. - C. The urea sat in the active site, blocking the RNA while it was thereA molecule blocking the active site would leave the fold intact.
The folding test shows the fold was lost. - D. ✓ The enzyme was denatured and then refolded once the urea was removed
Why: Denaturation is sometimes reversible.
While the urea was present the fold was lost: 6% folded, 3% of the normal rate.
Once the urea had left, the fold re-formed: 93% folded, 95% of the normal rate.
The disrupting condition was removed before the unfolded chains tangled, so this enzyme refolded.
A student tests an enzyme from an aquarium filter at four salt concentrations. She keeps every tube at 25 °C and pH 7.5, with equal amounts of enzyme and substrate. The mean rates are in the table.
Which additional measurement would show whether the enzyme's shape itself changed at 35 g/L?
- A. The rate at 35 g/L when the substrate concentration is doubledA higher rate with more substrate would say how busy the active sites are.
It would not say whether the protein's fold has changed. - B. ✓ How many enzyme molecules still hold their normal fold at each salt level
- C. The amount of product formed at 35 g/L after 60 minutes rather than 10Measuring for 60 minutes only collects more product from the same slow reaction.
The amount of product shows how fast the enzyme worked, not whether its shape changed. - D. The pH of each tube, measured a second time to confirm itThe pH was already held at 7.5 in every tube.
Why: The rates show that the salt lowered the rate, not why.
Salt can disrupt the weak interactions that hold the fold, but the rate alone cannot show that it did.
A folding test, a count of molecules still holding their fold, shows directly whether the shape changed.
The graph shows the initial rate of a reaction with a fixed amount of enzyme as a student raises the substrate concentration.
Why does the rate rise steeply from 1 to 3 mmol/L of substrate, yet barely change from 6 to 12 mmol/L?
- A. ✓ From 1 to 3 mmol/L each added substrate molecule finds empty active sites; by 6 mmol/L nearly every active site is already occupied all the time
- B. From 1 to 3 mmol/L the enzyme is still being made; by 6 mmol/L the extra substrate has used the enzyme upNothing in the tube makes enzyme, and an enzyme is not used up by its reaction.
All the enzyme is still there, simply busy. - C. From 1 to 3 mmol/L the extra substrate lowers the activation energy; by 6 mmol/L the extra substrate has denatured the enzymeSubstrate does not change the activation energy and does not denature its own enzyme.
A denatured enzyme's rate would fall, not level off at its highest value. - D. From 1 to 3 mmol/L no product has built up yet; by 6 mmol/L product is being turned back into substrate as fast as it formsThese are initial rates, measured before any product has built up.
So no product is there to be turned back.
Why: With a fixed amount of enzyme, more substrate means substrate molecules reach empty active sites more often.
So from 1 to 3 mmol/L the rate rises steeply.
By 6 mmol/L nearly every active site is occupied all the time: the enzyme is saturated.
Adding more substrate barely raises the rate.
Amylase speeds up the reaction starch → maltose. Two tubes each hold 8.0 mg of starch in the same volume at the same temperature and pH. Tube 1 receives 0.10 mg of amylase; tube 2 receives 0.30 mg of the same amylase. Both tubes are left until all the starch is gone.
Which of the following describes tube 2, compared with tube 1?
- A. Same initial rate; same final amount of maltoseThree times as many active sites split starch faster at the start.
So the initial rates differ. - B. Same initial rate; more maltose in the endMore enzyme does raise the initial rate.
More enzyme cannot make more maltose than the starch can supply. - C. ✓ Faster initial rate; same final amount of maltose
- D. Faster initial rate; more maltose in the end8.0 mg of starch can give only one final amount of maltose in either tube.
More enzyme gets there sooner, not further.
Why: More amylase means more active sites, so the initial rate rises.
The final amount of maltose is fixed by the starch available.
Both tubes end with the maltose from 8.0 mg of starch.
Tube 2 gets there sooner.
Glucose isomerase speeds up the reaction glucose → fructose. Two tubes start with the same amount of the enzyme and 10 mmol/L of glucose. In tube 1 the fructose builds up: after 20 minutes the amount of fructose stops rising, with 3 mmol/L of glucose left. In tube 2 the fructose is removed as it forms, and the glucose is used up. At 20 minutes, enzyme taken from tube 1 converts fresh glucose at its full initial rate.
Why has tube 1 stopped making fructose with glucose left, while tube 2 has used up all of its glucose?
- A. Tube 1's enzyme is used up after 20 minutes; tube 2 has more enzyme, so its enzyme lasts until the glucose is goneAn enzyme is not used up by the reaction it speeds up.
Enzyme taken from tube 1 still converts fresh glucose at its full initial rate. - B. Tube 1's fructose denatures its enzyme; in tube 2 the fructose is removed before it can denature the enzymeEnzyme taken from tube 1 at 20 minutes works at its full initial rate.
So the fructose has not denatured the enzyme. - C. All of tube 1's glucose had been converted by 20 minutes; tube 2 only looks different because its fructose was removed3 mmol/L of glucose is still present in tube 1 when the fructose stops rising.
So not all of tube 1's glucose has been converted. - D. ✓ In tube 1 fructose is turned back into glucose as fast as glucose is converted; in tube 2 no fructose stays to be turned back
Why: The reaction also goes backward: the enzyme speeds up both directions.
In tube 1, as fructose builds up, more of it is turned back into glucose.
Fructose levels off when it is made and unmade at equal rates.
In tube 2 no fructose stays, so the enzyme keeps converting glucose.
A student measures an enzyme's rate at rising substrate concentrations, with no inhibitor and with inhibitor Q present. The rates, in μmol/min, are in the table.
What kind of inhibitor is Q, and what in the data shows it?
- A. ✓ Competitive: with more substrate, the inhibited rate catches up with the uninhibited rate
- B. Competitive: even with more substrate, the inhibited rate stays well below the uninhibited rateThe gap closes from 15 against 6 to 54 against 52.
An inhibited rate that stays well below at every concentration marks a noncompetitive inhibitor. - C. Noncompetitive: with more substrate, the inhibited rate catches up with the uninhibited rateA rate that catches up as the substrate concentration rises is the mark of a competitive inhibitor.
A noncompetitive inhibitor's effect does not shrink with more substrate. - D. Noncompetitive: even with more substrate, the inhibited rate stays well below the uninhibited rateAt 256 μM the inhibited rate is 52 against 54, almost the same.
A noncompetitive inhibitor would hold the rate well below at every concentration.
Why: A competitive inhibitor sits reversibly in the active site.
Raising the substrate concentration outcompetes it, so the inhibited rate approaches the uninhibited rate: 52 against 54 at 256 μM.
A noncompetitive inhibitor binds at an allosteric site and bends the active site, so its effect stays at every concentration.
A cheesemaker added chymosin, the enzyme used to set milk into curd for cheese, to two portions of the same milk. At 10 °C the milk took 40 minutes to set; at 30 °C it took 8 minutes. The enzyme kept its shape at both temperatures.
Why does the milk set faster at 30 °C?
- A. The warmth lowers the activation energy of the reaction, so fewer collisions are neededTemperature leaves the activation energy where it is.
The barrier is the same at 10 °C and at 30 °C. - B. ✓ The molecules of enzyme and milk protein move faster, so they collide more often and with more energy
- C. The active site opens wider at 30 °C, so the milk protein fits into it more easilyThe fold test shows the enzyme's shape unchanged.
So the active site is the same at both temperatures. - D. The warm milk holds more protein for the enzyme to act on, so product forms soonerBoth portions are the same milk.
So both portions hold the same amount of protein.
Why: Warming makes the molecules move faster, so enzyme and substrate collide more often and with more energy.
More collisions carry at least the activation energy, so more succeed each second.
So the curd forms in 8 minutes instead of 40.
The fold test shows the enzyme itself was unchanged.
The graph shows the rate of a reaction catalyzed by an enzyme from a mushroom, measured at temperatures from 0 to 60 °C with the same substrate concentration in every tube.
Which of the following explains the whole shape of the curve?
- A. Collisions grow more frequent up to 30 °C; above it the substrate is used up before the rate can be measuredEvery tube had the same substrate concentration.
The rate is measured at the start, before much substrate has been used up. - B. The activation energy falls up to 30 °C and rises again above it, so fewer collisions succeedThe activation energy is set by the reaction and the enzyme.
Temperature leaves the activation energy alone. - C. Collisions grow more frequent up to 30 °C; above it the molecules move too fast to stay in the active siteFaster molecules do not fall out of the active site.
Above 30 °C the fall comes from heat disrupting the fold, so the active site loses its shape. - D. ✓ Collisions grow more frequent up to 30 °C; above it denaturation removes working enzymes faster than the extra collisions help
Why: Below the optimal temperature, warming makes molecules collide more often and with more energy, so the rate rises.
Above the optimal temperature, heat disrupts the fold; active sites are lost faster than extra collisions can help.
So the curve rises gently to 30 °C, then falls steeply.
A researcher tests a purified enzyme from red blood cells in two cell-free mixtures with the same substrate concentration, pH and temperature. On its own the enzyme makes 60 nmol of product per minute; with a small amount of a new drug dissolved in the mixture it makes 15 nmol/min. The drug is the only difference between the two mixtures.
Which of the following explains these results?
- A. ✓ The drug bound to the enzyme and lowered its rate
- B. The drug reacted with the substrate and used it up before the test beganThe two mixtures started with the same substrate concentration.
A drug that removed substrate would be acting on the substrate, not on the enzyme. - C. The drug was turned into product in place of the substrateA drug turned into product would raise the product count.
The drug cut the product count to a quarter. - D. The drug cooled the mixture, so the molecules collided less oftenBoth mixtures were held at the same temperature.
The drug was the only difference.
Why: An enzyme inhibitor is a molecule that binds to an enzyme and lowers its rate.
Everything else was the same, and the drug cut the rate from 60 to 15 nmol/min.
So the drug bound to the enzyme and slowed it.
Many drugs and poisons act this way.
A researcher adds a molecule shaped almost exactly like the substrate of a kidney enzyme to a mixture of the enzyme and 2 μM of its substrate. The rate falls from 40 to 16 nmol/min. The researcher then raises the substrate concentration to 200 μM, with the same amount of the look-alike molecule, enzyme, temperature and pH.
Which of the following predicts the rate at 200 μM of substrate with the look-alike present, compared with the uninhibited rate at 200 μM?
- A. The rate stays at about 40% of the uninhibited rate, because the look-alike holds a fixed share of the enzyme moleculesThe look-alike holds no fixed share of the enzyme.
The look-alike sits in an active site for a while, then leaves.
Whichever molecule arrives first fills the empty site. - B. ✓ The rate rises to close to the uninhibited rate, because substrate now reaches each empty active site far more often than the look-alike
- C. The rate falls further below the uninhibited rate, because the extra substrate crowds the look-alike molecules into the active sitesMore substrate does the opposite.
Substrate wins the empty active sites more often, so the look-alike is outcompeted. - D. The rate rises above the uninhibited rate, because the look-alike and the substrate are both turned into productOnly the substrate is turned into product.
The look-alike just fills an active site for a while, so the rate cannot exceed the uninhibited rate.
Why: A look-alike that sits reversibly in the active site is a competitive inhibitor.
The look-alike blocks the substrate only while it sits there.
At 200 μM, substrate reaches each empty active site far more often than the look-alike.
So the look-alike is outcompeted; the rate nears the uninhibited rate.
A compound from the leaves of the foxglove plant halves the rate of an enzyme in heart-muscle cells at every substrate concentration tested, from 1 μM to 1,000 μM, with equal enzyme in every tube. The compound looks nothing like the substrate.
Where does the foxglove compound bind, and what does its binding do?
- A. In the active site; it blocks the substrate while it sits thereA molecule blocking the active site is outcompeted as the substrate concentration rises.
The rate would then climb back by 1,000 μM, yet this compound's effect stays at half. - B. In the active site; it is turned into product more slowly than the substrate isA molecule that fits the active site would have to resemble the substrate.
This compound does not, and it is not turned into product. - C. At a site away from the active site; it cuts the peptide bonds of the chainAn inhibitor does not cut the covalent peptide bonds of the chain.
A chain cut apart could not work at all, yet the enzyme keeps half its rate. - D. ✓ At a site away from the active site; it changes the enzyme's shape so the active site works poorly
Why: A noncompetitive inhibitor binds at an allosteric site and bends the enzyme, so the active site works poorly.
The foxglove compound looks nothing like the substrate, so it cannot fit the active site.
So more substrate cannot push it off.
The rate therefore stays at half at every concentration.
The graph shows the rate of the same kind of reaction catalyzed by two enzymes: one from a mold that grows on fruit and one from a soil bacterium. Temperature and substrate concentration were the same in every tube. The mold enzyme's optimal pH is 4. At pH 9, five units above its optimal pH, its rate is close to zero.
Why is the mold enzyme's rate close to zero at pH 9?
- A. The lower concentration of hydrogen ions (H⁺) means that enzyme and substrate molecules collide far less often each secondThe concentration of hydrogen ions does not change how often molecules collide.
Temperature does that, and every tube was at the same temperature. - B. ✓ The changed concentration of hydrogen ions (H⁺) disrupts the weak interactions that hold the fold, so the active site loses its shape
- C. The charges on R groups at the active site have changed while the fold holds, so the substrate binds only a little less wellA small shift from the optimal pH changes the charges and leaves the fold whole.
Five units is a large shift, and the rate is close to zero. - D. The lower concentration of hydrogen ions (H⁺) breaks the covalent peptide bonds of the chain, so the chain falls into piecesA change in pH does not break covalent peptide bonds.
The chain is still there; the fold is lost.
Why: Near its optimal pH, a changed concentration of hydrogen ions alters only the R-group charges.
Five units away, the change also disrupts the weak interactions that hold the fold.
So the active site loses its shape and the substrate no longer fits.
The mold enzyme is denatured.
Lactase speeds up the reaction lactose → glucose + galactose. A student adds a small amount of dishwashing detergent to a tube of lactase and milk at 37 °C and pH 7. The detergent takes part in no reaction, and the temperature and pH do not change. The rate falls from 8 to 2 mg of glucose released per minute.
Which of the following explains the fall in rate?
- A. The detergent breaks the covalent peptide bonds of the lactase's chain, so the chain falls into separate amino acidsA detergent does not break covalent peptide bonds.
The amino-acid chain is still there; the fold is lost. - B. The detergent is turned into product by the lactase, so less lactose is converted into glucose each minuteThe detergent takes part in no reaction, so it is not a substrate.
Only lactose is turned into glucose and galactose. - C. ✓ The detergent disrupts the weak interactions that hold the lactase's fold, so the active site loses its shape
- D. The detergent slows the lactase and lactose molecules down, so they collide less often each secondTemperature sets how fast the molecules move, and the temperature did not change.
The molecules collide as often as before.
Why: A detergent disrupts the hydrogen bonds and other weak interactions that hold the lactase's fold.
So the active site loses its shape.
The lactose no longer fits, so fewer lactose molecules are converted each minute.
The temperature and pH are unchanged, so the detergent itself lowered the rate.
Detergent makers add a lipase from a soil bacterium to laundry detergents to break down the fats in stains. Lipase speeds up the reaction fat → fatty acids + glycerol. A researcher measured the rate at which the purified lipase released fatty acids from a fat at five temperatures, with the same fat concentration and the same pH in every tube and five trials at each temperature. The table gives the mean rate at each temperature; the differences between temperatures were far larger than the variation between the five trials at any one temperature. After the 60 °C trials, the researcher cooled one 60 °C tube to 40 °C and measured that tube again: 0.5 mg/min. The researcher will warm a separate tube, held at 5 °C, to 40 °C and measure that tube.
(a) Identify the optimal temperature of the lipase among those tested, and describe how the rate changes on either side of it, using values from the table. (1 pt)
Below 40 °C the rate rises with temperature, from 3.0 mg/min at 20 °C to 5.8 mg/min at 30 °C. Above 40 °C the rate falls, to 6.2 mg/min at 50 °C and 0.4 mg/min at 60 °C.
- Award 1 point for: 40 °C (9.6 mg/min, the greatest rate), with the rate rising toward it (3.0 and 5.8 mg/min at 20 and 30 °C) and falling above it (6.2 and 0.4 mg/min at 50 and 60 °C).
- Accept "about 40 °C" with at least two values quoted for the rise or the fall. Do not award the point for 60 °C as the optimal temperature, or for the optimum with no description of the pattern.
Slip Writing "the rate increases with temperature" and stopping, or picking 60 °C because it is the hottest tube. The optimal temperature is where the rate itself is greatest. A describe-the-data point needs values on both sides of the optimal temperature.
(b) Explain why the rate is higher at 40 °C than at 20 °C. (1 pt)
So the lipase molecules and the fat molecules collide more often and with more energy.
More of those collisions carry at least the activation energy, so more collisions succeed each second.
Therefore the rate rises from 3.0 mg/min at 20 °C to 9.6 mg/min at 40 °C.
- Award 1 point for: warming makes the molecules move faster, so enzyme and fat molecules collide more often (or with more energy), so more collisions carry at least the activation energy and more succeed each second.
- Accept faster molecules and more frequent collisions between enzyme and substrate, with the rate rising as the result. Do not award the point for "heat gives the enzyme energy" or "heat lowers the activation energy".
Slip Saying only that "heat speeds up reactions" or that heat "gives the enzyme energy". The point needs the molecules moving faster and colliding more often, with more of the collisions succeeding.
(c) Explain, in terms of the enzyme's structure, why the rate at 60 °C is close to zero. (1 pt)
So the active site loses its shape.
The fat no longer fits the active site, so the enzyme can no longer catalyze the reaction.
The lipase is denatured.
Denaturation removes working enzymes faster than the extra collisions can help, so the rate falls to 0.4 mg/min.
- Award 1 point for: at 60 °C the heat disrupts the hydrogen bonds and other weak interactions that hold the lipase's fold, so the active site loses its shape and the fat no longer fits (the enzyme is denatured), and this loss outweighs the extra collisions.
- Accept "denatured" only with what it does to the active site or to substrate binding. Do not award the point for "the peptide bonds break" or for "denatured" with nothing after it.
Slip Writing "the enzyme denatures" with nothing after it, or saying the heat breaks the chain into amino acids. Name what is disrupted: the weak interactions holding the fold. Then follow it to the active site and the substrate.
(d) Predict the rate of the 5 °C tube after it is warmed to 40 °C, and justify your prediction using the result for the cooled 60 °C tube. (1 pt)
Cold slows an enzyme because its molecules move more slowly and collide less often.
The cold does not disturb the fold.
So the rate returns as soon as the tube warms.
The cooled 60 °C tube shows the other case.
Its rate stayed at 0.5 mg/min at 40 °C, because a fold pulled apart by strong heating does not re-form.
- Award 1 point for: about 9.6 mg/min (accept 9 to 10 mg/min), because cold only slows an enzyme, its fold is kept and the rate returns on warming; by contrast the 60 °C tube stayed at 0.5 mg/min at 40 °C because a fold lost to strong heating does not re-form.
- Accept "the full 40 °C rate" for the prediction, and accept the justification framed either way: cold leaves the fold intact so the rate returns, with the cooled 60 °C tube as the contrasting case; or the 60 °C result first, with the 5 °C tube as the opposite case. Do not award the point for a rate near 0.5 mg/min, or for the right rate with no reference to the cooled 60 °C tube.
Slip Predicting a rate near 0.5 mg/min, as if the cold tube had been damaged like the hot one. Recovery on warming is the mark of an enzyme slowed by cold. A rate that stays low after the return is the mark of an enzyme denatured by heat.
An enzyme from a soil bacterium converts a toxin, T, into a harmless product. The enzyme's rate (nmol of product per minute) was measured at two concentrations of T: with no other molecule present, with drug D present, and with pesticide P present. D has almost the same shape as T; P has no resemblance to T. Temperature, pH and the amount of enzyme were the same in every test. The rates are in the table. With no inhibitor present, the rate at 200 μM of T is 95 nmol/min and rises no further with more T.
(a) Explain how the results at 2 μM of T show that D and P are both enzyme inhibitors. (1 pt)
The enzyme, the amount of T, the temperature and the pH are the same in every test.
So the only change is the added molecule.
Therefore D and P each bind to the enzyme and lower its rate.
A molecule that binds to an enzyme and lowers its rate is an enzyme inhibitor.
- Award 1 point for: with D or with P present the rate falls (from 40 to 20 nmol/min) while the enzyme, T, temperature and pH are unchanged, so each added molecule must bind to the enzyme and lower its rate, which is what an enzyme inhibitor does.
- Accept the evidence (the rate falls with only the added molecule changed) with the conclusion that the molecule binds the enzyme and lowers its rate (its activity). Do not award the point for "the rate falls" with no link to binding the enzyme, or for "D and P destroy the enzyme" or "use up the substrate".
Slip Writing "the rate falls, so they are inhibitors" with no link to the enzyme. The point needs the evidence (only the added molecule changed) and the conclusion that each molecule binds the enzyme and lowers its rate.
(b) Explain why raising the concentration of T from 2 to 20 μM almost removed the effect of D. (1 pt)
So D binds reversibly in the active site, and D blocks T only while D sits there.
When T is ten times more concentrated, T molecules reach each empty active site far more often than D molecules do.
So D is outcompeted.
The rate rises from 20 nmol/min toward the uninhibited 90 nmol/min, reaching 81 nmol/min.
- Award 1 point for: D resembles T and binds reversibly at the active site, blocking T only while it sits there; with ten times as much T, molecules of T reach the empty active sites far more often than D does, so D is outcompeted and the rate rises toward the uninhibited value (D is a competitive inhibitor).
- Accept an answer in terms of the two molecules competing for the same site. Do not award the point for "D was used up" or "D was washed away".
Slip Saying the extra T "knocked D out" or that D "was used up". D comes and goes on its own. The point is that with more T, the empty active site is far more likely to be filled by T than by D.
(c) Make a claim about how the rate with P present at 200 μM of T will compare with the uninhibited rate of 95 nmol/min at that concentration. (1 pt)
It will not climb back toward 95 nmol/min.
- Award 1 point for: a correct, specific claim: the rate with P present will still be far below 95 nmol/min, about half (roughly 45 to 48 nmol/min).
- Make a claim earns the point for the assertion; the reasoning is scored in part (d). Accept "about half the uninhibited rate" without a number. Do not award the point for a claim that the rate rises to about 95.
Slip Claiming that enough T will bring the rate back to 95 nmol/min, as it did for D. The data already show that ten times more T left P's effect unchanged.
(d) Support your claim by comparing how P and D each interact with the enzyme. (1 pt)
P does not resemble T, so P binds at an allosteric site.
P's binding changes the enzyme's shape, so the active site works poorly.
P and T do not compete for the same site, so more T cannot push P off.
So at 200 μM the rate with P stays at about half, as it did from 2 to 20 μM.
- Award 1 point for: the evidence (P's effect did not shrink when T rose from 2 to 20 μM, unlike D's) AND the reasoning that links it to the claim: P binds at an allosteric site and bends the enzyme so the active site works poorly, so T does not compete with P and more T cannot push it off, whereas D sits in the active site and is outcompeted.
- Support a claim needs the evidence and the link to the claim. Accept "binds somewhere other than the active site and bends the enzyme" for the mechanism, with D placed in the active site for the contrast. Do not award the point for P "blocking the active site", or for the label "noncompetitive" alone with no mechanism.
Slip Writing "noncompetitive" and stopping. Supporting the claim needs the mechanism and the data: binding away from the active site, a changed shape, and the effect that did not shrink as T rose.
APBIO-U03-L10 One number for five tubes
Here are five test tubes. A student set up each one with the same catalase solution and the same hydrogen peroxide, all at 25 °C.
She measured how fast oxygen bubbled off each tube. The five tubes released oxygen at 2.9, 3.4, 3.0, 3.2 and 3.0 mL/min. Which of the five rates does she report?
Unit 3 · Cellular Energetics
1One number for five tubes
Video: Watch: One number for five tubes
Five catalase tubes at 25 °C gave five close readings. Add the readings up and divide the total by how many there are: the number that comes out is the mean, 3.10 mL/min, the rate we would predict for one more tube.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L10.mp4
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The mean is the one rate that represents all five tubes.
A result that comes out the same when the test is repeated is more trustworthy. So the student set up five tubes.
The five 25 °C tubes produced oxygen at 2.9, 3.4, 3.0, 3.2 and 3.0 mL/min. They agree closely, but none of them on its own is the rate we would predict.
One number can stand for all five readings.
Add the readings up and divide the total by how many there are. The number that comes out is called the of the readings.
The mean is the rate we would predict if we set up one more tube at 25 °C.
What you are expected to know Explain why the mean, not any one reading, is the rate reported for five repeated tubes.
10Quick quiz: the mean mixed practice
What is the mean of a set of readings?
- A. The total of all the readingsThe total of all the readings is the sum, the top of the fraction.
The mean is that sum divided by how many readings there are. - B. ✓ Their sum divided by how many there are
- C. The one reading that sits closest to the othersNo single reading stands for the set.
The mean uses every reading.
Why: Add the readings up.
Divide the total by how many readings there are.
The number that comes out is the mean.
A student measures how fast oxygen bubbles off each of four test tubes of catalase and hydrogen peroxide, in mL/min.
(a) State how the mean of the four rates is calculated. (1 pt)
- Award 1 point for: the sum of the four rates divided by four (their sum divided by how many there are).
13The mean on the AP formula sheet
The AP formula sheet writes the mean with four symbols: , said ‘x bar’, for the mean; for ‘add up’; for each reading; n for how many readings there are.
The mean, as the AP formula sheet writes it: is the mean, says add up, is each reading, n is how many readings
The in just means each individual reading: is the first reading, the second, and so on.
What you are expected to know Match each symbol in the AP formula sheet’s mean equation, , , and n, to the five rates.
The five 25 °C tubes produced oxygen at 2.9, 3.4, 3.0, 3.2 and 3.0 mL/min.
The mean, as the AP formula sheet writes it: is the mean, says add up, is each reading, n is how many readings
In the equation on the AP formula sheet, which symbol is the number of readings, 5?
- A. is the mean, the one number that stands for the five readings.
- B. says add up; it is an instruction, not a number.
- C. is each single reading, such as 2.9 mL/min.
- D. ✓ n
Why: n is how many readings there are.
There are five readings.
So n is five.
Priya reads and says: ‘ is a quantity, so I need to look up its value before I can calculate the mean.’
Is Priya correct?
- A. Yessays add up; it has no value of its own.
- B. ✓ No
Why: is an instruction, not a quantity.
It says add up the readings that follow it.
So means add up every reading, and has no value of its own.
19Calculate the mean
Five tubes of catalase at 25 °C produced oxygen at 2.9, 3.4, 3.0, 3.2 and 3.0 mL/min. What is the mean rate?
The mean is written 3.10 mL/min, to one more decimal place than the readings, because the mean of several readings is known more precisely than any one reading.
Keep the full value in your calculator as you work; if you must copy a value down, write at least three significant figures. Round only the number you report.
Five tubes of catalase at 35 °C produced oxygen at 4.6, 5.1, 4.8, 5.3 and 4.7 mL/min.
Calculate the mean rate, .
Part 1. Add the five readings. What is ?
Answer: 24.5 mL/min (tolerance ±0.05)
Part 2. Count the number of readings. What is n?
Answer: 5 (tolerance ±0)
Answer: 4.9 mL/min (tolerance ±0.005)
What you are expected to know Calculate the mean of a set of repeated readings as their sum divided by how many there are, and report it as the one value that stands for the set.
Four tubes of potato catalase produced oxygen at 1.8, 2.5, 2.9 and 2.0 mL/min.
Calculate the mean rate.
Part 1. Add the four readings. What is ?
Answer: 9.2 mL/min (tolerance ±0.05)
Answer: 2.3 mL/min (tolerance ±0.005)
Overnight, some plants push a drop of water out of the tip of each leaf; the drop is called a guttation drop. A student drew the drop from the tip of each of four barley leaves into a micropipette and read its volume. The drops measured 3.2, 4.1, 3.5 and 3.6 μL.
Calculate the mean volume.
Answer: 3.6 μL (tolerance ±0.005)
Glossary
- mean
- The one number that stands for a set of repeated readings: their sum divided by how many there are.
APBIO-U03-L10B How spread out: the standard deviation
Here are two students’ results. Rosa and Theo each set up five tubes of catalase and hydrogen peroxide and measured the rate of oxygen release from each tube.
Both students get a mean rate of 3.10 mL/min. Rosa’s five rates sit between 3.0 and 3.2 mL/min. Theo’s five rates range from 2.2 to 4.0 mL/min. The means match, so what is different?
Unit 3 · Cellular Energetics
1How spread out the readings are
Video: Watch: How spread out the readings are
The 25 °C and 35 °C readings on one scale, each set around its mean. How widely the readings scatter either side of their mean is their spread; measured as one number, the spread is the standard deviation, s: 0.200 mL/min at 25 °C and 0.292 mL/min at 35 °C.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L10B.mp4
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The standard deviation measures how far the five rates typically sit from their mean.
A small standard deviation means the rates agree closely. A large standard deviation means the rates scatter widely.
Now consider the catalase tubes again: at 25 °C the five tubes produced oxygen at 2.9, 3.4, 3.0, 3.2 and 3.0 mL/min. At 35 °C the five tubes produced 4.6, 5.1, 4.8, 5.3 and 4.7 mL/min.
Here are the five 25 °C readings and the five 35 °C readings on one axis, each set with its mean marked.
The 25 °C readings spread up to 0.3 mL/min either side of their mean. The 35 °C readings spread up to 0.4 mL/min either side of theirs. The warmer tubes agreed with one another a little less well.
How widely the readings scatter either side of their mean is called their spread.
When the spread is measured as one number, that number is called the , written , because it is the standard, or typical, amount by which a reading deviates from the mean.
For the 25 °C tubes, ; for the 35 °C tubes, . The larger belongs to the set with the greater spread either side of its mean.
This is the standard deviation. It is a different from the side length in a surface-area-to-volume ratio and from the in .
A larger standard deviation is a greater spread, not a larger or better result.
The mean rate at 35 °C is higher. The 35 °C readings are also more spread out. Those are two separate facts.
What you are expected to know Compare two sets of readings by their standard deviations: the set with the larger has the greater spread either side of its mean, whatever its mean.
What does the standard deviation of a set of readings measure?
- A. How large the mean of the readings isThe mean is a separate number.
The standard deviation does not measure its size. - B. ✓ How widely the readings spread either side of their mean
- C. How trustworthy the mean of the readings isThe standard deviation measures how widely the readings spread.
It does not say how trustworthy their mean is.
Why: The standard deviation is the typical amount by which a reading deviates from the mean.
So it measures how widely the readings spread either side of their mean.
Rosa and Theo each measured the rate of oxygen release from five tubes of catalase and hydrogen peroxide. Both sets of five rates have a mean of 3.10 mL/min. Rosa’s standard deviation is and Theo’s is .
(a) State what the standard deviation measures. (1 pt)
- Award 1 point for: how widely the readings spread either side of their mean (accept ‘how far a reading typically sits from the mean’).
(b) Identify whose five rates are more spread out. (1 pt)
Theo’s standard deviation, 0.728 mL/min, is larger than Rosa’s, 0.100 mL/min.
- Award 1 point for: Theo’s, because his standard deviation (0.728 mL/min) is the larger.
Here are the mean and the standard deviation for two sets of five catalase tubes.
Which set of readings is more spread out?
- A. The tubes at 20 °CA smaller means the readings stay closer to their mean.
- B. ✓ The tubes at 30 °C
Why: Spread is measured by the standard deviation, .
The 30 °C readings have the larger , 0.31 mL/min against 0.15 mL/min.
So the 30 °C readings spread more widely either side of their mean.
Here are the mean and the standard deviation for potato catalase and for liver catalase.
Which set of readings is more spread out?
- A. ✓ Potato catalase
- B. Liver catalaseThe mean does not measure spread, and the potato readings have the larger .
Why: Spread is measured by the standard deviation, .
The potato readings have the larger , 0.12 mL/min against 0.09 mL/min.
So the potato readings spread more widely either side of their mean.
The means do not measure spread.
Ana and Ben each set up five tubes of catalase. Here are their means and standard deviations.
Whose readings are more spread out?
- A. Ana’sA smaller means the readings stay closer to their mean.
- B. ✓ Ben’s
Why: The two means are the same, 3.50 mL/min.
Spread is measured by the standard deviation, .
Ben’s readings have the larger , 0.21 mL/min against 0.08 mL/min.
So Ben’s readings spread more widely either side of their mean.
A student measured the height of five pea seedlings grown in sunlight and five grown in shade. Here are the means and standard deviations.
Which set of heights is more spread out?
- A. ✓ The seedlings in sunlight
- B. The seedlings in shadeA smaller means the heights stay closer to their mean.
Why: Spread is measured by the standard deviation, .
The sunlight heights have the larger , 4.2 mm against 1.8 mm.
So the sunlight heights spread more widely either side of their mean.
The unit changes nothing: is read the same way for any measurement.
Five runners and five non-runners each counted their resting pulse for one minute. Here are the means and standard deviations.
Which set of readings agreed with one another most closely?
- A. ✓ The runners’ readings
- B. The non-runners’ readingsThe non-runners have the larger , and a larger is a wider spread, not closer agreement.
Why: Readings that agree closely stay close to their mean, so they have a small .
The runners’ readings have the smaller , 3.1 beats/min against 6.4 beats/min.
So the runners’ readings agreed most closely.
The means do not measure agreement.
Jonah looks at the potato and liver results and says: ‘Potato catalase has the larger , so potato catalase produced oxygen faster.’
Is Jonah correct?
- A. Yesmeasures spread, not rate; the rate is given by the mean.
- B. ✓ No
Why: The standard deviation measures how widely the readings spread, and nothing else.
The rate is given by the mean.
The potato mean, 2.6 mL/min, is lower than the liver mean, 4.1 mL/min.
So potato catalase produced oxygen more slowly, even though its readings are more spread out.
Here are the mean and the standard deviation for potato catalase and for liver catalase. Jonah says that the larger shows that potato catalase produced oxygen faster. Jonah is wrong.
(a) Explain why Jonah is wrong. (1 pt)
The potato readings have the larger , 0.12 mL/min, so the potato readings spread more widely.
The rate is given by the mean, not by .
The potato mean, 2.6 mL/min, is lower than the liver mean, 4.1 mL/min.
So potato catalase produced oxygen more slowly, even though its readings are more spread out.
- Award 1 point for: the standard deviation measures spread, not rate; the potato mean (2.6 mL/min) is the lower, so potato catalase produced oxygen more slowly.
24Calculate the standard deviation
The standard deviation measures how widely the readings spread either side of their mean, and the AP formula sheet gives it by this equation.
The standard deviation, , as the AP formula sheet writes it: the whole fraction sits under the root, and the sheet divides by n − 1
Five tubes of catalase at 25 °C produced oxygen at 2.9, 3.4, 3.0, 3.2 and 3.0 mL/min, a mean of 3.10 mL/min. What is the standard deviation?
Each bar in the picture is a reading minus the mean: negative for a reading below the mean, positive for a reading above it.
Squaring makes every difference positive. So the squared differences cannot cancel when you add them.
A standard deviation is reported to three significant figures, so the root here is written 0.200 mL/min, not 0.2 mL/min.
Five tubes of catalase at 35 °C produced oxygen at 4.6, 5.1, 4.8, 5.3 and 4.7 mL/min. Their mean is 4.90 mL/min.
Take the square root. What is the standard deviation, , to three significant figures?
Part 1. Subtract the mean from the first reading, 4.6 mL/min, and square the result. What is ?
Answer: 0.09 (mL/min)² (tolerance ±0.0005)
Part 2. Subtract the mean from the second reading, 5.1 mL/min, and square the result. What is ?
Answer: 0.04 (mL/min)² (tolerance ±0.0005)
Part 3. Subtract the mean from the third reading, 4.8 mL/min, and square the result. What is ?
Answer: 0.01 (mL/min)² (tolerance ±0.0005)
Part 4. Subtract the mean from the fourth reading, 5.3 mL/min, and square the result. What is ?
Answer: 0.16 (mL/min)² (tolerance ±0.0005)
Part 5. Subtract the mean from the fifth reading, 4.7 mL/min, and square the result. What is ?
Answer: 0.04 (mL/min)² (tolerance ±0.0005)
Part 6. Add these five values. What is ?
Answer: 0.34 (mL/min)² (tolerance ±0.005)
Part 7. Subtract one from the number of readings. What is n − 1?
Answer: 4 (tolerance ±0)
Part 8. Divide the sum by n − 1. What is ?
Answer: 0.085 (mL/min)² (tolerance ±0.0005)
Answer: 0.292 mL/min (tolerance ±0.005)
0.292 mL/min is larger than 0.200 mL/min: the number agrees with the picture, in which the 35 °C readings spread further either side of their mean.
What you are expected to know Calculate the standard deviation of up to five readings with the formula on the AP sheet: subtract the mean from each reading, square the result, add these values, divide by n − 1, and take the square root.
Four tubes of catalase at 15 °C produced oxygen at 2.2, 2.9, 2.5 and 2.4 mL/min.
Calculate the standard deviation, , to three significant figures.
Part 1. Calculate the mean, .
Answer: 2.5 mL/min (tolerance ±0.005)
Part 2. Subtract the mean from each reading, square the result, and add these values. What is ?
Answer: 0.26 (mL/min)² (tolerance ±0.005)
Part 3. Subtract one from the number of readings. What is n − 1?
Answer: 3 (tolerance ±0)
Part 4. Divide the sum by n − 1. What is ?
Answer: 0.0867 (mL/min)² (tolerance ±0.0005)
Answer: 0.294 mL/min (tolerance ±0.005)
A student measured the mass of four apples from one tree on a kitchen balance. The apples had masses of 152, 165, 158 and 161 g. Their mean mass is 159.0 g.
Calculate the standard deviation, , to three significant figures.
Part 1. Subtract the mean from each reading, square the result, and add these values. What is ?
Answer: 90 g² (tolerance ±0.5)
Answer: 5.48 g (tolerance ±0.05)
Five students sat still for five minutes, then each counted their pulse at the wrist for one minute to give a resting heart rate in beats per minute. Their resting heart rates were 64, 74, 71, 68 and 73 beats/min. Their mean heart rate is 70.0 beats/min.
Calculate the standard deviation, , to three significant figures.
Answer: 4.06 beats/min (tolerance ±0.05)
If we set up one more tube at each temperature, we would predict 3.10 mL/min at 25 °C and 4.90 mL/min at 35 °C. Each prediction carries its spread: at 25 °C and at 35 °C. So the warmer tubes agreed with one another a little less well.
37Mixed practice mixed practice
Five tubes of catalase produced oxygen at a mean rate of 3.10 mL/min with a standard deviation of .
Which statement describes what the 0.200 mL/min tells you?
- A. The largest reading sits 0.200 mL/min above the smallest readingThe gap between the largest and smallest readings is the range; the standard deviation uses how far every reading lies from the mean.
- B. The mean is 0.200 mL/min too high and should be loweredis not an error in the mean; the mean stays 3.10 mL/min.
- C. Every reading lies within 0.200 mL/min of the meanis a typical spread, not a limit: some readings lie further from the mean than , and some lie closer.
- D. ✓ The readings spread about 0.200 mL/min either side of their mean
Why: The standard deviation is in the same unit as the readings.
It says how widely the readings spread either side of their mean.
So here the readings spread about 0.200 mL/min either side of 3.10 mL/min.
Three groups each set up five tubes of catalase. Group 1’s tubes produced oxygen at a mean rate of 2.4 mL/min with . Group 2’s produced 5.2 mL/min with . Group 3’s produced 3.8 mL/min with .
Which group’s five tubes agreed with one another most closely?
- A. Group 1The mean says where the middle of the readings is, not how closely they agree.
- B. Group 2A larger mean does not show how closely the readings agree.
- C. ✓ Group 3
Why: Tubes that agree closely give readings with a small spread either side of their mean.
The standard deviation measures that spread.
Group 3 has the smallest , 0.12 mL/min.
So group 3’s tubes agreed most closely.
The means do not measure agreement.
Two sets of four tubes both have a mean of 5.00 mL/min. Set A produced 5.0, 5.1, 4.9 and 5.0 mL/min. Set B produced 4.6, 5.4, 5.0 and 5.0 mL/min.
Which set has the larger standard deviation?
- A. Set ASet A’s readings stay closer to the mean, and readings that stay close to the mean give a smaller .
- B. ✓ Set B
- C. The two sets have the same standard deviationTwo sets can share a mean and differ in spread.
Why: Set B’s readings spread up to 0.4 mL/min either side of the mean; set A’s only 0.1 mL/min.
So set B has the greater spread.
The standard deviation measures spread.
So set B has the larger standard deviation, even though the two means are the same.
At 25 °C, five tubes of catalase produced oxygen at a mean rate of 3.10 mL/min with . At 35 °C, five tubes produced a mean rate of 4.90 mL/min with .
Which statement about the larger at 35 °C is correct?
- A. ✓ The larger shows that the 35 °C readings have the greater spread either side of their mean
- B. The larger shows that the 35 °C result is the better and more reliable of the twodoes not show which result is better.
- C. The larger shows that the 35 °C mean is 0.292 mL/min too high and should be loweredis not an error in the mean; the mean at 35 °C stays 4.90 mL/min.
- D. The larger follows from the larger mean, because grows as the mean growsand the mean are two separate facts: two sets can share a mean and differ in spread, or differ in mean and share a spread.
Why: The standard deviation measures how widely the readings spread either side of their mean, and nothing else.
0.292 mL/min is larger than 0.200 mL/min.
So the 35 °C readings have the greater spread.
The mean rate at 35 °C is also higher, but that is a separate fact.
A student measured the mass of five tomatoes from one plant on a kitchen balance. The tomatoes had masses of 84, 91, 88, 79 and 93 g.
Calculate the standard deviation, , to three significant figures.
Answer: 5.61 g (tolerance ±0.05)
Catalase breaks hydrogen peroxide down, and the oxygen produced is collected. A student set up five tubes of catalase and hydrogen peroxide at 45 °C, and they produced oxygen at 1.5, 2.1, 1.9, 2.4 and 1.6 mL/min. At 25 °C the same setup produced a mean rate of 3.10 mL/min with .
(a) Calculate the mean rate at 45 °C. (1 pt)
Answer: 1.9 mL/min (tolerance ±0.005)
- Award 1 point for: the mean rate 1.90 mL/min (accept 1.9 mL/min) with its unit.
(b) Calculate the standard deviation of the 45 °C readings. (1 pt)
Answer: 0.367 mL/min (tolerance ±0.005)
- Award 1 point for: (accept 0.37 mL/min) with its unit.
(c) What does the size of tell you about the 45 °C readings compared with the 25 °C readings? (1 pt)
At 25 °C the readings spread about 0.200 mL/min either side of their mean.
0.37 mL/min is larger than 0.200 mL/min.
So the 45 °C readings have the greater spread, and the 45 °C tubes agreed with one another less well.
- Award 1 point for: the 45 °C readings have the greater spread either side of their mean, because 0.367 mL/min is larger than 0.200 mL/min.
- Accept: ‘less consistent’, ‘agreed less well’ or ‘more scattered’ for the greater spread.
Slip Reading the larger as a larger or better rate; measures spread, and the 45 °C mean is in fact the lower of the two.
Glossary
- standard deviation
- A measure of how widely the readings in a set spread either side of their mean. A larger standard deviation means a greater spread; it does not show whether the mean is larger or the result better.
APBIO-U03-L11 How far off might the mean be?
Here are the five readings from the catalase tubes at 25 °C, 2.9, 3.4, 3.0, 3.2 and 3.0 mL/min, and their mean, 3.10 mL/min.
Suppose the student sets up five fresh tubes tomorrow and measures the rate in each again. The mean will not come out at exactly 3.10 again. It might be 3.05, or 3.16. How far off might a five-tube mean be?
Unit 3 · Cellular Energetics
1What the standard error of the mean measures
Video: Watch: How far off might the mean be?
A five-tube mean lands a little off the true mean. The spread of the readings and how many there are decide how far, and the standard error, s over the square root of n, measures it.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L11.mp4
Video file not found on this machine: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L11.mp4
There is a true mean: the value the mean would reach if the student measured the rate in endless tubes.
Five tubes give an estimate of the true mean. The estimate can land a little above the true mean or a little below it.
When we measure how far a sample mean is likely to sit from the true mean, the number is called the , SE, because it is the typical error, or miss, between a sample mean and the true mean.
What you are expected to know Say what the standard error of a mean measures: how far the sample mean is likely to sit from the true mean.
Maya reads that the 25 °C mean, 3.10 mL/min, has a standard error of 0.0894 mL/min. Maya says: ‘That 0.0894 mL/min is the mistake I made when I read the gas syringe.’
Is Maya correct?
- A. Yes‘Error’ in ‘standard error’ means the chance miss between a sample mean and the true mean, not a mistake.
- B. ✓ No
Why: The five readings differ from tube to tube.
So the five-tube mean can land a little above or below the true mean.
The standard error measures how far the sample mean is likely to sit from the true mean.
It is not a mistake in any reading.
The 25 °C mean, 3.10 mL/min, has a standard error of 0.0894 mL/min. Maya says that the 0.0894 mL/min is a mistake made in reading the gas syringe. Maya is wrong.
(a) Explain what the 0.0894 mL/min measures. (1 pt)
The five readings differ from tube to tube, so the five-tube sample mean can land a little above or below the true mean.
The standard error measures how far the sample mean is likely to sit from the true mean.
So 0.0894 mL/min is the typical miss between the five-tube mean and the true mean.
Maya could read the syringe perfectly and the standard error would be unchanged.
- Award 1 point for: the standard error is how far the sample mean is likely to sit from the true mean, arising from the tube-to-tube scatter of the readings, not a mistake in reading the syringe.
The 25 °C mean is 3.10 mL/min. Its standard error of the mean is 0.0894 mL/min.
What does the 0.0894 mL/min measure?
- A. How far a single reading typically sits from the meanHow far a single reading typically sits from the mean is the standard deviation, s, not the standard error.
- B. The difference between the largest and smallest readingsThe difference between the largest and smallest readings is the range; the standard error is about the mean, and it shrinks as more tubes are measured.
- C. The size of the mistake made in reading the gas syringe‘Error’ here means the chance scatter of a sample mean around the true mean, not a mistake.
- D. ✓ How far the sample mean is likely to sit from the true mean
Why: The standard error of the mean measures how far a sample mean is likely to sit from the true mean.
For the five 25 °C tubes that distance is 0.0894 mL/min.
Five tubes of catalase at 35 °C gave a mean rate of 4.90 mL/min. The standard error of that mean is 0.131 mL/min.
(a) State what the standard error of the mean measures. (1 pt)
- Award 1 point for: how far the sample mean is likely to sit from the true mean (accept ‘the typical miss between a sample mean and the true mean’).
11Two things decide how far off the mean is
How far off is a five-tube mean likely to be? Two things decide that.
First, the spread. Keep five tubes, but imagine the readings scattered twice as widely. Then the five-tube mean can land further from the true mean.
Second, how many readings. Keep the same spread, but imagine the rate measured in twenty tubes instead of five. Then the readings above the true mean and the readings below it cancel better, so the mean lands closer to the true mean.
The AP formula sheet writes the standard error of the mean as : the standard deviation, s, on top, and the square root of the number of readings, , underneath.
The standard error of the mean, as the AP formula sheet writes it: s is the standard deviation, n how many readings
The small beneath SE on the sheet says it is the standard error of the mean. In your working, write SE for short.
Put the 25 °C values in. The standard deviation, 0.200 mL/min, goes on top. The square root of the number of readings, , goes underneath.
A wider spread would put a bigger number on top. So SE would be larger.
Twenty tubes would put underneath, a bigger divisor. So SE would be smaller.
What you are expected to know Predict whether the standard error of the mean gets larger or smaller when the readings are more spread out, or when there are more readings.
A class measures the rate in twenty tubes instead of five. The spread of the readings, s, stays the same.
What happens to the standard error of the mean?
- A. ✓ It gets smaller
- B. It stays the samen changed, and n sits underneath the fraction.
- C. It gets largern sits underneath the fraction, so a larger n makes the fraction smaller.
Why: SE is s divided by .
Twenty tubes make n larger, so is larger.
s stays the same.
So SE gets smaller.
A class measures the rate in five tubes. The readings come out scattered twice as widely as before, so s doubles.
What happens to the standard error of the mean?
- A. It gets smallers sits on top of the fraction, so a larger s makes the fraction larger.
- B. It stays the sames changed, and s sits on top of the fraction.
- C. ✓ It gets larger
Why: SE is s divided by .
s doubles and n stays at five.
So SE doubles: a wider spread makes the mean a less sure estimate.
A class warms its five tubes. The mean rate rises, but the spread of the readings, s, comes out the same as before.
What happens to the standard error of the mean?
- A. It gets smallerThe mean does not appear in the equation for SE.
- B. ✓ It stays the same
- C. It gets largerThe mean does not appear in the equation for SE.
Why: SE is s divided by .
The mean does not appear in the equation.
s is the same and n is still five.
So SE stays the same.
A class measures the rate in five tubes. This time the readings agree with one another more closely than before, so s is smaller.
What happens to the standard error of the mean?
- A. ✓ It gets smaller
- B. It stays the sames changed, and s sits on top of the fraction.
- C. It gets largerA smaller s puts a smaller number on top of the fraction.
Why: SE is s divided by .
s is smaller and n is still five.
So SE is smaller: readings that agree closely make the mean a surer estimate.
Two students each measure the height of five bean seedlings. Priya’s five heights have s = 6 mm. Tom’s five heights have s = 3 mm.
Whose mean has the larger standard error?
- A. ✓ Priya’s mean
- B. Tom’s meanTom’s heights have the smaller s, and a smaller s gives a smaller SE.
Why: SE is s divided by .
Both students measured five seedlings, so is the same for both.
Priya’s s is the larger, 6 mm against 3 mm.
So Priya’s mean has the larger SE, and Priya’s mean is the less sure estimate.
A class measured the rate of a reaction in six tubes and reported the mean. They want a mean that is likely to sit closer to the true mean.
Which change to the experiment does that?
- A. Report the mean with more decimal placesExtra decimal places make the number look precise without changing how far the mean is likely to sit from the true mean.
- B. Drop the highest and lowest readings before averagingThe largest and smallest readings are part of the genuine spread; dropping them throws data away and does not bring the mean any closer to the true mean.
- C. ✓ Measure the rate in more tubes under the same conditions
- D. Warm the tubes so that every reading is largerWarmer tubes have a different true mean; changing the condition does not make the estimate of any mean more trustworthy.
Why: The standard error is .
Under the same conditions s stays the same.
So the only way to shrink the standard error is to raise n: measure the rate in more tubes.
So the mean of more readings is likely to sit closer to the true mean.
27Calculate the standard error from s and n
The 25 °C tubes had a standard deviation of 0.200 mL/min, from five readings. What is the standard error of their mean?
Keep and the full value of the quotient in your calculator rather than rounding as you go. Round only the standard error you report, to three significant figures: 0.0894 mL/min.
The zeros before the 8 are not significant figures, so this value carries four decimal places. The rule is the same one used for the mean and the standard deviation.
Five tubes of catalase at 35 °C broke hydrogen peroxide down, and a student recorded the oxygen released from each. The five readings have a standard deviation of 0.292 mL/min.
Calculate the standard error of their mean.
Part 1. Take the square root of the number of readings. What is ?
Answer: 2.236 (tolerance ±0.005)
Answer: 0.131 mL/min (tolerance ±0.0005)
Suppose twenty tubes of catalase at 25 °C, breaking hydrogen peroxide down as before, had the same spread as the five 25 °C tubes: s = 0.200 mL/min.
Calculate the standard error of their mean.
Answer: 0.0447 mL/min (tolerance ±0.0004)
Four times as many readings halved the standard error, because is twice . So the twenty-tube mean is a surer estimate of the true mean.
What you are expected to know Calculate the standard error of a mean as , to three significant figures.
35From the readings to the standard error
When a question gives you the readings rather than the standard deviation, work through the standard deviation first, and then the standard error of the mean.
Catalase in a third set of five tubes, at 40 °C, was breaking hydrogen peroxide down. The tubes released oxygen at 4.9, 5.4, 4.5, 5.2 and 4.7 mL/min. Work through the standard deviation first, then the standard error.
Calculate the standard error of the 40 °C mean.
Part 1. Calculate the mean, .
Answer: 4.94 mL/min (tolerance ±0.005)
Part 2. Subtract the mean from each reading, square the result, and add these values. What is ?
Answer: 0.532 (mL/min)² (tolerance ±0.0005)
Part 3. Subtract one from the number of readings. What is n − 1?
Answer: 4 (tolerance ±0)
Part 4. Divide the sum of the squares by n − 1 and take the square root. What is the standard deviation, s?
Answer: 0.365 mL/min (tolerance ±0.0005)
Part 5. Take the square root of the number of readings. What is ?
Answer: 2.236 (tolerance ±0.005)
Answer: 0.163 mL/min (tolerance ±0.0005)
What you are expected to know Calculate the standard error of a mean from the readings themselves: the standard deviation first, then the standard error of the mean.
Five readings of 2.9, 3.4, 3.0, 3.2 and 3.0 mL/min have a standard deviation of 0.200 mL/min. So the standard error of their mean is 0.0894 mL/min. A fresh five-tube mean typically sits about 0.09 mL/min from the true mean. Twenty tubes would halve that distance.
40Mixed practice mixed practice
Nine tubes of potato catalase broke hydrogen peroxide down, and a student recorded the rate of oxygen release from each. The nine readings have a standard deviation of 0.36 mL/min.
Calculate the standard error of their mean.
Answer: 0.12 mL/min (tolerance ±0.0005)
A class measured the rate in five tubes and calculated a standard error of the mean. They repeat the experiment with twenty tubes, and the spread of the readings, s, comes out the same.
What happens to the standard error?
- A. The standard error falls to 25% of its valueThe equation divides by , not by n, and is twice , not four times.
- B. ✓ The standard error halves
- C. The standard error stays the sameWith s unchanged, a larger n makes smaller.
- D. The standard error doublesn is underneath the fraction, not on top; more readings make the mean surer, so the standard error falls.
Why: SE is .
Four times as many readings makes twice as large.
s stays the same.
So the standard error halves, as 0.0894 mL/min fell to 0.0447 mL/min for twenty tubes.
Amylase at pH 7 was breaking starch down into maltose in five tubes, and they produced maltose at 6.3, 5.7, 6.4, 5.6 and 6.0 mg/min. Work through the standard deviation first, then the standard error.
Calculate the standard error of the mean.
Part 1. Calculate the mean, .
Answer: 6 mg/min (tolerance ±0.005)
Part 2. Subtract the mean from each reading, square the result, and add these values. What is ?
Answer: 0.5 (mg/min)² (tolerance ±0.0005)
Part 3. Divide the sum of the squares by n − 1 and take the square root. What is the standard deviation, s?
Answer: 0.354 mg/min (tolerance ±0.0005)
Answer: 0.158 mg/min (tolerance ±0.0005)
Glossary
- standard error of the mean (SE)
- A measure of how far a sample mean is likely to sit from the true mean: the standard deviation divided by the square root of the number of readings. More readings (a larger n) give a smaller standard error and a more trustworthy mean.
APBIO-U03-L11B Draw the error bar, read the caption
The student measured a mean rate of 3.10 mL/min at 25 °C. Here it is drawn as a bar.
She knows the true mean could be a little higher or a little lower. How can a graph show how sure she is of her number? A short line through the top of the bar does that job. It is called an error bar.
Unit 3 · Cellular Energetics
1What an error bar shows
Five tubes at 25 °C gave a mean rate of 3.10 mL/min. The standard error of that mean is 0.0894 mL/min.
What does the standard error tell you?
- A. ✓ How far a five-tube mean is likely to sit from the true mean
- B. How far the fastest tube sat from the slowestSlowest to fastest is the spread of the readings; the standard error is about the mean.
Why: The standard error tells you how far a five-tube mean is likely to sit from the true mean.
Video: Watch: Draw the error bar, read the caption
Two standard errors either side of a mean is the range the true mean is likely to lie in; drawn through the top of the bar it is an error bar, and the caption says what the bar represents.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L11B.mp4
Video file not found on this machine: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L11B.mp4
An error bar shows on the graph how sure we are of a measured value.
On AP graphs the bar usually runs two standard errors above and below the mean, the range the true mean is likely to lie in.
The caption states what the bar represents, so the caption is read before the bar.
The true mean could be a little above 3.10 mL/min or a little below it. By how much?
Two standard errors either side of the mean is the range the true mean is likely to lie in. On a graph, this range is a line through the top of the bar, with a cap at each end.
A line like this, through the top of a bar, showing the range the true mean is likely to lie in, is called an , because it shows how far off the mean might be.
AP graphs usually use bars of two standard errors, and their captions say so: ‘error bars represent ±2SE’.
The range from two standard errors below the mean to two above is called a , because the true mean lies inside that range about 95% of the time.
What you are expected to know State what a ±2SE error bar shows: the range the true mean is likely to lie in, called a 95% confidence interval.
13Quick quiz: error bar and 95% confidence interval mixed practice
What is a ±2SE error bar?
- A. A line marking the largest and smallest of the individual readingsThe largest and smallest readings are the spread of the readings, not a range for the true mean.
- B. ✓ A line through the top of a bar showing where the true mean is likely to lie
- C. A line showing the size of the mistake made in reading each tube‘Error’ here means how far off the mean might be, not a mistake.
Why: A ±2SE error bar is a line through the top of a bar.
It shows the range the true mean is likely to lie in.
What is a 95% confidence interval?
- A. The range from the smallest of the readings to the largest of themSmallest to largest is the spread of the readings, not a range for the true mean.
- B. The range from one standard deviation below the mean to one above itOne standard deviation either side shows how spread out the readings were, not where the true mean lies.
- C. ✓ The range from two standard errors below the mean to two standard errors above it
Why: A 95% confidence interval is the range from two standard errors below the mean to two above it.
The true mean lies inside that range about 95% of the time.
The caption of an AP graph reads ‘Error bars represent ±2SE’.
How often does the true mean lie inside such a bar?
- A. ✓ About 95% of the time
- B. Every timeThe true mean can lie outside a ±2SE bar; it does so about 5% of the time.
- C. About half the timeA ±2SE bar holds the true mean far more often than half the time: about 95% of the time.
Why: A ±2SE bar is a 95% confidence interval.
So the true mean lies inside it about 95% of the time.
A student draws the mean rate of five catalase tubes as a bar, with an error bar of ±2SE through its top.
(a) State what the error bar shows. (1 pt)
- Award 1 point for: the range the true mean is likely to lie in (or: where the true mean is likely to lie).
(b) State what a 95% confidence interval is. (1 pt)
The true mean lies inside that range about 95% of the time.
- Award 1 point for: the range from two standard errors below the mean to two above it (mean ± 2SE); accept with or without the ‘about 95% of the time’ clause.
18Draw the error bar: two standard errors either side
The 25 °C mean is 3.10 mL/min. Its standard error of the mean, SE, is 0.0894 mL/min. Between which values does its ±2SE error bar run?
Here is the bar with its error bar from 2.92 to 3.28 mL/min, on gridlines every 0.5 mL/min. Beneath the graph is the legend that says what the bar represents.
The 35 °C mean is shown the same way: a bar reaching 4.90 mL/min, with an error bar from mean − 2SE to mean + 2SE and a cap at each end.
Calculate the two ends of the 35 °C error bar below.
The 35 °C mean is 4.90 mL/min with SE 0.131 mL/min.
Calculate the upper end of its ±2SE error bar.
Part 1. Double the standard error. What is 2SE?
Answer: 0.262 mL/min (tolerance ±0.0005)
Part 2. Calculate the lower end of the error bar.
Answer: 4.64 mL/min (tolerance ±0.005)
Answer: 5.16 mL/min (tolerance ±0.005)
Catalase from apple was breaking hydrogen peroxide down in five tubes. The mean rate is 1.80 mL/min with SE 0.070 mL/min.
Calculate the upper end of its ±2SE error bar.
Answer: 1.94 mL/min (tolerance ±0.005)
Here are the 25 °C and 35 °C bars together. Each error bar runs two standard errors above and below its mean, and the legend says so.
What you are expected to know State where the ±2SE error bar on a mean runs: from mean − 2SE to mean + 2SE, with a cap at each end, and a legend saying that the bars represent ±2SE.
27Read the caption before you read the bar
Here is the same bar twice. The two drawings are identical; only the captions differ.
Under ‘Error bars represent ±2SE’, the bar shows where the true mean is likely to lie: between 2.92 and 3.28 mL/min.
Under ‘Error bars represent standard deviation’, a bar of the same length shows only how spread out the individual readings were. It does not show how sure the mean is.
Here is a table comparing what the same error bar shows under the two captions.
| Caption: ‘Error bars represent ±2SE’ | Caption: ‘Error bars represent standard deviation’ | |
|---|---|---|
| what the bar shows | the range the true mean is likely to lie in | how spread out the individual readings were |
| does it show how sure the mean is? | yes | no |
the same drawn bar, two captions
In the exam, you will need to read the caption or the key first: some AP graphs say ‘Error bars represent standard deviation’, others ‘±2SE’.
What you are expected to know Read an error bar on a graph: first, from the caption or key, what the bar represents.
Here are mean rates for amylase at pH 6 and pH 7, with error bars.
What does the error bar on the pH 7 mean show?
- A. ✓ How spread out the individual readings were
- B. The range the true mean is likely to lie inThis legend says standard deviation.
A standard-deviation bar shows the spread of the readings.
Only a standard-error bar shows where the true mean is likely to lie.
Why: The legend reads ‘Error bars represent standard deviation’.
So each bar shows how spread out the individual readings were around their mean.
It does not show how sure the mean itself is.
Here are mean rates for catalase from yeast at 20 °C and 30 °C, with error bars.
What does the error bar on the 30 °C mean show?
- A. How spread out the individual readings wereA standard-deviation bar shows the spread of the readings, and this legend says ±2SE.
- B. ✓ The range the true mean is likely to lie in
Why: The legend reads ‘Error bars represent ±2SE’.
A ±2SE bar runs two standard errors either side of the mean.
So the bar shows the range the true mean is likely to lie in.
Here are mean rates for a lipase at pH 5 and pH 8, with error bars.
What does the error bar on the pH 8 mean show?
- A. ✓ How spread out the individual readings were
- B. The range the true mean is likely to lie inThis legend says standard deviation.
A standard-deviation bar shows the spread of the readings.
A standard-error bar shows where the true mean is likely to lie.
Why: The legend reads ‘Error bars represent standard deviation’.
So the bar shows how spread out the individual readings were around their mean.
Read the legend first, every time.
37Read the two ends off the axis
Once you know what a bar represents, read its two ends off the gridlines.
On this graph the 20 °C bar runs from 1.80 to 2.60 μmol/min. The 30 °C bar runs from 3.40 to 4.20 μmol/min.
What you are expected to know Read the upper and lower ends of an error bar from the axis.
Here are mean rates for a lipase at 10 °C and 20 °C. The gridlines are 0.2 μmol/min apart.
Between which values does the 20 °C error bar run?
- A. 1.40 to 1.80 μmol/min1.40 to 1.80 μmol/min is the 10 °C bar.
The 20 °C bar is the right-hand one. - B. 2.60 to 2.90 μmol/min2.60 to 2.90 is only the lower half of the bar, from its lower cap up to the mean.
- C. ✓ 2.60 to 3.20 μmol/min
Why: The 20 °C bar’s lower cap sits on the gridline at 2.60 μmol/min.
Its upper cap sits on the gridline at 3.20 μmol/min.
So the bar runs from 2.60 to 3.20 μmol/min, 0.30 either side of the mean of 2.90.
Here again are the yeast catalase bars. The gridlines are 0.1 mL/min apart.
Between which values does the 30 °C error bar run?
- A. 2.90 to 3.30 mL/min2.90 to 3.30 is only the lower half of the bar, from its lower cap up to the mean.
- B. ✓ 2.90 to 3.70 mL/min
- C. 3.30 to 3.70 mL/min3.30 to 3.70 is only the upper half of the bar, from the mean up to its upper cap.
Why: The 30 °C bar’s lower cap sits on the gridline at 2.90 mL/min.
Its upper cap sits on the gridline at 3.70 mL/min.
So the bar runs from 2.90 to 3.70 mL/min, 0.40 either side of the mean of 3.30.
Here is the 25 °C bar again. It carries an error bar from 2.92 to 3.28 mL/min, two standard errors either side of the mean. Its legend says that the bars represent ±2SE. So the bar shows the range the true mean is likely to lie in, and the caption is what tells a reader so.
44Mixed practice mixed practice
Five tubes of lipase broke fat down, and a student recorded the fatty acids each tube released per minute. The mean rate is 7.40 mg/min. Its standard error of the mean is 0.25 mg/min.
Calculate the upper end of its ±2SE error bar.
Answer: 7.9 mg/min (tolerance ±0.005)
A student drew the mean of 6.20 mg/min, with SE 0.15 mg/min, three times, each time with an error bar meant to represent ±2SE. The gridlines are 0.1 mg/min apart.
Which drawing shows the ±2SE error bar correctly?
- A. Drawing 1Drawing 1 reaches only one standard error each side, 6.05 to 6.35.
- B. Drawing 2Drawing 2 runs upward only, and the true mean could lie below the sample mean as well as above it.
- C. ✓ Drawing 3
- D. None of themTwo standard errors is 0.30 mg/min, so a ±2SE bar on 6.20 must run from 5.90 to 6.50 mg/min, and drawing 3 does.
Why: Two standard errors is 0.30 mg/min.
The bar must reach 0.30 mg/min below the mean of 6.20 mg/min and 0.30 mg/min above it.
So the bar runs from 5.90 to 6.50 mg/min.
That is drawing 3.
Sixteen tubes of liver catalase broke hydrogen peroxide down at 25 °C, and a student recorded the oxygen released from each: mean 6.30 mL/min, standard deviation 0.48 mL/min. Work from the standard error to the ends of the ±2SE bar.
Calculate the upper end of the ±2SE error bar.
Answer: 6.54 mL/min (tolerance ±0.005)
Glossary
- error bar
- A line drawn through the top of a bar (or through a point) that marks a mean, showing a range either side of it. On AP graphs the range is usually two standard errors, and the caption says so: ‘error bars represent ±2SE’.
- 95% confidence interval
- The range from two standard errors below a mean to two standard errors above it. The true mean lies inside that range about 95% of the time.
APBIO-U03-L11C Do the bars overlap?
Here are the two means from the catalase tubes, each with its ±2SE error bar: 3.10 mL/min at 25 °C and 4.90 mL/min at 35 °C.
Suppose the student sets up all ten tubes again tomorrow and measures every rate again. Both means will come out a little different. How different is different enough to say that temperature changed the rate?
Unit 3 · Cellular Energetics
1Do the bars overlap?
A class tests whether temperature changes the rate of a reaction.
What does the null hypothesis say?
- A. Temperature raises the rateA prediction of an effect is the ordinary hypothesis; the null hypothesis says the tested factor makes no difference.
- B. ✓ Temperature makes no difference to the rate
Why: The null hypothesis is the statement that the tested factor makes no difference.
Video: Watch: Do the bars overlap?
When two ±2SE bars do not overlap the difference is very unlikely to be chance and the null hypothesis is rejected; when they overlap, the data do not show a difference.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L11C.mp4
Video file not found on this machine: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L11C.mp4
Here it says that temperature makes no difference to the rate.
Here are the two bars again. Both bars represent ±2SE. The 25 °C bar runs from 2.92 to 3.28 mL/min and the 35 °C bar from 4.64 to 5.16 mL/min. There is clear space between them.
When two ±2SE bars do not overlap, the two true means are very unlikely to be the same. So the difference between the two sample means is very unlikely to be chance. So the null hypothesis is rejected: temperature changed the rate.
The 25 °C bar runs from 2.92 to 3.28 mL/min and the 35 °C bar from 4.64 to 5.16 mL/min; both represent ±2SE. Do the bars overlap, and what does that show?
Now consider a third set of five tubes, at 40 °C. Their mean is 4.94 mL/min. The standard error of the mean, SE, is 0.163 mL/min.
The 40 °C mean is 4.94 mL/min with SE 0.163 mL/min.
Calculate the upper end of its ±2SE error bar.
Part 1. Double the standard error. What is 2SE?
Answer: 0.326 mL/min (tolerance ±0.0005)
Answer: 5.27 mL/min (tolerance ±0.005)
Here is the 40 °C bar, 4.61 to 5.27 mL/min, drawn beside the other two.
Here are the 35 °C and 40 °C bars, with the two ends of each bar printed beside it. Both bars represent ±2SE.
Do the two bars overlap?
- A. ✓ Yes
- B. NoBars overlap when the bottom of the higher bar sits below the top of the lower bar; compare those two ends, not the two tops or the two means.
Why: Bars overlap when the bottom of the higher bar sits below the top of the lower bar.
The 40 °C bar’s bottom is 4.61 mL/min.
The 35 °C bar’s top is 5.16 mL/min.
4.61 sits below 5.16.
So the two bars overlap.
Here are mean rates for a protease from papaya at 20 °C and 40 °C. Both bars represent ±2SE.
Do the two bars overlap?
- A. YesThere is clear space between the two bars.
- B. ✓ No
Why: The 20 °C bar’s top is 1.80 μmol/min.
The 40 °C bar’s bottom is 2.70 μmol/min.
1.80 sits below 2.70.
So the two bars do not overlap.
Here are mean rates for catalase from apple and from pear. Both bars represent ±2SE.
Do the two bars overlap?
- A. ✓ Yes
- B. NoThe pear bar’s bottom sits below the apple bar’s top.
Why: The apple bar’s top is 2.05 mL/min.
The pear bar’s bottom is 1.80 mL/min.
1.80 sits below 2.05.
So the two bars overlap, sharing the range 1.80 to 2.05 mL/min.
Here are mean rates for amylase at pH 6 and pH 7. Both bars represent ±2SE.
Do the two bars overlap?
- A. YesThe gap between the bars is small but real.
- B. ✓ No
Why: The pH 6 bar’s top is 4.20 mg/min.
The pH 7 bar’s bottom is 4.35 mg/min.
4.20 sits below 4.35.
So the two bars do not overlap, even though the gap is small.
Here are mean rates for catalase from sun leaves and from shade leaves. Both bars represent ±2SE.
Do the two bars overlap?
- A. YesThe two bars are the same length, but overlap is about position, not length.
- B. ✓ No
Why: The sun-leaf bar’s top is 3.20 mL/min.
The shade-leaf bar’s bottom is 3.30 mL/min.
3.20 sits below 3.30.
So the two bars do not overlap.
Each ±2SE bar is the range its true mean is likely to lie in. When two ±2SE bars overlap, the two true means could both lie in the shared range, at the same value.
So the difference between the two sample means could be chance. So the data do not show a difference between the conditions. These five tubes cannot say whether 35 °C or 40 °C is the faster.
Overlapping bars mean ‘no difference shown’, not ‘the same’. The true means may still differ; more tubes might show it.
The rule is for ±2SE bars. Overlap of standard-deviation bars does not show whether the means differ, so read the caption first.
Here again are the 35 °C and 40 °C bars. Both bars represent ±2SE, and they overlap.
Which of the following do the data show about the rates at 35 °C and 40 °C?
- A. ✓ The data do not show a difference between the two rates
- B. The two rates are the same at 35 °C and 40 °COverlapping bars leave the question open.
The true means may still differ, and more tubes might show it. - C. The 40 °C rate is higher than the 35 °C rateA higher sample mean could easily be chance when the ±2SE bars overlap.
Why: Each bar is where its true mean is likely to lie.
The two bars overlap, so the two true means could be the same, or could differ.
So the 0.04 mL/min difference between the two sample rates could be chance.
So the data do not show a difference.
The 35 °C and 40 °C bars both represent ±2SE, and they overlap. The data do not show a difference between the two rates.
(a) Explain why the difference between the two means could be chance. (1 pt)
The 35 °C bar runs from 4.64 to 5.16 mL/min and the 40 °C bar from 4.61 to 5.27 mL/min, so the two ranges overlap.
So the true mean at 35 °C and the true mean at 40 °C could be the same value.
So the 0.04 mL/min difference between the two sample mean rates could be chance.
So the data do not show a difference.
That is not the same as showing the two rates are equal.
- Award 1 point for: each bar is the range its true mean is likely to lie in, and the bars overlap, so both true means could sit in the shared range and the difference between the two sample mean rates could be chance.
Nadia looks at the apple and pear bars and says: ‘The two bars overlap, so apple catalase and pear catalase work at the same rate.’
Is Nadia correct?
- A. YesOverlapping bars show only that the data have not shown a difference.
- B. ✓ No
Why: Each bar is the range its true mean is likely to lie in.
The two bars overlap, so the two true means could be the same, or could differ.
So the data show no difference, and they do not show the rates are the same.
Here again are the papaya protease bars at 20 °C and 40 °C. Both bars represent ±2SE.
Which of the following do the data show about the rates at 20 °C and 40 °C?
- A. The data do not show a difference between the two ratesThere is clear space between the two bars, and bars that do not overlap show a real difference.
- B. The two rates are the same at 20 °C and 40 °CThe two bars do not overlap, so the two true means are very unlikely to be the same.
- C. ✓ The 40 °C rate is higher than the 20 °C rate
Why: The 20 °C bar’s top, 1.80 μmol/min, sits below the 40 °C bar’s bottom, 2.70 μmol/min.
So the two ±2SE bars do not overlap.
So the difference is very unlikely to be chance.
So the null hypothesis of no difference is rejected: the protease works faster at 40 °C.
What you are expected to know Judge from two means with ±2SE error bars whether the conditions are likely to differ: bars apart, a real difference and the null hypothesis rejected; bars overlapping, no difference shown.
25Predict the change, then test it against the bars
You can predict what a change to an enzyme’s surroundings will do before a single tube is set up, by following one chain: the change, the enzyme’s structure, the active site, substrate binding, the rate.
At 70 °C, for example:
1. The change: the temperature is far above the optimum.
2. The enzyme’s structure: the hydrogen bonds and other weak interactions that hold the protein’s fold are disrupted.
3. The active site: it loses its shape.
4. Substrate binding: the substrate no longer fits.
5. The rate: the enzyme can no longer catalyze its reaction.
So the prediction is a rate near zero at 70 °C, far below the 4.90 mL/min at 35 °C. Means with error bars then say whether the data support the prediction, once the caption has said what the bars represent.
What you are expected to know Predict what a change in temperature, pH, chemical surroundings, substrate or product concentration, or an added inhibitor does to an enzyme’s rate, justify it through the enzyme’s structure, and test the prediction against means with error bars.
Here are results for amylase, five tubes at each of three pH values. The table gives each mean rate and its standard error of the mean, and its caption reads ‘Error bars represent ±2SE’.
Read the pH 8 row of the table.
Calculate the upper end of the pH 8 error bar.
Answer: 3.7 mg/min (tolerance ±0.005)
Catalase was breaking hydrogen peroxide down in five tubes at each of 25, 35 and 40 °C, and the oxygen released was recorded. Mean rates: 3.10 mL/min at 25 °C (standard error 0.0894 mL/min), 4.90 mL/min at 35 °C (standard error 0.131 mL/min) and 4.94 mL/min at 40 °C (standard error 0.163 mL/min). The graph shows the three means; error bars represent ±2SE, so they run from 2.92 to 3.28 mL/min, from 4.64 to 5.16 mL/min and from 4.61 to 5.27 mL/min.
(a) The mean rate at 40 °C is higher than the mean rate at 35 °C. Determine, from the error bars, whether the data show a difference between the rates at 35 °C and 40 °C. (1 pt)
The two ±2SE bars overlap.
So these data do not show a difference between the rates at 35 °C and 40 °C.
That is not the same as showing the rates are equal: five tubes at each temperature cannot tell the two apart.
- Award 1 point for: the decision (the data do not show a difference between 35 °C and 40 °C) AND the observation it rests on: the ±2SE bars overlap, so the data cannot say which is faster.
- Accept: ‘no significant difference is shown’ or ‘the difference could be chance’.
Slip Writing that the two rates are the same. Overlap means no difference shown; the true means may still differ.
(b) Identify one pair of temperatures whose data show a real difference in rate, and justify your choice using the error bars. (1 pt)
The 25 °C bar runs from 2.92 to 3.28 mL/min.
The 35 °C bar runs from 4.64 to 5.16 mL/min.
3.28 sits below 4.64, so the two ±2SE bars do not overlap.
So the difference between the two rates is very unlikely to be chance.
- Award 1 point for: 25 °C and 35 °C, or 25 °C and 40 °C, with the reason that their ±2SE error bars do not overlap.
Slip Choosing 35 °C and 40 °C because 4.94 is the largest mean. A larger mean is not a shown difference; those two bars overlap.
(c) Suppose the experiment were repeated at 70 °C. Predict the rate of oxygen release at 70 °C compared with 35 °C, and justify your prediction by explaining what happens to the enzyme. (2 pt)
At 70 °C the hydrogen bonds and other weak interactions that hold the protein’s fold are disrupted.
So the active site loses its shape.
So the substrate, hydrogen peroxide, no longer fits.
So the enzyme can no longer catalyze its reaction: catalase is denatured.
So almost no oxygen is released.
- Award 1 point for: a prediction with a direction, that the rate at 70 °C is much lower than at 35 °C (close to zero).
- Award 1 point for: the chain of reasoning that the weak interactions holding the fold are disrupted, so the active site loses its shape, the substrate no longer fits, and the rate falls (denaturation).
Slip Predicting a higher rate because warming a solution makes its molecules move faster, so enzyme and substrate collide more often and with more energy. That holds only below the optimum; far above it, denaturation removes working enzymes faster than the extra collisions can help.
(d) A student adds a molecule shaped like hydrogen peroxide to fresh tubes at 35 °C, then raises the hydrogen peroxide concentration well above the amount used before. Predict how much the look-alike molecule now lowers the rate, and justify your prediction. (1 pt)
The hydrogen peroxide concentration is now far above the amount of the look-alike.
So a hydrogen peroxide molecule reaches each empty active site almost every time.
So the look-alike now lowers the rate very little, and the rate returns close to the uninhibited rate at 35 °C.
- Award 1 point for: the rate is restored close to normal, because the substrate outcompetes the look-alike (a competitive inhibitor) for the active site at high substrate concentration.
Slip Treating the molecule as permanent damage. A competitive inhibitor binds and leaves again; it does not destroy the enzyme, so more substrate restores the rate.
Suppose a student adds lead ions to a solution of a purified enzyme and its substrate. The temperature and the pH stay the same.
What do the lead ions do to the enzyme?
- A. They bind to the substrate so that the substrate cannot reach the active siteLead ions act on the enzyme, not on the substrate.
- B. ✓ They bind to R groups on the enzyme and disrupt the weak interactions that hold its fold
- C. They heat the solution so that its molecules collide with one another more oftenLead ions lower the rate; they do not add energy or speed up collisions.
Why: Lead ions bind to R groups on the enzyme.
So the lead ions disrupt the weak interactions that hold the enzyme’s fold.
So the active site loses its shape.
Suppose the class sets up five fresh tubes of catalase and hydrogen peroxide at 35 °C and adds a solution of lead ions to each tube. The temperature stays at 35 °C and the pH is unchanged. Without lead ions, the mean rate at 35 °C was 4.90 mL/min, and its ±2SE error bar reached from 4.64 to 5.16 mL/min.
(a) Predict how the mean rate of oxygen release in the lead-ion tubes compares with 4.90 mL/min. (1 pt)
- Award 1 point for: a prediction with a direction, that the rate with lead ions is much lower than 4.90 mL/min.
(b) Justify your prediction by explaining what the lead ions do to the enzyme. (2 pt)
So the lead ions disrupt the hydrogen bonds and other weak interactions that hold the protein’s fold.
So the active site loses its shape.
So hydrogen peroxide no longer fits.
So catalase can no longer catalyze its reaction, and less oxygen is released each minute.
- Award 1 point for: lead ions bind to the enzyme’s R groups and disrupt the weak interactions that hold its fold.
- Award 1 point for: so the active site loses its shape, the substrate no longer fits, and the rate falls.
- Accept, for the first point: lead ions act as a non-competitive inhibitor, binding to the enzyme away from the active site and changing the enzyme’s shape.
Slip Saying the lead ions use up the hydrogen peroxide. Lead ions act on the enzyme’s fold; the substrate is unchanged.
(c) The class draws the lead-ion mean with its ±2SE error bar beside the 35 °C bar. Describe how the two bars would sit if the data support your prediction. (1 pt)
Its upper end would sit below 4.64 mL/min, the lower end of the 35 °C bar.
So the two ±2SE bars would not overlap, and the difference would be very unlikely to be chance.
- Award 1 point for: the lead-ion bar sits lower and the two ±2SE bars do not overlap (its upper end below 4.64 mL/min).
Slip Saying only that the lead-ion mean is lower. A lower mean is not a shown difference; the two bars must not overlap.
Here are the three bars again. The 25 °C bar runs from 2.92 to 3.28 mL/min and the 35 °C bar from 4.64 to 5.16 mL/min. They do not overlap, so the data support a real effect of temperature. The 40 °C bar, 4.61 to 5.27 mL/min, overlaps the 35 °C bar, so those data cannot say which of the two is faster.
36Mixed practice mixed practice
Students tested a protease at 30 °C and 40 °C, five tubes each. Here are the two means with their error bars.
Which of the following may be concluded about the rates at 30 °C and 40 °C?
- A. The rates at 30 °C and 40 °C are the sameOverlapping bars leave the question open.
The true means may still differ, and more tubes might show it. - B. The rate at 40 °C is higher than the rate at 30 °CA higher mean could easily be chance when the ±2SE bars overlap.
- C. The bars cannot be compared with each otherThe legend says ±2SE, not standard deviation, so the overlap rule applies and the bars can be compared.
- D. ✓ The data do not show a difference between 30 °C and 40 °C
Why: The legend says the bars are ±2SE.
The 30 °C bar’s top, 5.50 μmol/min, sits above the 40 °C bar’s bottom, 5.30 μmol/min, so the two bars overlap.
So the difference could be chance: the data show no difference, which is not the same as showing the rates are equal.
Here are mean rates for a lipase at 30 °C and 40 °C. The legend says the bars represent standard deviation. The two error bars overlap.
What does the overlap of these two bars show?
- A. The means do not differ, because overlapping bars mean no differenceThe ±2SE overlap rule does not apply to standard-deviation bars.
- B. The two means are the same, because the bars overlap by more than one gridlineOverlap never shows that two means are the same, and these are standard-deviation bars in any case.
- C. ✓ Nothing about the means: standard-deviation bars show the spread of the readings
- D. The 40 °C rate is higher, because its bar reaches higher on the axisStandard-deviation bars show how spread out the readings were, not how sure each mean is, so their overlap cannot show that one rate is higher.
Why: The legend reads ‘Error bars represent standard deviation’.
A standard-deviation bar shows how spread out the readings were.
The overlap rule is for ±2SE bars only.
So the overlap of these two bars does not show whether the means differ.
Students tested a lipase at four pH values, five tubes each. The legend says the error bars represent ±2SE, and the gridlines are 0.25 μmol/min apart.
Which of these pairs of conditions shows a real difference in rate?
- A. pH 5 and pH 6The pH 5 bar, 1.50 to 2.50, and the pH 6 bar, 2.00 to 3.00, overlap, so these data do not show a difference.
- B. ✓ pH 6 and pH 7
- C. pH 6 and pH 8The pH 6 bar reaches up to 3.00 and the pH 8 bar reaches down to 2.75, so the two overlap.
- D. pH 7 and pH 8The pH 7 bar, 3.75 to 4.75, and the pH 8 bar, 2.75 to 4.25, overlap.
Why: The pH 6 bar runs from 2.00 to 3.00 μmol/min and the pH 7 bar from 3.75 to 4.75 μmol/min.
3.00 sits below 3.75, so the two bars do not overlap.
Every other listed pair overlaps.
So only the pH 6 and pH 7 difference is unlikely to be chance.
In the graph of catalase at 25, 35 and 40 °C, the 35 °C and 40 °C bars, both ±2SE, overlap. The class wants to find out whether the two rates really differ.
Which change to the experiment could settle it?
- A. ✓ Measure the rate in many more tubes at each temperature
- B. Report the two means to more decimal placesExtra decimal places change how the means are written, not how far each is likely to sit from its true mean; the bars stay where they are.
- C. Show the bars as standard deviation insteadStandard-deviation bars show how spread out the readings were, and their overlap does not show whether the means differ.
- D. Compare the two means aloneA larger mean is not a shown difference; with overlapping ±2SE bars, the 0.04 mL/min between the means could easily be chance.
Why: Overlapping ±2SE bars mean no difference shown.
Each bar reaches two standard errors either side of its mean, and the standard error of the mean is .
So many more tubes shrink both bars.
If the shorter bars no longer overlapped, the data would show a real difference.
Here are the mean rates for catalase from liver and from potato, sixteen tubes each at 25 °C, each with its ±2SE bar and the two ends of the bar printed.
What may be concluded about the two rates?
- A. The data do not show a differenceOverlap is about position, not length; two bars of the same length can leave a gap between them.
- B. Nothing can be concludedSixteen tubes gave a small standard error, and the rule needs only the two ±2SE bars.
- C. ✓ The data show the potato rate is higher
- D. The two rates are the sameTwo bars can both sit between 6 and 7.2 and still leave a gap between them, and overlap never shows two rates are the same.
Why: The liver bar’s top is 6.54 mL/min.
The potato bar’s bottom is 6.62 mL/min.
6.54 sits below 6.62, so the two ±2SE bars do not overlap.
So the difference is very unlikely to be chance.
So the potato catalase really is faster.
Here are the mean rates for catalase from liver and from potato, sixteen tubes each at 25 °C, each with its ±2SE bar and the two ends of the bar printed. The data show the potato rate is higher.
(a) Explain how the two error bars support this conclusion. (1 pt)
The liver bar’s top is 6.54 mL/min.
The potato bar’s bottom is 6.62 mL/min.
6.54 sits below 6.62, so the two bars do not overlap.
So the liver’s true mean and the potato’s true mean are very unlikely to be the same.
So the difference is very unlikely to be chance, and the potato catalase really is faster.
- Award 1 point for: the two ±2SE bars do not overlap, so the difference between the means is very unlikely to be chance.
Potato catalase was breaking hydrogen peroxide down in five tubes at pH 7 and five tubes at pH 9, and the oxygen released was recorded. At pH 7 the mean rate was 3.80 mL/min with a standard deviation of 0.28 mL/min. At pH 9 the mean rate was 2.80 mL/min with a standard error of 0.089 mL/min, so its ±2SE error bar runs from 2.62 to 2.98 mL/min.
(a) Calculate the standard error of the pH 7 mean. (1 pt)
Answer: 0.125 mL/min (tolerance ±0.005)
- Award 1 point for: SE = 0.125 mL/min.
(b) Calculate the lower end of the pH 7 mean’s ±2SE error bar. (1 pt)
Answer: 3.55 mL/min (tolerance ±0.01)
So the pH 7 error bar runs from 3.55 mL/min up to 4.05 mL/min.
Its lower end is 3.55 mL/min.
- Award 1 point for: a lower end of 3.55 mL/min (accept 3.54–3.56).
(c) Support the claim that catalase works faster at pH 7 than at pH 9, using the error bars. (1 pt)
The pH 9 bar runs from 2.62 to 2.98 mL/min.
2.98 sits below 3.55, so the two ±2SE bars do not overlap.
So the difference between the rates is very unlikely to be chance.
So the null hypothesis that pH makes no difference is rejected, and catalase works faster at pH 7.
- Award 1 point for: the evidence (the two ±2SE bars, 3.55–4.05 and 2.62–2.98 mL/min, do not overlap) AND the reasoning that links it to the claim: so the difference is unlikely to be chance, and catalase works faster at pH 7.
Slip Comparing the means alone, 3.80 against 2.80. The claim rests on the bars not overlapping, not on which mean is bigger.
(d) Predict how the rate at pH 2 compares with the rate at pH 7, and explain why. (2 pt)
The much higher H⁺ concentration changes the charges on many of the enzyme’s R groups.
The changed charges disrupt the hydrogen bonds and other weak interactions that hold the protein’s fold.
So the active site loses its shape.
So hydrogen peroxide no longer fits, and catalase is denatured.
- Award 1 point for: a prediction with a direction, that the rate at pH 2 is much lower than at pH 7 (close to zero).
- Award 1 point for: the chain of reasoning that the changed H⁺ concentration alters charges and disrupts the weak interactions holding the fold, so the active site loses its shape, the substrate no longer fits, and the rate falls (denaturation).
Slip Predicting a higher rate because there are more hydrogen ions to react. The H⁺ does not take part in the reaction; it changes the charges and bonds that hold the enzyme’s fold.
APBIO-U03-P32B Practice questions: Topic 3.2b
Answer every question. For each multiple-choice question, pick one option and press Check; the feedback gives the reasoning. For the free-response questions, write short, simple sentences, each on its own line, and show any calculation; make every link clear (so, because, therefore). That is what the exam’s ‘paragraph form’ means for you: linked sentences, not bullet points. The first free-response question walks you through the reasoning one part at a time, and you can open a hint for each part; the second is at the level of the test. When you finish a question, open the scoring guide and mark your own work against it. Use the mean, the standard deviation and the standard error of the mean exactly as the AP formula sheet writes them; the standard deviation divides by n − 1, and an error bar of ±2SE covers the range the true mean is likely to lie in. Rounding: keep the full value in your calculator and write at least three significant figures in your working; report a mean to one more decimal place than the readings, and a standard deviation or standard error to three significant figures. Where a graph's legend says its error bars represent ±2SE, the overlap rule applies.
Video: Watch first: Topic 3.2b summary: five readings to an error bar
Five readings give a mean, a standard deviation and a standard error; an error bar is the mean ± 2SE; ±2SE bars apart show a real difference, and bars that overlap show none.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-T32B-summary.mp4
Video file not found on this machine: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-T32B-summary.mp4
Five readings of an enzyme's rate were 8.0, 8.5, 7.5, 8.1 and 7.9 mg/min. Their mean is 8.00 mg/min. Use the formula on the AP sheet, .
What is the standard deviation of these readings?
- A. 0.13 mg/min0.13 is the sum of the squared differences divided by n − 1, before the square root is taken.
- B. 0.322 mg/min0.322 comes from dividing the sum of the squared differences by 5 instead of by n − 1 = 4.
The AP formula divides by one less than the count. - C. ✓ 0.361 mg/min
- D. 0.52 mg/min0.52 is the sum of the squared differences, before it is divided by n − 1 and square-rooted.
Why: The standard deviation divides the sum of the squared differences by n − 1, then takes the square root.
The working below gives s as 0.361 mg/min to three significant figures.
Sixteen trials of a reaction gave a mean rate of 9.6 μmol/min with a standard deviation of 0.80 μmol/min.
What is the standard error of the mean for these sixteen trials?
- A. 0.050 μmol/min0.050 is the standard deviation divided by n itself, not by .
- B. ✓ 0.20 μmol/min
- C. 0.80 μmol/min0.80 μmol/min is the standard deviation, the spread of the sixteen readings.
The standard error of the mean is smaller than the standard deviation. - D. 3.2 μmol/min3.2 is the standard deviation multiplied by .
More trials make a mean more trustworthy, so the standard error of the mean must shrink as n grows: divide, not multiply.
Why: The standard error of the mean is the standard deviation divided by the square root of n, as the working below shows.
It measures how far a sample mean is likely to sit from the true mean.
More trials give a smaller standard error and a more trustworthy mean.
The graph shows the mean rate of an enzyme from a salt-marsh plant at three salt concentrations, five trials each, with temperature and pH the same in every tube.
Which statement do the error bars support?
- A. ✓ 20 g/L differs from 0 g/L, but 0 and 10 g/L are not shown to differ
- B. The 10 g/L rate is shown to be lower than the 0 g/L rateThe 0 g/L bar, 7.5 to 8.5 μmol/min, and the 10 g/L bar, 7.0 to 8.0, overlap, so the gap between those means could be chance.
- C. The 0 g/L rate and the 10 g/L rate are shown to be the sameOverlapping ±2SE bars mean that a difference has not been shown.
That is not the same as showing the two rates are equal. - D. Every reading at 20 g/L lay below every reading at 0 g/L±2SE bars show where each true mean is likely to lie, not the highest and lowest readings, which spread well beyond the bars.
Why: The bars are ±2SE.
The 20 g/L bar, 3.5 to 4.5, and the 0 g/L bar, 7.5 to 8.5, do not overlap.
So that difference is unlikely to be chance: the null hypothesis is rejected.
The 0 and 10 g/L bars overlap, so those rates are not shown to differ.
Six tubes of catalase at 20 °C break hydrogen peroxide down, and a student collects the oxygen each tube produces. The six tubes produce oxygen at 2.4, 3.1, 2.2, 2.8, 2.5 and 2.6 mL/min.
What mean rate should be reported for 20 °C?
- A. 0.9 mL/min0.9 mL/min is the difference between the largest reading and the smallest reading, not the mean.
- B. ✓ 2.60 mL/min
- C. 3.12 mL/min3.12 comes from dividing 15.6 by 5, one less than the number of tubes.
The mean divides by n = 6. - D. 15.6 mL/min15.6 mL/min is the sum of the readings, before dividing by how many readings there are.
Why: The mean is the sum of the readings divided by how many there are, .
The sum is 2.4 + 3.1 + 2.2 + 2.8 + 2.5 + 2.6 = 15.6 mL/min.
15.6 ÷ 6 = 2.60 mL/min, written to one more decimal place than the readings.
A gardener grows two trays of six radish seedlings in two soils. In tray 1 the seedlings have a mean height of 48.0 mm with a standard deviation of 2.1 mm. In tray 2 they have a mean height of 52.0 mm with a standard deviation of 8.4 mm.
Which statement do these values support?
- A. The larger standard deviation shows that tray 2's seedlings grew betterA larger standard deviation is a wider spread, not a better result.
Tray 2's taller mean and tray 2's wider spread are two separate facts. - B. Tray 1's six heights all lay within 2.1 mm of one anotherA standard deviation of 2.1 mm is a typical distance from the mean, on either side, not the full range from shortest to tallest.
- C. The wide spread of tray 2's heights makes its mean wrongA larger standard deviation says only that the heights varied more; it does not make the mean wrong.
52.0 mm is still the best single value for tray 2. - D. ✓ Tray 2's seedling heights vary more from one seedling to the next
Why: The standard deviation measures how far the heights typically sit from their mean.
Tray 2's s is 8.4 mm and tray 1's is 2.1 mm.
So tray 2's heights vary more from one seedling to the next.
The spread does not show which tray grew better.
Five tubes of catalase at 25 °C produced oxygen at a mean rate of 4.20 mL/min. The standard deviation of the five readings is 0.50 mL/min and the standard error of the mean is 0.224 mL/min.
Which value says how far this sample mean is likely to sit from the true mean?
- A. 4.20 mL/min, the mean itselfThe mean is the estimate of the true mean.
The mean cannot also say how far off that estimate is likely to be. - B. 0.50 mL/min, the standard deviationThe standard deviation says how far a single reading typically sits from the mean, the spread of the five tubes, not how far the mean is from the true mean.
- C. 1.00 mL/min, twice the standard deviationTwice the standard deviation measures the spread of the readings, not the mean.
An error bar uses twice the standard error of the mean, 0.448 mL/min. - D. ✓ 0.224 mL/min, the standard error
Why: The standard error of the mean, 0.224 mL/min, is the standard deviation divided by the square root of the five tubes.
It measures how far a sample mean is likely to sit from the true mean.
The standard deviation, 0.50 mL/min, measures the spread of the individual readings instead.
The graph shows the mean rate of fatty-acid release by a lipase at 15 °C and at 25 °C, five tubes each, with error bars.
What are the two ends of the 25 °C error bar?
- A. 1.20 to 1.60 μmol/min1.20 to 1.60 μmol/min is the 15 °C bar.
The 25 °C bar is the right-hand one. - B. 2.00 to 2.30 μmol/min2.00 to 2.30 is only the lower half of the bar.
The bar runs from its lower cap through the mean to its upper cap at 2.60 μmol/min. - C. ✓ 2.00 to 2.60 μmol/min
- D. 2.15 to 2.45 μmol/min2.15 to 2.45 is a narrower bar than the one drawn.
The drawn bar's caps sit on the gridlines at 2.00 and 2.60 μmol/min.
Why: The legend says the bars are ±2SE, so each bar shows the range the true mean is likely to lie in.
The 25 °C bar's lower cap sits on the gridline at 2.00 μmol/min.
Its upper cap sits at 2.60 μmol/min.
So the bar runs from 2.00 to 2.60 μmol/min.
A student measured the mass of six eggs from one hen: 58, 61, 55, 60, 57 and 59 g. The AP formula sheet writes the mean as .
Which symbol stands for the mean mass of the six eggs?
- A. ✓
- B. is the instruction to add the six masses up.
It has no value of its own. - C. is each single mass, such as 58 g.
- D. nn is how many eggs were measured, 6.
Why: , said 'x bar', is the mean: the one mass that stands for all six eggs.
is the instruction to add the six masses.
n is how many eggs there are, 6.
is each single mass.
A student plots the mean height of eight maize seedlings after ten days as a bar with an error bar through its top. The legend reads "error bars represent ±2SE".
Which of the following does the error bar show?
- A. How far a single seedling's height typically sits from the meanHow far a single reading typically sits from the mean is the standard deviation.
The bar is built from the standard error of the mean. - B. ✓ The range the true mean is likely to lie in
- C. The range from the shortest seedling to the tallestThe shortest and tallest seedlings are the spread of the readings.
A ±2SE bar is about the mean, and the readings spread well beyond it. - D. The size of the mistake made in measuring each seedling'Error' here means how far off the sample mean might be, not a mistake.
The student could measure every seedling perfectly and the bar would be unchanged.
Why: ±2SE means two standard errors of the mean either side of the mean.
The standard error of the mean is how far the eight-seedling mean is likely to sit from the true mean.
So the bar is where the true mean is likely to lie, the 95% confidence interval.
A student plots the mean rate at which a protease from pineapple breaks protein down at pH 5, five tubes, as a bar with an error bar through its top. The error bar runs from 3.2 to 4.8 mg/min. The legend reads "error bars represent one standard deviation".
Which of the following does this error bar show?
- A. The range the true mean is likely to lie inThe legend says one standard deviation, not ±2SE.
A standard-deviation bar shows how widely the readings spread; it does not show where the true mean lies. - B. Two standard errors of the mean either side of the meanThe legend says one standard deviation.
Only a bar whose legend says ±2SE reaches two standard errors of the mean either side. - C. ✓ How widely the five readings spread either side of their mean
- D. The range from the slowest of the five tubes to the fastestOne standard deviation is how far a reading typically sits from the mean.
Some readings sit beyond the bar's ends, which are not the slowest and fastest tubes.
Why: The legend decides what a bar means.
This legend says one standard deviation.
The standard deviation measures how far the readings typically sit from their mean.
So this bar shows how widely the five readings spread.
Only a standard-error bar shows where the true mean is likely to lie.
Students measured the rate at which a protease purified from a fungus digests a milk protein, at three temperatures with five trials at each. The pH and the protein concentration were the same in every trial. Their bar chart, with error bars representing ±2SE, is shown for 20 °C and 60 °C. The five readings at 40 °C were 6.2, 6.8, 5.9, 6.5 and 6.1 mg of protein digested per minute; their standard deviation is s = 0.354 mg/min. The students have still to add the 40 °C bar to the chart. Five later trials at 70 °C gave a mean rate of 1.2 mg/min; those trials are not on the chart.
(a) Calculate the mean rate at 40 °C. (1 pt)
Frame The mean rate at 40 °C is … mg/min.
Hint Which formula on the AP sheet gives the mean, and how many readings does the sum have to be divided by?
- Award 1 point for: mg/min.
- Accept 6.3 mg/min. Do not award the point for 31.5 (the sum) or for 7.88 (the sum divided by 4).
Slip Dividing the sum by 4 instead of 5. The mean divides by n, the number of readings; it is the standard deviation that divides by n − 1.
(b) Calculate the standard error of the mean for 40 °C. (1 pt)
Frame The standard error of the mean for 40 °C is … mg/min.
Hint The AP sheet's standard error of the mean uses s and n. Which value in the question is s, and what is n?
- Award 1 point for: SE = 0.354 divided by the square root of 5 (2.24) = 0.158 mg/min (accept 0.158 to 0.159).
- Do not award the point for 0.354 divided by 5 = 0.0708 (dividing by n instead of the square root of n) or for 0.354 (the standard deviation given as the standard error).
Slip Dividing by n, 5, instead of by . The equation divides the standard deviation by the square root of the number of readings.
(c) Calculate the two ends of the ±2SE error bar for the 40 °C mean. (1 pt)
Frame The 40 °C error bar runs from … to … mg/min.
Hint The caption says what each bar represents. How far above and below the mean does a bar of that kind reach?
- Award 1 point for both ends: 2SE = 0.316 mg/min, so the bar runs from 6.30 − 0.316 = 5.98 to 6.30 + 0.316 = 6.62 mg/min (accept each end within ±0.01).
- Accept the range written as 6.30 ± 0.32 mg/min. Do not award the point for a bar of ±1SE (6.14 to 6.46) or for a bar built from the standard deviation.
Slip Adding and subtracting one standard error of the mean instead of two. The bar the students drew is ±2SE, the range the true mean is likely to lie in.
(d) One student claims that the protease works faster at 60 °C than at 40 °C. Evaluate the claim using the two error bars, and determine whether the null hypothesis of no difference between 40 and 60 °C is rejected. (1 pt)
Frame The 40 °C bar runs from … to … and the 60 °C bar from … to …, so the bars …; therefore the claim is …, and the null hypothesis is …
Hint Compare the top of the lower bar with the bottom of the higher bar. What does the caption say the bars represent, and what does the overlap rule say for bars of that kind?
The two bars overlap.
So the gap between the two mean rates, 6.50 against 6.30 mg/min, could be chance.
Therefore the claim is not supported by these data.
Because the bars overlap, the null hypothesis of no difference is not rejected.
That is not the same as showing the two rates are equal.
- Award 1 point for: the judgement (the claim is not supported) with its ground (the two ±2SE bars overlap: 5.98 to 6.62 shares its range with 6.00 to 7.00), so the difference between the means could be chance, AND the decision that the null hypothesis of no difference between 40 and 60 °C is not rejected.
- Evaluate needs the judgement and its ground; Determine needs the decision and what it rests on. Do not award the point for 'the rates are the same' (overlap shows no difference, not equality), or for a decision made from the two means alone.
Slip Reading overlapping bars as 'the rates are the same', or giving the judgement without the bars. Overlap means the data have not shown a difference; the true means may still differ.
(e) The students propose repeating the experiment at 80 °C. Predict how the mean rate at 80 °C will compare with the mean at 60 °C, and justify your prediction in terms of the enzyme's structure. (1 pt)
Frame At 80 °C the mean rate will be … than at 60 °C. The 70 °C trials show that …, because heat …, so …, and …
Hint The 70 °C trials are the place to look. What must be happening to the enzyme molecules themselves when the rate falls even though the temperature has risen?
The 70 °C trials already show the rate collapsing, from 6.50 to 1.2 mg/min, so the protease is past its optimum.
Heat disrupts the hydrogen bonds and other weak interactions that hold its fold.
So the active site loses its shape and the milk protein no longer fits.
At 80 °C the loss is more complete still.
- Award 1 point for: the mean rate at 80 °C will be much lower than at 60 °C (near zero), because the fall from 6.50 mg/min at 60 °C to 1.2 mg/min at 70 °C shows that the enzyme is already past its optimum: heat disrupts the hydrogen bonds and other weak interactions that hold the protein's fold, so the active site loses its shape and the substrate no longer fits (denaturation), and at 80 °C this loss is more complete.
- Accept with or without the point that this loss outweighs the extra collisions warming brings. Accept 'denatured' only with what it does to the active site or to substrate binding. Do not award the point for 'faster, because molecules move faster', for 'lower' with no structural reason, or for a prediction that ignores the 70 °C trials.
Slip Predicting a higher rate because hotter molecules collide more often. That holds only below the optimum. The fall from 6.50 mg/min at 60 °C to 1.2 mg/min at 70 °C shows that 70 °C is already past the optimum, and more heat makes the loss worse.
A protease from a soil bacterium is breaking protein down, and the amino acids released are measured each minute. Students set up five tubes at 0% salt and five at 2% salt, with temperature, pH and protein concentration the same in every tube. At 0% salt the mean rate was 5.60 μmol/min with a standard error of 0.150 μmol/min. At 2% salt the mean rate was 5.10 μmol/min with a standard error of 0.180 μmol/min. The students will report the two means with error bars representing ±2SE, and they plan five more tubes at 8% salt. A single tube at 6% salt, set up the same way, released amino acids at 2.10 μmol/min.
(a) Calculate the two ends of the ±2SE error bar for each mean. (1 pt)
- Award 1 point for both bars: 0% salt, 2SE = 0.300, so the bar runs from 5.30 to 5.90 μmol/min; 2% salt, 2SE = 0.360, so the bar runs from 4.74 to 5.46 μmol/min (accept each end within ±0.01).
- Accept the bars written as 5.60 ± 0.30 and 5.10 ± 0.36 μmol/min. Do not award the point for bars of ±1SE.
Slip Adding and subtracting one standard error of the mean instead of two. The bar the students will report is ±2SE, the range the true mean is likely to lie in.
(b) Evaluate the claim that the protease is slower at 2% salt than at 0% salt, using the two error bars, and determine whether the null hypothesis of no difference between 0% and 2% salt is rejected. (1 pt)
The two bars overlap between 5.30 and 5.46.
So the gap between the two mean rates, 5.60 against 5.10 μmol/min, could be chance.
Therefore the claim is not supported by these data.
Because the bars overlap, the null hypothesis of no difference is not rejected.
That is not the same as showing the two rates are equal.
- Award 1 point for: the judgement (the claim is not supported) with its ground (the two ±2SE bars overlap: 5.30 to 5.90 shares the range 5.30 to 5.46 with 4.74 to 5.46), so the difference between the means could be chance, AND the decision that the null hypothesis of no difference between 0% and 2% salt is not rejected.
- Evaluate needs the judgement and its ground; Determine needs the decision and what it rests on. Do not award the point for 'the rates are the same' (overlap shows no difference, not equality), or for a decision made from the two means alone.
Slip Reading overlapping bars as 'the rates are the same', or giving the judgement without the bars. Overlap means the data have not shown a difference; the true means may still differ.
(c) Suppose twenty tubes were set up at each salt concentration instead of five. Explain how that would change the standard error of the mean for each salt concentration and the length of each error bar, if the spread of the readings stayed the same. (1 pt)
The spread of the readings stays the same, so s stays the same.
Going from five tubes to twenty makes the square root of n twice as large, from to .
So each standard error halves, and each ±2SE error bar is half as long.
Each mean is then a surer estimate of the true mean.
- Award 1 point for: the standard error is the standard deviation divided by the square root of n, and the square root of 20 (4.47) is twice the square root of 5 (2.24), so each standard error would halve and each ±2SE bar would be half as long; the means would be surer estimates of the true means (and the shorter bars might then separate).
- Accept "SE halves, bars half as long" with the square root of n as the reason. Do not award the point for "the standard error falls to a quarter" (that divides by n) or for "the standard deviation falls" (the spread of readings is unchanged).
Slip Saying the standard error of the mean falls to a quarter because there are four times as many tubes. The equation divides by the square root of n. The square root of 20 is twice the square root of 5, not four times.
(d) Predict how the mean rate at 8% salt will compare with the mean rate at 2% salt, and justify your prediction in terms of the enzyme's structure. (1 pt)
Temperature and pH are unchanged, so any fall comes from the salt itself.
A high salt concentration can disrupt the interactions that hold the protease's fold.
So the active site loses its shape, the protein no longer fits, and the enzyme can no longer catalyze the reaction.
- Award 1 point for: the mean rate at 8% salt will be much lower than at 2%, because a high salt concentration can disrupt the interactions that hold the protease's fold, so the active site loses its shape and the protein substrate binds less well or no longer fits, and the rate falls even with temperature and pH unchanged.
- Accept "the fold is disrupted, so the active site is lost" for the mechanism; accept a note that a test of how many molecules are still folded would confirm the change in shape. Do not award the point for "about the same as at 2%" (the 6% trial already shows the fall), for "the salt uses up the substrate", for "the salt cools the tubes", or for "lower" with no structural reason.
Slip Predicting a faster rate because salt adds ions that collide with the enzyme, or saying the salt uses up the substrate. Dissolved salt acts on the enzyme's fold. It is the shape of the active site that changes.
APBIO-U03-T32B End-of-topic test: Statistics
Answer every question. For each multiple-choice question, pick one option and press Check; the feedback gives the reasoning. For the two free-response questions, write short, simple sentences, each on its own line, and show any calculation; make every link clear (so, because, therefore). That is what the exam’s ‘paragraph form’ means for you: linked sentences, not bullet points. Then open the scoring guide and mark your own work against it. Use the mean, the standard deviation and the standard error of the mean exactly as the AP formula sheet writes them; the standard deviation divides by n − 1, and an error bar of ±2SE covers the range the true mean is likely to lie in. Rounding: keep the full value in your calculator and write at least three significant figures in your working; report a mean to one more decimal place than the readings, and a standard deviation or standard error to three significant figures. Where a graph's legend says its error bars represent ±2SE, the overlap rule applies.
Five tubes of catalase at 30 °C released oxygen at 4.2, 3.8, 4.5, 4.1 and 3.9 mL/min.
What mean rate should be reported for 30 °C?
- A. 0.7 mL/min0.7 mL/min is the difference between the largest reading and the smallest reading, not the mean.
- B. ✓ 4.10 mL/min
- C. 5.13 mL/min5.13 comes from dividing 20.5 by 4, one less than the number of readings.
The mean divides by n = 5. - D. 20.5 mL/min20.5 mL/min is the sum of the readings, before dividing by how many readings there are.
Why: The mean is the sum of the readings divided by how many there are, .
The sum is 4.2 + 3.8 + 4.5 + 4.1 + 3.9 = 20.5 mL/min.
20.5 ÷ 5 = 4.10 mL/min, written to one more decimal place than the readings.
Five trials with enzyme A gave rates with a mean of 8.0 mL/min and a standard deviation of 0.3 mL/min. Five trials with enzyme B gave a mean of 5.0 mL/min and a standard deviation of 0.9 mL/min.
Which statement do these values support?
- A. The larger standard deviation shows that enzyme B's rate is higherA larger standard deviation is a wider spread, not a larger or better result.
Enzyme B's mean, 5.0 mL/min, is lower than enzyme A's, 8.0 mL/min. - B. Enzyme A's five readings all lay within 0.3 mL/min of one anotherA standard deviation of 0.3 mL/min is a typical distance from the mean, on either side, not the full range from lowest to highest.
- C. The wide spread of enzyme B's readings makes its mean of 5.0 mL/min wrongA larger standard deviation says only that the trials varied more; it does not make the mean wrong.
5.0 mL/min is still the best single value for enzyme B. - D. ✓ Enzyme B's readings varied more from one trial to the next
Why: The standard deviation measures how far the readings typically sit from their mean.
Enzyme B's s is 0.9 mL/min and enzyme A's is 0.3 mL/min.
So enzyme B's readings are more spread out.
A larger standard deviation does not show which rate is higher: enzyme B's mean is the lower.
Five readings of an enzyme's rate were 6.0, 6.4, 5.6, 6.2 and 5.8 μmol/min. Their mean is 6.00 μmol/min. Use the formula on the AP sheet, .
What is the standard deviation of these readings?
- A. 0.10 μmol/min0.10 is the sum of the squared differences divided by n − 1, before the square root is taken.
- B. 0.283 μmol/min0.283 comes from dividing the sum of the squared differences by 5 instead of by n − 1 = 4.
The AP formula divides by one less than the count. - C. ✓ 0.316 μmol/min
- D. 0.40 μmol/min0.40 is the sum of the squared differences, before it is divided by n − 1 and square-rooted.
Why: .
Differences from the mean: 0, +0.4, −0.4, +0.2, −0.2 μmol/min; their squares: 0, 0.16, 0.16, 0.04, 0.04, summing to 0.40.
0.40 ÷ (n − 1 = 4) = 0.10.
, so s = 0.316 μmol/min to three significant figures.
Nine trials of a reaction gave a mean rate of 12.0 mL/min with a standard deviation of 0.60 mL/min.
What is the standard error of the mean for these nine trials?
- A. 0.067 mL/min0.067 is the standard deviation divided by n itself, not by .
- B. ✓ 0.20 mL/min
- C. 0.60 mL/min0.60 mL/min is the standard deviation, the spread of the readings.
The standard error of the mean is smaller than the standard deviation. - D. 1.80 mL/min1.80 is the standard deviation multiplied by .
More trials make a mean more trustworthy, so the standard error of the mean must shrink as n grows: divide, not multiply.
Why: .
The square root of 9 is 3.
Dividing 0.60 mL/min by 3 gives 0.20 mL/min.
The standard error of the mean measures how far the sample mean is likely to sit from the true mean.
More trials give a smaller standard error and a more trustworthy mean.
A student plots the mean rate of a horseradish peroxidase at 15 °C and 25 °C, five trials each, with an error bar on each mean. The legend reads "error bars = ±1 standard error", one standard error of the mean either side. Seeing a clear gap between the two bars, the student concludes that the peroxidase is faster at 25 °C.
Which statement about the student's conclusion is correct?
- A. ✓ The student's bars are ±1SE; the overlap test needs ±2SE bars, which are twice as long and may overlap
- B. The student's bars show where each true mean is likely to lie, so the conclusion is sound±1SE bars are half the length of the ±2SE bars the overlap test uses.
A gap between ±1SE bars can close when the bars are drawn to ±2SE. - C. A gap between ±1SE bars is the overlap test itself, so no further check is neededThe overlap test compares ±2SE bars, not ±1SE bars.
The student's bars must be doubled first. - D. Five trials is too few for any conclusion, whatever the bars showFive trials each is the design the course uses.
The fault here is the length of the bars, not the number of trials.
Why: The overlap test compares ±2SE bars.
The student's bars are ±1SE, half that length.
So a gap between the student's bars does not settle the question: doubled to ±2SE, the bars may overlap.
The student should redraw the bars to ±2SE before concluding.
The graph shows the mean rate of an enzyme at pH 6, 7 and 8, five trials each, with error bars.
What do the error bars show about the rates at pH 7 and pH 8?
- A. The rates at pH 7 and pH 8 are the sameOverlapping bars mean that a difference has not been shown.
That is not the same as showing the two rates are equal.
The true means may still differ. - B. ✓ These data do not show a difference between pH 7 and pH 8
- C. pH 8 is faster, because its mean is higherA higher mean alone is not evidence of a real difference when the ±2SE bars overlap.
- D. Every reading at pH 8 lay above every reading at pH 7±2SE bars show where each true mean is likely to lie, not the highest and lowest readings, which spread well beyond the bars.
Why: The bars are ±2SE.
The pH 7 bar, 6.5 to 7.5, and the pH 8 bar, 6.8 to 8.0, overlap: the data cannot say which is faster, so the null hypothesis is not rejected.
The pH 6 bar, 4.6 to 5.4, overlaps neither: the enzyme is slower at pH 6.
Five tubes of a protease at 40 °C released amino acids at 5.4, 6.1, 4.9, 5.6 and 5.0 mg/min. Their mean is 5.40 mg/min. Use the formula on the AP sheet, .
What is the standard deviation of these readings?
- A. 0.235 mg/min0.235 is the sum of the squared differences divided by n − 1, before the square root is taken.
- B. 0.434 mg/min0.434 comes from dividing the sum of the squared differences by 5 instead of by n − 1 = 4.
The AP formula divides by one less than the count. - C. ✓ 0.485 mg/min
- D. 0.94 mg/min0.94 is the sum of the squared differences, before it is divided by n − 1 and square-rooted.
Why: .
Differences from the mean: 0, +0.7, −0.5, +0.2, −0.4 mg/min; their squares: 0, 0.49, 0.25, 0.04, 0.16, summing to 0.94.
0.94 ÷ 4 = 0.235.
mg/min to three significant figures.
A student measures the masses of six tomatoes from one plant on a kitchen balance. The masses have a mean of 86.5 g and a standard deviation of 1.20 g.
What is the standard error of the mean?
- A. 0.200 g0.200 g is the standard deviation divided by n, 6, rather than by .
- B. ✓ 0.490 g
- C. 0.537 g0.537 g is the standard deviation divided by .
Six tomatoes were measured, so n = 6.
Only s divides by n − 1. - D. 2.94 g2.94 g is the standard deviation multiplied by .
More readings make a mean more trustworthy, so the standard error of the mean must fall: divide, not multiply.
Why: , reported to three significant figures.
The standard error of the mean measures how far a sample mean is likely to sit from the true mean.
More readings give a smaller standard error and a more trustworthy mean.
Two students each measured the same six sunflower seedlings with a ruler. Student 1's six readings have a mean of 41.5 mm and a standard deviation of 1.2 mm. Student 2's have a mean of 41.8 mm and a standard deviation of 4.9 mm.
Whose six readings agreed most closely with one another, and how can you tell?
- A. Student 2's, because the mean of student 2's readings is the largerThe mean says where the middle of the readings is.
The mean does not say how widely the readings scatter around it.
The two means are almost the same. - B. Student 2's, because the standard deviation of student 2's readings is the largerA larger standard deviation is a wider spread.
Student 2's readings sat further from their mean, so student 2's readings agreed with one another less well. - C. Student 1's, because the mean of student 1's readings is the smallerThe mean does not measure spread.
The two means differ by only 0.3 mm. - D. ✓ Student 1's, because the standard deviation of student 1's readings is the smaller
Why: The standard deviation measures how far the readings typically sit from their mean.
Student 1's readings have the smaller standard deviation, 1.2 mm against 4.9 mm.
So student 1's readings scatter less either side of their mean, and they agree most closely.
The mean does not measure spread.
A report on the mass of 25 bean seeds from one plant gives a mean of 0.412 g, a standard deviation of 0.035 g and a standard error of the mean of 0.0070 g.
Which statement about these values is correct?
- A. ✓ The 0.0070 g says how far the sample mean is likely to sit from the true mean of all such seeds
- B. The 0.0070 g says how far a single seed's mass typically sits from the meanHow far a single reading typically sits from the mean is the standard deviation, 0.035 g, not the standard error of the mean.
- C. The 0.035 g says how far the sample mean is likely to sit from the true mean0.035 g is the standard deviation: the spread of the individual masses.
The standard error of the mean, five times smaller, is about the mean, not one seed. - D. The 0.035 g is the mistake the balance made in measuring the mass of each seedThe standard deviation is the natural scatter of the seed masses around their mean, not a mistake; the balance can be perfect with s still 0.035 g.
Why: The standard deviation, 0.035 g, measures how far the individual seed masses typically sit from their mean.
The standard error of the mean, 0.0070 g, is that standard deviation divided by .
It measures how far the sample mean is likely to sit from the true mean.
A class measured the rate of a reaction in nine tubes and calculated the standard error of the mean. They repeat the experiment with thirty-six tubes, and the standard deviation of the readings comes out the same as before.
What happens to the standard error of the mean?
- A. The standard error falls to 25% of its valueFalling to 25% would follow from dividing by n.
The formula divides by . - B. The standard error stays the sameWith the standard deviation unchanged, a larger n makes smaller.
So the standard error of the mean cannot stay the same. - C. ✓ The standard error halves
- D. The standard error doublesMore tubes make the mean more trustworthy, so the standard error of the mean must fall, not rise.
Doubling would follow from putting on top of the fraction.
Why: .
With s unchanged, four times as many tubes make twice as large, from to , so the standard error of the mean halves.
The thirty-six-tube mean is likely to sit closer to the true mean.
Five tubes of a lipase at 30 °C released fatty acids at a mean rate of 8.40 μmol/min. The standard deviation of the five readings is 0.47 μmol/min and the standard error of the mean is 0.21 μmol/min.
What are the two ends of the ±2SE error bar on this mean?
- A. 7.46 to 9.34 μmol/min7.46 to 9.34 is two standard deviations either side of the mean.
The bar uses the standard error of the mean, 0.21 μmol/min, which says how sure the mean is. - B. 8.19 to 8.61 μmol/min8.19 to 8.61 reaches only one standard error of the mean either side.
The bar reaches two. - C. 8.40 to 8.82 μmol/min8.40 to 8.82 runs upward only.
The true mean could lie below the sample mean as well as above it, so the bar reaches 0.42 μmol/min below the mean too. - D. ✓ 7.98 to 8.82 μmol/min
Why: The bar reaches two standard errors of the mean either side of the mean.
μmol/min.
So the bar runs from 8.40 − 0.42 = 7.98 to 8.40 + 0.42 = 8.82 μmol/min.
That range is where the true mean is likely to lie.
A student measured a protease's rate at 20 °C in five tubes: mean 4.20 mL/min, standard error of the mean 0.20 mL/min. The student drew the mean three times, each time with an error bar meant to represent ±2SE, as shown below.
Which drawing shows the ±2SE error bar correctly?
- A. ✓ Drawing 1
- B. Drawing 2Drawing 2's bar runs from 4.00 mL/min to 4.40 mL/min.
That is one standard error of the mean each side, not two. - C. Drawing 3Drawing 3's bar runs upward only, from 4.20 mL/min to 4.60 mL/min.
The true mean could lie below the sample mean as well as above it. - D. None of the three drawingsDrawing 1's bar runs from 3.80 mL/min to 4.60 mL/min, two standard errors of the mean each side of the 4.20 mean.
Why: The bar reaches two standard errors of the mean below and above the mean, as the working below shows.
So the bar runs from 3.80 mL/min to 4.60 mL/min.
That is drawing 1.
Drawing 2 reaches only one standard error each side.
Drawing 3 runs upward only.
The graph shows the mean rate of glucose release by a sucrase at pH 4 and at pH 5, five tubes each, with error bars.
What are the two ends of the pH 5 error bar, and what does the bar show?
- A. 2.80 to 3.60 mg/min; the range the true mean is likely to lie in2.80 to 3.60 mg/min is the pH 4 bar.
The pH 5 bar is the right-hand one. - B. 4.20 to 4.60 mg/min; the mean plus one standard error of the mean4.60 is the mean, not an end of the bar.
A ±2SE bar reaches two standard errors of the mean each side of it. - C. ✓ 4.20 to 5.00 mg/min; the range the true mean is likely to lie in
- D. 4.20 to 5.00 mg/min; the highest and lowest of the five readings±2SE bars show where the true mean is likely to lie, not the highest and lowest readings, which would spread well beyond the bar.
Why: Read the legend first: the bars represent ±2SE, so each bar shows the range the true mean is likely to lie in.
Then read the ends off the gridlines.
The pH 5 bar's caps sit at 4.20 and 5.00 mg/min, 0.40 either side of the mean of 4.60.
The graph shows the mean rate of oxygen release by catalase at four alcohol concentrations, five tubes each, with temperature and pH the same in every tube.
Which pair of alcohol concentrations do these data show to have different rates?
- A. ✓ 2% and 4%
- B. 0% and 2%The 0% bar, 5.50 to 6.50 mL/min, and the 2% bar, 5.20 to 6.40 mL/min, overlap.
So the gap between those two means could be chance. - C. 4% and 6%The 4% bar, 3.70 to 4.70 mL/min, and the 6% bar, 3.30 to 4.50 mL/min, overlap.
So these data do not show a difference between 4% and 6%. - D. All three of these pairs, because each pair's means differDifferent means alone are not a shown difference.
With ±2SE bars, only bars that are apart show a difference.
Why: The bars are ±2SE.
The 2% bar, 5.20 to 6.40, and the 4% bar, 3.70 to 4.70, do not overlap, so the null hypothesis is rejected for that pair.
The 0% and 2% bars overlap, as do the 4% and 6% bars: those pairs are not shown to differ.
Five tubes of a protease at 20 °C released amino acids at a mean rate of 2.40 mg/min, with a ±2SE error bar from 2.10 to 2.70 mg/min. Five tubes at 25 °C released them at a mean rate of 2.60 mg/min, with a ±2SE error bar from 2.35 to 2.85 mg/min.
What may be concluded about the rates at 20 °C and 25 °C, and why?
- A. The rate at 25 °C is higher, because its mean is 0.20 mg/min above the otherWith overlapping ±2SE bars a higher mean could easily be chance.
The means alone cannot show a difference. - B. The two rates are the same, because the two bars overlapOverlapping bars leave the question open.
The data have not shown a difference.
That is not the same as showing the two rates are equal. - C. The rate at 25 °C is higher, because its bar reaches higher than the otherA bar's top is two standard errors of the mean above the mean, not a rate.
The bars overlap: the 20 °C top sits above the 25 °C bottom. - D. ✓ These data do not show a difference, because the two bars overlap
Why: The bars are ±2SE.
The 20 °C bar's top, 2.70, sits above the 25 °C bar's bottom, 2.35, so the bars overlap.
So the gap could be chance: no difference is shown, and the null hypothesis is not rejected.
That is not the same as showing the rates are equal.
The graph shows the mean rate of oxygen release by a catalase from spinach leaves at 30 °C and at 60 °C, five tubes each, with error bars.
Which statement is supported by the graph and by what heat does to an enzyme?
- A. The bars overlap, so these data do not show that the change in temperature affected the rateClear space separates the 30 °C bar, 4.80 to 5.60 mL/min, from the 60 °C bar, 0.30 to 0.90; with ±2SE bars, that difference is unlikely to be chance.
- B. The bars are apart; at 60 °C the molecules moved too slowly to collide with the substrate often enoughAt 60 °C the molecules move faster than at 30 °C, not more slowly.
- C. ✓ The bars are apart; at 60 °C the weak interactions holding the fold were disrupted, so the active site lost its shape
- D. The bars are apart; at 60 °C the extra collisions used the substrate up before the oxygen could be collectedEvery tube started with the same hydrogen peroxide concentration.
A used-up substrate would mean more oxygen had been collected, not less.
Why: The bars are ±2SE.
The 30 °C and 60 °C bars, 4.80–5.60 and 0.30–0.90, do not overlap, so the fall is very unlikely to be chance.
Above the optimum, heat disrupts the fold.
So the active site loses its shape, and the denatured enzyme releases almost no oxygen.
Four tubes of a chitinase at 30 °C broke chitin down, releasing sugar at 1.6, 2.0, 1.7 and 1.9 μmol/min. The AP formula sheet writes the mean as .
Which symbol stands for one of these four readings, such as 1.6 μmol/min?
- A. is the mean, the one number that stands for all four readings together.
- B. is the instruction to add the readings up.
It has no value of its own. - C. ✓
- D. nn is how many readings there are, 4.
Why: is each single reading.
The i is the reading's place in the list: is the first reading and the second.
is the instruction to add the four readings.
n is how many readings there are.
A student plots the mean rate at which a cellulase from termites breaks cellulose down at 40 °C, five tubes, as a bar with an error bar through its top. The legend reads "error bars represent ±2SE".
Which of the following does the error bar show?
- A. ✓ The range the true mean is likely to lie in
- B. The range from the slowest of the five tubes to the fastestThe slowest and fastest tubes are the spread of the readings.
A ±2SE bar is about the mean, and the readings spread well beyond it. - C. How far a single tube's rate typically sits from the meanHow far a single reading typically sits from the mean is the standard deviation.
The bar is built from the standard error of the mean. - D. The size of the mistake made in measuring each tube's rate'Error' here means how far off the sample mean might be, not a mistake.
The student could measure every tube perfectly and the bar would be unchanged.
Why: ±2SE means two standard errors of the mean either side of the mean.
The standard error of the mean is how far the five-tube mean is likely to sit from the true mean.
So the bar is where the true mean is likely to lie, the 95% confidence interval.
Students measured the rate at which an amylase extracted from germinating wheat seeds breaks starch down into the sugar maltose, at four temperatures, with five trials at each temperature. The pH and the starch concentration were the same in every trial. The table gives the mean rate at each temperature and the standard error of that mean (n = 5). The students plan to plot the four means as bars with error bars representing ±2SE.
(a) Describe the relationship between temperature and the mean rate shown in the table, using values from the table. (1 pt)
From 40 to 50 °C the mean rate levels off: at 50 °C the mean is 7.40 mg/min, close to the 40 °C value.
- Award 1 point for: the mean rate rises with temperature from 20 to 40 °C (2.20 to 4.40 to 7.20 mg/min) and is about the same from 40 to 50 °C (7.20 and 7.40 mg/min).
- Accept "rises steeply, then levels off" with at least two values quoted, and accept "rises only slightly from 40 to 50 °C (7.20 to 7.40 mg/min)" as the leveling off. Do not award the point for a trend with no values, or for a description that has the rate falling between 40 and 50 °C.
Slip Writing "the rate increases with temperature" and stopping. A describe-the-data point needs the values and the whole pattern, including the leveling off from 40 to 50 °C.
(b) Calculate the range covered by a ±2SE error bar for 40 °C and for 50 °C. (1 pt)
- Award 1 point for both ranges: 40 °C, 2SE = 0.262, so the bar runs from 6.94 to 7.46 mg/min; 50 °C, 2SE = 0.390, so the bar runs from 7.01 to 7.79 mg/min (accept each limit within ±0.01).
- Accept the ranges written as 7.20 ± 0.26 and 7.40 ± 0.39. Do not award the point for bars of ±1SE, or for bars built from the standard deviation.
Slip Adding and subtracting one standard error of the mean instead of two, or using the standard deviation. The bar the students planned is ±2SE, the range the true mean is likely to lie in.
(c) One student claims that the enzyme works faster at 50 °C than at 40 °C. Evaluate the claim using the two error bars, and determine whether the null hypothesis of no difference between 40 and 50 °C is rejected. (1 pt)
The two bars overlap.
So the gap between the two mean rates, 7.40 against 7.20 mg/min, could be chance.
Therefore the claim is not supported by these data.
Because the bars overlap, the null hypothesis of no difference is not rejected.
That is not the same as showing the two rates are equal.
- Award 1 point for: the judgement (the claim is not supported) with its ground (the two ±2SE bars overlap: 6.94 to 7.46 shares its range with 7.01 to 7.79), so the difference between the means could be chance, AND the decision that the null hypothesis of no difference between 40 and 50 °C is not rejected.
- Evaluate needs the judgement and its ground; Determine needs the decision and what it rests on. Do not award the point for 'the rates are the same' (overlap shows no difference, not equality), or for a decision made from the two means alone.
Slip Reading overlapping bars as "the rates are the same", or giving the judgement without the bars. Overlap means the data have not shown a difference; the true means may still differ.
(d) The students propose repeating the experiment at 75 °C. Predict how the mean rate at 75 °C will compare with the mean at 50 °C, and justify your prediction in terms of the enzyme's structure. (1 pt)
Warming speeds collisions.
But above the optimum the heat disrupts the hydrogen bonds and other weak interactions that hold the enzyme's fold.
So the active site loses its shape, and the starch no longer fits.
The denatured enzyme can no longer catalyze the reaction.
That loss far outweighs the extra collisions.
- Award 1 point for: the mean rate at 75 °C will be much lower than at 50 °C (near zero), because above the enzyme's optimum heat disrupts the hydrogen bonds and other weak interactions that hold the protein's fold, so the active site loses its shape and the substrate no longer fits (denaturation).
- Accept with or without the point that this loss outweighs the extra collisions warming brings. Accept "denatured" only with what it does to the active site or to substrate binding. Do not award the point for "faster, because molecules move faster", or for "lower" with no structural reason.
Slip Predicting a higher rate because hotter molecules collide more often. That is true only below the optimum. The leveling off from 40 to 50 °C is already the sign that denaturation has begun to cancel the gain.
A lipase from a fungus is breaking a fat down, and the fatty acids released are measured each minute. Students set up five tubes at pH 8 and five at pH 6, with the same temperature and fat concentration in every tube. The five pH 8 tubes released fatty acids at 3.2, 4.0, 3.0, 3.6 and 3.2 mg/min. For the pH 6 tubes the students have already calculated a mean of 2.60 mg/min and a standard error of 0.120 mg/min, so its ±2SE error bar runs from 2.36 to 2.84 mg/min.
(a) Calculate the mean rate at pH 8. (1 pt)
Answer: 3.4 mg/min (tolerance ±0.005)
- Award 1 point for: mg/min.
- Accept 3.4 mg/min. Do not award the point for 17.0 (the sum) or for 4.25 (the sum divided by 4).
(b) Calculate the standard deviation of the pH 8 readings. (1 pt)
Answer: 0.4 mg/min (tolerance ±0.0005)
- Award 1 point for: s = 0.400 mg/min (accept 0.40 mg/min).
- Do not award the point for 0.16 (the quotient before the square root), 0.358 (dividing by 5 instead of n − 1) or 0.64 (the sum of the squared differences).
(c) Calculate the standard error of the mean for pH 8. (1 pt)
Answer: 0.179 mg/min (tolerance ±0.005)
- Award 1 point for: SE = 0.400 divided by the square root of 5 (2.236) = 0.179 mg/min (accept 0.178 to 0.179).
- Do not award the point for 0.400 divided by 5 = 0.080 (dividing by n instead of the square root of n), for 0.400 divided by 2 = 0.200 (using the square root of n − 1), or for 0.400 itself.
(d) One student claims that the lipase works faster at pH 8 than at pH 6. Evaluate the claim using ±2SE error bars for the two means, and determine whether the null hypothesis of no difference between pH 6 and pH 8 is rejected. (1 pt)
The pH 6 bar runs from 2.36 to 2.84 mg/min.
The top of the pH 6 bar, 2.84, sits below the bottom of the pH 8 bar, 3.04, so the two ±2SE bars do not overlap.
So the difference between the two mean rates is very unlikely to be chance.
Therefore the claim is supported.
Because the bars do not overlap, the null hypothesis of no difference is rejected.
- Award 1 point for: the judgement (the claim is supported) with its ground (the pH 8 bar runs from 3.40 − 0.358 = 3.04 to 3.40 + 0.358 = 3.76 mg/min, accept each end within ±0.01, and the pH 6 bar from 2.36 to 2.84 mg/min; the bars do not overlap, so the difference is very unlikely to be chance) AND the decision that the null hypothesis is rejected.
- Evaluate needs the judgement and its ground; Determine needs the decision and what it rests on. Accept the pH 8 bar written as 3.40 ± 0.36 mg/min. Do not award the point for a decision made from the two means alone, or for a bar of ±1SE.
Slip Comparing the means alone, 3.40 against 2.60 mg/min. The claim rests on the two ±2SE bars, which do not overlap. Two means alone could differ by chance.
APBIO-U03-L12 Where ATP’s energy comes from
Photo: Terry Priest, Wikimedia Commons, CC BY-SA 4.0 (cropped and resized).
Here is a firefly. The light organ at the tip of its abdomen flashes only while it has ATP to split.
Cut off the ATP and the organ stays dark. A muscle given no way to remake its ATP stops contracting within seconds.
The energy for the contraction came from ATP. Where in ATP is that energy?
Unit 3 · Cellular Energetics
1ATP up close
Video: Watch: The parts of ATP
An ATP molecule drawn large: adenine joined to ribose, with a chain of three phosphate groups attached.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L12a.mp4
Video file not found on this machine: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L12a.mp4
Where does a cell get the energy for its work?
The cell splits ATP with water into two smaller pieces, called ADP and Pi.
The cell splits ATP with water into ADP and Pi: the word equation, and the same reaction in formulae
ADP and Pi together hold less energy than ATP and water did.
The cell releases that difference as energy.
That released energy powers the muscle’s contraction.
The energy comes from the whole reaction, not from breaking one bond.
Almost all of a cell’s work starts with this one reaction. Start with the ATP molecule itself.
ATP is the small molecule a cell uses to drive its work. ATP is built like a nucleotide.
ATP is built like a nucleotide.
Which of the following are the three parts of a nucleotide?
- A. ✓ A sugar, a phosphate group and a base
- B. A sugar, a fatty acid and a baseA nucleotide has no fatty acid in it.
Its three parts are a sugar, a phosphate group and a base. - C. An amino acid, a phosphate group and a baseA nucleotide has no amino acid in it.
Its three parts are a sugar, a phosphate group and a base.
Why: A nucleotide is a five-carbon sugar, a phosphate group and a nitrogenous base joined together.
Here is ATP. Its sugar is ribose, the same sugar as in an RNA nucleotide.
Its base is adenine, the same base as in an RNA nucleotide.
Adenine joined to ribose is called .
Attached to the ribose is a chain of three phosphate groups.
ATP is short for adenosine triphosphate. “Tri” means three, for the three phosphate groups.
What you are expected to know Identify, on a drawing of ATP, the adenine, the ribose and the three phosphate groups.
What you are expected to know Say that adenine joined to ribose is called adenosine.
Here is an ATP molecule with its parts numbered 1 to 5.
Which of the following numbered parts is the ribose?
- A. 1Number 1 is adenine, the base.
- B. ✓ 2
- C. 3Number 3 is the first phosphate group.
Why: The ribose is the five-carbon sugar.
The sugar is drawn as a pentagon, and the pentagon is number 2.
Here is an ATP molecule with its parts numbered 1 to 5.
Which of the following numbered parts is the adenine?
- A. ✓ 1
- B. 2Number 2 is the ribose, the sugar.
- C. 3Number 3 is the first phosphate group.
Why: Adenine is the base.
The base is drawn as a rectangle, and the rectangle is number 1.
Here is an ATP molecule with its parts numbered 1 to 5.
Which of the following groups of numbered parts together make up adenosine?
- A. ✓ 1 and 2
- B. 2 and 3Number 3 is a phosphate group, and adenosine has no phosphate in it.
- C. 3, 4 and 5Numbers 3, 4 and 5 mark the three phosphate groups.
Why: Adenosine is adenine joined to ribose.
Number 1 is adenine and number 2 is ribose.
So numbers 1 and 2 together make up adenosine.
Here is an ATP molecule with its parts numbered 1 to 5.
Which of the following groups of numbered parts are the phosphate groups?
- A. 1 and 2Numbers 1 and 2 are adenine and ribose, together adenosine.
- B. 2, 3 and 4Number 2 is the ribose, not a phosphate group.
- C. ✓ 3, 4 and 5
Why: Each phosphate group is drawn as a circle with P inside.
The circles are numbers 3, 4 and 5.
ATP is short for adenosine triphosphate.
Which of the following does the “tri” count?
- A. Three adeninesATP has one adenine, in its adenosine.
- B. Three ribosesATP has one ribose, in its adenosine.
- C. ✓ Three phosphate groups
Why: “Tri” means three.
ATP has one adenine and one ribose, together adenosine.
Attached to the ribose is a chain of three phosphate groups.
So the “tri” counts the three phosphate groups.
24Quick quiz: adenosine mixed practice
What is adenosine?
- A. Adenine joined to a phosphate groupAdenosine contains no phosphate group; its two parts are adenine and ribose.
- B. ✓ Adenine joined to ribose
- C. Ribose joined to a phosphate groupAdenosine contains adenine, and it contains no phosphate group.
Why: Adenine joined to ribose is called adenosine.
The three phosphate groups of ATP attach to the adenosine.
Adenosine is one part of ATP.
(a) State what adenosine is. (1 pt)
- Award 1 point for: adenine joined to ribose (the base joined to the sugar).
27ADP and Pi
Video: Watch: Take one phosphate off
The outermost phosphate group comes off ATP. Adenosine with two phosphate groups is left, ADP, and the free phosphate group is Pi.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L12b.mp4
Video file not found on this machine: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L12b.mp4
Now take the outermost phosphate off ATP. Two phosphate groups remain.
Adenosine with two phosphate groups is called adenosine diphosphate, . “Di” means two.
The phosphate that came off is on its own in the cell’s water.
A free phosphate group like this is called , written Pi.
The phosphate is called inorganic because it is no longer part of a larger, carbon-based molecule.
So when the outermost phosphate comes off ATP, the cell is left with ADP and Pi.
What you are expected to know Say what ATP becomes when its outermost phosphate comes off: ADP and Pi.
A cell takes the outermost phosphate group off an ATP molecule.
Which of the following is the molecule left behind called?
- A. AdenosineAdenosine is adenine joined to ribose with no phosphate attached.
The molecule left behind still has two phosphate groups. - B. ✓ ADP
- C. PiPi is the free phosphate group that came off, not the molecule left behind.
Why: ATP has three phosphate groups.
The cell takes one off, so two remain.
Adenosine with two phosphate groups is called adenosine diphosphate, ADP.
The phosphate that came off is Pi.
A phosphate group is on its own in a cell’s water, attached to nothing.
Which of the following is a free phosphate group like this called?
- A. ADPADP is adenosine with two phosphate groups attached, not a phosphate group on its own.
- B. AdenosineAdenosine is adenine joined to ribose, and it has no phosphate in it.
- C. ✓ Pi
Why: A phosphate group on its own in the cell’s water is called inorganic phosphate, written Pi.
ADP is adenosine with two phosphate groups.
Adenosine is adenine joined to ribose.
ATP loses its outermost phosphate group.
What is left?
- A. ✓ ADP and Pi
- B. Adenosine and PiAdenosine has no phosphate; two phosphates remain on the ADP.
Why: ATP has three phosphate groups.
Removing one leaves adenosine with two phosphates, ADP, and a free inorganic phosphate, Pi.
39Quick quiz: ADP and Pi mixed practice
How many phosphate groups does ADP have?
- A. OneADP is adenosine diphosphate, and “di” means two.
- B. ✓ Two
- C. ThreeThree phosphate groups make ATP, adenosine triphosphate.
Why: ADP is adenosine diphosphate.
“Di” means two, so ADP has two phosphate groups.
Which of the following is Pi?
- A. ✓ A phosphate group on its own in the cell’s water
- B. A phosphate group attached to riboseA phosphate group attached to ribose is part of ATP or ADP, not free.
- C. Adenine joined to riboseAdenine joined to ribose is adenosine.
Why: Pi is inorganic phosphate: a phosphate group on its own in the cell’s water, attached to nothing.
When ATP loses its outermost phosphate group, two things are left.
(a) State what ADP is. (1 pt)
- Award 1 point for: adenosine (adenine joined to ribose) with two phosphate groups.
(b) State what Pi is. (1 pt)
- Award 1 point for: a free phosphate group, on its own in the cell’s water (inorganic phosphate).
43ATP hydrolysis, in words
Video: Watch: ATP reacts with water
A water molecule joins in and the bond to the outermost phosphate breaks: ATP + water → ADP + Pi. This reaction is ATP hydrolysis.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L12c.mp4
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A cell breaks the bond between two units of a polymer.
What does the cell add across the bond?
- A. ✓ A water molecule
- B. An oxygen moleculeHydrolysis adds water, not oxygen.
- C. A phosphate groupNo phosphate group is added; the cell adds a water molecule across the bond.
Why: The cell adds a water molecule across the bond.
Splitting a bond by adding water is called hydrolysis.
ATP reacts with water in the same way as the polymer did.
A water molecule joins in.
The bond to the outermost phosphate breaks.
In words: ATP and water become ADP and Pi.
ATP hydrolysis in words, and in formulae
Splitting ATP with water is called . “Hydro” means water; “lysis” means splitting.
What you are expected to know Give the word equation for ATP hydrolysis: ATP + water → ADP + Pi.
In ATP hydrolysis, ATP reacts with water.
Which of the following are the products?
- A. ADP and waterWater is a reactant of ATP hydrolysis; it joins in, it is not made.
- B. ✓ ADP and Pi
- C. Adenosine and three PiOnly the outermost phosphate comes off, so adenosine keeps two phosphate groups as ADP.
Why: A water molecule joins in.
The bond to the outermost phosphate breaks.
So the products are ADP and one free phosphate, Pi.
ATP is hydrolyzed in a liver cell.
Which molecule reacts with the ATP?
- A. Carbon dioxideCarbon dioxide takes no part in ATP hydrolysis.
- B. OxygenOxygen takes no part in ATP hydrolysis; “hydro” means water.
- C. ✓ Water
Why: “Hydro” means water.
In ATP hydrolysis a water molecule joins in and splits the outermost phosphate off ATP.
One ATP molecule is hydrolyzed.
How many phosphate groups come off?
- A. ✓ One
- B. TwoOnly the outermost phosphate comes off; two stay on the ADP.
- C. ThreeAll three coming off would leave adenosine, and ATP hydrolysis leaves ADP.
Why: The bond to the outermost phosphate breaks.
One phosphate group comes off as Pi, and two remain on the ADP.
55Quick quiz: ATP hydrolysis mixed practice
What is ATP hydrolysis?
- A. ADP and Pi joining to give ATP and waterThat reaction makes ATP; hydrolysis splits ATP with water.
- B. ATP splitting into adenosine and three phosphate groupsOnly the outermost phosphate comes off, so the product is ADP, not adenosine.
- C. ✓ ATP reacting with water to give ADP and Pi
Why: “Hydro” means water and “lysis” means splitting.
ATP hydrolysis is ATP reacting with water to give ADP and Pi.
A muscle cell hydrolyzes ATP.
(a) Write the reaction of ATP hydrolysis as a word equation. (1 pt)
- Award 1 point for: ATP + water → ADP + Pi (or ATP + H₂O → ADP + Pi).
58Where the energy comes from
Video: Watch: Why ATP hydrolysis releases energy
ADP and Pi hold less energy than ATP and water did, so the reaction releases the difference. Breaking a bond takes energy in; the energy comes from the whole reaction.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L12d.mp4
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Glucose reacts with oxygen to make carbon dioxide and water, and energy is released.
Where does that energy come from?
- A. Breaking the bonds in glucose sets energy freeBreaking any bond takes energy in; the energy comes from the products holding less energy than the reactants.
- B. ✓ The products hold less energy than the starting molecules did
Why: The products hold less energy than the starting molecules did.
That difference is released as energy.
ATP hydrolysis powers each contraction of a muscle.
So ATP hydrolysis releases energy. Where does that energy come from?
The products of ATP hydrolysis, ADP and inorganic phosphate, hold less energy than ATP and water did.
So the reaction releases that difference as energy.
Why do the products sit lower?
Breaking the bond to the outer phosphate takes energy in. Breaking any bond takes energy in.
But new bonds form in ADP and Pi.
The new bonds are stronger than the bond that broke.
So the products end up lower in energy than ATP and water.
The energy comes from the whole reaction, reactants to products, and from no single bond.
Breaking a bond only ever takes energy in.
What you are expected to know Explain why ATP hydrolysis releases energy: ADP and Pi hold less energy than ATP and water did.
What you are expected to know Say that the released energy comes from the whole reaction, not from breaking one bond.
In a kidney cell, ATP reacts with water: ATP + H₂O → ADP + Pi.
Does this reaction release energy or take energy in?
- A. ✓ It releases energy
- B. It takes energy inThe products, ADP and Pi, hold less energy than ATP and water did.
Why: The products of ATP hydrolysis, ADP and Pi, hold less energy than the reactants, ATP and water, did.
So the reaction releases the difference as energy.
In a kidney cell, ATP reacts with water: ATP + H₂O → ADP + Pi. The reaction releases energy.
(a) Explain where the released energy comes from. (1 pt)
Frame Breaking any bond …
So the bond to the outer phosphate does not set energy free when it breaks.
New bonds form in ADP and Pi.
The new bonds are stronger than the bond that broke.
So the products, ADP and Pi, hold less energy than the reactants, ATP and water, did.
The reaction as a whole releases that difference as energy.
- Award 1 point for: breaking a bond takes energy in; the energy released comes from the whole reaction, because the products (ADP and Pi) hold less energy than the reactants (ATP and water) did.
A student says: ‘The energy comes from the bond to ATP’s outer phosphate. Breaking that bond sets the energy free.’
Is the student correct?
- A. Yes, breaking the bond sets the energy freeBreaking any bond takes energy in.
No bond holds energy that breaking sets free. - B. ✓ No, breaking a bond takes energy in
Why: Breaking any bond takes energy in.
So the bond to the outer phosphate does not set energy free.
New bonds form in ADP and Pi, and they are stronger.
So the products hold less energy than ATP and water did.
That difference is the energy released.
GTP is a molecule built like ATP, with the base guanine in place of adenine. In a cell, GTP reacts with water: GTP + H₂O → GDP + Pi. The reaction releases energy.
Which of the following holds more energy?
- A. ✓ GTP and water together
- B. GDP and Pi togetherGDP and Pi are the products.
A reaction releases energy only when its products hold less energy than its reactants did. - C. They hold the sameIf they held the same, the reaction would release no energy.
Why: GTP hydrolysis releases energy.
A reaction releases energy only when its products hold less energy than its reactants did.
GDP and Pi are the products.
So GTP and water together hold more energy than GDP and Pi.
The energy comes from the whole reaction, just as for ATP.
Back to the firefly, with the light organ at the tip of its abdomen. That organ splits ATP for each flash.
Cut off the ATP, and no splitting happens.
So the reaction that makes the light cannot happen, and the organ stays dark.
Now the muscle. It hydrolyzes ATP for each contraction.
ATP and water become ADP and Pi.
ADP and Pi hold less energy than ATP and water did.
So each hydrolysis releases energy for the contraction.
Cut off the ATP, and no hydrolysis happens.
So no energy is released, and the muscle stops contracting within seconds.
87Mixed practice mixed practice
Which of the following has two phosphate groups?
- A. ATPATP is adenosine triphosphate: three phosphate groups.
- B. ✓ ADP
- C. PiPi is one phosphate group on its own.
Why: ADP is adenosine diphosphate.
“Di” means two, so ADP has two phosphate groups.
A student says: ‘When a muscle cell splits GTP with water, the energy released comes from breaking the bond to GTP’s outer phosphate.’
Is the student correct?
- A. YesBreaking any bond takes energy in.
- B. ✓ No
Why: Breaking any bond takes energy in.
New bonds form in GDP and Pi.
So the products hold less energy than GTP and water did.
That difference is the energy released.
Which two parts together make up adenosine?
- A. ✓ Adenine and ribose
- B. Adenine and a phosphate groupAdenosine has no phosphate group in it.
- C. Ribose and a phosphate groupAdenosine contains adenine, and it has no phosphate group in it.
Why: Adenine joined to ribose is called adenosine.
In a nerve cell, ATP is hydrolyzed.
Which of the following reacts with the ATP?
- A. Carbon dioxideCarbon dioxide takes no part in ATP hydrolysis.
- B. OxygenOxygen takes no part in ATP hydrolysis.
- C. ✓ Water
Why: “Hydro” means water.
A water molecule joins in and the bond to the outermost phosphate breaks.
In a nerve cell, ATP is hydrolyzed to ADP and Pi.
Which of the following holds more energy?
- A. ADP and Pi togetherADP and Pi are the products, and they hold less energy than ATP and water did.
- B. They hold the sameIf they held the same, the reaction would release no energy.
- C. ✓ ATP and water together
Why: The products of ATP hydrolysis, ADP and Pi, hold less energy than ATP and water did.
So ATP and water together hold more energy.
Which of the following is Pi short for?
- A. ✓ Inorganic phosphate
- B. Adenosine diphosphateAdenosine diphosphate is ADP.
- C. Adenosine triphosphateAdenosine triphosphate is ATP.
Why: Pi is inorganic phosphate: a phosphate group on its own in the cell’s water.
A leg muscle hydrolyzes ATP for each contraction. Cut off the ATP and the muscle stops contracting.
(a) Explain where the energy for the contraction comes from. (1 pt)
ADP and Pi hold less energy than ATP and water did.
So each hydrolysis releases that difference as energy.
That energy makes the contraction.
- Award 1 point for: ADP and Pi hold less energy than ATP and water did, so ATP hydrolysis releases the difference as energy, and that energy powers the contraction.
Slip Saying the energy comes from breaking the bond to the outer phosphate. Breaking any bond takes energy in; the release comes from the whole reaction.
(b) Explain why the muscle stops contracting when the ATP is cut off. (1 pt)
So no energy is released.
So there is no energy for a contraction, and the muscle stops contracting.
- Award 1 point for: no ATP means no hydrolysis, so no energy is released for a contraction.
Glossary
- adenosine
- Adenine joined to ribose: the part of ATP and ADP that the phosphate groups are attached to.
- ADP (adenosine diphosphate)
- Adenosine with two phosphate groups: what is left when the outermost phosphate is taken off ATP. “Di” means two.
- inorganic phosphate (Pi)
- A free phosphate group on its own in the cell’s water, such as the one released when ATP is hydrolyzed.
- ATP hydrolysis
- The reaction ATP + H₂O → ADP + Pi: ATP splits with water. “Hydro” means water; “lysis” means splitting. Its products hold less energy than ATP and water did, so it releases energy.
APBIO-U03-L12B How ATP drives the cell's work
Here is the sodium–potassium pump in a cell membrane, and beside it an ATP molecule with its three phosphates in a row.
The pump pushes sodium ions and potassium ions against their concentration gradients for as long as the cell has ATP. Cut off the ATP and the pump stops within minutes. The pump protein itself is unchanged. What was the ATP doing for the pump, and how does the cell keep supplying it?
Unit 3 · Cellular Energetics
1Energy coupling: driving a process that would not happen on its own
Video: Watch: Energy coupling
The energy released by ATP hydrolysis drives a process that would not happen on its own; a version of ATP that binds but cannot be hydrolyzed drives nothing.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L12Ba.mp4
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For each ATP it uses, the sodium–potassium pump moves three sodium ions (Na⁺) through the cell membrane.
Which way does the pump move the sodium ions?
- A. ✓ Out of the cell
- B. Into the cellThe pump moves sodium ions out of the cell and potassium ions into the cell.
Why: For each ATP it uses, the sodium–potassium pump moves three sodium ions out of the cell and two potassium ions into the cell.
In a nerve cell, ATP reacts with water: ATP + H₂O → ADP + Pi.
Does this reaction release energy or take energy in?
- A. ✓ It releases energy
- B. It takes energy inADP and Pi hold less energy than ATP and water did.
Why: ADP and Pi hold less energy than ATP and water did.
So the reaction releases the difference as energy.
How does the energy released by splitting ATP get into a pump, a muscle or a light organ?
In a cell, ATP hydrolysis drives a change that would not happen on its own:
- a pump moving an ion against its concentration gradient
- a muscle fiber shortening
- a light-making reaction
The energy released by the hydrolysis drives that change.
Usually, ATP’s outer phosphate moves onto the protein. The protein then changes shape.
That change of shape does the work.
The cell rebuilds the ADP left behind into ATP, with energy from food, over and over.
So a cell that contains only seconds’ worth of ATP can keep working for minutes and hours.
Start with the pump. For each ATP it uses, the sodium–potassium pump moves three sodium ions out of the cell and two potassium ions in.
Both ions move against their concentration gradients. On their own, the ions would never move that way.
Here is the pump with ATP, and with a version of ATP that binds the pump but cannot be hydrolyzed.
With ATP, the pump changes shape and pushes three sodium ions out.
With the version of ATP that cannot be hydrolyzed, the pump does nothing.
Binding is not enough. The hydrolysis must happen.
When the energy released by one process drives a second process that would not happen by itself, the two processes are coupled.
Driving a process this way is called .
A cell can put the energy of ATP hydrolysis to work only when the hydrolysis drives another process at the same time.
A chemist hydrolyzes ATP in a test tube of water. The same energy is released, and all of it warms the water.
The hydrolysis drove nothing. So it did no work.
Hydrolyzing starch also releases energy, but less. The cell does not couple that release to work.
ATP hydrolysis releases more, and the cell couples that release to work.
What you are expected to know Explain energy coupling: the energy released by ATP hydrolysis drives a process that would not happen on its own.
A pump in a root cell’s membrane pushes hydrogen ions (H⁺) out of the cell against their concentration gradient. A researcher gives the pump a version of ATP that binds the pump but resists hydrolysis.
Do the hydrogen ions move out of the cell?
- A. YesBinding is not enough.
The version of ATP binds the pump, but no hydrolysis happens.
So no energy is released, and nothing drives the pump’s change of shape. - B. ✓ No
Why: The version of ATP binds the pump, but it resists hydrolysis.
So no energy is released.
Nothing drives the pump’s change of shape.
So the hydrogen ions stay inside the cell.
A pump in a root cell’s membrane pushes hydrogen ions (H⁺) out of the cell against their concentration gradient. A researcher gives the pump a version of ATP that binds the pump but resists hydrolysis. The hydrogen ions stay inside the cell.
(a) Explain why the hydrogen ions stay inside the cell. (1 pt)
Frame The version of ATP binds the pump, but …
So no energy is released.
Pushing hydrogen ions out against their concentration gradient would not happen by itself.
It happens only when ATP hydrolysis is coupled to the pump’s change of shape.
With no hydrolysis, nothing drives the change of shape.
So the hydrogen ions stay inside the cell.
- Award 1 point for: with no hydrolysis no energy is released, so nothing is coupled to the pump’s change of shape; binding ATP alone drives no work.
A student says: ‘When a cell hydrolyzes ATP with nothing coupled to it, the energy released is kept in the cell until the cell needs it.’
Is the student correct?
- A. Yes — the energy is kept until the cell needs itEnergy released with nothing coupled to it spreads out as heat.
The cell cannot gather that heat back to do work. - B. ✓ No — the energy warms the cell and drives nothing
Why: With nothing coupled to the hydrolysis, nothing is driven.
The energy released spreads out as heat and warms the cell.
The cell cannot gather that heat back to do work.
Which of the following is an example of energy coupling?
- A. ATP is hydrolyzed in a beaker of pure water with nothing else presentNothing in the beaker is driven.
The energy released only warms the water. - B. Glucose crosses a membrane down its concentration gradient through a carrier proteinGlucose moving down its concentration gradient through a carrier happens by itself and uses no ATP.
- C. ✓ A pump takes ATP’s phosphate and moves calcium ions against their concentration gradient
- D. ATP binds a protein and then comes off the protein again unchangedNothing was hydrolyzed, so no energy was released to drive anything.
Why: Coupling means the energy released by ATP hydrolysis drives a process that would not happen by itself.
Moving calcium ions against their concentration gradient would not happen by itself.
The pump takes ATP’s phosphate, changes shape and pushes the calcium ions.
So the hydrolysis is coupled to the pump’s work.
A cell hydrolyzes a starch chain into glucose units. The same cell hydrolyzes ATP into ADP and Pi.
Which of the two hydrolyses does the cell couple to work?
- A. ✓ The ATP hydrolysis
- B. BothStarch hydrolysis releases only a little energy.
The cell does not couple that release to work. - C. The starch hydrolysisThe cell does not couple starch hydrolysis to work.
Starch hydrolysis frees glucose units.
Glucose’s energy comes out later, when the glucose reacts with oxygen. - D. NeitherATP hydrolysis releases energy.
The cell couples that release to work, such as pushing ions against their concentration gradients.
Why: ADP and Pi hold less energy than ATP and water did.
So ATP hydrolysis releases energy.
The cell couples that release to work.
Starch hydrolysis frees glucose units and releases less energy.
The cell does not couple that release to work.
A cell hydrolyzes a starch chain into glucose units. The same cell hydrolyzes ATP into ADP and Pi. The cell couples the ATP hydrolysis to work, but not the starch hydrolysis.
(a) Explain why the cell couples the ATP hydrolysis to work, rather than the starch hydrolysis. (1 pt)
So ATP hydrolysis releases energy.
The cell couples that release to work.
Starch hydrolysis frees glucose units and releases less energy.
The cell does not couple that release to work.
Glucose’s energy comes out later, when the glucose reacts with oxygen.
- Award 1 point for: the cell couples ATP hydrolysis to work (energy coupling); starch hydrolysis frees glucose, but its energy is not coupled to work.
32Quick quiz: energy coupling mixed practice
What is energy coupling?
- A. A bond in ATP’s outer phosphate breaks and sets its stored energy freeBreaking any bond takes energy in; no bond stores energy that breaking sets free.
- B. ATP’s outer phosphate group moves onto a protein or another moleculeMoving the phosphate is how coupling usually works; coupling itself is one process driving another.
- C. ✓ The energy released by one process drives a second process that would not happen by itself
Why: Energy coupling means the energy released by one process, usually ATP hydrolysis, drives a second process that would not happen by itself.
A muscle fiber shortens, a change that would not happen on its own. ATP hydrolysis drives the shortening.
Is this energy coupling?
- A. ✓ Yes
- B. NoThe hydrolysis drives a change that would not happen by itself, so the two processes are coupled.
Why: The shortening would not happen by itself.
ATP hydrolysis drives it.
So the two processes are coupled: this is energy coupling.
Water moves into a root cell by osmosis, down its concentration gradient. No ATP is hydrolyzed.
Is this energy coupling?
- A. YesWater moving down its concentration gradient happens by itself, so nothing drives it.
- B. ✓ No
Why: Energy coupling means one process drives a second that would not happen by itself.
Water moving down its concentration gradient happens by itself.
So nothing is coupled.
A cell uses the energy of ATP hydrolysis to move an ion against its concentration gradient.
(a) State what energy coupling means. (1 pt)
- Award 1 point for: the energy released by one process (ATP hydrolysis) drives a second process that would not happen by itself.
37Phosphorylation: the phosphate moves onto the pump
Video: Watch: Phosphorylation
ATP’s outer phosphate moves onto the pump, the pump changes shape and pushes; attaching a phosphate group to a molecule is phosphorylation.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L12Bb.mp4
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Here is what the ATP does for the pump. The pump takes ATP’s outer phosphate onto itself.
The ATP has lost its outer phosphate. ADP is left.
With the phosphate attached, the pump changes shape and pushes three sodium ions out.
Usually, coupling works this way. ATP’s outer phosphate group moves onto a protein or another molecule.
The added phosphate changes that molecule’s shape or energy. So the process can happen.
Attaching a phosphate group to a molecule is called .
The name says what happens: phosphoryl is the phosphate group, and -ation means the adding of it.
The pump is phosphorylated, changes shape and pushes the sodium ions out.
The phosphate does not stay on the pump. After the push, the pump releases the phosphate into the cell’s water as Pi, ready for the next ATP.
What you are expected to know Explain how energy coupling usually works: ATP’s outer phosphate moves onto a protein, and the protein changes shape.
In a muscle cell, a protein takes the outer phosphate from an ATP.
What happens to the protein?
- A. ✓ It changes shape
- B. It stays the same shapeThe added phosphate changes the protein’s shape; that is how the coupling works.
Why: The phosphate from ATP attaches to the protein.
The added phosphate changes the protein’s shape.
So the protein can do its work.
A student says: ‘ATP drives the pump by binding to it. The ATP then comes off again unchanged, and the pump has done its work.’
Is the student correct?
- A. Yes — the ATP binds, drives the pump and comes off unchangedATP that binds without being hydrolyzed drives nothing.
The pump takes ATP’s outer phosphate onto itself, and ADP is left. - B. ✓ No — the pump takes ATP’s outer phosphate, and ADP comes off
Why: The pump takes ATP’s outer phosphate onto itself.
ADP is left, so the ATP does not come off unchanged.
The added phosphate changes the pump’s shape, and the pump pushes.
ATP that only binds drives nothing.
51Quick quiz: phosphorylation mixed practice
What is phosphorylation?
- A. Adding a water molecule across a bondAdding water across a bond is hydrolysis.
- B. ✓ Attaching a phosphate group to a molecule
- C. Taking the outer phosphate group off ATPTaking the outer phosphate off ATP, with water, is ATP hydrolysis.
Why: Phosphorylation is attaching a phosphate group to a molecule, such as ATP’s outer phosphate onto a protein.
A protein in a nerve cell has taken ATP’s outer phosphate onto itself.
Which word describes the protein now?
- A. HydrolyzedHydrolyzed means split with water; the protein has gained a phosphate and has not been split.
- B. CoupledCoupled describes two processes, one driving the other, not a protein with a phosphate on it.
- C. ✓ Phosphorylated
Why: A phosphate group has been attached to the protein.
Attaching a phosphate group is phosphorylation, so the protein is phosphorylated.
A pump protein in a kidney cell is phosphorylated.
(a) State what has happened to the pump protein. (1 pt)
- Award 1 point for: a phosphate group (ATP’s outer phosphate) has been attached to the protein.
55Remaking ATP needs an energy input
ATP and water react to make ADP and Pi.
Which pair holds more energy?
- A. ✓ ATP and water
- B. ADP and PiADP and Pi hold less energy than ATP and water did; that is why the hydrolysis releases energy.
Why: ATP and water hold more energy than ADP and Pi.
The difference is the energy that ATP hydrolysis releases.
Video: Watch: Remaking ATP
Making ATP from ADP and Pi is the reverse of hydrolysis, so it needs an input of energy, and that energy comes from the food the cell breaks down.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L12Bc.mp4
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Making ATP from ADP and Pi is the reverse of hydrolysis.
Making ATP from ADP and Pi: the reverse of hydrolysis
ADP and Pi hold less energy than ATP and water. So making ATP from them needs an input of energy.
That energy comes from the food a cell breaks down.
As a cell breaks glucose down, the breakdown reactions release energy. The cell uses some of that energy to remake ATP.
On the cycle drawing, remaking ATP is the arrow up the left side: energy in, from food.
What you are expected to know State where the energy to make ATP from ADP and Pi comes from: the food the cell breaks down.
A cell makes ATP from ADP and Pi.
Does this reaction release energy or need an input of energy?
- A. It releases energyATP and water hold more energy than ADP and Pi, so making ATP needs energy.
- B. ✓ It needs an input of energy
Why: Making ATP is the reverse of hydrolysis.
Hydrolysis releases energy.
So remaking ATP needs an input of energy.
That energy comes from food.
A muscle cell remakes ATP from ADP and Pi.
Where does the energy for this come from?
- A. From heat in the cellHeat that has spread into the cell cannot be gathered back to do work.
- B. From the ATP itselfADP and Pi hold less energy than ATP and water.
So making ATP needs energy from somewhere else. - C. ✓ From the food the cell breaks down
Why: Making ATP from ADP and Pi is the reverse of hydrolysis.
Hydrolysis released energy, so remaking ATP needs an input of energy.
As the cell breaks glucose down, energy is released.
The cell uses some of that energy to remake ATP.
A poison stops a liver cell from breaking down its food. The cell still contains ADP and Pi.
Can the cell remake ATP?
- A. YesRemaking ATP needs an input of energy, and that energy comes from breaking down food.
- B. ✓ No
Why: Making ATP from ADP and Pi needs an input of energy.
That energy comes from the food the cell breaks down.
The poison has cut off that energy, so the cell cannot remake ATP.
67Used and remade, cycle after cycle
Video: Watch: The ATP cycle
A cell contains only seconds’ worth of ATP, so it remakes ATP as fast as it uses it, and the level stays nearly steady even under heavy use.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L12Bd.mp4
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A cell contains only a few seconds’ worth of ATP at any moment.
So the cell remakes ATP continuously, cycle after cycle: hydrolysis, then remaking, then hydrolysis again.
An adult at rest makes and uses tens of kilograms of ATP a day. That is far more than the body contains at any moment.
A sprinter’s muscle ATP falls only a little during a ten-second sprint. The muscle remakes ATP almost as fast as it uses it.
So even under heavy use, the ATP level stays nearly steady. The cell remakes ATP as fast as it uses it.
Now imagine the remaking stops. The pumps and muscle proteins go on hydrolyzing ATP.
The cell’s ATP is gone almost at once.
What you are expected to know Explain why a cell’s ATP level stays steady under heavy use: the cell contains only seconds’ worth and remakes ATP as fast as it uses it.
During a hard one-minute climb, a cyclist’s leg muscle cells hydrolyze ATP very fast.
What happens to the ATP concentration in those cells over the minute?
- A. ✓ It stays nearly steady
- B. It falls to almost nothing within secondsThe muscle remakes ATP from ADP and Pi about as fast as it hydrolyzes it, so the level does not fall away.
- C. It risesThe muscle hydrolyzes ATP as fast as it remakes it, so the level does not rise.
Why: The muscle hydrolyzes ATP fast.
It remakes ATP from ADP and Pi about as fast, with energy from food.
So the ATP concentration stays nearly steady.
During a hard one-minute climb, a cyclist’s leg muscle cells hydrolyze ATP very fast. Yet the ATP concentration in the cells stays nearly steady.
(a) Explain why the ATP concentration stays nearly steady. (1 pt)
Frame The muscle cells contain only …
So no store could last the one-minute climb.
Each hydrolysis leaves ADP and Pi.
The cells remake ATP from that ADP and Pi, with energy from the food they break down.
They remake ATP about as fast as they hydrolyze it.
So the ATP concentration stays nearly steady.
- Award 1 point for: the cells remake ATP from ADP and Pi (with energy from food) about as fast as they hydrolyze it, so the concentration stays steady; a store of seconds’ worth could not last the climb.
A student says: ‘The cyclist’s muscle has a store of ATP large enough for the whole one-minute climb, so the level stays steady.’
Is the student correct?
- A. Yes — the muscle has enough ATP for the whole climbA cell contains only seconds’ worth of ATP, so no store could last a one-minute climb.
- B. ✓ No — the muscle contains only seconds’ worth of ATP
Why: A cell contains only seconds’ worth of ATP.
No store could last a one-minute climb.
The level stays steady because the muscle remakes ATP about as fast as it uses it.
A swimmer’s arm muscle cells contract for a two-minute race.
How do the cells have enough ATP for the whole race?
- A. ✓ They remake ATP from ADP and Pi as fast as they use it
- B. They store enough ATP before the race startsA cell contains only seconds’ worth of ATP; no store lasts two minutes.
Why: A cell contains only seconds’ worth of ATP.
The cells remake ATP from ADP and Pi with energy from breaking down food.
They remake ATP as fast as they use it, so they have ATP for the whole race.
A cell lives on glucose as its only food. Its ATP level stays steady while it works. A poison stops the cell breaking down glucose.
(a) Predict what happens to the cell’s ATP level over the next minute. (1 pt)
- Award 1 point for: the ATP level falls to almost nothing within seconds to a minute or two (not: it stays steady for the minute or longer).
Slip Predicting that the ATP level stays steady for the minute. A cell contains only seconds’ worth of ATP; without remaking, the level falls fast.
(b) Justify your prediction. (1 pt)
It normally remakes ATP from ADP and Pi with energy from breaking down glucose.
The poison cuts off that energy, and the cell has no other food.
So the cell cannot remake ATP.
Its pumps and other proteins go on hydrolyzing ATP.
So the ATP level falls to almost nothing within seconds to a minute.
- Award 1 point for: the cell can no longer remake ATP (remaking needs energy from glucose, its only food), its work keeps hydrolyzing the few seconds’ worth of ATP it contains, so the level falls to almost nothing within seconds to a minute or two.
Back to the sodium–potassium pump in the cell membrane. It pushes sodium ions out of the cell and potassium ions in, against their concentration gradients.
With no ATP left, the pump stopped within minutes.
No ATP hydrolysis was coupled to the pump’s change of shape. So nothing drove the pump.
The pump protein itself was unchanged. It would pump again the moment the cell remade ATP from the food it breaks down.
86Mixed quiz: ATP and work mixed practice
ATP is hydrolyzed in a beaker of water with nothing else present.
What happens to the energy released?
- A. ✓ It drives nothing and warms the water
- B. It is stored in the ADPADP and Pi hold less energy than ATP and water did.
Why: Energy released does work only when the hydrolysis is coupled to a process.
In the beaker nothing is driven, so the energy only warms the water.
A protein in a gut cell takes a phosphate group from ATP and changes shape.
What has happened to the protein?
- A. It has been hydrolyzedHydrolyzed means split with water; the protein gained a phosphate and was not split.
- B. ✓ It has been phosphorylated
Why: A phosphate group from ATP has been attached to the protein.
Attaching a phosphate group is phosphorylation.
A pump in a stomach cell moves hydrogen ions (H⁺) out of the cell against their concentration gradient. A researcher gives it a version of ATP that binds but resists hydrolysis.
Do the hydrogen ions move?
- A. YesBinding alone releases no energy.
- B. ✓ No
Why: Moving ions against their concentration gradient happens only when ATP hydrolysis is coupled to the pump’s change of shape.
With no hydrolysis, nothing drives the pump.
A liver cell remakes ATP from ADP and Pi.
Where does the energy for this come from?
- A. ✓ From the food the cell breaks down
- B. From heat in the cellHeat that has spread into the cell cannot be gathered back to do work.
- C. From the ADP and Pi themselvesADP and Pi hold less energy than ATP and water, so they cannot supply the energy to make ATP.
Why: Making ATP from ADP and Pi needs an input of energy.
As the cell breaks food down, energy is released.
The cell uses some of that energy to remake ATP.
How much ATP does a cell contain at any moment?
- A. ✓ A few seconds’ worth
- B. A few hours’ worthA cell contains far less than hours’ worth; it remakes ATP continuously.
- C. A day’s worthAn adult makes and uses tens of kilograms of ATP a day, far more than the body contains at any moment.
Why: A cell contains only a few seconds’ worth of ATP.
So it remakes ATP continuously, cycle after cycle.
Oxygen enters a lung cell down its concentration gradient, through the bilayer. No ATP is hydrolyzed.
Is this energy coupling?
- A. YesOxygen moving down its concentration gradient happens by itself; nothing drives it.
- B. ✓ No
Why: Energy coupling means ATP hydrolysis drives a process that would not happen by itself.
Oxygen moving down its concentration gradient happens by itself.
So nothing is coupled.
In a firefly’s light organ, a light-making reaction would not happen on its own. Each flash needs it to happen.
Which of the following drives the light-making reaction?
- A. ✓ ATP hydrolysis
- B. ATP binding to a protein and coming off unchangedATP that only binds releases no energy, so it drives nothing.
- C. Heat in the cellHeat that has spread into the cell cannot be gathered back to do work.
Why: The light-making reaction would not happen by itself.
ATP hydrolysis releases energy, and the cell couples that release to the reaction.
So the hydrolysis drives the flash.
A honeybee’s flight muscles hydrolyze ATP very fast. During a ten-minute flight, the muscles use far more ATP than they contained when the bee took off.
(a) Explain how the muscles can use more ATP than they contained. (1 pt)
Each hydrolysis leaves ADP and Pi.
The muscles remake ATP from that ADP and Pi, with energy from the food the bee breaks down.
So the same ADP is remade into ATP over and over during the flight.
The ATP used in the flight counts every ATP remade, so it is far more than the muscles contained at take-off.
- Award 1 point for: the muscles remake ATP from ADP and Pi (with energy from food) over and over, so the ATP used over the flight is far more than the amount present at any moment.
Glossary
- energy coupling
- Using the energy released by one process, usually ATP hydrolysis, to drive a second process that would not happen by itself.
- phosphorylation
- Attaching a phosphate group to a molecule, often ATP’s outer phosphate onto a protein, which changes that molecule’s shape or energy.
APBIO-U03-L13 Transformed, never made
Photo: Derek Harper, geograph.org.uk via Wikimedia Commons, CC BY-SA 2.0.
Here is a plant in the afternoon sun. In one afternoon, its leaves absorb 900 kJ of light energy.
Only 100 kJ of that 900 kJ ends up held in the sugar the leaves make. Where did the other 800 kJ go?
Unit 3 · Cellular Energetics
1Light or food
Every living thing needs a source of energy.
How does a plant get its energy?
- A. ✓ It makes its own food using light
- B. It eats other living thingsAnimals eat other living things; a plant makes its own food using light.
Why: A plant makes its own food using light.
Animals get their energy by eating food.
A seedling kept in the dark lives for a while on the food stored in its seed, then dies. A yeast culture given no sugar stops growing.
A green plant in the light takes energy in, as light. A mouse eating seeds takes energy in, as food.
Every living thing needs a continuous input of energy.
The input comes from one of two sources: light, or chemical compounds such as the sugar in food.
Warmth is not an input a living thing can use. A warm animal still needs food, and a warm plant still needs light.
What you are expected to know Name the two sources of the energy that every living thing must keep taking in: light, or chemical compounds such as the sugar in food.
Video: Watch: Light or food
A green plant in the light takes energy in as light; a mouse eating seeds takes energy in as food. Every living thing needs one of the two, and warmth is not an input it can use.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L13a.mp4
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A mushroom grows on a fallen log in a dark cellar.
Which of the following is the mushroom’s energy input?
- A. ✓ Food
- B. LightThe cellar is dark, and a mushroom has no way to use light in any case.
Why: A living thing’s energy input is light or food.
The cellar is dark, so the mushroom takes in no light.
A mushroom cannot use light in any case.
So its input is food: the compounds of the log it grows on.
A green alga floats in a sunlit pond.
Which of the following is the alga’s energy input?
- A. FoodA green alga makes its own food using light, as a plant does.
- B. ✓ Light
Why: A living thing’s energy input is light or food.
A green alga makes its own food using light, as a plant does.
The pond is sunlit.
So the alga’s input is light.
A bean seedling grows for two weeks in total darkness, then dies.
Which of the following was the seedling’s energy input during those two weeks?
- A. LightThe seedling was in total darkness, so no light reached it.
- B. ✓ Food
Why: A living thing’s energy input is light or food.
The seedling was in total darkness, so it took in no light.
Its input was food: the food stored in its seed.
When that store was used up, the seedling died.
A caterpillar eats leaves all day in bright sunshine.
Which of the following is the caterpillar’s energy input?
- A. ✓ Food
- B. LightA caterpillar is an animal, and an animal has no way to use light.
The sunshine falls on the caterpillar, but the caterpillar cannot take energy in as light.
Why: A living thing’s energy input is light or food.
A caterpillar is an animal.
An animal has no way to use light, however bright the sunshine.
So the caterpillar’s input is food: the leaves it eats.
A lizard basks on a warm rock. A student says: ‘The rock’s warmth is the lizard’s energy input.’
Is the student correct?
- A. YesWarmth is not an energy input a living thing can use.
- B. ✓ No
Why: A living thing’s energy input is light or food.
Warmth is not an input a living thing can use.
The lizard is an animal, so it cannot use light either.
So its energy input is food: the insects it eats.
A lizard basks on a warm rock. A student says: ‘The rock’s warmth is the lizard’s energy input.’ The student is wrong.
(a) Explain why the lizard’s energy input is the food it eats rather than the rock’s warmth. (1 pt)
Frame A living thing’s energy input is …
Warmth is not an input a living thing can use.
The lizard is an animal.
An animal cannot use light.
So the lizard’s energy input is food: the insects it eats.
The warmth of the rock keeps the lizard’s reactions going at a useful rate, and that is all it does.
- Award 1 point for: a living thing’s energy input is light or food, and warmth is not an input a living thing can use; the lizard is an animal, so its input is the food it eats.
16The first law of thermodynamics: transformed, never made
A mouse eats seeds. The energy the mouse takes in from the seeds is measured.
Which of the following is the unit of energy?
- A. The gram (g)The gram is a unit of mass.
- B. ✓ The joule (J)
- C. The mole (mol)The mole is a count of particles.
Why: Energy is measured in joules, J.
A thousand joules is one kilojoule, kJ.
A plant’s leaves absorb 900 kJ of light in an afternoon.
The leaves use 100 kJ of that energy to make sugar. The sugar now holds that 100 kJ, and releases it when the sugar reacts.
Energy held in a substance, and released when the substance reacts, is called .
So 100 kJ of the 900 kJ is now the chemical energy of the sugar.
The leaves give off the other 800 kJ as heat.
100 kJ and 800 kJ add up to 900 kJ.
None of the 900 kJ appeared from nowhere, and none of it vanished. What went in as light came out as the sugar’s chemical energy plus heat.
The same is true of every energy change anywhere. Energy is never created or destroyed.
Energy is only transferred from one thing to another, or transformed from one form to another.
That rule is called the .
“Thermo” means heat and “dynamics” means movement. Thermodynamics is the study of how energy moves and changes form.
A plant does not make energy. It transforms light energy into the chemical energy of sugar.
An animal does not make energy either. It transforms the chemical energy of its food into movement and heat.
Light carries energy, not matter. The atoms of the sugar a plant makes come from carbon dioxide and water.
What you are expected to know Apply the first law of thermodynamics to what a plant or an animal does with energy.
What you are expected to know State the first law of thermodynamics.
What you are expected to know State what chemical energy is.
Video: Watch: Transformed, never made
900 kJ of light goes in; 100 kJ comes out as the sugar’s chemical energy and the other 800 kJ as heat, and the two add up to 900 kJ. Energy is never created or destroyed, only transferred or transformed: the first law of thermodynamics.
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A mouse absorbs 30 kJ of chemical energy from the seeds it eats in a day. During the day the mouse moves about, grows a little and gives off heat.
How much energy do the movement, the new tissue and the heat add up to?
- A. ✓ 30 kJ
- B. More than 30 kJThe mouse creates no energy.
Everything it does with the seeds’ energy came out of the 30 kJ. - C. Less than 30 kJEnergy is never destroyed.
The energy the mouse uses does not vanish; it ends up as movement, new tissue and heat.
Why: Energy is never created or destroyed.
The mouse transformed the 30 kJ in the seeds into movement, into chemical energy in new tissue, and into heat.
So those three add up to exactly 30 kJ.
A mouse absorbs 30 kJ of chemical energy from the seeds it eats in a day. During the day the mouse moves about, grows a little and gives off heat. The movement, the new tissue and the heat add up to 30 kJ.
(a) Explain why the three add up to exactly 30 kJ. (1 pt)
Frame Energy is never …
It is only transferred or transformed.
The seeds held 30 kJ of chemical energy.
The mouse transformed that energy into movement, into chemical energy in its new tissue, and into heat.
So none of the 30 kJ appeared from nowhere, and none vanished.
So the three add up to exactly 30 kJ.
- Award 1 point for: energy is never created or destroyed, only transferred or transformed (the first law of thermodynamics), so the movement, the new tissue and the heat together equal the 30 kJ that went in.
A tomato seedling grows in a sealed chamber with carbon dioxide and water, in the light. Its dry mass rises. A student says: ‘The light became the matter of the new sugar.’
Is the student correct?
- A. YesLight carries energy, not matter.
No atom of the new sugar came from light. - B. ✓ No
Why: Light carries energy, not matter.
The seedling transformed the light energy into the chemical energy of sugar.
The sugar’s atoms are matter.
Those atoms came from carbon dioxide and water, and the seedling built them into sugar.
So the light did not become the sugar’s matter.
A tomato seedling grows in a sealed chamber with carbon dioxide and water, in the light. Its dry mass rises. A student says: ‘The light became the matter of the new sugar.’ The student is wrong.
(a) Explain what the light did become, and where the new sugar’s atoms came from. (1 pt)
Frame Light carries …
The seedling transformed the light energy into the chemical energy of the sugar.
The sugar’s atoms are matter.
Those atoms came from the carbon dioxide and the water in the chamber.
The seedling built those atoms into sugar.
So the light became the sugar’s chemical energy, and the carbon dioxide and water became the sugar’s matter.
- Award 1 point for: light is energy, not matter, and was transformed into the sugar’s chemical energy; the sugar’s atoms came from carbon dioxide and water.
In an hour, a green alga absorbs 200 kJ of light. It stores 12 kJ of that in the sugar it makes.
Which of the following happened to the other 188 kJ?
- A. It was destroyedEnergy is never destroyed.
- B. It became the atoms of the new sugarEnergy is never turned into matter.
The sugar’s atoms came from carbon dioxide and water. - C. ✓ It left the alga as heat
Why: Energy is never created or destroyed.
The alga transformed 12 kJ of the light energy into chemical energy in sugar.
The alga transformed the rest into heat.
That heat passed to its surroundings.
So the whole 200 kJ is accounted for: the sugar’s chemical energy plus the heat.
Come back to the plant in the afternoon sun. Its leaves absorbed 900 kJ of light.
100 kJ of that 900 kJ is now the chemical energy of sugar. The leaves gave off the other 800 kJ as heat.
The plant made no energy and destroyed none. The plant only transformed the energy.
44Quick quiz: the first law of thermodynamics and chemical energy mixed practice
Energy changes form in every living thing.
Which of the following is the first law of thermodynamics?
- A. Every living thing needs an input of energyEvery living thing does need an energy input, but that is not the first law of thermodynamics.
- B. ✓ Energy is never created or destroyed
- C. Light carries energy, not matterLight does carry energy and not matter, but that is not the first law of thermodynamics.
Why: The first law of thermodynamics is the rule that energy is never created or destroyed.
Energy is only transferred from one thing to another, or transformed from one form to another.
Energy comes in several forms.
Which of the following is chemical energy?
- A. ✓ Energy held in a substance until it reacts
- B. Energy carried by light from the sunEnergy carried by light is light energy.
- C. Energy given off as heat to the surroundingsEnergy given off as heat is heat.
Why: Chemical energy is energy held in a substance.
The substance releases that energy when it reacts.
A squirrel eats a nut. Energy is held in the nut’s fat and sugar.
Which form of energy is held in the nut’s fat and sugar?
- A. Light energyLight energy is carried by light, not held in a substance.
- B. HeatHeat is energy given off, not energy held in a substance.
- C. ✓ Chemical energy
Why: Energy held in a substance, and released when the substance reacts, is chemical energy.
The fat and sugar are substances that hold energy and release it when they react.
So the energy in the nut is chemical energy.
A bean plant in the light makes sugar.
Which of the following does the bean plant do with the light energy?
- A. ✓ It transforms the light energy into chemical energy
- B. It makes new energy from the light energyEnergy is never created.
- C. It destroys the light energyEnergy is never destroyed.
Why: Energy is never created or destroyed, only transferred or transformed.
The plant transforms the light energy into the chemical energy of sugar.
A plant’s leaves take in light energy and make sugar.
(a) State the first law of thermodynamics. (1 pt)
It is only transferred from one thing to another, or transformed from one form to another.
- Award 1 point for: energy is never created or destroyed, only transferred or transformed.
(b) State what chemical energy is. (1 pt)
The substance releases that energy when it reacts.
- Award 1 point for: energy held in a substance, released when the substance reacts.
50Mixed practice mixed practice
A fungus grows on a dead log in a dark forest.
Which of the following is its energy input?
- A. ✓ Food: the compounds of the log
- B. Light from the forestNo light reaches it, and a fungus cannot use light in any case.
Why: A living thing’s energy input is light or food.
The fungus takes in no light, so its input is the food in the log.
A hamster absorbs 20 kJ of chemical energy from its food in a day. A student measures the energy in its movement, in its new tissue and in the heat it gives off, in kJ.
Which of the following do the three add up to?
- A. Less than 20 kJEnergy is never destroyed, so none of the 20 kJ vanished.
- B. ✓ 20 kJ
- C. More than 20 kJEnergy is never created, so the hamster added nothing to the 20 kJ.
Why: Energy is never created or destroyed.
The hamster only transformed the 20 kJ into movement, new tissue and heat.
So the three add up to 20 kJ.
A yeast culture takes in 8 kJ of chemical energy from sugar in an hour and gives off heat. A student says: ‘The yeast made some of that energy itself.’
Is the student correct?
- A. YesEnergy is never created.
Every kilojoule the yeast gave off came from the sugar. - B. ✓ No
Why: Energy is never created or destroyed.
The yeast took in 8 kJ of chemical energy from the sugar.
The yeast transformed that energy into heat and into the chemical energy of new yeast cells.
So the yeast made no energy of its own.
Glossary
- chemical energy
- Energy held in a substance, and released when the substance reacts. The sugar a plant makes holds chemical energy; the food an animal eats holds chemical energy.
- first law of thermodynamics
- Energy is never created or destroyed; it is only transferred from one thing to another or transformed from one form to another.
APBIO-U03-L13B Order needs energy
Photos: Hannahmorong (left, cropped and resized) and Mmma98 (right, resized), Wikimedia Commons, CC BY-SA 4.0.
Here are two leaves from the same tree: one green on its branch, one brown on the ground beneath it.
A leaf on the tree stays crisp and green, its molecules built and rebuilt every day. The same leaf on the ground, cut off from the tree, browns, crumbles and scatters within weeks.
Why does order last only while energy keeps arriving?
Unit 3 · Cellular Energetics
1The second law of thermodynamics: some always spreads out as heat
Video: Watch: Where the rest of the energy goes
A cell breaks down glucose: about 33% of the energy released reaches ATP, and the rest spreads out as heat that can no longer do work.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L13Ba.mp4
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A sparrow takes in 40 kJ of chemical energy from seeds in a day. Of that energy, 12 kJ went into its movement and its new tissue.
Which of the following happened to the other 28 kJ?
- A. It was destroyedEnergy is never destroyed.
- B. ✓ It passed to the surroundings as heat
Why: Energy is never created or destroyed.
The sparrow transformed 12 kJ into movement and new tissue.
The other 28 kJ passed to the sparrow’s surroundings as heat.
Why must a plant or an animal keep taking in energy, when the first law of thermodynamics says none is ever lost?
At every energy transfer, some of the energy spreads out as heat that can do no more work.
That heat is still part of the total energy, as the first law of thermodynamics says. But the organism cannot use that heat again.
So the organism must take in fresh energy to keep its molecules built and its concentration gradients in place.
Stop the input, and the pumps stop. The concentration gradients fade.
The order falls apart, like the fallen leaf.
Here is the heat leaving, in one cell. When a cell breaks down glucose, only about 33% of the energy released ends up in ATP.
The other 67% warms the cell and its surroundings.
That heat spreads out into the surroundings. Heat that has spread out can no longer do work.
The same is true of every energy transfer or transformation: some of the energy spreads out as heat.
So no transfer passes all of its energy on to the next thing. No transfer is fully efficient.
That rule is called the .
The heat has not disappeared. The energy has spread into the surroundings.
As the first law of thermodynamics says, the energy was not destroyed; it was transferred to a different form.
What you are expected to know State the second law of thermodynamics for living things: in every energy transfer or transformation, some energy spreads out as heat that can no longer do work, so no transfer is fully efficient.
A student keeps a flask of yeast warm for an hour. In that hour the yeast transfer 5.0 kJ of energy from sugar. Of that 5.0 kJ, 1.7 kJ is captured in ATP and used for the yeast’s work.
Calculate the energy that left the yeast directly as heat.
Answer: 3.3 kJ (tolerance ±0.05)
A muscle transforms the chemical energy released by ATP hydrolysis into movement. A student says: ‘All of that energy becomes movement.’
Is the student correct?
- A. Yes, all of the energy becomes movementNo transfer is fully efficient.
- B. No, all of the energy leaves as heatThe muscle does move, so part of the energy did become movement.
- C. ✓ No, some of the energy leaves as heat
Why: No transfer is fully efficient.
Some of the energy released by ATP hydrolysis spreads out as heat.
That heat warms the muscle and its surroundings, and it can no longer do work.
So only part of the energy becomes movement.
A muscle transforms the chemical energy released by ATP hydrolysis into movement. A student says: ‘All of that energy becomes movement.’ The student is wrong: only part of the energy becomes movement.
(a) Explain why only part of the energy released by ATP hydrolysis becomes movement. (1 pt)
Frame In every energy transfer …
So no transfer is fully efficient.
Some of the energy released by ATP hydrolysis spreads out as heat.
That heat warms the muscle and its surroundings.
Heat that has spread out can no longer do work.
So only part of the energy becomes movement.
- Award 1 point for: in every energy transfer some energy spreads out as heat (the second law of thermodynamics), so the movement receives less than the whole.
A firefly’s light organ transforms chemical energy into light. Only part of that energy becomes light.
Which of the following happens to the rest of the energy?
- A. ✓ It spreads out as heat
- B. It is destroyedEnergy is never destroyed.
- C. It stays in the molecules that reactedThe molecules have reacted, so their energy has already been released.
Why: No transfer is fully efficient.
Some of the chemical energy released spreads out as heat.
That heat warms the light organ and its surroundings.
So only part of the energy becomes light.
23Quick quiz: the second law of thermodynamics mixed practice
A student writes: ‘In every energy transfer, some energy spreads out as heat that can do no more work.’
Which law has the student written?
- A. The first law of thermodynamicsThe first law of thermodynamics says that energy is never created or destroyed.
- B. ✓ The second law of thermodynamics
Why: The second law of thermodynamics says that in every energy transfer some energy spreads out as heat that can no longer do work.
The first law of thermodynamics says that energy is never created or destroyed.
A student writes: ‘Energy is never created or destroyed. It is only transferred or transformed.’
Which law has the student written?
- A. ✓ The first law of thermodynamics
- B. The second law of thermodynamicsThe second law of thermodynamics is about the heat that spreads out in every transfer.
Why: The first law of thermodynamics says that energy is never created or destroyed.
The second law of thermodynamics says that in every transfer some energy spreads out as heat that can no longer do work.
In every energy transfer, some energy spreads out as heat.
Which of the following does the second law of thermodynamics say about that heat?
- A. It has been destroyedEnergy is never destroyed; the heat is still energy, spread into the surroundings.
- B. It can be gathered up and used againHeat that has spread out into the surroundings cannot be gathered back to do work.
- C. ✓ It can no longer do work
Why: The heat spreads out into the surroundings.
Spread-out heat can no longer do work.
So no transfer is fully efficient.
The second law of thermodynamics applies to every living thing.
(a) State the second law of thermodynamics as it applies to living things. (1 pt)
Frame In every energy transfer …
That heat can no longer do work.
So no transfer is fully efficient.
- Award 1 point for: in every energy transfer or transformation some energy spreads out as heat that can no longer do work (or: no transfer is fully efficient).
28Entropy: matter and energy spread out
Video: Watch: Entropy, the measure of disorder
A dead leaf scatters and a drop of ink spreads: matter and energy left to themselves spread out, and entropy is the measure of that disorder.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L13Bb.mp4
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Energy is not the only thing that spreads out. Matter spreads out too, when it is left to itself.
A dead leaf’s molecules break apart and scatter across the ground.
A drop of ink in a glass of still water spreads until the whole glass is faintly blue.
When matter or energy spreads out like this, we say it has become more disordered.
The measure of that disorder is called .
Left to themselves, matter and energy become more disordered. Their entropy rises.
The opposite takes work. When a tree builds new leaf cells, it joins small molecules into large, ordered ones.
Joining them makes the leaf’s matter more ordered. So the leaf’s entropy falls.
Building order like this never happens on its own.
What you are expected to know Predict whether a thing’s entropy rises or falls: it rises when the thing’s matter or energy spreads out, and it falls when the thing becomes more ordered.
A fallen apple lies in the grass for weeks. It softens, breaks apart and scatters.
What happens to the apple’s entropy?
- A. ✓ It rises
- B. It fallsThe apple’s molecules break apart and scatter, so its matter becomes more disordered.
Why: Entropy is the measure of disorder.
The apple’s molecules break apart and scatter.
So the apple’s matter becomes more disordered, and its entropy rises.
A cook drops a sugar cube into a cup of tea. The sugar dissolves and spreads through the whole cup.
What happens to the sugar’s entropy?
- A. ✓ It rises
- B. It fallsThe sugar spreads through the tea, so its matter becomes more disordered.
Why: Entropy is the measure of disorder.
The sugar’s molecules spread out through the tea.
So the sugar’s matter becomes more disordered, and its entropy rises.
A hen builds the yolk of an egg, joining small molecules from its food into large, ordered ones.
What happens to the entropy of the yolk’s matter?
- A. It risesThe hen joins small molecules into large, ordered ones, so the yolk’s matter becomes more ordered.
- B. ✓ It falls
Why: Entropy is the measure of disorder.
The hen joins small molecules into large, ordered ones.
So the yolk’s matter becomes more ordered, and its entropy falls.
A cup of hot coffee stands in a kitchen. Over an hour, its heat spreads out into the room.
What happens to the entropy of the coffee and the room together?
- A. ✓ It rises
- B. It fallsThe coffee’s heat spreads out through the room.
So the energy of the coffee and the room together is more spread out.
Why: Entropy is the measure of disorder.
The coffee’s heat spreads out through the room.
So the energy of the coffee and the room together is more spread out.
So their entropy rises.
A muscle cell joins amino acids into a long, folded protein.
What happens to the entropy of the protein itself?
- A. It risesThe cell joins free amino acids into one ordered protein, so the matter becomes more ordered.
- B. ✓ It falls
Why: Entropy is the measure of disorder.
The cell joins free amino acids into one long, folded protein.
So the matter becomes more ordered, and its entropy falls.
A dead fish lies on a beach. Over weeks its molecules break apart and scatter.
What happens to the fish’s entropy?
- A. ✓ It rises
- B. It fallsThe fish’s molecules break apart and scatter, so its matter becomes more disordered.
Why: Entropy is the measure of disorder.
The fish’s molecules break apart and scatter.
So the fish’s matter becomes more disordered, and its entropy rises.
A green plant joins carbon dioxide and water into a large, ordered grain of starch.
What happens to the entropy of the starch grain’s matter?
- A. It risesThe plant joins small molecules into one large, ordered grain, so the matter becomes more ordered.
- B. ✓ It falls
Why: Entropy is the measure of disorder.
The plant joins small molecules into one large, ordered grain of starch.
So the matter becomes more ordered, and its entropy falls.
47Quick quiz: entropy mixed practice
Entropy is a quantity that biologists use.
What is entropy?
- A. ✓ The measure of how spread out matter and energy are
- B. The energy a substance releases when it reacts with oxygenThe energy a substance releases when it reacts is its chemical energy, not a measure of disorder.
- C. The chemical energy held in one molecule of ATPThe energy in ATP is chemical energy, not a measure of disorder.
Why: Entropy is the measure of disorder.
Disorder is how spread out matter and energy are.
Matter and energy are left to themselves.
Which of the following happens to their entropy?
- A. ✓ It rises
- B. It fallsLeft to themselves, matter and energy spread out, which is more disorder.
- C. It stays the sameLeft to themselves, matter and energy spread out, which is more disorder.
Why: Left to themselves, matter and energy spread out.
Spreading out is more disorder.
So their entropy rises.
A leaf falls from a tree and lies on the ground.
(a) State what entropy measures. (1 pt)
Frame Entropy measures …
- Award 1 point for: entropy is the measure of disorder (how spread out matter and energy are).
(b) Predict what happens to the entropy of the fallen leaf over the following weeks. (1 pt)
Frame The leaf’s entropy …
The leaf has no energy input, so its molecules are no longer rebuilt.
They break apart and scatter, which is more disorder.
- Award 1 point for: the leaf’s entropy rises, because its molecules break apart and scatter (more disorder).
51Order needs energy
Video: Watch: Why a living thing must keep taking in energy
A cell keeps its molecules ordered and its concentration gradients in place; heat leaves at every step, so the cell must keep taking in energy or its order falls apart.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L13Bc.mp4
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The sodium–potassium pump keeps concentration gradients of ions across a cell’s membrane.
What does the pump use up as it pushes ions across the membrane?
- A. OxygenThe pump is driven by ATP hydrolysis, not by oxygen directly.
- B. ✓ ATP
Why: The pump pushes ions only while ATP hydrolysis is coupled to it.
A cell keeps itself ordered: its pumps push ions across its membrane, it builds and rebuilds its molecules, and it holds its concentration gradients of ions.
All of this work needs energy all the time.
And at every step some of the energy leaves as heat, and none of it comes back. So a cell must keep taking in energy, or the work of keeping order stops.
Suppose a poison blocks a cell’s ATP supply. With no ATP, its pumps stop.
So its concentration gradients disappear. Its membranes leak, and within hours the cell dies.
Now consider a starving animal. It gets no food, so it breaks down its own tissues to get energy instead.
When those tissues are used up too, it dies.
Stop the energy input, or let the cell or the animal lose enough of its order, and it dies.
What you are expected to know Explain why a living thing must keep taking in energy: keeping its molecules ordered and its pumps pushing ions needs energy continuously while some leaves as heat at every step and none returns, so only a continual input maintains order.
What you are expected to know Predict what follows when the energy input stops, or when a cell or an animal loses enough of its order: it dies.
A poison stops a liver cell from making ATP.
What happens to the cell’s concentration gradients over the next hours?
- A. They grow steeperThe pumps that build the concentration gradients need ATP, and the cell has none.
- B. They stay as they areThe concentration gradients are kept only while the pumps push ions, and the pumps need ATP.
- C. ✓ They disappear
Why: The cell’s pumps push ions only while ATP hydrolysis is coupled to their work.
With no ATP, nothing drives the pumps.
So the pumps stop.
Ions leak across the membrane until the concentrations on the two sides even out.
So the concentration gradients disappear.
A poison stops a liver cell from making ATP. Over the next hours the cell’s concentration gradients disappear.
(a) Explain why the concentration gradients disappear. (1 pt)
Frame With no ATP, …
So the pumps stop.
Ions leak across the membrane all the time.
So keeping the concentration gradients needs energy continuously.
With the pumps stopped, the ions keep leaking and nothing pushes them back.
So the concentrations on the two sides even out, and the concentration gradients disappear.
- Award 1 point for: with no ATP nothing drives the pumps, so they stop; ions keep leaking across the membrane and nothing moves them back, so the concentration gradients disappear.
A full-grown cat has finished growing. A student says: ‘The cat has finished building its body, so it can stop taking in energy.’
Is the student correct?
- A. YesA full-grown animal still pumps ions, rebuilds its molecules and keeps its concentration gradients every second.
- B. ✓ No
Why: Keeping a body ordered needs energy continuously: pumps push ions, molecules are rebuilt.
At every step some of that energy leaves as heat, and none comes back.
So the cat must keep taking in energy whether or not it is growing.
A full-grown cat has finished growing. A student says: ‘The cat has finished building its body, so it can stop taking in energy.’ The student is wrong.
(a) Explain why the full-grown cat must keep taking in energy. (1 pt)
Frame Keeping its body ordered …
The cat’s pumps push ions every second.
The cat rebuilds its molecules every second.
The cat holds its concentration gradients every second.
All of that work needs energy, whether or not the cat is growing, moving or keeping warm.
At every step some of the energy leaves as heat, and none of it comes back.
So the cat must keep taking in energy, or the work of keeping order stops.
- Award 1 point for: keeping the body ordered (pumping, rebuilding molecules, holding concentration gradients) needs energy continuously while some leaves as heat at every step and none returns, so the cat must keep taking in energy whether or not it is growing.
- Do not award the point for ‘it needs energy only to move’ or ‘only to keep warm’: the work of keeping order goes on when the cat is still and whatever its temperature.
A cell uses up its ATP.
What happens to its concentration gradients?
- A. ✓ They disappear
- B. They stay as they areThe pumps that keep the concentration gradients need ATP.
Why: The pumps push ions only while ATP hydrolysis is coupled to them.
With no ATP the pumps stop, ions leak, and the concentration gradients disappear.
A seedling in a dark box lives on the food stored in its seed. When the store is used up, the seedling dies.
(a) Explain why the seedling dies when its store is used up. (1 pt)
Keeping its cells ordered needs energy continuously, because heat leaves at every step.
When the store is used up, the input is zero.
So it can no longer remake ATP, its pumps stop, and it loses its order.
So the seedling dies.
- Award 1 point for: with the store gone the input is zero, ATP cannot be remade, the pumping and building that keep order stop, and a significant loss of order results in death.
Slip Saying the seedling ‘uses up its energy’ and stopping. The point needs the chain: no input, no ATP, order lost, death.
The leaf on the tree stays ordered because energy keeps flowing into it from light and sugar while heat leaves at every step. The leaf on the ground has no input, so it can only lose its order.
71Mixed quiz: the second law of thermodynamics, entropy and order mixed practice
A bird’s flight muscle transforms the chemical energy released by ATP hydrolysis into movement. Some of that energy spreads out as heat.
Which law says that some of the energy must spread out as heat?
- A. The first law of thermodynamicsThe first law of thermodynamics is about the total: energy is never created or destroyed.
- B. ✓ The second law of thermodynamics
Why: The second law of thermodynamics says that in every energy transfer some energy spreads out as heat that can no longer do work.
The first law of thermodynamics only says that the total is unchanged.
A cut flower stands in a vase for two weeks. Its petals wilt, turn brown and scatter.
What happens to the flower’s entropy?
- A. ✓ It rises
- B. It fallsThe flower’s molecules break apart and scatter, which is more disorder.
Why: The cut flower has no energy input, so its molecules are no longer rebuilt.
They break apart and scatter.
So the flower’s disorder, its entropy, rises.
A full-grown oak tree adds no new height. A student says: ‘The oak has finished growing, so it can stop taking in energy.’
Is the student correct?
- A. YesKeeping the oak’s cells ordered needs energy continuously, whether or not the oak is growing.
- B. ✓ No
Why: The oak’s cells pump ions and rebuild their molecules every second.
At every step some of that energy leaves as heat.
So the oak must keep taking in energy, as light, whether or not it grows.
In an hour, a yeast culture transfers 6.0 kJ from sugar. It captures 2.0 kJ of that in ATP.
Which of the following happened to the other 4.0 kJ?
- A. It stayed in the sugarThe yeast transferred the whole 6.0 kJ out of the sugar.
- B. ✓ It left the yeast as heat
- C. It was destroyedEnergy is never destroyed.
Why: No transfer is fully efficient.
The yeast captured 2.0 kJ in ATP.
The other 4.0 kJ spread out as heat, which warmed the yeast and its surroundings.
A cook stirs a spoon of salt into a pan of water. The salt dissolves and spreads through the whole pan.
What happens to the salt’s entropy?
- A. ✓ It rises
- B. It fallsThe salt spreads through the water, so its matter becomes more disordered.
Why: Entropy is the measure of disorder.
The salt’s particles spread out through the water.
So the salt’s matter becomes more disordered, and its entropy rises.
A poison stops a root cell from making ATP.
Which of the following happens to the root cell over the next hours?
- A. It stays as it isThe pumps that keep its concentration gradients need ATP, and the cell has none.
- B. ✓ It breaks down and dies
- C. It keeps growingGrowing means building new molecules, and that work needs ATP.
Why: With no ATP, nothing drives the cell’s pumps.
So the pumps stop, ions leak, and the concentration gradients disappear.
The cell loses its order, and within hours it dies.
A hamster gives off 15 kJ of heat in a day. A student says: ‘That 15 kJ has been destroyed.’
Is the student correct?
- A. YesEnergy is never destroyed; the heat is still energy, spread into the surroundings.
- B. ✓ No
Why: Energy is never created or destroyed.
The 15 kJ spread into the hamster’s surroundings as heat.
As the first law of thermodynamics says, the energy was not destroyed, only transferred to a different form, even though it can no longer do work.
A student stops adding sugar to a flask of bacteria. Within a day the bacteria stop pumping ions, their concentration gradients disappear and they die.
(a) Explain why the bacteria die when the sugar is gone. (1 pt)
Keeping their cells ordered needs energy continuously, because heat leaves at every step and none comes back.
With the sugar gone, the input is zero.
So the bacteria can no longer remake ATP, their pumps stop, and their concentration gradients disappear.
So the bacteria lose their order and die.
- Award 1 point for: with the sugar gone the input is zero, ATP cannot be remade, the pumping that keeps order stops, and a significant loss of order results in death.
Slip Saying the bacteria ‘have no energy left’ and stopping. The point needs the chain: no input, no ATP, order lost, death.
Glossary
- second law of thermodynamics
- In every energy transfer or transformation some energy spreads out as heat that can no longer do work, so no transfer is fully efficient.
- entropy
- The measure of disorder: how spread out matter and energy are. Left to themselves, matter and energy become more disordered, so their entropy rises.
APBIO-U03-L14 One big step or dozens of small ones
Here is a sugar cube held in a flame, and beside it a chain of small steps that ends in ATP.
A spoonful of sugar held in a flame burns in one flash of heat and light. A cell releases the same energy from the same sugar in dozens of small steps, and keeps about 33% of it as ATP. Why does the cell bother with dozens of steps?
Unit 3 · Cellular Energetics
1One step’s product is the next step’s reactant
Video: Watch: A chain of reactions, one enzyme per step
W becomes X, X becomes Y, Y becomes Z, each step with its own enzyme: the pathway, its intermediates, and the name for all of a cell’s pathways together.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L14A.mp4
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Why does a cell break glucose down in dozens of small steps instead of one?
Each small step releases a small amount of energy.
A small amount can be caught in one ATP before it spreads out as heat.
Energy released all at once, as in the flame, spreads out before anything can catch it. It only heats the room.
A chain of steps also lets the cell control the whole chain by controlling one enzyme. Start with the chain itself.
In a cell, sucrose + water → glucose + fructose.
Which of the following is a product of this reaction?
- A. SucroseSucrose is on the left of the arrow: it is a reactant, a substance that is changed.
- B. ✓ Glucose
Why: The arrow reads ‘become’.
Sucrose and water are the reactants: they are changed.
Glucose and fructose are the products: they are the new substances formed.
A cell stops making the enzyme for one of its reactions.
What happens to the rate of that reaction?
- A. ✓ It falls to almost nothing
- B. It stays the sameWithout its enzyme, a reaction in a cell is far too slow to be useful.
Why: A reaction in a cell goes at a useful rate only while its enzyme is present and active.
With no enzyme, the reaction is far too slow to be useful.
So the rate falls to almost nothing.
A shrew uses energy faster than a tortoise of the same mass.
Which animal has the higher metabolic rate?
- A. ✓ The shrew
- B. The tortoiseMetabolic rate is the rate at which an organism uses energy; the tortoise uses energy more slowly.
Why: Metabolic rate is the rate at which an organism uses energy.
The shrew uses energy faster.
So the shrew has the higher metabolic rate.
Here is a chain of reactions in a cell: W → X → Y → Z.
Enzyme E1 turns W into X. Enzyme E2 turns X into Y. Enzyme E3 turns Y into Z.
X is the product of E1’s reaction. X is also the reactant of E2’s reaction.
In the same way, Y is the product of E2’s reaction. Y is also the reactant of E3’s reaction.
So one step’s product is the next step’s reactant.
Each step has its own enzyme.
A chain of reactions like this is called a .
“Metabolic” comes from metabolism, the word for all of a cell’s chemical reactions.
The molecules in between, X and Y, are called . Each intermediate is made by one step and used up by the next.
A cell has hundreds of pathways. Some pathways build molecules, and other pathways break molecules down.
All of a cell’s pathways together are called its .
So a cell’s metabolic rate is the rate at which its metabolism uses energy.
What you are expected to know Identify, on a drawn chain of reactions, the pathway, its intermediates and each step’s enzyme.
Here is a pathway in a cell: A → B → C → D → E, with enzymes 1 to 4.
Which of the following molecules is an intermediate of this pathway?
- A. AA is the starting reactant of the whole pathway.
No step makes A. - B. ✓ C
- C. EE is the final product of the pathway.
No step uses E.
Why: An intermediate is made by one step and used up by the next.
Enzyme 2 makes C from B, and enzyme 3 uses C to make D.
So C is an intermediate.
No step makes A, and no step uses E.
Here is a pathway in a cell: A → B → C → D → E, with enzymes 1 to 4.
Which enzyme makes C?
- A. ✓ Enzyme 2
- B. Enzyme 3Enzyme 3 uses C, turning C into D.
- C. Enzyme 4Enzyme 4 turns D into E, at the end of the pathway.
Why: The arrow that ends at C is labeled enzyme 2.
So enzyme 2 turns B into C, and C is enzyme 2’s product.
Enzyme 3 then uses C as its reactant.
Here is a pathway in a cell: A → B → C → D → E, with enzymes 1 to 4.
Which enzyme uses D as its reactant?
- A. Enzyme 2Enzyme 2 turns B into C; D has not been made yet at that step.
- B. Enzyme 3D is enzyme 3’s product: enzyme 3 turns C into D.
- C. ✓ Enzyme 4
Why: D sits between the arrows labeled enzyme 3 and enzyme 4.
Enzyme 3 makes D from C.
Enzyme 4 uses D as its reactant and turns it into E.
In the pathway A → B → C → D → E, enzyme 1 catalyzes A → B.
Which of the following is the product of enzyme 1’s reaction?
- A. AA is enzyme 1’s reactant, the molecule it starts with.
- B. ✓ B
- C. CC is enzyme 2’s product.
Why: Enzyme 1 catalyzes A → B.
A is its reactant and B is its product.
B is then the reactant of enzyme 2’s step.
In a cell, a chain of reactions turns one molecule into another in four steps. The product of each step is the reactant of the next, and each step has its own enzyme.
What is a chain like this called?
- A. ✓ A metabolic pathway
- B. An intermediateAn intermediate is one molecule in the middle of the chain, not the chain itself.
- C. A metabolic rateMetabolic rate is how fast an organism uses energy, not a chain of reactions.
Why: A chain of reactions in which one step’s product is the next step’s reactant, each step with its own enzyme, is called a metabolic pathway.
What is a cell’s metabolism?
- A. The rate at which it uses energyThe rate at which a cell uses energy is its metabolic rate.
- B. ✓ All of its metabolic pathways together
- C. One molecule in the middle of a pathwayOne molecule in the middle of a pathway is an intermediate.
Why: All of a cell’s pathways together, everything it builds and everything it breaks down, are called its metabolism.
A liver cell builds glycogen in one pathway and breaks glucose down in another, alongside hundreds of other pathways.
(a) State what the liver cell’s metabolism is. (1 pt)
Frame The cell’s metabolism is …
- Award 1 point for: all of the cell’s metabolic pathways (or reactions) together; accept ‘everything it builds and breaks down’.
31Organic or not
Video: Watch: Which molecules are organic
Glucose, water, an amino acid, ATP, oxygen and carbon dioxide judged one at a time with one sentence: built on carbon with hydrogen attached.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L14B.mp4
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Glucose, C₆H₁₂O₆, is a sugar that plants make.
Which element forms the skeleton that glucose is built on?
- A. ✓ Carbon
- B. OxygenOxygen atoms are attached to the skeleton; they do not form it.
- C. HydrogenHydrogen atoms are attached to the skeleton; they do not form it.
Why: Glucose is built on a skeleton of six carbon atoms.
The hydrogen and oxygen atoms are attached to those carbons.
So carbon forms the skeleton.
Think of glucose: a skeleton of six carbon atoms, with hydrogen and oxygen attached.
A plant built it, in one of its pathways.
A molecule built on carbon with hydrogen attached is called an . Glucose is one.
“Organic” comes from organism, a living thing. Organic molecules are the molecules living things are built from.
Now judge some cases, one at a time.
Glucose is an organic molecule, because it is built on carbon with hydrogen attached.
But water is not an organic molecule, because it has no carbon.
An amino acid is an organic molecule, because it is built on carbon with hydrogen attached.
And ATP is also an organic molecule, because it is built on carbon with hydrogen attached.
But oxygen, O₂, is not an organic molecule, because it has no carbon.
And carbon dioxide, CO₂, is not an organic molecule either. It has a carbon atom, but no hydrogen is attached to it.
So a molecule is organic when it is built on carbon with hydrogen attached. Carbon alone is not enough.
Here is a table sorting glucose, water, an amino acid, ATP, oxygen and carbon dioxide into organic and not organic.
What you are expected to know Classify a molecule as organic or not.
Sucrose, the sugar in sugar cane, is built on a skeleton of twelve carbon atoms with hydrogen and oxygen attached.
Is sucrose an organic molecule?
- A. ✓ Yes
- B. NoSucrose is built on carbon with hydrogen attached.
Why: Sucrose is built on carbon.
Hydrogen is attached to that carbon.
So sucrose is an organic molecule.
Hydrogen peroxide, H₂O₂, is made in some cells.
Is hydrogen peroxide an organic molecule?
- A. YesHydrogen peroxide has no carbon, even though cells make it.
- B. ✓ No
Why: Hydrogen peroxide is made of hydrogen and oxygen only.
It has no carbon.
So hydrogen peroxide is not an organic molecule, even though cells make it.
A protein is a chain of amino acids that a cell has joined together.
Is a protein an organic molecule?
- A. ✓ Yes
- B. NoEach amino acid is built on carbon with hydrogen attached.
Why: A protein is a chain of amino acids.
Each amino acid is built on carbon with hydrogen attached.
So a protein is an organic molecule.
Ammonia, NH₃, is given off by some soil bacteria.
Is ammonia an organic molecule?
- A. YesAmmonia is made of nitrogen and hydrogen only; it has no carbon.
- B. ✓ No
Why: Ammonia is made of nitrogen and hydrogen.
It has no carbon.
So ammonia is not an organic molecule, even though bacteria give it off.
A fatty acid is a long chain of carbon atoms with hydrogen attached, made in a cell.
Is a fatty acid an organic molecule?
- A. ✓ Yes
- B. NoA fatty acid is built on a chain of carbon with hydrogen attached.
Why: A fatty acid is built on a chain of carbon atoms.
Hydrogen is attached to those carbons.
So a fatty acid is an organic molecule.
Nitrogen gas, N₂, makes up most of the air.
Is nitrogen gas an organic molecule?
- A. YesNitrogen gas has no carbon.
- B. ✓ No
Why: Nitrogen gas is made of nitrogen only.
It has no carbon.
So nitrogen gas is not an organic molecule.
What is an organic molecule?
- A. Any molecule that has carbon in itCarbon dioxide has carbon in it, but no hydrogen attached, and is not an organic molecule.
- B. ✓ A molecule built on carbon with hydrogen attached
- C. Any molecule that a living thing gives offLiving things give off carbon dioxide and water, and neither is an organic molecule.
Why: An organic molecule is built on carbon with hydrogen attached.
Carbon alone is not enough: carbon dioxide has carbon but no hydrogen, and is not organic.
A chemist hands you a molecule and asks whether it is organic.
(a) State the two things that make a molecule an organic molecule. (1 pt)
Frame An organic molecule is …
Hydrogen is attached to that carbon.
- Award 1 point for both: built on carbon AND hydrogen attached to the carbon.
56Why dozens of small steps
Video: Watch: One flash or dozens of small steps
The same glucose, the same total energy: a flame releases it in one burst and catches nothing; a cell releases it in dozens of small steps and catches about 33% in ATP.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L14C.mp4
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A muscle cell transfers energy from glucose into ATP.
Does some of the energy spread out as heat?
- A. ✓ Yes
- B. NoEvery energy transfer spreads some energy out as heat.
Why: Every energy transfer spreads some energy out as heat.
Moving energy from glucose into ATP is a transfer.
So some of the energy spreads out as heat.
A cell uses the energy released by ATP hydrolysis to drive a pump.
What is this link between the two processes called?
- A. ATP hydrolysisATP hydrolysis is the first process on its own; the link to the pump has its own name.
- B. ✓ Energy coupling
- C. An intermediateAn intermediate is a molecule in the middle of a pathway.
Why: The energy released by ATP hydrolysis drives a process that would not happen on its own.
That link is called energy coupling.
A spoonful of sugar is held in a flame.
Its glucose reacts with oxygen in a single uncontrolled burst. All of its energy comes out at once, as heat and light.
None of that energy is caught. It spreads into the room.
A cell releases the same energy from the same glucose in dozens of small steps, each with its own enzyme.
Each step releases a small, controlled amount of energy.
The cell couples that step to making ATP from ADP and Pi. So an amount that small is caught in one ATP before it spreads out as heat.
About 33% of glucose’s energy is caught this way.
The rest still leaves as heat, as the second law of thermodynamics says.
Here is a table comparing how a flame and a cell release and capture energy.
| one flash (the flame) | dozens of small steps (the cell) | |
|---|---|---|
| how the energy is released | all at once, in one burst | a small amount at each step |
| what is caught | nothing | about 33%, in ATP |
| where the rest goes | into the room, as heat and light | out of the cell, as heat |
| total energy released | the same | the same |
the same sugar, the same total: one flash catches nothing, dozens of steps catch about 33%
What you are expected to know Explain why many small steps let a cell catch energy in ATP instead of losing it all as heat.
A student burns 1 g of sugar in a flame. A cell breaks down 1 g of the same sugar to carbon dioxide and water.
Which releases more energy in total?
- A. The flameThe flame releases the energy faster, not more of it.
Both the flame and the cell start with sugar and end with carbon dioxide and water. - B. The cellThe cell catches some of the energy in ATP, but releases no more.
The flame and the cell both start with sugar and end with carbon dioxide and water. - C. ✓ They release the same total
Why: The flame and the cell both start with the same sugar and end with carbon dioxide and water.
The energy released is the drop from reactants to products.
That drop is the same in one burst or in dozens of steps.
So the total is the same.
A student burns 1 g of sugar in a flame. A cell breaks down 1 g of the same sugar to carbon dioxide and water. The two release the same total energy. The flame ends up with heat and light alone. The cell ends up with some of the energy in ATP.
(a) Explain why the cell ends up with some of the energy in ATP while the flame ends up with heat and light alone. (1 pt)
Frame The flame releases …
An amount that large spreads into the room as heat and light before anything can catch it.
The cell releases the same energy in dozens of small steps, each with its own enzyme.
Each step releases a small, controlled amount of energy.
The cell couples that step to making ATP.
So an amount that small is caught in ATP before it spreads out as heat.
- Award 1 point for: the flame releases the energy all at once, so it escapes as heat and light; the cell releases it in small steps, and a small amount can be captured in ATP before it spreads out as heat.
A student says: ‘Because the cell releases the energy in small steps, all of it is caught in ATP.’
Is the student correct?
- A. YesEvery energy transfer spreads some energy out as heat, small steps included.
- B. ✓ No
Why: Every energy transfer spreads some energy out as heat.
Small steps are transfers too, so each step still loses some energy as heat.
The small steps let the cell catch about 33% of glucose’s energy in ATP.
The rest leaves as heat, as the second law of thermodynamics says.
A cell releases glucose’s energy in dozens of small steps. About 33% of the energy ends up in ATP.
(a) Explain why the cell catches only part of the energy in ATP. (1 pt)
Frame Every energy transfer …
Each small step in the cell is an energy transfer.
So each step still loses some energy as heat.
The small steps let the cell catch a share of the energy in ATP before the rest spreads out.
That share is about 33% of glucose’s energy.
So the cell catches part of the energy, not all of it.
- Award 1 point for: every energy transfer, each small step included, spreads some energy out as heat (the second law of thermodynamics), so the cell catches only a share (about a third) in ATP and the rest leaves as heat.
Yeast cells break down glucose whose carbon atoms carry a label. The cells make ATP as they do so.
Which of the following describes what happens to the glucose’s carbon atoms?
- A. They are converted straight to carbon dioxide by one enzymeA cell breaks glucose down in many steps, each with its own enzyme, not in one step.
- B. They are turned into energy that is stored in ATPAtoms are never turned into energy.
The carbon stays carbon and leaves as carbon dioxide. - C. ✓ They pass through intermediates and leave as carbon dioxide
- D. They are built into ATP, which releases them as carbon dioxideATP is made from ADP and Pi with energy from the steps; glucose’s carbon is not built into it.
Why: A cell breaks glucose down in a pathway of many steps.
So the labeled carbon passes through a series of intermediates and leaves the cell as carbon dioxide.
Carbon atoms are matter, and matter is never turned into energy.
The energy released step by step is what makes ATP.
75One enzyme controls the whole chain
Video: Watch: Slow one enzyme, slow the whole chain
An inhibitor binds enzyme 3 of the chain A to E: C builds up, D and E are made more slowly, and the cell has controlled the whole pathway through one step.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L14D.mp4
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An inhibitor binds to an enzyme.
What happens to the rate of the reaction that enzyme catalyzes?
- A. ✓ It falls
- B. It stays the sameAn inhibitor bound to an enzyme slows that enzyme’s reaction.
- C. It risesAn inhibitor slows an enzyme; it never speeds it up.
Why: An inhibitor binds to the enzyme.
Fewer reactant molecules are turned into product each second.
So the rate falls.
Here is the pathway A → B → C → D → E, with its four enzymes. An inhibitor has bound enzyme 3.
Enzyme 3 now turns C into D more slowly.
So enzyme 3 makes fewer D molecules each second.
Enzyme 4 has fewer D molecules to use. So enzyme 4 makes fewer E molecules each second.
Enzyme 2 still makes C at its old rate, but enzyme 3 uses C more slowly. So C builds up.
Slowing one enzyme slowed the whole pathway from that step on. Enzyme 4 makes the end product, E, more slowly.
Free enzyme 3 from its inhibitor, and the whole chain speeds up again.
So a cell controls a whole pathway by controlling one enzyme. It never has to control every step.
What you are expected to know Explain why slowing the enzyme of one step slows the whole pathway.
Here is a pathway in a cell: P → Q → R → S, with enzymes 1 to 3. An inhibitor binds enzyme 2.
How fast does enzyme 3 make S, compared with before?
- A. FasterSlowing an enzyme in the chain never speeds the chain up.
- B. At the same rateEnzyme 3 can only make S from the R that enzyme 2 supplies, and enzyme 2 is slowed.
- C. ✓ Slower
Why: Enzyme 2 turns Q into R more slowly.
So enzyme 2 makes fewer R molecules each second.
Enzyme 3 has fewer R molecules to use.
So enzyme 3 makes fewer S molecules each second: slower than before.
In the pathway P → Q → R → S, with enzymes 1 to 3, an inhibitor binds enzyme 2. Enzyme 3 now makes S more slowly.
(a) Explain why enzyme 3 makes S more slowly when only enzyme 2 is inhibited. (1 pt)
Frame Enzyme 2 turns …
So enzyme 2 makes fewer R molecules each second.
Enzyme 3 has fewer R molecules to use.
So enzyme 3 makes fewer S molecules each second.
- Award 1 point for: enzyme 2 makes R more slowly, so enzyme 3 has less R to work on, so S is made more slowly (the slowed step starves every step after it).
In the pathway P → Q → R → S, with enzymes 1 to 3, an inhibitor binds enzyme 2. A student says: ‘Only the step from Q to R slows down. Enzyme 3 still makes S at the same rate.’
Is the student correct?
- A. YesEnzyme 3 can only make S from the R that enzyme 2 supplies.
- B. ✓ No
Why: Enzyme 2 makes R more slowly.
Enzyme 3 makes S from R.
With fewer R molecules each second, enzyme 3 makes fewer S molecules each second.
So enzyme 3 makes S more slowly, not at the same rate.
In the pathway P → Q → R → S, with enzymes 1 to 3, an inhibitor binds enzyme 2. Enzyme 1 keeps working at its old rate.
Which molecule builds up?
- A. PEnzyme 1 still uses P at its old rate.
- B. ✓ Q
- C. REnzyme 2 now makes R more slowly, so R does not build up.
- D. SS is made more slowly, so S does not build up.
Why: Enzyme 1 still makes Q at its old rate.
Enzyme 2 uses Q more slowly.
Q is made faster than it is used.
So Q builds up.
Here is a pathway in a cell: T → U → V → W, with enzymes 1 to 3. An inhibitor is bound to enzyme 3, so enzyme 3 makes W slowly. The cell needs W faster.
Which one change speeds up the making of W?
- A. Make more enzyme 1Enzyme 1 would make U faster, but enzyme 3 still turns V into W slowly.
So W is still made slowly. - B. Make more enzyme 2Enzyme 2 would make V faster, but enzyme 3 still turns V into W slowly.
So V builds up, and W is still made slowly. - C. ✓ Free enzyme 3 from its inhibitor
Why: While the inhibitor is bound, enzyme 3 turns V into W slowly.
Enzymes 1 and 2 can only feed V to a slowed enzyme 3.
Free enzyme 3, and it turns V into W at its old rate.
So W is made faster.
92Life obeys the first two laws of thermodynamics
Video: Watch: How a living thing stays ordered
A germinating seed’s 250 J followed to the end: 100 J caught in ATP and used to grow, 150 J left as heat, the first two laws of thermodynamics obeyed, and what follows when the store is used up.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L14E.mp4
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A heart muscle cell holds only seconds’ worth of ATP, yet the heart beats for a lifetime.
How does the cell keep going?
- A. ✓ It remakes ATP from ADP and Pi with energy from food
- B. It stores a lifetime’s worth of ATP before the first beatA cell holds only seconds’ worth of ATP; no store lasts longer.
Why: The cell remakes ATP from ADP and Pi with energy from breaking down food.
Remaking keeps pace with use.
So the ATP level stays steady, beat after beat.
A hen draws 700 kJ from its food in a day. In that day it lays an egg, moves about and gives off heat.
How much energy do the egg, the movement and the heat add up to?
- A. Less than 700 kJEnergy is never destroyed; the heat that leaves is counted too.
- B. ✓ 700 kJ
- C. More than 700 kJEnergy is never created.
Why: The hen transfers and transforms energy.
It never creates energy and never destroys it.
So the egg, the movement and the heat add up to the 700 kJ that went in.
Now put the pieces together.
A living thing takes in energy, as light or as food.
It must keep taking energy in, because heat leaves at every step.
It transforms that energy and creates none: the first law of thermodynamics.
It makes new ATP, then splits it to build new molecules, to pump ions and to keep its order.
It releases energy in stepwise pathways, and some energy leaves as heat at every step: the second law of thermodynamics.
So a living thing stays highly ordered, and neither law of thermodynamics is broken.
Here is a quick example. A germinating seed transfers 250 J from its store in ten minutes.
Of that 250 J, 100 J was captured in ATP and used for the seed’s growth. The other 150 J left directly as heat.
A germinating seed transfers 250 J from its stores in ten minutes; 100 J was captured in ATP and used for growth, and 150 J left directly as heat. Does the energy budget balance?
A germinating seed transfers 250 J from its store in ten minutes. Of that 250 J, 100 J was captured in ATP and used for the seed’s growth. The other 150 J left directly as heat.
(a) Explain how this energy transfer demonstrates the first two laws of thermodynamics. (2 pt)
Frame The seed’s store held …
100 J went into ATP and 150 J into heat.
100 J and 150 J add up to 250 J.
So no energy was created or destroyed.
That demonstrates the first law of thermodynamics: energy is only transferred or transformed.
The 150 J of heat spread into the surroundings and can do no more work.
That demonstrates the second law of thermodynamics: some energy spreads out as heat in every transfer.
- Award 1 point for the first law of thermodynamics: the 100 J in ATP and the 150 J of heat add up to the 250 J transferred, so no energy was created or destroyed, only transferred or transformed.
- Award 1 point for the second law of thermodynamics: the 150 J left as heat that spread into the surroundings and can do no more work, so the transfer was not fully efficient (some energy spreads out as heat in every transfer).
- Do not award a point for naming a law without connecting it to the 250 J, the 100 J or the 150 J.
(b) The seed is kept in the dark, so its leaves take in no light. Predict what happens to the seedling when its store is used up. (1 pt)
Frame When the store is used up, …
The seed can no longer supply the energy that keeps its order.
So the seed dies.
- Award 1 point for: with the store gone the input stops, the seed can no longer supply the energy that keeps its order, so it dies (unless its leaves can start taking in light).
What you are expected to know Justify the claim that a living organism stays highly ordered while obeying the first two laws of thermodynamics: it keeps taking in energy while heat leaves at every step, transforms rather than creates energy, splits ATP to do the work of keeping order, and releases energy in steps.
What you are expected to know Predict that when the input stops, order is lost.
Students measured the energy a resting animal drew from its fat store in a day: 800 kJ. Of that 800 kJ, 530 kJ left the animal directly as heat during the day. The animal keeps its body ordered and working throughout.
Calculate the energy that was captured in ATP and used for the animal’s work.
Answer: 270 kJ (tolerance ±0.5)
A resting animal stays ordered and working while it uses up its fat store, giving off heat all the while. A student says: ‘The animal breaks the second law of thermodynamics, because it stays ordered while it uses up its fat store.’
Is the student correct?
- A. Yes, an animal that stays ordered while using up its store breaks the second law of thermodynamicsStaying ordered while energy flows from its fat store through its cells does not break the second law of thermodynamics.
- B. ✓ No, energy flows from its fat store through its cells while heat leaves at every step
Why: The second law of thermodynamics says that in every energy transfer some energy spreads out as heat.
The heat the animal gives off is exactly that loss.
The animal stays ordered because energy keeps flowing from its fat store through its cells while heat leaves at every step.
A resting animal draws 800 kJ from its fat store in a day. 530 kJ of that left the animal directly as heat, and 270 kJ was captured in ATP and used for the animal’s work. The animal keeps its body ordered and working throughout.
(a) Explain how the animal stays ordered while obeying the second law of thermodynamics. (1 pt)
Frame The second law of thermodynamics says that …
The 530 kJ that left the animal as heat is exactly that loss.
Keeping the animal’s body ordered needs energy continuously.
The animal supplies that energy from its fat store: 270 kJ was captured in ATP and used for its work.
So energy keeps flowing from its fat store through its cells while heat leaves at every step, and the animal stays ordered.
- Award 1 point for: the heat that leaves is the loss the second law of thermodynamics requires; the animal stays ordered because energy keeps flowing from its store through its cells (captured in ATP and used for its work) while heat leaves at every step.
A sealed jar holds a living yeast culture and a little sugar, in the dark. Over the following days the yeast use up all the sugar.
What happens to the yeast cells’ order once the sugar is gone?
- A. ✓ It decreases
- B. It stays the sameKeeping order needs energy continuously, and the yeast now have no energy input.
- C. It increasesOrder increases only while energy flows in, and the yeast now have no energy input.
Why: Keeping order needs energy continuously, and heat leaves at every step.
In the dark, with the sugar gone, the yeast have no energy input.
So they can no longer remake ATP.
Their pumps stop, their concentration gradients disappear, and their order decreases until the cells die.
The flame gives the sugar’s energy up in one step. Every joule leaves as heat and light.
The cell’s dozens of steps each release a little. About 33% is caught in ATP before it spreads out as heat.
115Mixed practice mixed practice
Here is a pathway in a cell: F → G → H → J, with enzymes 1 to 3.
Which of the following molecules is an intermediate of this pathway?
- A. FF is the starting reactant: no step makes F.
- B. ✓ H
- C. JJ is the final product: no step uses J.
Why: An intermediate is made by one step and used up by the next.
Enzyme 2 makes H from G, and enzyme 3 uses H to make J.
So H is an intermediate.
Cellulose, the fibre in a plant’s cell wall, is a chain of glucose units that the plant joined together.
Is cellulose an organic molecule?
- A. ✓ Yes
- B. NoEach glucose unit is built on carbon, and the plant made the chain.
Why: Cellulose is a chain of glucose units, each built on carbon.
A plant made it.
So cellulose is an organic molecule.
A cell releases glucose’s energy in dozens of small steps rather than in one burst.
What does this let the cell do?
- A. Release more energy in totalThe total released is the drop from reactants to products; it is the same in one burst or in many steps.
- B. ✓ Catch some of the energy in ATP
- C. Release no heat at allEvery energy transfer spreads some energy out as heat, small steps included.
Why: Each small step releases a small, controlled amount of energy.
The cell couples that step to making ATP.
So an amount that small is caught in ATP before it spreads out as heat.
Here is a pathway in a cell: K → L → M → N → O, with enzymes 1 to 4. An inhibitor binds enzyme 1.
How fast does enzyme 4 make O, compared with before?
- A. FasterSlowing an enzyme in the chain never speeds the chain up.
- B. At the same rateEnzymes 2, 3 and 4 can only use what enzyme 1 supplies, and enzyme 1 is slowed.
- C. ✓ Slower
Why: Enzyme 1 makes L more slowly.
Enzyme 2 has fewer L molecules to use, so it makes M more slowly, and so on down the chain.
So enzyme 4 makes O more slowly.
A germinating bean transfers 300 J from its store in ten minutes. 120 J of that is captured in ATP and used for growth.
What happened to the other 180 J?
- A. It was destroyedEnergy is never destroyed; the first law of thermodynamics says every joule is transferred or transformed, never lost.
- B. It is also held in ATPOnly 120 J was captured in ATP.
- C. ✓ It left the bean as heat
Why: Every energy transfer spreads some energy out as heat.
300 J was transferred and 120 J was captured in ATP.
So the other 180 J left the bean as heat.
Carbon dioxide, CO₂, has a carbon atom in it, and so does glucose.
Which of the following decides whether a molecule with carbon in it is an organic molecule?
- A. ✓ Whether hydrogen is attached to its carbon
- B. How many atoms it hasGlucose, with twenty-four atoms, and ATP, with forty-seven, are both organic molecules.
- C. Whether it has oxygen in itGlucose has oxygen in it and is an organic molecule.
Why: An organic molecule is built on carbon with hydrogen attached.
Carbon dioxide has a carbon atom, but no hydrogen is attached to it.
So carbon dioxide is not an organic molecule.
A hummingbird spends the night with no food. In one hour it draws 4.0 kJ from its fat and sugar stores. 2.7 kJ of that left the bird directly as heat in that hour. The other 1.3 kJ was captured in ATP and used for the bird’s work. The bird stays warm and alive through the night.
(a) Describe how the hour’s energy values obey the first law of thermodynamics. (1 pt)
That is the 4.0 kJ drawn from the stores.
So the energy was only transferred and transformed.
None was created and none was destroyed.
- Award 1 point for: 1.3 kJ plus 2.7 kJ equals the 4.0 kJ drawn, so the energy was only transferred or transformed; none was created or destroyed.
- Accept: the totals match, with the first law of thermodynamics named or stated in words. Accept “2.7 kJ was lost as heat”: the exam uses “lost” for energy that leaves as heat.
Slip Saying the 2.7 kJ was destroyed or used up. It left the bird as heat. The first law of thermodynamics says that energy was transferred, not destroyed: the heat is where 67% of the 4.0 kJ went.
(b) Explain why only about 33% of the 4.0 kJ ended up in ATP. (1 pt)
That heat can no longer do work.
So no transfer is fully efficient: the second law of thermodynamics.
The bird’s pathways capture about 33% of the energy in ATP.
The rest leaves as heat.
- Award 1 point for: in every transfer some energy spreads out as heat that can no longer do work (the second law of thermodynamics), so the share reaching ATP is less than the total.
- Accept: no transfer is fully efficient, with heat named as where the rest goes.
Slip Blaming a fault in the bird. Losing some energy as heat at every step is a rule for every living thing, not a defect of this one.
(c) Predict what happens to the bird’s cells if it finds no food when the sun rises and its stores are used up. (1 pt)
So its pumps stop.
Its concentration gradients disappear.
Its proteins are no longer rebuilt.
Its cells lose their order, and the bird dies.
- Award 1 point for: with the input gone, ATP is no longer remade, work such as pumping stops, order is lost and the bird dies.
- Accept: its cells lose their order, with one process that stops named and the direction of change given.
Slip Stopping at “it gets hungry” or “it has less energy”. Follow the chain to the work that stops and the order that is lost.
(d) Explain your answer to part (c). (1 pt)
At every step some energy leaves as heat, and none of it comes back.
So the cell keeps its order only while energy keeps coming in.
Once the input is zero, the heat loss continues.
So order can only decrease.
- Award 1 point for: order is kept only while energy keeps coming in, because heat leaves at every step; with no input, the loss continues and order decreases.
- Accept: the same rule in other words, provided the energy input and the heat loss are both named.
Slip Restating the prediction. The explanation names the rule, that energy must keep coming in because heat leaves at every step, and applies it to an input of zero.
Glossary
- metabolic pathway
- A chain of reactions in a cell in which the product of one reaction is the reactant for the next, each step catalyzed by its own enzyme.
- intermediate
- A molecule in the middle of a metabolic pathway: made by one step and used up by the next.
- organic molecule
- A molecule built on carbon with hydrogen attached, such as glucose, ATP or an amino acid: the molecules living things are built from. Water and carbon dioxide are not organic molecules.
- metabolism
- All of a cell’s metabolic pathways together: everything it builds and everything it breaks down.
APBIO-U03-P33 Practice questions: Topic 3.3
Answer every question. For each multiple-choice question, pick one option and press Check; the feedback gives the reasoning. For the free-response questions, write one short sentence for each step of your reasoning, each on its own line, and show any calculation; make every link clear (so, because, therefore). In the exam, write those steps as a paragraph: a bulleted list is not scored. The first free-response question walks you through the reasoning one part at a time, and you can open a hint for each part; the second is at the level of the test. When you finish a question, open the scoring guide and mark your own work against it. Energy is measured in joules (J) and kilojoules (kJ; 1 kJ = 1,000 J); energies of reactions are in kJ/mol.
Video: Watch first: Topic 3.3 summary: energy in, order kept
ATP hydrolysis releases energy and drives the cell's work; energy is transformed, never made, and some always spreads out as heat; a living thing stays ordered only while energy keeps flowing in.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-T33-summary.mp4
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ATP is made of a base, a sugar and a chain of three phosphate groups.
Which of the following parts of ATP make up the adenosine?
- A. The base onlyATP's base is adenine.
Adenine on its own is not adenosine: adenosine is adenine joined to the sugar, ribose. - B. The sugar onlyATP's sugar is ribose.
Ribose on its own is not adenosine: adenosine is the base, adenine, joined to ribose. - C. ✓ The base and the sugar
- D. The sugar and the three phosphate groupsThe three phosphate groups are not part of adenosine.
Adenosine is the base, adenine, joined to the sugar, ribose; the phosphates attach to the ribose.
Why: ATP's base is adenine.
ATP's sugar is ribose.
Adenine joined to ribose is called adenosine.
The chain of three phosphate groups attaches to the ribose, and it is not part of the adenosine.
Cilia taken from windpipe cells and kept in a dish of fluid beat only when a student adds ATP to the fluid. ADP and Pi added on their own leave the cilia still. The student explains: ‘The bond to ATP’s outer phosphate stores energy, and that energy is set free when the bond breaks.’
Which statement corrects the student?
- A. The energy comes from the water molecule that reacts with ATP, which gives up the energy it heldWater is a reactant of the hydrolysis.
Water gives up no energy of its own. - B. The student is right, except that the energy is stored in all three phosphate bonds, not only the outer oneBreaking any bond takes energy in.
So no bond stores energy that breaking sets free. - C. The energy comes from the ADP and Pi themselves, which the cilia break down further as their fuelADP and Pi are the products of the hydrolysis.
They hold less energy than ATP and water did.
The cilia stay still when given them. - D. ✓ The energy comes from the whole reaction: ADP and Pi hold less energy than ATP and water did
Why: Breaking any bond takes energy in.
So no energy is stored in the outer bond.
In ATP hydrolysis, the products, ADP and Pi, hold less energy than ATP and water did.
So the whole reaction releases energy.
The cilia use that energy because the hydrolysis is coupled to their beating.
A motor protein carries vesicles along a fiber inside a nerve cell. A researcher gives the protein a look-alike of ATP that binds the protein but cannot be hydrolyzed: the protein stays still. Given ATP, the protein steps forward along the fiber, and each step is paired with the hydrolysis of one ATP.
Why does the protein stay still with the look-alike instead of ATP?
- A. ✓ The look-alike is not hydrolyzed, so no hydrolysis is coupled to the shape change that makes the step
- B. The look-alike releases its energy as heat, and warmth alone cannot swing the protein forwardThe look-alike cannot be hydrolyzed.
So it releases no energy at all, as heat or in any other form. - C. The look-alike sits where the protein grips the fiber, so the protein cannot take hold of the fiberThe look-alike binds the protein's ATP site, not the fiber.
The protein's grip on the fiber is not what fails. - D. The look-alike is hydrolyzed like ATP, but each hydrolysis releases too little energy for one stepThe look-alike cannot be hydrolyzed at all.
So it releases no energy for any step.
Why: The protein's step would not happen by itself.
ATP hydrolysis is coupled to the change of shape that makes the step.
The look-alike binds the protein but cannot be hydrolyzed.
So no energy is released.
So nothing drives the change of shape, and the protein stays still.
In which of the following changes does the entropy of the matter or energy described fall?
- A. A dead moth lying on a windowsill dries out, crumbles and scatters across the sill as dustThe moth's matter breaks apart and scatters.
Its matter becomes more spread out, so its entropy rises. - B. ✓ A snail takes dissolved minerals from the water and builds them into the solid layers of its shell
- C. A drop of perfume placed on a wrist evaporates and spreads through the whole roomThe perfume's molecules spread out through the room.
Its matter becomes more spread out, so its entropy rises. - D. A hot stone lifted from a campfire cools as its heat spreads out into the night airThe stone's heat spreads out into the air.
Its energy becomes more spread out, so its entropy rises.
Why: Entropy measures how spread out matter and energy are.
The minerals start dissolved, spread through the water.
The snail gathers them and fixes them in place as solid shell.
So the shell's matter is less spread out than the dissolved minerals were, and its entropy falls.
A ripening banana gives off two gases: carbon dioxide, CO₂, and ethylene, C₂H₄, a molecule the banana's cells make.
Which of the two gases is an organic molecule?
- A. Neither of themEthylene, C₂H₄, is built on carbon with hydrogen attached.
So ethylene is an organic molecule. - B. Carbon dioxide onlyCarbon dioxide has carbon, but no hydrogen is attached to it.
So carbon dioxide is not an organic molecule. - C. ✓ Ethylene only
- D. Both of themCarbon alone is not enough.
Carbon dioxide has carbon, but no hydrogen is attached to it, so it is not an organic molecule.
Why: An organic molecule is built on carbon with hydrogen attached.
Ethylene, C₂H₄, is built on carbon with hydrogen attached.
So ethylene is an organic molecule.
Carbon dioxide has carbon, but no hydrogen is attached to it.
So carbon dioxide is not organic.
In plant cells, two steps make the orange pigment beta-carotene, each catalyzed by its own enzyme: a colorless molecule, phytoene, becomes the red pigment lycopene, and lycopene becomes beta-carotene. In a ripe tomato, lycopene builds up in the cells and makes the fruit red; the cells make very little beta-carotene, and phytoene stays scarce.
Which of the following explains why lycopene builds up in the tomato?
- A. The enzyme that turns phytoene into lycopene has low activityAn enzyme that turns phytoene into lycopene slowly would make lycopene slowly.
Lycopene would stay scarce and phytoene would build up. - B. ✓ The enzyme that turns lycopene into beta-carotene has low activity
- C. Both enzymes have low activityIf both enzymes had low activity, phytoene would be turned into lycopene slowly and would build up.
In the tomato, phytoene stays scarce. - D. The tomato's cells make phytoene faster than other plant cells doPhytoene made faster would be turned into lycopene and then into beta-carotene faster.
Very little beta-carotene is made.
Why: The enzyme that turns lycopene into beta-carotene has low activity.
So it turns lycopene into beta-carotene slowly, and very little beta-carotene is made.
The enzyme that turns phytoene into lycopene still makes lycopene at its old rate.
Lycopene is made faster than it is used, so it builds up.
A salmon swimming upstream draws 3,000 kJ from its stored fat in a day. About 1,000 kJ of that is captured in ATP and used for its swimming.
How much of the 3,000 kJ left the fish directly as heat, and why?
- A. ✓ 2,000 kJ: in every energy transfer some energy spreads out as heat
- B. 1,000 kJ: the energy captured in ATP is the part that leaves as heatThe 1,000 kJ captured in ATP was used for the swimming.
The heat is the other 2,000 kJ, the share not captured. - C. None: the 2,000 kJ not captured in ATP stays stored in the fish’s fatThe 3,000 kJ was transferred out of the fat.
Energy that has left the fat is no longer stored in it. - D. 2,000 kJ: the energy not captured in ATP was used up as the fish swam, so it no longer existsEnergy is never used up or destroyed.
The 2,000 kJ still exists: it left the fish as heat and warmed the river.
Why: The fish drew 3,000 kJ from its fat.
1,000 kJ was captured in ATP.
So the other 2,000 kJ left the fish as heat.
In every energy transfer some energy spreads out as heat: the second law of thermodynamics.
That heat warmed the river and can no longer do work.
Red blood cells stored in a blood bag live on the glucose in the storage fluid. After several weeks the glucose is used up; the cells then lose their ion concentration gradients, swell and burst.
Why do the cells burst once the glucose is gone?
- A. The glucose was holding the cell membranes togetherGlucose is a fuel, not a building block of the membrane.
- B. With the glucose gone, water enters the cells faster because the fluid is more diluteThe fluid is only a little less concentrated.
The pumps stopped and the ion concentration gradients were lost.
Water followed the ions into the cells. - C. ✓ With no glucose the cells make no ATP, so the pumping that kept their contents ordered stops
- D. The cells create energy from their own membranes, which weakens themNo living thing creates energy.
Why: Keeping ion concentration gradients needs ATP every moment.
With no glucose, the cells cannot remake ATP.
So the pumping stops.
Ions leak across the membrane until the concentration gradients are gone.
Water follows the ions in.
So the cells swell and burst.
A significant loss of order results in death.
The figure shows a pathway in a yeast cell in which J is converted, step by step, into a flavor compound, M. A student gives the cells L, and no J.
Which molecules of the pathway can the cells now make from the L?
- A. ✓ M only
- B. K, L and MNo enzyme in the pathway turns L back into K.
Each arrow points one way, from reactant to product. - C. J, K and MNo enzyme in the pathway makes J or K from L.
Each arrow points one way, from reactant to product. - D. None of them, because the pathway must start from JThe pathway does not have to start from J.
E3 acts on L wherever the L came from.
Why: L is the reactant of E3's step.
So E3 turns the L into M.
In this pathway each arrow points one way, from reactant to product.
No step shown turns L back into K, and none makes J.
So from L the cells make M and nothing else.
A student proposes that a cell would do better with a single enzyme that turned glucose and oxygen straight into carbon dioxide and water in one step, releasing all of the glucose's energy, about 2,870 kJ/mol, at once.
What would happen to that energy in the proposed cell?
- A. It would all be captured in ATP, since a single step wastes nothing at allEnergy released all at once spreads out as heat before anything can catch it.
ATP captures energy in small amounts, one step at a time. - B. It would be stored inside the enzyme until the cell needed itAn enzyme is a catalyst.
The enzyme is unchanged by the reaction and stores nothing. - C. It would be released as light, as when a spoonful of sugar burns in a flameA reaction in a cell at body temperature has no flame.
Energy released all at once in the cell's water spreads out as heat, not as light. - D. ✓ Most of it would spread out as heat, with no step in which ATP could capture a share
Why: A cell releases glucose's energy in a pathway of small steps.
Each step releases a small amount of energy.
The cell catches that small amount in ATP.
Released in one step, the energy would spread out as heat before any could be caught.
Frog eggs develop in a dish of pond water kept in the dark, in a room at 22 °C; each embryo lives on the yolk stored in its egg. In one day, students measured 40 J of energy transferred from the yolk of each egg: 14 J of it ended up in newly made ATP and 26 J left the egg as heat. Assume these values account for all the energy transferred. The embryo uses its ATP to build new cells and to pump ions across its membranes. The yolk lasts about ten days; after that the tadpole must feed.
(a) Identify the source of the energy the embryo uses. (1 pt)
Frame The embryo’s energy comes from …
Hint Living things take in energy as light or as food. Which of the two can reach an embryo inside an egg in a dark room?
The yolk is food.
Food holds chemical energy.
The dish is kept in the dark, so no light reaches the embryo.
An animal cannot use light in any case.
So food is the embryo’s only energy input.
- Award 1 point for: the yolk stored in the egg, which is food (chemical energy).
- Accept ‘stored food in the yolk’ or ‘the chemical energy of the yolk’. Do not award the point for light, for the warmth of the room or for the pond water.
Slip Naming the warmth of the room or the pond water as the energy source. Living things take their energy in as light or as food. Warmth speeds the embryo's reactions up, and water supplies matter; the input here is the food in the yolk.
(b) Calculate the percentage of the 40 J that was captured in ATP. (1 pt)
Frame The percentage captured in ATP is …%.
Hint A percentage compares a part with a whole. Which of the three values is the part, and which is the whole?
14 J of the 40 J transferred ended up in ATP, and 14 ÷ 40 × 100 = 35%.
- Award 1 point for: 14 divided by 40, multiplied by 100, gives 35%.
- Do not award the point for 14 divided by 26 (54%, comparing ATP with heat) or for 26 divided by 40 (65%, the share that left as heat).
Slip Dividing 14 by 26 instead of by 40. The whole is the 40 J transferred from the yolk. The heat is the other part of that whole, not the whole.
(c) Explain how the first law of thermodynamics accounts for the 40 J. (1 pt)
Frame The first law of thermodynamics says that energy is …; here 14 J + 26 J = … J, so …
Hint The first law of thermodynamics is about the total. Which three values in the setup does it connect?
Energy is only transferred or transformed.
So every joule of the 40 J is accounted for.
14 J was transformed into chemical energy in ATP.
26 J was transferred to the surroundings as heat.
14 J + 26 J = 40 J.
- Award 1 point for: energy is neither created nor destroyed, only transferred or transformed, so all 40 J is accounted for: 14 J transformed into chemical energy in ATP plus 26 J transferred as heat (14 + 26 = 40).
- Accept 'the energy in equals the energy out'. Accept '26 J was lost as heat': that is the exam's own wording, and the heat still exists. Do not award the point for a statement that 26 J was destroyed, disappeared or ceased to exist.
Slip Saying that the 26 J of heat was destroyed or ceased to exist. The heat left the egg, but it still exists, spread into the water and the air; the first law of thermodynamics counts it. Saying it was 'lost as heat' is fine: that is the exam's own wording.
(d) Explain why some of the 40 J left the egg as heat instead of being captured in ATP. (1 pt)
Frame By the second law of thermodynamics, in every energy transfer …, so no transfer …; the yolk's energy is released in …, and each step …
Hint Which law describes what happens to energy in every transfer?
That heat can no longer do work.
So no transfer is fully efficient.
The embryo breaks the yolk's food down in many small steps.
Each step captures part of the energy released in ATP.
The rest, here 26 J of the 40 J, warms the egg and the water around it.
- Award 1 point for: by the second law of thermodynamics, in every energy transfer or transformation some energy spreads out as heat that can no longer do work, so no transfer is fully efficient; the pathway that breaks the yolk's food down releases the energy in many small steps and captures a portion of each in ATP, while the rest leaves as heat.
- Accept an answer that names the second law of thermodynamics and heat without mentioning the steps. Do not award the point for 'the embryo wasted energy' with no mention of heat, or for 'some energy was destroyed'.
Slip Saying the embryo 'could not use' the 26 J and stopping. The point needs the idea of the second law of thermodynamics: some energy spreads out as heat at every transfer, so no transfer is fully efficient.
(e) Make a claim about what will happen to a tadpole that finds no food once its yolk is used up. (1 pt)
Frame The tadpole will …
Hint Once the yolk is gone and there is no food, think about what the tadpole can still take in.
With the yolk gone and no food, its energy input is zero.
- Award 1 point for: a correct, specific claim: the tadpole will die (its cells will lose their order), because with no yolk and no food it has no energy input.
- Make a claim earns the point for the assertion; the reasoning is scored in part (f). Do not award the point for 'it stops growing' alone, or for a claim that it can live on warmth or water.
Slip Claiming only that growth slows or stops. The claim has to name the end of the chain: with no input, the tadpole dies.
(f) Support your claim with reasoning from the laws of thermodynamics. (1 pt)
Frame Keeping its cells ordered needs …; at every step …; so once the input is zero …
Hint Think about where some of the energy goes at every step, and whether it ever comes back.
The tadpole supplies that energy through ATP hydrolysis coupled to building cells and pumping ions.
At every step some of the energy leaves as heat, and none of it comes back.
So a living thing must keep taking in energy.
Once the input is zero, the heat loss continues.
So the order cannot be maintained, and therefore the tadpole dies.
- Award 1 point for: the evidence (the input is zero) AND the reasoning that links it to the claim: keeping order needs energy continuously because heat leaves at every step (the second law of thermodynamics), so with no input the ATP cannot be remade, order cannot be maintained, and the tadpole dies.
- Support a claim needs the evidence and the reasoning that links it to the claim. Do not award the point for restating the claim, or for naming the heat loss without linking it to the need for a continuous input.
Slip Restating the claim. Supporting it means naming the rule, that energy must keep coming in because heat leaves at every step, and applying it to an input of zero.
The model shows what a liver cell does with glucose as soon as the glucose has entered it: enzyme H catalyzes arrow 1. Glucose-phosphate cannot pass back out through the cell membrane, so the glucose is trapped inside the cell. On its own, glucose + Pi → glucose-phosphate + H₂O would take in 14 kJ/mol; ATP hydrolysis, ATP + H₂O → ADP + Pi, releases 31 kJ/mol. In a cell-free extract containing enzyme H, glucose and Pi alone give no glucose-phosphate; glucose and ATP together give it quickly. Arrow 2 shows how the cell remakes ATP.
(a) Explain why the products of arrow 1 are glucose-phosphate and ADP, rather than glucose-phosphate and ATP. (1 pt)
This is phosphorylation.
The phosphate group comes from ATP: it is the outermost of ATP’s three phosphates.
So ATP is left with two phosphates.
Adenosine with two phosphates is ADP.
That is why the products are glucose-phosphate and ADP.
- Award 1 point for: the phosphate that lands on the glucose is the outermost of ATP’s three phosphates (glucose is phosphorylated), so ATP is left with two phosphates, which is ADP (adenosine diphosphate).
- Accept ‘ATP gives glucose one of its phosphates, so it becomes ADP’. Do not award the point for ‘ATP gives glucose energy’ with no phosphate transferred, or for ADP explained as ATP that has lost all its phosphates.
Slip Saying ATP 'gives its energy' to glucose with no phosphate mentioned. What moves is a phosphate group. Losing that group is what turns ATP into ADP.
(b) Explain why glucose and Pi alone give no glucose-phosphate, while glucose and ATP together give it quickly. (1 pt)
So with only Pi present, the reaction does not happen.
ATP hydrolysis releases 31 kJ/mol, which is more than 14 kJ/mol.
Enzyme H couples the two reactions: it transfers ATP's outer phosphate straight onto the glucose.
So the combined reaction releases 31 − 14 = 17 kJ/mol overall, and glucose-phosphate forms quickly.
This is energy coupling: ATP hydrolysis drives a reaction that would not happen by itself.
- Award 1 point for: adding a phosphate to glucose would take in 14 kJ/mol, so it does not happen by itself; ATP hydrolysis releases 31 kJ/mol, more than the 14 kJ/mol needed, so when enzyme H couples the two by transferring ATP's phosphate straight onto the glucose the combined reaction releases 31 − 14 = 17 kJ/mol and glucose-phosphate forms.
- Accept 'the hydrolysis releases more energy than the phosphorylation needs, so the coupled reaction releases energy overall'. Do not award the point for 'ATP has energy stored in its bond' or for 'ATP has a phosphate and Pi does not' with no energy reasoning.
Slip Saying the energy comes from breaking ATP's phosphate bond. Breaking any bond takes energy in. The release comes from the whole reaction, whose products hold less energy than its reactants. That release drives the phosphorylation only because enzyme H couples the two.
(c) A poison stops the liver cell from remaking ATP (arrow 2). Make a claim about what happens to the trapping of glucose that enters the cell from now on. (1 pt)
It goes on only until the cell's ATP is used up.
- Award 1 point for: a correct, specific claim: the trapping soon stops (within seconds), once the cell's ATP is used up.
- Make a claim earns the point for the assertion; the reasoning is scored in part (d). Accept 'it stops' with any short timescale or none. Do not award the point for 'trapping continues normally because the cell has plenty of ATP' or for 'glucose is trapped faster'.
Slip Claiming that the trapping carries on for hours on stored ATP. A cell holds only seconds' worth of ATP, so once arrow 2 stops, arrow 1 stops almost at once.
(d) Support your claim using what the reaction in arrow 2 requires and how long a cell's stock of ATP lasts. (1 pt)
So when arrow 2 is blocked, the store is gone almost at once.
Making ATP from ADP and Pi is the reverse of hydrolysis.
It needs an input of energy.
The cell normally gets that energy from breaking down food molecules.
The poison cuts off that remaking, so nothing refills the store.
Enzyme H then has no ATP to take a phosphate from.
So the trapping of glucose stops.
- Award 1 point for: the evidence (a cell's stock of ATP lasts only seconds; making ATP from ADP and Pi needs an input of energy from food, which the poison cuts off) AND the reasoning that links it to the claim: nothing refills the store, so enzyme H has no ATP to take a phosphate from, and the trapping stops.
- Support a claim needs the evidence and the link to the claim. Do not award the point for treating ATP as a long-term store, or for the energy of arrow 2 coming from the glucose-phosphate.
Slip Supporting with 'the poison stops ATP' and stopping. The point needs the two facts and the link: the store is only seconds deep, refilling it needs energy from food, so the trapping stops almost at once.
APBIO-U03-T33 End-of-topic test: Cellular Energy
Answer every question. For each multiple-choice question, pick one option and press Check; the feedback gives the reasoning. For the two free-response questions, write one short sentence for each step of your reasoning, each on its own line, and show any calculation; make every link clear (so, because, therefore). In the exam, write those steps as a paragraph: a bulleted list is not scored. Then open the scoring guide and mark your own work against it. Energy is measured in joules (J) and kilojoules (kJ; 1 kJ = 1,000 J).
The figure shows an ATP molecule with two regions marked, 1 and 2.
Which marked region is adenosine?
- A. ✓ 1
- B. The left part of 1 onlyThe left part of 1 is the base on its own.
The base on its own is adenine, not adenosine. - C. 2The region marked 2 is the chain of three phosphate groups.
The phosphate groups are not part of adenosine. - D. 1 and 2 togetherThe two regions together are the whole ATP molecule.
Adenosine is the region marked 1 only; the three phosphates are attached to it.
Why: ATP is adenosine triphosphate.
Adenine joined to ribose is called adenosine.
The region marked 1 is adenine joined to ribose.
So the region marked 1 is adenosine.
The region marked 2 is the chain of three phosphate groups attached to the ribose.
A cell hydrolyzes a molecule of ATP.
How does the ADP that is left differ from the ATP?
- A. It has one phosphate group instead of threeHydrolysis takes one phosphate off ATP, not two.
So two phosphate groups remain on the ADP. - B. It has lost all three phosphates, leaving adenosine on its ownADP keeps two of the three phosphates.
Adenosine on its own has none. - C. ✓ It has two phosphate groups instead of three
- D. It still has three phosphates, with a water molecule added onto the outer oneWater splits the outermost phosphate off the ATP.
That phosphate leaves as free Pi.
So ADP has two phosphates, and no water is added to it.
Why: In hydrolysis, water splits the outermost phosphate off the ATP.
That phosphate leaves as free inorganic phosphate, Pi.
ADP keeps the same adenosine as ATP.
ATP has three phosphate groups, and ADP has two.
A grasshopper's jumping muscle hydrolyzes ATP each time it contracts. With no ATP, the muscle locks stiff.
Where does the energy for the contraction come from?
- A. From the bond to the outer phosphate: the energy stored in it is released when it breaksBreaking any bond takes energy in.
No bond stores energy that breaking sets free. - B. ✓ From the difference in energy between what went into the reaction and what came out
- C. From the water molecule, which is split apart and gives up the energy it heldWater is a reactant of the hydrolysis.
Water gives up no energy of its own. - D. From the ADP and Pi, which the muscle breaks down further as its fuelADP and Pi are the products of the hydrolysis.
ADP and Pi hold less energy than ATP and water did.
So they are not a fuel.
Why: ATP and water become ADP and Pi.
ADP and Pi hold less energy than ATP and water did.
So the whole reaction releases that difference as energy.
Breaking the bond to the outer phosphate takes energy in.
The release comes from the whole reaction, not from one bond.
The figure shows an energy profile for ATP hydrolysis, ATP + H₂O → ADP + Pi. Energy is in kJ/mol.
What does the profile show about the reaction?
- A. It takes in 30 kJ/mol, because energy must be put in to break the phosphate bondBreaking the bond does take energy in.
But the products end up 30 kJ/mol below the reactants.
So the whole reaction releases 30 kJ/mol. - B. It releases 100 kJ/mol, the energy that was stored in the phosphate bond100 kJ/mol is the reactants' level, not an amount released.
No bond stores energy that breaking sets free. - C. It releases 70 kJ/mol, the energy left over in the products70 kJ/mol is the products' level on the profile, not the energy released.
- D. ✓ It releases 30 kJ/mol, because the products hold less energy than the reactants
Why: The reactants, ATP and water, sit at 100 kJ/mol.
The products, ADP and Pi, sit at 70 kJ/mol.
So the products hold less energy than the reactants.
The reaction releases the difference, 30 kJ/mol.
The hump is the activation energy; it does not set the energy released.
A membrane protein moves a solute into a vesicle against its concentration gradient. A researcher gives the protein ADP plus Pi, and then a look-alike of ATP that binds the protein's ATP site but cannot be hydrolyzed: each time, the solute stays outside. Given ATP, the protein moves the solute into the vesicle.
What do the results show about how the protein uses ATP?
- A. Binding ATP alone changes the protein; removing the phosphate is unnecessaryThe look-alike binds the ATP site just as ATP does, yet no solute moved.
So binding alone is not enough. - B. ✓ ATP hydrolysis is coupled to the protein's change of shape; binding alone is not enough
- C. Moving the solute releases energy that turns ADP and Pi into ATPMoving a solute against its concentration gradient needs energy.
It releases none.
So nothing turned ADP and Pi into ATP. - D. The protein uses ADP and Pi directly as its source of energyNo solute moved with ADP and Pi alone.
ADP and Pi are the products of hydrolysis.
They hold less energy than ATP and water did.
Why: The look-alike binds the protein but cannot be hydrolyzed.
With the look-alike, no solute moved.
So binding alone drives nothing.
With ATP, the solute moves.
So the energy released by hydrolysis is coupled to the protein's change of shape.
That change of shape moves the solute.
A pump in a plant root cell's membrane pushes hydrogen ions (H⁺) out of the cell against their concentration gradient. When the pump hydrolyzes ATP, the pump becomes phosphorylated.
What does the added phosphate do to the pump?
- A. Unfolds the pump, so that it is denaturedA denatured pump would stop working.
This pump keeps working for as long as it has ATP. - B. Splits the pump into two smaller proteinsPhosphorylation attaches a phosphate group to the pump.
It does not cut the protein chain.
So the pump stays one protein. - C. ✓ Changes the pump's shape, so that it pushes H⁺ out of the cell
- D. Adds a second binding site for H⁺ to the pumpThe pump already has its binding site for H⁺.
The phosphate adds no new site.
Why: The pump takes ATP's outer phosphate onto itself.
The added phosphate changes the pump's shape.
In its new shape, the pump pushes H⁺ out of the cell.
After the push, the pump releases the phosphate as Pi and changes back.
So ATP hydrolysis is coupled to the pump's work.
A researcher gives a muscle a poison. The muscle contracts normally for a few seconds and then stops. By then its ATP is gone, and ADP and Pi have built up. The muscle goes on breaking glucose down as before.
Which reaction has the poison blocked?
- A. ✓ The remaking of ATP from ADP and Pi
- B. The hydrolysis of ATP to ADP and PiADP and Pi built up.
So the muscle went on hydrolyzing ATP.
A blocked hydrolysis would have left the ATP unused. - C. The breakdown of glucoseThe muscle goes on breaking glucose down as before.
So that reaction is not blocked. - D. The coupling of ATP hydrolysis to the contracting proteinsThe muscle contracted normally while its ATP lasted.
So the hydrolysis was still coupled to the contracting proteins.
Why: Remaking ATP from ADP and Pi needs energy from food.
The muscle went on breaking glucose down.
So the energy supply was not blocked.
Yet ADP and Pi built up and the ATP is gone.
So nothing remade ATP.
The poison blocked the remaking of ATP.
During a 30-second race a greyhound's leg muscles hydrolyze ATP very fast, yet the amount of ATP in the muscles barely falls over the 30 seconds.
Which of the following explains why the amount of ATP barely falls?
- A. The muscles store enough ATP for many minutes of racingA cell holds only seconds' worth of ATP.
A stored supply would be gone almost at once in a race. - B. ATP is not used in a race; the muscles use glucose directlyATP hydrolysis drives each contraction.
The muscles do not use glucose directly for the work. - C. Each ATP molecule can be hydrolyzed many times before it becomes ADPEach hydrolysis turns one ATP into one ADP plus one Pi.
That ADP must be remade into ATP before it can be hydrolyzed again. - D. ✓ The muscles remake ATP from ADP and Pi almost as fast as they use it, with energy from food
Why: A muscle cell holds only seconds' worth of ATP.
Each hydrolysis leaves ADP and Pi.
The muscles remake ATP from that ADP and Pi, with energy from food.
They remake ATP almost as fast as they hydrolyze it.
So the amount of ATP barely falls during the race.
A goldfish is kept in a brightly lit tank and given no food. Over several weeks it grows thin and dies.
Why does the goldfish die in spite of the light?
- A. The light is too weak for the fish to make its own food, so it starves in spite of itA fish has no way to make food from light.
No strength of light would help. - B. ✓ A fish cannot take in energy as light; its only input is food, and none was given
- C. The tank water carries no minerals, so the fish has no matter to build withMinerals supply matter for building, not energy.
The fish died for lack of an energy input. - D. The fish takes in energy from the water’s warmth, and a lit tank is too coolWarmth speeds up the fish's reactions.
But warmth is not an energy input a living thing can use.
Why: Every living thing needs a continuous energy input: light or food.
A goldfish is an animal.
An animal cannot take in energy as light.
So the tank light is not an input for the fish.
With no food, its input is zero.
Once its stores are gone, it dies.
In one day a seaweed frond absorbs 1,200 kJ of light energy and stores about 50 kJ of it in the sugar it makes.
What happened to the other 1,150 kJ?
- A. It was destroyed in the reactions that made the sugarEnergy is never destroyed.
- B. ✓ It was transformed to heat and passed to the water around the seaweed
- C. It became the matter, the atoms, of the new sugarEnergy is never turned into matter.
The sugar's atoms came from carbon dioxide and water. - D. It was stored in the seaweed's ATP, to be used at nightA cell holds only seconds' worth of ATP.
ATP is not a store for the night.
The seaweed stored only the 50 kJ, in sugar.
Why: Energy is never created or destroyed: the first law of thermodynamics.
The seaweed transformed 50 kJ of the light into chemical energy in sugar.
The seaweed transformed the other 1,150 kJ into heat.
That heat warmed the water.
50 kJ and 1,150 kJ add up to the 1,200 kJ absorbed.
A student writes: 'Plants are producers because they make their own energy from sunlight.'
Which statement corrects the student?
- A. Plants make energy from carbon dioxide and water rather than from sunlightCarbon dioxide and water supply the atoms of the sugar.
Light supplies the energy.
No living thing makes energy. - B. Plants are producers because the energy they make is stored in the bonds of their sugar moleculesNo living thing makes energy.
Energy is not stored in a bond: breaking any bond takes energy in.
The sugar holds chemical energy, which it releases when it reacts. - C. ✓ Plants transform light energy into chemical energy in sugar; they create none
- D. Plants take in their energy from soil water and minerals, so the student names the wrong sourceSoil water and minerals supply atoms.
Light supplies the plant's energy.
The plant transforms that light energy; it makes no energy.
Why: The first law of thermodynamics says that energy is never created or destroyed.
Energy is only transferred or transformed.
A plant absorbs light energy.
The plant transforms that light energy into chemical energy in sugar.
So a producer makes no energy; it transforms energy.
In an hour of flight, a pigeon's breast muscles transfer 90 kJ of energy from the fuel they break down. About 30 kJ of that energy is captured in ATP.
What happens to the other 60 kJ?
- A. It is destroyed, so the total amount of energy fallsEnergy is never destroyed.
The 60 kJ still exists, spread out as heat. - B. ✓ It spreads out as heat and can no longer do work
- C. It is stored in the ADP and Pi that are left overADP and Pi hold less energy than ATP and water did.
They are not a store of energy. - D. It stays in the part of the fuel that was not broken downThe 90 kJ was transferred out of the fuel.
So none of the 90 kJ stays in the fuel.
Why: In every energy transfer some energy spreads out as heat: the second law of thermodynamics.
The muscles captured 30 kJ of the 90 kJ in ATP.
The other 60 kJ spread out as heat.
That heat warmed the muscles.
The heat still exists but can no longer do work.
A fallen tree trunk lying on the ground in a wood softens, crumbles and scatters over the years. The living tree beside it keeps its shape, its molecules built and rebuilt every day.
Which of the following ideas from the second law of thermodynamics does the fallen trunk show?
- A. ✓ With no energy input its matter grows more disordered: its entropy rises
- B. The energy that held the trunk together was used up when the tree fell, so nothing is left to hold itEnergy is never destroyed.
No energy flows into the fallen trunk.
So nothing rebuilds its molecules, and it falls apart. - C. The trunk’s atoms are being destroyed as it crumbles to dustAtoms are never destroyed.
The trunk's atoms scatter into the soil and the air. - D. The heat the trunk gives off as it decays can be gathered back to rebuild its orderHeat that has spread into the surroundings cannot be gathered back to do work.
So it cannot rebuild the trunk's order.
Why: Entropy is the measure of disorder: how spread out matter and energy are.
Left to itself, matter becomes more disordered.
The fallen trunk has no energy input.
So its molecules are no longer rebuilt.
They crumble and scatter.
So the trunk's entropy rises.
A sperm cell carries no food store of its own. In a dish with no sugar it swims for a few hours; then its ion concentration gradients collapse, its membrane leaks and it dies.
Why does the sperm cell die?
- A. Swimming used up the matter the cell needed to build new molecules withThe cell's atoms are all still there.
The cell has used up its energy supply, not its matter. - B. Its heat could no longer leave the cell, so the cell overheated and diedHeat keeps leaving the cell.
What has stopped is the energy input that kept the cell ordered. - C. Without sugar, water no longer entered the cell, so the cell dried outWater still crosses the membrane.
The pumps stopped.
So the ion concentration gradients collapsed. - D. ✓ With no sugar it makes no ATP, so the pumping that keeps it ordered stops
Why: Keeping a cell ordered needs energy every moment.
The cell's pumps work only while ATP hydrolysis is coupled to them.
With no sugar, the cell cannot remake ATP.
So the pumps stop, the concentration gradients collapse and the membrane leaks.
A significant loss of order results in death.
A male emperor penguin stands through the Antarctic winter holding an egg and eats nothing for two months. It uses up its stored fat, then begins to break down its own muscle protein.
Why does the penguin break down its own tissues?
- A. ✓ Heat still leaves it every moment, and its own molecules are the only energy source left
- B. It stored ATP in its fat and muscle while it was feeding, and breaking them down releases that ATPA cell holds only seconds' worth of ATP.
Fat and muscle protein hold chemical energy, not ATP.
The penguin transforms that chemical energy into new ATP, moment by moment. - C. The energy it took in over the summer was used up and no longer exists, so it breaks down its tissues to create new energyNo living thing creates energy.
Fat and muscle protein already hold chemical energy.
Breaking them down transforms that energy into ATP, then into heat. - D. Its cells stop needing ATP once food stops arriving, so the tissue is spare to burnKeeping its cells ordered needs ATP every moment, fed or fasting.
The penguin still needs ATP.
That is why it breaks down its tissues.
Why: Keeping its cells ordered needs energy continuously.
Heat leaves the penguin at every step, and none comes back.
With no food, the penguin's only energy source is its own molecules.
So it breaks down its fat, then its muscle protein, to keep its order.
When those are gone, it dies.
The figure shows a metabolic pathway in which G is converted, step by step, to K.
Which molecule is both the product of enzyme E2's reaction and the reactant of enzyme E3's reaction?
- A. GG is the starting reactant of the whole pathway.
No reaction in the pathway makes G. - B. HH is the product of E1's reaction and the reactant of E2's reaction, not E3's.
- C. ✓ J
- D. KK is the pathway's final product, made by E3.
No reaction in the pathway uses K.
Why: In a metabolic pathway, one step's product is the next step's reactant.
E2 turns H into J.
So J is E2's product.
E3 turns J into K.
So J is also E3's reactant.
H and J, between the start and the end, are the pathway's intermediates.
In the pathway shown, a cell loses the ability to make enzyme E2. E1 and E3 are unchanged, and G keeps arriving.
What happens to the amounts of the pathway's molecules?
- A. ✓ H builds up; J and K are no longer made
- B. G builds up; H, J and K are no longer madeE1 is still present.
So E1 still turns G into H.
The step with no enzyme is H to J. - C. J builds up; only K is no longer madeE2 makes J from H.
With no E2, no J is made.
So J cannot build up. - D. H and J build up; only K is no longer madeJ is E2's product.
With no E2, no J is made.
So J cannot build up.
Why: Each step of the pathway has its own enzyme.
E1 still turns G into H.
With no E2, H is not turned into J.
So H builds up.
With no J, E3 has nothing to turn into K.
So J and K are no longer made.
A log burns in a fireplace in one blaze of heat and light. A fungus breaks the same kind of wood down in dozens of small enzyme-catalyzed steps, releasing the same energy from the same amount of wood.
What is the advantage to the fungus of the many small steps?
- A. The steps release more energy in total than burning the wood doesThe fire and the fungus both start with the same wood.
Both the fire and the fungus end with carbon dioxide and water.
So the total released is the same. - B. ✓ Each step releases a little energy that can be captured in ATP rather than lost as heat
- C. Many small steps break the wood down faster than a fire doesA fire breaks wood down in minutes.
A fungus takes months.
Speed is not the advantage. - D. The steps release the energy with no loss at all as heatEvery energy transfer spreads some energy out as heat.
The fungus captures about 33% of the energy, not all of it.
Why: The fire releases all the energy at once.
Energy released at once spreads out as heat before anything catches it.
Each of the fungus's steps releases a small amount.
The fungus couples each step to making ATP.
So each small amount is caught in ATP before it spreads out.
Four molecules are found in a potato cell: starch, oxygen (O₂), carbon dioxide (CO₂) and water (H₂O).
Which of the four is an organic molecule?
- A. Carbon dioxide (CO₂)Carbon dioxide has one carbon atom.
But no hydrogen is attached to it.
So it is not an organic molecule. - B. Oxygen (O₂)Oxygen has no carbon.
An organic molecule is built on carbon. - C. ✓ Starch
- D. Water (H₂O)Water has no carbon.
An organic molecule is built on carbon.
Why: An organic molecule is built on carbon with hydrogen attached.
Starch is a chain of glucose units, built on carbon with hydrogen attached.
So starch is an organic molecule.
Carbon dioxide has carbon, but no hydrogen is attached to it.
A potato tuber sprouting in a dark cupboard lives on the starch stored in the tuber. In one ten-minute interval, students measured the energy transferred from the tuber's store: 300 J was transferred from stored starch; 120 J of it was captured in ATP and used for the sprout's work, and 180 J left the tuber directly as heat. Assume these values account for all the energy transferred in the interval. The sprout uses its ATP to build new cells and to move materials into them. If it stays in the dark, the tuber's starch will be used up in a few weeks.
(a) Calculate the percentage of the 300 J that was captured in ATP. (1 pt)
120 ÷ 300 × 100 = 40%.
So the sprout captured 40% of the transferred energy in ATP.
- Award 1 point for: 120 divided by 300, multiplied by 100, gives 40% captured in ATP.
- Do not award the point for 120 divided by 180 (67%, comparing ATP with heat) or for 180 divided by 300 (60%, the share that left as heat).
Slip Dividing 120 by 180 instead of by 300. The whole is the 300 J transferred from the starch. The heat is the other part of that whole, not the whole.
(b) Describe how the first law of thermodynamics accounts for the 300 J. (1 pt)
Energy is only transferred or transformed.
So every joule of the 300 J is accounted for.
120 J was captured in ATP.
180 J left the tuber as heat.
120 J + 180 J = 300 J.
- Award 1 point for: energy is neither created nor destroyed, only transferred or transformed, so the 300 J is all accounted for: 120 J captured in ATP plus 180 J that left as heat (120 + 180 = 300).
- Accept "the energy in equals the energy out". Accept "180 J was lost as heat (to the surroundings)": that is the exam's own wording, and the heat still exists. Do not award the point for a statement that energy was destroyed, disappeared or ceased to exist.
Slip Saying that the 180 J of heat was destroyed or ceased to exist. The heat left the tuber, but it still exists; the first law of thermodynamics counts it. Saying it was "lost as heat" is fine: that is the exam's own wording.
(c) Explain why only part of the energy transferred from the starch ended up in ATP. (1 pt)
That heat can no longer do work.
So no transfer is fully efficient.
This is the second law of thermodynamics.
The sprout breaks the tuber's starch down in many small steps.
Each step captures part of the energy released in ATP.
The rest, here 180 J of the 300 J, warms the tuber and its surroundings.
- Award 1 point for: by the second law of thermodynamics, in every energy transfer or transformation some energy spreads out as heat that can no longer do work, so no transfer is fully efficient; the pathway that breaks the tuber's starch down releases the energy in many small steps and captures a portion of each in ATP, while the rest leaves as heat.
- Accept an answer that names the second law of thermodynamics and heat without mentioning the steps. Do not award the point for "the sprout wasted energy" with no mention of heat, or for "some energy was destroyed".
Slip Saying the sprout "could not use" the 180 J and stopping. The point needs the idea of the second law of thermodynamics: some energy spreads out as heat at every transfer, so no transfer is fully efficient.
(d) Explain what happens to the ion concentration gradients across the sprout's cell membranes once the tuber's starch is used up. (1 pt)
It has no food left, and in the dark it has no light.
So it can no longer remake ATP.
The pumps in its cell membranes work only while ATP hydrolysis is coupled to their pumping.
So the pumps stop.
Ions then leak across the membranes until the concentrations on the two sides even out.
So the ion concentration gradients collapse.
- Award 1 point for: the ion concentration gradients collapse (ions leak across the membranes until the concentrations even out), because with no starch and no light the sprout has no energy input, so it can no longer remake ATP, so the pumps whose work is coupled to ATP hydrolysis stop maintaining the concentration gradients.
- Accept "the concentration gradients collapse" or "disappear" with the no-ATP reason. Do not award the point for "the concentration gradients collapse" alone, or for an answer in which the sprout keeps its concentration gradients by living on light it is not receiving.
Slip Saying only that the concentration gradients collapse. The point needs the chain that gets there: no input, no ATP, no pumping, ions leak until the concentrations even out.
(e) A student claims that the sprout could keep its cells ordered by gathering back the heat it gave off. Evaluate the student's claim. (1 pt)
The heat the sprout gave off spread into the air of the cupboard.
Heat that has spread out cannot be gathered back to do work: the second law of thermodynamics.
Keeping cells ordered needs energy every moment.
Heat leaves at every step, and none comes back.
So a living thing must keep taking in energy.
In the dark, with the starch gone, the sprout has no input.
So its order cannot be kept.
- Award 1 point for: the claim fails, because heat that has spread into the surroundings cannot be gathered back to do work (the second law of thermodynamics); keeping the cells ordered needs energy continuously, so the sprout must keep taking in energy, because heat leaves at every step, and in the dark with the starch gone it has no input.
- Accept an evaluation built on "heat that has spread out cannot be used again" together with "order has to be supplied with energy continuously". Do not award the point for rejecting the claim with no reason, or for an evaluation that has the sprout creating energy from its own tissues.
Slip Rejecting the claim because “the heat is gone” and stopping. The point needs the reason: heat that has spread out cannot do work again, so order has to be supplied with fresh energy continuously.
The model shows how a muscle cell powers the calcium pump in its membrane. The pump pushes calcium ions (Ca²⁺) out of the cytosol against their concentration gradient. Two reactions are numbered, arrow 1 and arrow 2. In a living cell the pump keeps working for as long as ATP is available. A researcher gives a cell a look-alike of ATP that binds the pump's ATP site but cannot be hydrolyzed; the pump stops.
(a) Describe what happens to the ATP molecule in arrow 1. (1 pt)
This reaction is ATP hydrolysis.
Water splits the outermost of ATP's three phosphate groups off.
ADP is left: adenosine with two phosphates.
The phosphate that came off is free inorganic phosphate, Pi.
The reaction releases energy.
- Award 1 point for: ATP reacts with water (hydrolysis, ATP + H₂O → ADP + Pi): the outermost of its three phosphate groups is removed, leaving ADP (adenosine diphosphate, with two phosphates) and a free inorganic phosphate, Pi, and energy is released.
- Accept "water splits the outer phosphate off ATP". Naming the reaction hydrolysis may be counted toward the description but is not required. Do not award the point for "ATP becomes ADP and Pi" alone, which the figure shows, or for ATP described as losing all three phosphates.
Slip Reading the figure back: "ATP becomes ADP and Pi". The point needs what happens to the molecule: water removes the outermost of the three phosphates.
(b) Explain why the reaction in arrow 1 releases energy that the pump can use. (1 pt)
So the reaction as a whole releases energy.
The pump can use that energy only because the hydrolysis is coupled to its work.
The pump takes the outer phosphate onto itself: the pump is phosphorylated.
The added phosphate changes the pump's shape.
In its new shape, the pump pushes Ca²⁺ out of the cytosol.
- Award 1 point for: the products, ADP and inorganic phosphate, hold less energy than ATP and water did, so the reaction as a whole releases energy; the pump can use it because the hydrolysis is coupled to the pump's work, the outer phosphate being transferred onto the pump (phosphorylation), which changes the pump's shape.
- Accept "the products sit lower in energy than the reactants" for the source. Do not award the point for "energy stored in the high-energy phosphate bond is released when the bond breaks".
Slip Saying energy was stored in the bond to the outer phosphate and came out when the bond broke. Breaking a bond takes energy in. The release comes from the whole reaction: its products hold less energy than its reactants.
(c) Represent arrow 2 as an equation, in words or symbols, showing what goes in and what comes out. (1 pt)
Arrow 2 is the reverse of hydrolysis.
ATP and water hold more energy than ADP and Pi.
So remaking ATP needs an input of energy.
The cell supplies that energy from the food it breaks down.
- Award 1 point for: ADP + Pi + energy → ATP (+ H₂O), the reverse of hydrolysis, with an input of energy shown going in.
- Accept the equation without water, and accept "energy from food" as the energy term. Do not award the point for an equation with no energy input, or for one with energy shown coming out.
Slip Writing the equation with no energy term. Arrow 2 needs an input of energy; without the energy from food it does not happen.
(d) Explain, using the model and the result of the look-alike experiment, why the cell must keep taking in energy. (1 pt)
So no energy is released, and nothing drives the pump's change of shape.
So the pump stops: the hydrolysis itself drives the work.
A cell holds only seconds' worth of ATP.
So it must remake ATP (arrow 2) all the time, with energy from food.
The pump keeps the cell's calcium concentration gradient, part of its order.
So the cell stays ordered only while energy from food keeps flowing in.
- Award 1 point for: the look-alike binds but cannot be hydrolyzed, so no energy is released, nothing is coupled to the pump's shape change and the pump stops, showing that it is the hydrolysis, not the presence of ATP, that drives the work; because a cell holds only seconds' worth of ATP, it must remake ATP continuously (arrow 2) from the energy in food, so the calcium concentration gradient and the rest of the cell's order can be kept only while energy keeps flowing in.
- Accept an answer that links the pump stopping to "no hydrolysis, no energy" and the cycle to "ATP must be remade from food all the time". Do not award the point for restating that the pump stopped, or for treating ATP as a long-term store of energy.
Slip Stopping at "the pump stops because the look-alike is not ATP". The point needs the chain: no hydrolysis, no energy released, no coupled shape change; and then why the cell must keep remaking ATP from food.
APBIO-U03-L15 Where sugar's energy goes
Photos: Jun Seita, Wikimedia Commons, CC BY 2.0 (germinating pea, resized); சஞ்சீவி சிவகுமார், Wikimedia Commons, CC BY-SA 4.0 (seedlings grown in the dark, cropped and resized); HaJunkiyada, Wikimedia Commons, CC BY-SA 4.0 (spinach leaves, cropped and resized); Ahunt, Wikimedia Commons, CC0 (house mouse, resized).
Germinating peas are sealed in a tube fitted with a gas gauge. Hour by hour the oxygen in the tube falls. A thermometer among the peas stays a fraction of a degree above the room.
The peas are using up oxygen and giving off heat. What are they doing with the oxygen? And where does the heat come from?
Unit 3 · Cellular Energetics
1Food’s energy, captured in ATP
Video: Watch: Food’s energy, captured in ATP
A cell breaks glucose down with oxygen: glucose + oxygen → carbon dioxide + water. Of every 100 kJ of energy released, about 34 kJ goes into making ATP from ADP and Pi. The other 66 kJ leaves as heat.
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How does a cell turn the energy in its food into ATP?
The cell breaks its food down. It passes the food’s electrons, step by step, to oxygen.
Some of the energy released is caught as ATP. The rest of the energy leaves as heat.
This process explains both the falling oxygen and the warm peas.
Most of this chemistry happens inside the mitochondrion. The mitochondrion has four places, each with its own name.
A muscle cell breaks glucose down using oxygen, and makes ATP as it does.
Name this process and where it goes on.
- A. ✓ Aerobic cellular respiration, inside mitochondria
- B. Photosynthesis, inside chloroplastsPhotosynthesis builds glucose using light; breaking glucose down with oxygen is aerobic cellular respiration.
Why: The oxygen-using breakdown of glucose is aerobic cellular respiration, and it goes on inside mitochondria.
A cell’s store of ATP lasts only a few seconds. So the cell keeps remaking ATP from ADP and Pi.
The energy for that comes from breaking food down.
Here is the reaction, written as a word equation. The reaction releases energy.
The word equation for cellular respiration; the reaction releases energy
Inside every pea cell, glucose is being broken down with oxygen. So the cells take in the tube’s oxygen and give out carbon dioxide.
Of every 100 kJ of energy the reaction releases, about 34 kJ goes into making ATP. The other 66 kJ leaves as heat.
So most of the energy released leaves as heat.
So the peas are a fraction warmer than the room.
This set of reactions is called : a cell uses the energy released from breaking down food molecules to make ATP from ADP and Pi.
Respiration is not breathing. Breathing moves air in and out of the lungs.
Respiration is the chemistry inside every cell. The peas have no lungs, yet the peas respire.
What you are expected to know Say what cellular respiration is: the reactions by which a cell uses the energy released from breaking down food to make ATP from ADP and Pi, with the rest of the energy leaving as heat.
A muscle cell breaks glucose down with oxygen.
Which of the following happens to the energy released?
- A. All of the energy goes into making ATPAbout 34 kJ of every 100 kJ goes into ATP; the other 66 kJ leaves as heat, which is why a working muscle warms.
- B. All of the energy leaves as heatA cell that made no ATP could do no work; about 34% of the energy released goes into ATP.
- C. ✓ Some goes into making ATP; the rest leaves as heat
Why: The reaction releases energy.
Some of that energy makes ATP from ADP and Pi.
The rest leaves as heat.
Peas are germinating in a sealed tube, and the oxygen in the tube is falling. A student says: “Only living things with lungs can respire, so the peas must be doing something else.”
Is the student correct?
- A. Yes, the peas are doing something elseRespiration does not need lungs.
- B. ✓ No, the peas respire
Why: The peas respire.
Breathing moves air in and out of the lungs.
Respiration is the chemistry inside every cell, and it needs no lungs.
Every pea cell respires.
So the peas use up the tube’s oxygen.
Peas are germinating in a sealed tube, and the oxygen in the tube is falling. A student says: “Only living things with lungs can respire, so the peas must be doing something else.” The student is wrong.
(a) Explain why the student is wrong. (1 pt)
Breathing moves air in and out of the lungs.
Respiration is the chemistry inside every cell.
Every pea cell breaks down food and uses oxygen to do it.
So the peas respire, and the oxygen in the tube falls.
- Award 1 point for: respiration is chemistry inside every cell and needs no lungs (breathing, not respiration, needs lungs), so the pea cells respire and use the oxygen.
23Quick quiz: cellular respiration mixed practice
What is cellular respiration?
- A. Moving air in and out of the lungsMoving air in and out of the lungs is breathing.
- B. Building glucose from carbon dioxide and waterBuilding glucose from carbon dioxide and water is photosynthesis.
- C. ✓ Breaking food down to release energy, which makes ATP
Why: Cellular respiration breaks food down with oxygen.
The energy released makes ATP from ADP and Pi.
A liver cell is respiring.
(a) State what cellular respiration is. (1 pt)
The energy released makes ATP from ADP and Pi.
- Award 1 point for: the cell breaks food (glucose) down, and the energy released is used to make ATP.
- Accept: food broken down with oxygen to make ATP.
26Who respires, and when
Video: Watch: Who respires, and when
Seedlings grown in the dark, a spinach leaf in the light and a mouse: each takes in oxygen and gives out carbon dioxide. Every plant, animal and fungus respires, and so do most microbes, on glucose, fats or proteins.
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Suppose seedlings are grown in the dark. The seedlings take in oxygen and give out carbon dioxide.
A spinach leaf in full light does the same. Photosynthesis goes on alongside.
A mouse, a yeast cell and a soil bacterium also take in oxygen and give out carbon dioxide as their cells respire.
Here are photographs of three of them: seedlings grown in the dark, a spinach leaf in the light and a mouse.
So respiration goes on in every plant, animal and fungus, and in most microbes. It goes on in light and in dark.
Here is one simplification. Some microbes live where there is no oxygen. Those microbes get their ATP a different way. For now, assume oxygen is there.
The food need not be glucose. A cell breaks down fats and proteins the same way.
The energy released from fats and proteins is captured in ATP too.
What you are expected to know Say who respires: every plant, animal and fungus, and most microbes.
What you are expected to know Say when they respire: in light and in dark, and on glucose, fats or proteins alike.
A student seals the leaves of a potted plant in a dark chamber for an hour. The oxygen in the chamber falls from 20.9% to 20.6%, and the carbon dioxide rises from 0.04% to 0.34%.
Which of the following processes in the leaf cells accounts for both changes?
- A. PhotosynthesisPhotosynthesis takes in carbon dioxide and gives out oxygen, and photosynthesis stops in the dark.
- B. ✓ Cellular respiration
- C. BreathingBreathing moves air with lungs, and a leaf has no lungs.
Why: Plant cells respire in the dark as in the light.
Respiring cells take in oxygen and give out carbon dioxide.
So the oxygen in the chamber fell and the carbon dioxide rose.
A student seals the leaves of a potted plant in a dark chamber for an hour. The oxygen in the chamber falls and the carbon dioxide rises. Cellular respiration accounts for both changes.
(a) Explain why the leaf cells take in oxygen and give out carbon dioxide in the dark. (1 pt)
A cell makes ATP by cellular respiration.
Cellular respiration breaks down food using oxygen, and it releases carbon dioxide.
So the leaf cells take in oxygen and give out carbon dioxide in the dark.
Photosynthesis has stopped in the dark, so nothing gives oxygen back or takes carbon dioxide in.
- Award 1 point for: the cells still need ATP, so they respire in the dark, and respiration uses oxygen and releases carbon dioxide (photosynthesis, which would do the reverse, has stopped).
A hibernating bear eats nothing for months. Its cells keep making ATP all winter.
Which of the following supplies the energy for that ATP?
- A. ✓ The bear’s stored fat
- B. The bear’s store of ATPA cell holds only seconds’ worth of ATP, so no store of ATP could last a winter.
- C. The oxygen the bear breathes inOxygen is used up in respiration but supplies no energy.
The energy comes from the food that is broken down.
Why: Respiration is not only for glucose.
A cell breaks down fats and proteins too.
The energy released is captured in ATP made from ADP and Pi.
So the bear lives all winter on its stored fat.
41What a mitochondrion is for
Video: Watch: What a mitochondrion is for
One liver cell respiring. Most of the steps happen inside its mitochondria, and that is where most of the cell’s ATP is made. A mitochondrion stores no energy: it transfers energy from food into ATP.
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Now consider one liver cell respiring. The cell breaks glucose down with oxygen and makes ATP.
Where inside the cell does that happen?
Which organelle breaks glucose down with oxygen to make ATP?
- A. ✓ The mitochondrion
- B. The chloroplastThe chloroplast builds glucose by photosynthesis; it does not break glucose down.
Why: A mitochondrion is the organelle where the cell finishes breaking glucose down, using oxygen.
So the mitochondrion is where the cell makes most of its ATP.
A mitochondrion is the organelle where a cell finishes breaking its food down, using oxygen. A cell’s mitochondria make most of its ATP.
A few of respiration’s steps happen in the cytosol, outside the mitochondrion. Most of its steps happen inside the mitochondrion.
A mitochondrion stores no energy. It transfers energy from food into ATP, as fast as the cell needs it.
A muscle cell has thousands of mitochondria. So a muscle cell can make ATP fast.
What you are expected to know State what a mitochondrion is for: it is where most of the steps of respiration happen, and where the cell makes most of its ATP.
A heart muscle cell is packed with mitochondria.
Which of the following does each mitochondrion do?
- A. Stores energy until the cell needs itA mitochondrion stores no energy; it transfers energy from food into ATP, which the cell uses at once.
- B. ✓ Makes ATP by breaking food down with oxygen
Why: A mitochondrion breaks food down with oxygen.
The energy released makes ATP.
So each mitochondrion makes ATP for the heart cell.
52Inside a mitochondrion: four places
Video: Watch: Inside a mitochondrion: four places
A mitochondrion cut across: the smooth outer membrane, the intermembrane space between the two membranes, the folded inner membrane, and the matrix it encloses, with the cytosol outside.
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A mitochondrion has two membranes: a smooth outer membrane and an inner membrane folded deeply inward. Here is a drawing of one cut across.
Outside the outer membrane is the cytosol, the watery inside of the cell.
Between the two membranes is a narrow gap. The gap reaches into every fold of the inner membrane.
That gap is called the : the space between the two membranes.
Look at the space the inner membrane encloses. That space is filled with fluid. The folds push into that fluid from every side.
That fluid, everything inside the inner membrane’s boundary, is called the .
Here is the same mitochondrion with all four places labeled: the outer membrane, the intermembrane space, the folded inner membrane and the matrix, with the cytosol outside.
What you are expected to know Identify the four places on a drawn mitochondrion: the outer membrane, the intermembrane space between the membranes, the folded inner membrane, and the matrix it encloses, with the cytosol outside.
Here is another mitochondrion cut across, with four positions marked W, X, Y and Z.
Which position marks the matrix?
- A. WW is on the outer membrane, the smooth boundary of the whole mitochondrion.
- B. XX is in the intermembrane space, the gap between the two membranes.
- C. YY is on the inner membrane, on one of its folds.
- D. ✓ Z
Why: The matrix is the fluid inside the inner membrane’s boundary.
The folds push into that fluid.
Z sits in that fluid, so Z marks the matrix.
Here is a mitochondrion cut across, with positions W, X, Y and Z marked.
Which position marks the intermembrane space?
- A. WW is on the outer membrane itself.
- B. ✓ X
- C. YY is on the inner membrane, on one of its folds.
- D. ZZ is in the matrix, the fluid inside the inner membrane.
Why: The intermembrane space is the gap between the outer membrane and the inner membrane.
The gap reaches into every fold.
X sits in that gap, so X marks the intermembrane space.
Here is a mitochondrion cut across, with positions W, X, Y and Z marked.
Which position marks the inner membrane?
- A. WW is on the outer membrane, the smooth boundary of the whole mitochondrion.
- B. XX is in the intermembrane space, the gap between the two membranes.
- C. ✓ Y
- D. ZZ is in the matrix, the fluid the inner membrane encloses.
Why: The inner membrane is the folded membrane.
Its folds reach into the matrix.
Y sits on one of those folds, so Y marks the inner membrane.
Here is a mitochondrion cut across, with positions W, X, Y and Z marked.
Which position marks the outer membrane?
- A. ✓ W
- B. XX is in the intermembrane space, the gap just inside the outer membrane.
- C. YY is on the inner membrane, the folded membrane.
- D. ZZ is in the matrix, the fluid inside the inner membrane.
Why: The outer membrane is the smooth boundary of the whole mitochondrion, with the cytosol outside it.
W sits on that boundary, so W marks the outer membrane.
Back to the germinating peas sealed in their tube: the oxygen in the tube falling hour by hour, and the peas a fraction warmer than the room.
Inside every pea cell, glucose is broken down with oxygen. That is why the oxygen in the tube falls.
Of every 100 kJ of energy released, about 34 kJ goes into making ATP. The other 66 kJ leaves as heat, and that heat is what the thermometer reads.
Most of that chemistry happens inside the peas’ mitochondria.
70Quick quiz: matrix and intermembrane space mixed practice
What is the mitochondrial matrix?
- A. ✓ The fluid inside the inner membrane
- B. The gap between the two membranesThe gap between the two membranes is the intermembrane space.
- C. The fluid outside the mitochondrionThe fluid outside the mitochondrion is the cytosol.
Why: The inner membrane encloses a fluid.
That fluid is the matrix.
What is the intermembrane space?
- A. The fluid inside the inner membraneThe fluid inside the inner membrane is the matrix.
- B. ✓ The gap between the outer membrane and the inner membrane
- C. The fluid outside the mitochondrionThe fluid outside the mitochondrion is the cytosol.
Why: The outer membrane and the inner membrane sit a narrow gap apart.
That gap is the intermembrane space.
It reaches into every fold.
A mitochondrion is cut across under the microscope.
(a) State what the mitochondrial matrix is. (1 pt)
- Award 1 point for: the fluid inside the inner membrane (everything inside the inner membrane’s boundary).
(b) State what the intermembrane space is. (1 pt)
- Award 1 point for: the space (gap) between the two membranes.
74Mixed practice mixed practice
Pea seeds in a sealed tube use up the oxygen.
Which process is using it?
- A. BreathingBreathing needs lungs; respiration is chemistry inside every cell.
- B. ✓ Cellular respiration
Why: Every pea cell respires.
Respiration breaks food down using oxygen, so the seeds use up the tube’s oxygen.
A mushroom grows in a dark cellar.
Does the mushroom respire?
- A. ✓ Yes
- B. NoEvery fungus respires, in light and in dark.
Why: A mushroom is a fungus.
Every plant, animal and fungus respires.
So the mushroom respires, in the dark as in the light.
A fasting seal lives on its stored fat for weeks.
Can its cells break that fat down by respiration to make ATP?
- A. NoA cell breaks down fats and proteins the same way as glucose.
- B. ✓ Yes
Why: Respiration is not only for glucose.
A cell breaks down fats and proteins too.
So the seal’s cells make ATP from its stored fat.
A muscle cell breaks glucose down with oxygen.
Which of the following happens to most of the energy released?
- A. It goes into ATPLess than half of the energy released goes into ATP.
- B. ✓ It leaves as heat
Why: About 34% of the energy released goes into ATP.
The other 66% leaves as heat.
So most of the energy leaves as heat.
Which organelle makes most of a cell’s ATP?
- A. ✓ The mitochondrion
- B. The ribosomeA ribosome joins amino acids into a protein chain.
- C. The nucleusThe nucleus holds the cell’s DNA.
Why: Most of the steps of respiration happen inside the mitochondrion.
So the mitochondrion makes most of the cell’s ATP.
A mitochondrion sits in a cell.
Which of the following places is outside the mitochondrion?
- A. The matrixThe matrix is the fluid inside the inner membrane.
- B. The intermembrane spaceThe intermembrane space is the gap between the two membranes, inside the outer membrane.
- C. ✓ The cytosol
Why: The outer membrane is the mitochondrion’s boundary.
The cytosol is the cell’s fluid outside that boundary.
So the cytosol is outside the mitochondrion.
A sprinter’s leg muscles warm up during a 400 m race. The muscle cells are respiring fast.
(a) Explain why the muscles warm. (1 pt)
The reaction releases energy.
About 34% of that energy goes into making ATP.
The other 66% leaves as heat.
So the muscles warm.
- Award 1 point for: respiration releases energy, only part of which goes into ATP; the rest leaves as heat, which warms the muscle.
Slip Saying the ATP itself heats the muscle. The heat is the part of the released energy that did not go into ATP.
Glossary
- cellular respiration
- The set of reactions by which a cell breaks food down and uses the energy released to make ATP from ADP and Pi. The rest of the energy leaves as heat. Every plant, animal and fungus respires, and so do most microbes, in light and in dark.
- intermembrane space
- The narrow gap between a mitochondrion’s outer and inner membranes. It reaches into every fold of the inner membrane.
- mitochondrial matrix
- The fluid enclosed by a mitochondrion’s inner membrane: everything inside that membrane’s boundary, which its folds push into.
APBIO-U03-L15B Losing electrons, gaining electrons
A piece of iron rusts. A cell breaks down glucose.
In both, one substance hands electrons to another. The iron hands electrons to oxygen. The glucose hands electrons to oxygen.
If respiration is a chain of electron hand-overs, how does the cell keep hold of the electrons between one step and the next?
Unit 3 · Cellular Energetics
1Losing electrons, gaining electrons
Video: Watch: Losing electrons, gaining electrons
Iron atoms hand two electrons to oxygen: the iron loses electrons and is oxidized; the oxygen gains them and is reduced. The two always happen together, in a redox reaction. Table salt dissolving moves no electron, so dissolving is not a redox reaction.
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How do you describe what happens at each step of respiration?
At every step, one molecule loses electrons and another molecule gains them.
The two always happen together.
The electrons taken from glucose are not passed to oxygen at once. Two small carrier molecules pick the electrons up and carry them to a later step.
Naming which molecule lost electrons and which gained them lets you read every stage of respiration that follows.
A sodium atom hands one electron completely to a chlorine atom.
Which atom ends up positive?
- A. The chlorine atomGaining an electron makes an atom negative; the atom that lost the electron is the positive one.
- B. ✓ The sodium atom
Why: The atom that lost the electron becomes positive.
The atom that gained the electron becomes negative.
Iron rusts when iron atoms hand electrons to oxygen. The iron lost electrons. The oxygen gained those electrons.
Here is the rusting written as a word equation.
Rusting as a word equation: iron and oxygen become rust
When a cell breaks glucose down, the carbon atoms of the glucose lose electrons. Oxygen gains those electrons. The oxygen that gained them ends up in water.
In a cell the electrons usually travel as parts of hydrogen atoms. A hydrogen atom is an electron together with a hydrogen ion, H⁺. So a molecule that loses hydrogen atoms has lost electrons.
Now consider table salt dissolving in water. Sodium ions (Na⁺) and chloride ions (Cl⁻) separate and spread through the water.
No electron moves from one ion to the other. So nothing here lost or gained electrons.
Losing electrons is called : the iron and the glucose were oxidized.
Gaining electrons is called : the oxygen was reduced.
The electrons one molecule loses are the electrons another molecule gains. So the two always happen together. A reaction that transfers electrons is called a , for reduction and oxidation.
Oxygen need not take part. The word oxidation is old, from rusting. Today oxidation means any loss of electrons, to any partner.
What you are expected to know Given a described transfer, say which molecule was oxidized (it lost electrons, or hydrogen atoms) and which was reduced (it gained them), and say that the two always happen together in a redox reaction.
A student dips a strip of zinc in a blue solution of copper ions. Zinc atoms hand electrons to the copper ions.
Was the zinc oxidized or reduced?
- A. ✓ Oxidized
- B. ReducedThe zinc atoms gave electrons away, and giving electrons away is oxidation.
- C. NeitherElectrons did move: the zinc atoms handed electrons to the copper ions.
So a redox reaction took place.
Why: The zinc atoms handed electrons to the copper ions.
So the zinc lost electrons.
So the zinc was oxidized.
A student dips a strip of zinc in a blue solution of copper ions. The copper ions take electrons from the zinc atoms and become copper metal on the strip.
Were the copper ions oxidized or reduced?
- A. OxidizedThe copper ions took electrons in, and taking electrons in is reduction.
- B. ✓ Reduced
- C. NeitherElectrons did move: the copper ions took the electrons the zinc handed over.
So a redox reaction took place.
Why: The copper ions gained the electrons the zinc handed over.
Gaining electrons is called reduction.
So the copper ions were reduced.
The zinc was oxidized at the same time: the two always happen together.
As a cell breaks down a fatty acid, the fatty acid loses hydrogen atoms to a carrier molecule. No oxygen takes part.
Was the fatty acid oxidized or reduced?
- A. ✓ Oxidized
- B. ReducedLosing hydrogen atoms is losing electrons, and losing electrons is oxidation.
Oxygen need not take part. - C. NeitherElectrons did move: each hydrogen atom the fatty acid lost carries an electron, and the carrier molecule took those electrons.
So a redox reaction took place, with no oxygen involved.
Why: Each hydrogen atom carries an electron.
The fatty acid lost hydrogen atoms.
So the fatty acid lost electrons.
Losing electrons is called oxidation, whether or not oxygen takes part.
So the fatty acid was oxidized.
In a leaf, carbon dioxide gains hydrogen atoms and becomes part of a sugar.
Was the carbon dioxide oxidized or reduced?
- A. OxidizedThe carbon dioxide gained hydrogen atoms, and each hydrogen atom carries an electron, so the carbon dioxide gained electrons.
Gaining electrons is reduction. - B. ✓ Reduced
- C. NeitherElectrons did move: each hydrogen atom the carbon dioxide gained carries an electron.
So a redox reaction took place.
Why: Each hydrogen atom carries an electron.
The carbon dioxide gained hydrogen atoms.
So the carbon dioxide gained electrons.
Gaining electrons is called reduction.
So the carbon dioxide was reduced.
A spoonful of sugar dissolves in a cup of tea. The sucrose molecules spread through the water, and no electron moves from one molecule to another.
Was the sucrose oxidized or reduced?
- A. OxidizedOxidation is losing electrons, and the sucrose lost no electrons.
- B. ReducedReduction is gaining electrons, and the sucrose gained no electrons.
- C. ✓ Neither
Why: Oxidation is losing electrons and reduction is gaining electrons.
No electron moved from one molecule to another when the sugar dissolved.
So the sucrose was neither oxidized nor reduced.
Dissolving is not a redox reaction.
A student dips a strip of zinc in a blue solution of copper ions. Zinc atoms hand electrons to the copper ions, and copper metal coats the strip.
(a) Determine whether the zinc was oxidized or reduced, and justify your answer. (1 pt)
So the zinc lost electrons.
So the zinc was oxidized.
- Award 1 point for: the decision (the zinc was oxidized) AND the ground (the zinc atoms handed electrons to the copper ions, so the zinc lost electrons).
26Quick quiz: oxidation, reduction and redox mixed practice
What is oxidation?
- A. ✓ Losing electrons
- B. Gaining electronsGaining electrons is reduction.
Why: Oxidation is losing electrons.
Oxygen need not take part.
What is reduction?
- A. Losing electronsLosing electrons is oxidation.
- B. ✓ Gaining electrons
Why: Reduction is gaining electrons.
The electrons often arrive as parts of hydrogen atoms.
What is a redox reaction?
- A. A reaction that needs oxygen to take placeOxygen need not take part; any loss of electrons to any partner is oxidation.
- B. ✓ A reaction in which electrons pass between molecules
- C. A reaction in which a solid dissolves in waterDissolving moves no electron from one molecule to another, so dissolving is not a redox reaction.
Why: In a redox reaction one molecule loses electrons and another gains them.
The molecule that loses is oxidized.
The molecule that gains is reduced.
In a redox reaction, one molecule is oxidized and another is reduced.
(a) State what it means for a molecule to be oxidized. (1 pt)
- Award 1 point for: it lost electrons (or hydrogen atoms).
(b) State what it means for a molecule to be reduced. (1 pt)
- Award 1 point for: it gained electrons (or hydrogen atoms).
31Small molecules that carry electrons
Video: Watch: Small molecules that carry electrons
NAD⁺ picks up two electrons, with hydrogen, from a food molecule and becomes NADH: reduced. NADH hands the electrons on and becomes NAD⁺ again: oxidized. FAD does the same job, becoming FADH₂.
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When glucose is oxidized in a cell, the electrons the glucose loses do not jump straight to oxygen.
A small molecule picks those electrons up first. The small molecule takes two electrons, with hydrogen, from the food molecule.
The empty form of that molecule is called . Loaded with two electrons, the molecule is called NADH. NAD⁺ gains electrons when it picks them up. So NAD⁺ is reduced to NADH.
NADH then hands the electrons on to another reaction. NADH loses electrons as it hands them on. So NADH is oxidized back to NAD⁺. The NAD⁺ is empty and ready to be loaded again.
A second small molecule, called , does the same job. FAD picks up electrons and becomes FADH₂. FADH₂ delivers the electrons and becomes FAD once more.
Here are the two loading changes written as equations. Each carrier takes two electrons, with hydrogen ions.
Each carrier is loaded: NAD⁺ takes two electrons and one hydrogen ion to become NADH; FAD takes two electrons and two hydrogen ions to become FADH₂
A small molecule that picks up electrons from one reaction and hands them to another is called an .
What you are expected to know Describe an electron carrier: NAD⁺ picks up electrons (with hydrogen) from one reaction and is reduced to NADH, and FAD is reduced to FADH₂ the same way. Delivering the electrons to another reaction oxidizes the carriers back.
In the matrix, an electron carrier has just taken two electrons, with hydrogen, from a food molecule.
Which form is the carrier now in?
- A. ✓ NADH
- B. NAD⁺NAD⁺ is the empty form, and this carrier has just picked up two electrons.
Why: NAD⁺ is the empty form of the carrier.
The carrier has just taken two electrons.
Loaded with two electrons, the carrier is called NADH.
So the carrier is now NADH.
An NADH molecule hands its two electrons on to another reaction.
Which form is the carrier now in?
- A. NADHNADH is the loaded form, and this carrier has just handed its electrons away.
- B. ✓ NAD⁺
Why: The carrier handed its two electrons on, so the carrier lost electrons.
Losing electrons is oxidation, so NADH was oxidized.
The empty form of the carrier is called NAD⁺.
So the carrier is now NAD⁺.
In the matrix, the electron carrier FAD picks up two electrons, with hydrogen, from a food molecule.
Which form is the carrier now in?
- A. ✓ FADH₂
- B. FADFAD is the empty form, and this carrier has just picked up two electrons.
Why: FAD is the empty form of the carrier.
The carrier has just picked up two electrons, with hydrogen.
Loaded, the carrier is called FADH₂.
So the carrier is now FADH₂.
In the matrix, an electron carrier has just taken two electrons, with hydrogen, from a food molecule.
(a) The carrier was NAD⁺. Determine whether it was oxidized or reduced when it took the electrons, and name the form it is now in. (1 pt)
So the carrier gained electrons.
So NAD⁺ was reduced to NADH.
- Award 1 point for: the decision (the carrier was reduced, and is now NADH) AND the ground (it gained two electrons from the food molecule).
45Quick quiz: electron carrier mixed practice
What is an electron carrier?
- A. A protein that speeds up a chemical reactionA protein that speeds up a reaction is an enzyme.
- B. A food molecule that has lost its electronsA food molecule that loses electrons is oxidized; the carrier is the molecule that picks those electrons up.
- C. ✓ A small molecule that carries electrons between reactions
Why: An electron carrier picks up electrons from one reaction.
It hands those electrons to another reaction.
NAD⁺ and FAD are electron carriers.
NAD⁺ is an electron carrier.
(a) State what an electron carrier does. (1 pt)
It hands those electrons to another reaction.
- Award 1 point for: picks up electrons (with hydrogen) from one reaction and delivers them to another.
48Coenzymes, not enzymes
Video: Watch: Coenzymes, not enzymes
Every enzyme is a protein. NAD⁺ and FAD are not proteins, so they are not enzymes. They are small molecules that work alongside an enzyme, carrying away the electrons its reaction removes: coenzymes.
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Catalase is an enzyme. It speeds up the breakdown of hydrogen peroxide.
Which kind of molecule is catalase?
- A. ✓ A protein
- B. A sugarEvery enzyme is a protein: a folded chain of amino acids.
Why: Every enzyme is a protein that speeds up a reaction.
NAD⁺ and FAD are not proteins. So they are not enzymes.
NAD⁺ and FAD are small molecules that work alongside enzymes. NAD⁺ and FAD carry away the electrons that an enzyme’s reaction removes.
A non-protein molecule that works alongside an enzyme is called a : “co” for alongside.
What you are expected to know Classify NAD⁺ and FAD as coenzymes: non-protein molecules that work alongside enzymes, not enzymes themselves.
NAD⁺ carries away the electrons that an enzyme’s reaction removes from a sugar.
Is NAD⁺ an enzyme or a coenzyme?
- A. An enzymeEnzymes are proteins, and NAD⁺ is not a protein.
- B. ✓ A coenzyme
Why: Enzymes are proteins.
NAD⁺ is not a protein.
NAD⁺ is a small molecule that works alongside an enzyme, carrying away the electrons that the enzyme’s reaction removes.
A non-protein molecule that works alongside an enzyme is called a coenzyme.
So NAD⁺ is a coenzyme.
A student says: “NAD⁺ must be an enzyme, because it takes part in the reaction.” The student is wrong.
(a) Explain why NAD⁺ is a coenzyme rather than an enzyme. (1 pt)
NAD⁺ is not a protein.
NAD⁺ is a small molecule that works alongside the enzyme.
The enzyme’s reaction removes electrons from the food molecule, and NAD⁺ carries those electrons away.
NAD⁺ is a non-protein molecule that works alongside an enzyme, so NAD⁺ is a coenzyme, not an enzyme.
- Award 1 point for: NAD⁺ is not a protein; it is a coenzyme, a non-protein molecule that works alongside the enzyme (carrying away the electrons the reaction removes).
In a test tube, an enzyme oxidizes a sugar only when a student adds NAD⁺. When all the NAD⁺ has become NADH, the reaction stops, with sugar still left in the tube.
Which of the following explains why the reaction stops?
- A. The enzyme has been used upAn enzyme is not changed by its reaction, so the enzyme can be used again and again.
- B. The enzyme needs oxygen, and none was addedThis enzyme hands the sugar’s electrons to NAD⁺, not to oxygen.
- C. ✓ No empty carrier is left to take the electrons
- D. The NADH has blocked the enzyme’s active siteNADH does not block the enzyme.
The enzyme simply has no empty NAD⁺ to hand the sugar’s electrons to.
Why: Oxidizing the sugar means taking electrons from it.
NAD⁺ is the carrier that takes those electrons.
Once every NAD⁺ is loaded as NADH, no empty carrier is left.
So the electrons have nowhere to go, and the enzyme can oxidize no more sugar.
Back to the iron rusting and the glucose being broken down in a cell: in both, one substance hands electrons to another.
The iron hands electrons to oxygen. So the iron is oxidized, and the oxygen is reduced.
The glucose in the cell loses electrons too, but its electrons do not reach oxygen at once. NAD⁺ and FAD pick the electrons up and carry them to a later step.
So respiration is a transfer of electrons from food to oxygen, carried in steps by NAD⁺ and FAD. The energy the transfer releases is used to make ATP.
62Quick quiz: coenzyme mixed practice
What is a coenzyme?
- A. A protein that speeds up a reactionA protein that speeds up a reaction is an enzyme itself.
- B. ✓ A non-protein molecule that works alongside an enzyme
- C. A second enzyme that works on the same substrateA coenzyme is not an enzyme at all; it is not a protein.
Why: A coenzyme is not a protein.
It works alongside an enzyme.
NAD⁺ and FAD are coenzymes: they carry away the electrons an enzyme’s reaction removes.
FAD is a coenzyme.
(a) State what a coenzyme is. (1 pt)
- Award 1 point for: a non-protein molecule that works alongside (helps) an enzyme.
65Mixed practice mixed practice
Zinc atoms hand electrons to copper ions.
Which is oxidized?
- A. The copper ionsThe copper ions gained electrons, which is reduction.
- B. ✓ The zinc
Why: Losing electrons is oxidation.
The zinc lost electrons, so the zinc was oxidized.
A fatty acid loses hydrogen atoms to a carrier molecule. No oxygen takes part.
Was the fatty acid oxidized?
- A. ✓ Yes
- B. NoEach hydrogen atom carries an electron, so losing them is losing electrons.
Why: Each hydrogen atom carries an electron.
Losing hydrogen atoms is losing electrons, so the fatty acid was oxidized, oxygen or not.
Copper metal hands electrons to silver ions in a solution.
Which is reduced?
- A. The copperThe copper handed electrons away, which is oxidation.
- B. ✓ The silver ions
Why: Gaining electrons is reduction.
The silver ions gained the electrons the copper handed over, so the silver ions were reduced.
NAD⁺ picks up two electrons.
What is the carrier now called?
- A. FADH₂FADH₂ is the loaded form of a different carrier, FAD.
- B. ✓ NADH
Why: Loaded with two electrons, NAD⁺ becomes NADH.
FADH₂ hands its two electrons on to another reaction.
What is the carrier now called?
- A. ✓ FAD
- B. NAD⁺NAD⁺ is the empty form of a different carrier.
Why: FADH₂ is the loaded form of FAD.
Handing its electrons on empties it, so the carrier is FAD again.
An enzyme oxidizes a sugar, and every NAD⁺ in the tube is already NADH.
What happens to the reaction?
- A. ✓ It stops
- B. It carries on as beforeThe electrons need an empty carrier to go to.
Why: Oxidizing the sugar means taking electrons from it.
With every NAD⁺ loaded, the electrons have nowhere to go, so the enzyme can oxidize no more sugar.
During respiration, an enzyme moves two hydrogen atoms from a food molecule onto a carrier molecule.
(a) Determine which molecule was oxidized and which was reduced, and justify each answer. (1 pt)
The food molecule lost the hydrogen atoms, so it lost electrons.
So the food molecule was oxidized.
The carrier gained the electrons, so the carrier was reduced.
- Award 1 point for: both decisions with their grounds: the food molecule lost electrons (with the hydrogen atoms), so it was oxidized; the carrier gained them, so it was reduced.
Slip Naming the molecule that lost hydrogen as reduced. Hydrogen atoms carry electrons, so losing them is oxidation.
Glossary
- oxidation
- Losing electrons. In a cell the electrons often leave as parts of hydrogen atoms, so a molecule that loses hydrogen atoms has been oxidized. Oxygen need not take part.
- reduction
- Gaining electrons, often as parts of hydrogen atoms. A molecule that gains them has been reduced.
- redox reaction
- A reaction that transfers electrons from one molecule to another. One molecule is oxidized and the other reduced, always together.
- NAD⁺/NADH and FAD/FADH₂
- The two coenzymes that carry electrons taken from food to later reactions of respiration. Empty, they are NAD⁺ and FAD; loaded with electrons (and hydrogen) they are NADH and FADH₂. Picking electrons up reduces them; delivering the electrons oxidizes them back.
- electron carrier
- A small molecule that picks up electrons (with hydrogen) from one reaction and hands them to another. NAD⁺ and FAD are electron carriers.
- coenzyme
- A non-protein molecule that works alongside an enzyme, such as NAD⁺ or FAD carrying away the electrons an enzyme’s reaction removes.
APBIO-U03-L16 The cell with no mitochondria
A red blood cell has no mitochondria at all, yet it lives for four months on glucose.
A mitochondrion taken out of a cell and fed glucose makes almost no ATP. Fed the three-carbon molecule that glucose is split into, the same mitochondrion makes plenty.
So where is glucose split, and what happens to the pieces?
Unit 3 · Cellular Energetics
1Glucose split in the cytosol
Video: Watch: Glucose split in the cytosol
A six-carbon glucose in the cytosol, taken apart by a pathway of enzyme steps into two three-carbon pyruvate. A net two ATP and two NADH are made. No oxygen is used.
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Where does the breakdown of glucose start, and what does it produce?
The cell splits each glucose in half in the cytosol, using no oxygen.
The split makes two ATP, two NADH and two three-carbon molecules.
The two three-carbon molecules then enter the mitochondrion’s matrix.
In the matrix, one carbon leaves each three-carbon molecule as carbon dioxide.
More NAD⁺ is loaded to NADH there too.
Knowing which stage happens where tells you why a red blood cell can live without mitochondria.
It also tells you why a mitochondrion taken out of its cell cannot use glucose.
Glucose is a monosaccharide, one sugar unit.
How many carbon atoms does one glucose have?
- A. ThreeGlucose has six carbon atoms, not three.
- B. ✓ Six
- C. TwelveGlucose has six carbon atoms, not twelve.
Why: One glucose has six carbon atoms.
Here is a drawing of glucose, with its six carbons.
A metabolic pathway is a chain of reactions, each with its own enzyme.
What happens to the product of one step of the pathway?
- A. ✓ It is the reactant of the next step
- B. It leaves the cellIn a pathway the product of one step stays and becomes the reactant of the next step.
Why: In a metabolic pathway, the product of one step is the reactant of the next step.
In the cytosol, a pathway of enzyme steps takes glucose apart. The pathway splits the six-carbon glucose into two molecules of three carbons each.
The reactions along the way release energy. The cell captures some of that energy as a net two ATP, made from ADP and Pi.
Net means the gain after the cost.
Glycolysis uses two ATP to get going and then makes four. So the cell ends up two ATP ahead: a net two.
Two NAD⁺ pick up electrons from the glucose and become two NADH.
This pathway uses no oxygen. The oxygen a cell takes in is used later, inside the mitochondrion.
This pathway is called , from glyco, sugar, and lysis, splitting.
Each three-carbon molecule glycolysis produces is called .
Glycolysis in words: one glucose becomes two pyruvate; along the way a net two ATP are made and two NAD⁺ are loaded to NADH. No oxygen is used.
A red blood cell has no mitochondria. The red blood cell lives on glycolysis for about four months: a net two ATP per glucose, made in its cytosol.
What you are expected to know Describe glycolysis: in the cytosol, using no oxygen, one glucose (six carbons) is split into two pyruvate (three carbons each), making a net two ATP from ADP and Pi and two NADH from NAD⁺.
A researcher gives isolated mitochondria oxygen, ADP and Pi. Some chambers also get glucose, others pyruvate. After ten minutes the glucose chambers have made almost no ATP; the pyruvate chambers have made plenty.
In which of the following places must glycolysis take place?
- A. ✓ In the cytosol, outside the mitochondrion
- B. In the intermembrane spaceThe intermembrane space is part of the mitochondrion, and the isolated mitochondria made almost no ATP from glucose.
So no part of the mitochondrion splits glucose. - C. In the mitochondrial matrixThe matrix is part of the mitochondrion, and the isolated mitochondria made almost no ATP from glucose.
The matrix is where pyruvate is used, not where glucose is split. - D. In the inner membraneThe inner membrane is part of the mitochondrion, and the isolated mitochondria made almost no ATP from glucose.
So no part of the mitochondrion splits glucose.
Why: The isolated mitochondria could use pyruvate.
The isolated mitochondria could do almost nothing with glucose.
So the pathway that splits glucose into pyruvate, glycolysis, is missing from the mitochondrion.
Glycolysis happens outside the mitochondrion, in the cytosol.
A researcher gives isolated mitochondria oxygen, ADP and Pi. Some chambers also get glucose, others pyruvate. After ten minutes the glucose chambers have made almost no ATP; the pyruvate chambers have made plenty. Glycolysis happens in the cytosol.
(a) Explain why the isolated mitochondria made almost no ATP from glucose. (1 pt)
The enzymes of glycolysis are in the cytosol, not in the mitochondrion.
An isolated mitochondrion has no cytosol around it.
So the isolated mitochondrion cannot split glucose into pyruvate.
The mitochondrion makes its ATP from pyruvate.
So with only glucose the mitochondrion makes almost no ATP.
- Award 1 point for: glycolysis (glucose to pyruvate) happens in the cytosol, which the isolated mitochondrion lacks, so the mitochondrion cannot make pyruvate from glucose and makes almost no ATP.
A student says: “Glycolysis must use oxygen, because respiration uses oxygen.”
Is the student correct?
- A. Yes, glycolysis uses oxygenGlycolysis happens with no oxygen at all.
- B. ✓ No, glycolysis uses no oxygen
Why: Glycolysis uses no oxygen.
Glycolysis splits glucose into two pyruvate in the cytosol.
None of its reactions uses oxygen.
The oxygen a cell takes in is used later, inside the mitochondria.
A student says: “Glycolysis must use oxygen, because respiration uses oxygen.” The student is wrong.
(a) Explain why the student is wrong. (1 pt)
Glycolysis splits glucose into two pyruvate in the cytosol.
None of the reactions of glycolysis uses oxygen.
Respiration as a whole does use oxygen, but the oxygen is used later, inside the mitochondria.
So glycolysis can happen with no oxygen present.
- Award 1 point for: glycolysis (glucose to two pyruvate, in the cytosol) uses no oxygen; the oxygen respiration uses is used later, in the mitochondria.
A muscle cell puts ten glucose molecules through glycolysis.
How many NADH does the cell make from those ten glucose molecules?
Part 1. How many NADH does glycolysis make from one glucose?
Answer: 2 (tolerance ±0)
Answer: 20 (tolerance ±0)
29Quick quiz: glycolysis and pyruvate mixed practice
What is glycolysis?
- A. ✓ The splitting of one glucose into two pyruvate in the cytosol
- B. The joining of two pyruvate into one glucoseGlycolysis takes glucose apart; it does not build glucose.
- C. The burning of glucose with oxygen in the mitochondrionGlycolysis happens in the cytosol and uses no oxygen.
Why: Glycolysis is the pathway in the cytosol that splits one glucose into two pyruvate.
It makes a net two ATP and two NADH.
It uses no oxygen.
What is pyruvate?
- A. A six-carbon sugarGlucose is the six-carbon sugar; pyruvate is what glucose is split into.
- B. ✓ A three-carbon molecule made by glycolysis
- C. A loaded electron carrierNADH is a loaded electron carrier; pyruvate carries carbon, not electrons.
Why: Glycolysis splits one glucose into two pyruvate.
Each pyruvate is a three-carbon molecule.
A yeast cell breaks down glucose by glycolysis.
(a) State what glycolysis does to one glucose molecule. (1 pt)
It makes a net two ATP and two NADH as it does so.
- Award 1 point for: one glucose is split into two pyruvate (three carbons each), with a net two ATP and two NADH made.
- Accept: the split alone, in the cytosol, with no oxygen used.
33Pyruvate enters the matrix
Video: Watch: Pyruvate enters the matrix
A pyruvate crosses both membranes of a mitochondrion into the matrix. An enzyme oxidizes it: one carbon leaves as carbon dioxide, NAD⁺ takes the electrons and becomes NADH, and a two-carbon fragment is left.
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Now consider a muscle cell with a good oxygen supply.
When oxygen is present, pyruvate does not stay in the cytosol. The cell moves the pyruvate across both membranes into the mitochondrial matrix.
In the matrix, an enzyme oxidizes the pyruvate.
The enzyme removes one of pyruvate’s three carbons. That carbon leaves as carbon dioxide.
NAD⁺ picks up the electrons removed from the pyruvate. So NAD⁺ becomes NADH.
What is left of the pyruvate is a two-carbon fragment. The fragment goes on into the next stage.
The pyruvate loses electrons here. So the pyruvate is oxidized. This step is called .
Pyruvate oxidation in words: each pyruvate loses one carbon as carbon dioxide and leaves a two-carbon fragment; the electrons removed load one NAD⁺ to NADH.
Now count for one glucose. Two pyruvate enter. So two carbon dioxide leave here.
Two of glucose’s six carbons are gone before the next stage begins.
What you are expected to know Describe what happens to pyruvate when oxygen is present: it is transported into the matrix and oxidized, one carbon leaving as carbon dioxide and its electrons going to NAD⁺ to make NADH, leaving a two-carbon fragment for the next stage.
The two pyruvate from one glucose enter the matrix, and enzymes oxidize them.
How many carbon atoms leave as carbon dioxide at this step?
- A. OneOne glucose gives two pyruvate, and each pyruvate loses one carbon here.
- B. ✓ Two
- C. FourFour is the number of carbons that stay, two in each fragment.
- D. SixOnly one carbon per pyruvate leaves at this step; the other four leave later, in the cycle.
Why: Each pyruvate loses one carbon as carbon dioxide.
One glucose gives two pyruvate.
So two carbons leave as carbon dioxide at this step.
When an enzyme oxidizes pyruvate in the matrix, electrons are removed from the pyruvate.
Which of the following takes those electrons?
- A. OxygenThe electrons removed here go to a carrier, not straight to oxygen.
- B. ADPADP is not an electron carrier; ATP is made with energy, not with electrons.
- C. ✓ NAD⁺
- D. The carbon dioxide that leavesThe carbon leaves as carbon dioxide while the electrons stay behind, on a carrier.
Why: Oxidizing pyruvate means taking electrons from it.
NAD⁺ is the carrier that takes those electrons.
So NAD⁺ becomes NADH.
A pyruvate has three carbons. An enzyme in the matrix oxidizes it.
How many carbons does the fragment left behind have?
- A. OneOnly one carbon leaves; the fragment keeps the other two.
- B. ✓ Two
- C. ThreeThree is the pyruvate before oxidation; one carbon has left as carbon dioxide.
Why: Pyruvate oxidation removes one of the three carbons as carbon dioxide.
So the fragment left behind has two carbons.
In a liver cell, pyruvate is oxidized.
In which of the following places does pyruvate oxidation happen?
- A. The cytosolGlycolysis happens in the cytosol; the pyruvate leaves the cytosol before it is oxidized.
- B. The inner membranePyruvate is oxidized in a fluid, not in a membrane.
- C. ✓ The mitochondrial matrix
Why: The cell moves pyruvate across both membranes into the mitochondrial matrix.
An enzyme in the matrix oxidizes the pyruvate.
So pyruvate oxidation happens in the mitochondrial matrix.
Back to the red blood cell, the cell with no mitochondria that lives for four months on glucose. The red blood cell lives on glycolysis: a net two ATP per glucose, made in its cytosol.
And back to the mitochondrion taken out of its cell and fed glucose. The isolated mitochondrion has no cytosol around it, so it cannot split glucose.
Give the same mitochondrion pyruvate, the three-carbon piece. The mitochondrion oxidizes the pyruvate in its matrix and gives off carbon dioxide.
52Mixed practice mixed practice
A yeast cell breaks down glucose.
In which of the following places is the glucose split into pyruvate?
- A. ✓ The cytosol
- B. The mitochondrial matrixThe matrix is where pyruvate is oxidized; glucose is split before anything enters the mitochondrion.
- C. The inner membraneGlycolysis happens in a fluid, not in a membrane.
Why: The enzymes of glycolysis are in the cytosol.
So glucose is split into two pyruvate in the cytosol.
A muscle cell puts three glucose molecules through glycolysis.
How many pyruvate molecules does the cell make?
- A. ThreeEach glucose gives two pyruvate, not one.
- B. ✓ Six
- C. TwelveEach glucose gives two pyruvate, not four.
Why: Each glucose gives two pyruvate.
So three glucose give six pyruvate.
A pyruvate is oxidized in the matrix of a liver cell’s mitochondrion.
Which of the following leaves the pyruvate as a gas?
- A. OxygenOxygen is not used at this step; it is taken in by the cell, not given off.
- B. ✓ Carbon dioxide
- C. WaterWater is not made at this step; one carbon leaves as carbon dioxide.
Why: The enzyme removes one carbon from the pyruvate.
That carbon leaves as carbon dioxide.
A yeast cell is kept in a tube with no oxygen. It still breaks glucose down to pyruvate.
Which of the following explains why glycolysis still happens?
- A. ✓ Glycolysis uses no oxygen
- B. Glycolysis makes its own oxygenNo stage of respiration makes oxygen; glycolysis simply does not use any.
- C. The yeast cell stores oxygen for glycolysisGlycolysis does not use oxygen, stored or otherwise.
Why: None of the reactions of glycolysis uses oxygen.
So glycolysis happens whether oxygen is present or not.
Muscle cells have a good oxygen supply and glucose as their only food. A poison stops the enzymes of glycolysis in the cells. Within minutes the cells’ mitochondria give off far less carbon dioxide.
(a) Explain how this result shows that pyruvate oxidation depends on glycolysis. (1 pt)
The pyruvate then enters the matrix, where an enzyme oxidizes it and one carbon leaves as carbon dioxide.
With glycolysis stopped, the cells make almost no pyruvate.
So almost no pyruvate reaches the matrix.
So pyruvate oxidation has almost nothing to oxidize.
So the mitochondria give off far less carbon dioxide.
Pyruvate oxidation depends on glycolysis to supply its pyruvate.
- Award 1 point for: glycolysis supplies the pyruvate that is oxidized in the matrix (releasing carbon dioxide), so stopping glycolysis stops the supply of pyruvate, so the release of carbon dioxide falls.
Slip Saying the poison stopped the mitochondria directly. The poison acts in the cytosol. The mitochondria give off less carbon dioxide because their supply of pyruvate stops.
Glossary
- glycolysis
- The pathway in the cytosol that splits one glucose (six carbons) into two pyruvate (three carbons each), making a net two ATP from ADP and Pi and two NADH from NAD⁺. It uses no oxygen.
- pyruvate
- The three-carbon molecule that glycolysis produces, two from each glucose. When oxygen is present it is carried into the mitochondrial matrix and oxidized.
- pyruvate oxidation
- The step in the mitochondrial matrix in which an enzyme oxidizes a pyruvate: one carbon leaves as carbon dioxide, the electrons removed load NAD⁺ to NADH, and a two-carbon fragment is left for the next stage.
APBIO-U03-L16B Every carbon breathed out
Photo: Masur, Wikimedia Commons, public domain (resized).
A researcher feeds yeast cells glucose in which every carbon atom is a heavier form of carbon, written ¹³C, that can be traced.
Within minutes the carbon dioxide the yeast give off carries ¹³C. The oxygen the yeast took in has not yet been used.
So where did the glucose’s carbons go, and where is its energy?
Unit 3 · Cellular Energetics
1A cycle in the matrix
Video: Watch: A cycle in the matrix
A two-carbon fragment joins a molecule already in the matrix and goes round a loop of reactions. Two carbon dioxide leave; three NAD⁺ and one FAD are loaded; one ATP is made. The starting molecule is back at the end, so the loop is a cycle: the Krebs cycle.
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What happens to the rest of the glucose once pyruvate is in the matrix?
A cycle of reactions in the matrix takes the remaining carbons apart.
By the end of the cycle, all six carbons of one glucose have left as carbon dioxide.
No oxygen has been used yet.
Only four ATP have been made directly.
Most of the glucose’s energy is now carried as electrons on ten NADH and two FADH₂.
Tracing the carbons and the energy separately tells you why the carbon dioxide appears first and where the energy still is.
In the matrix, an enzyme oxidizes a pyruvate. One carbon leaves as carbon dioxide.
What is left of the pyruvate?
- A. ✓ A two-carbon fragment
- B. Nothing: all three carbons leave as carbon dioxideOnly one of pyruvate’s three carbons leaves at this step; two stay behind as a fragment.
Why: Pyruvate has three carbons.
Pyruvate oxidation removes one as carbon dioxide.
So a two-carbon fragment is left.
Here is a drawing of what happens to that fragment. The two-carbon fragment joins a molecule already present in the matrix.
The joined molecule then goes around a loop of reactions.
Around the loop, two carbons leave as carbon dioxide, one at a time.
The reactions of the loop release energy. Electron carriers capture most of that energy.
For each turn of the loop, three NAD⁺ become three NADH and one FAD becomes one FADH₂.
A little of the energy is captured as ATP: one ATP is made from ADP and Pi per turn.
At the end of the loop the starting molecule is back, ready to take the next fragment. The loop is a cycle.
This cycle is called the , named for the scientist who worked it out. This cycle is also called the citric acid cycle.
One turn of the Krebs cycle in words: the two carbons of the fragment leave as two carbon dioxide; three NAD⁺ and one FAD are loaded, and one ATP is made.
One glucose gave two fragments. So the Krebs cycle turns twice per glucose. So the cycle releases four carbon dioxide.
What you are expected to know Describe the Krebs cycle: a cycle of reactions in the matrix that releases the remaining carbon as carbon dioxide, transfers most of the released energy to NAD⁺ and FAD (making NADH and FADH₂), and makes a small amount of ATP from ADP and Pi.
The enzymes of the Krebs cycle all sit in one place in a liver cell.
In which of the following places are those enzymes?
- A. In the cytosolGlycolysis happens in the cytosol, and the fragment it leads to is oxidized inside the mitochondrion.
- B. In the intermembrane spaceThe intermembrane space is the gap between the membranes, and the cycle turns in a fluid, not in that gap.
- C. In the inner membraneThe cycle’s reactions happen in the fluid the inner membrane encloses, not in the membrane itself.
- D. ✓ In the mitochondrial matrix
Why: The two-carbon fragment arrives in the matrix after pyruvate is oxidized.
The Krebs cycle turns in that fluid.
So the enzymes of the Krebs cycle are in the mitochondrial matrix.
For each two-carbon fragment that enters, the Krebs cycle turns once.
From one glucose, how many carbon dioxide molecules does the cycle release?
- A. TwoTwo is one turn’s release, and one glucose gives two fragments, so the cycle turns twice.
- B. ThreeThree is one pyruvate’s carbons, and one of those left before the cycle.
- C. ✓ Four
- D. SixTwo of glucose’s six carbons left earlier, when pyruvate was oxidized; the cycle releases the other four.
Why: Two carbon dioxide leave per turn.
The cycle turns twice for one glucose.
So the cycle releases four carbon dioxide.
With the two released when pyruvate was oxidized, that makes all six of glucose’s carbons.
23Quick quiz: the Krebs cycle mixed practice
What is the Krebs cycle?
- A. ✓ A cycle of reactions in the matrix that releases the remaining carbon as carbon dioxide
- B. A pathway of enzyme steps in the cytosol that splits glucose into two pyruvateGlycolysis is the pathway in the cytosol that splits glucose; the Krebs cycle turns in the matrix.
- C. A step in the matrix that removes one carbon from pyruvate as carbon dioxidePyruvate oxidation removes one carbon from pyruvate; the Krebs cycle takes the remaining two-carbon fragment apart.
Why: The Krebs cycle is a cycle of reactions in the mitochondrial matrix.
It releases the remaining carbon as carbon dioxide.
It loads NAD⁺ and FAD, and makes a little ATP.
A two-carbon fragment from pyruvate oxidation enters the Krebs cycle in a muscle cell.
(a) State what happens to the two carbons of the fragment in the Krebs cycle. (1 pt)
- Award 1 point for: the fragment’s carbons are released as carbon dioxide (two carbon dioxide per turn).
- Accept: the carbons are oxidized to carbon dioxide.
26Tracing atoms with a heavier label
Video: Watch: Tracing atoms with a heavier label
Two carbon atoms drawn alike, one of them one unit heavier: ¹³C. Enzymes treat the two alike, but an instrument can tell them apart by mass. A glucose built with ¹³C is fed to a cell, and the ¹³C turns up in the carbon dioxide the cell gives off.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L16Bb.mp4
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Suppose you want to know where one particular carbon atom of a glucose ends up after a cell has used it.
Every carbon atom in the cell looks the same to an enzyme. So you need a way to mark one.
An atom has a nucleus at its center. The nucleus holds protons and neutrons.
A heavier form of an atom has extra neutrons in its nucleus.
An atom has a nucleus at its center.
Which of the following particles are in the nucleus?
- A. Electrons onlyThe electrons are outside the nucleus; the nucleus holds the protons and neutrons.
- B. ✓ Protons and neutrons
Why: The nucleus of an atom holds its protons and its neutrons.
Most carbon atoms have six protons and six neutrons in the nucleus. Their mass is 12 units, so they are written ¹²C.
About one carbon atom in a hundred has six protons and seven neutrons. Its mass is 13 units, so it is written ¹³C.
¹³C is a heavier form of carbon. Enzymes treat ¹³C exactly like ordinary carbon.
But an instrument can tell ¹³C from ¹²C by its mass.
So a scientist can build glucose from ¹³C and feed it to cells. Then the scientist looks for ¹³C in what the cells give off.
Wherever the ¹³C turns up, that is where the glucose’s carbon went.
A heavier form of an atom used to mark a molecule this way is called a . Glucose built from ¹³C is labeled glucose.
Oxygen has a heavier form too, ¹⁸O, two units heavier than ordinary ¹⁶O. Oxygen gas made of ¹⁸O is labeled oxygen.
What you are expected to know Explain how a heavier form of an atom, such as ¹³C or ¹⁸O, lets scientists trace where that atom ends up: enzymes treat the heavier form like the ordinary one, but an instrument can tell it apart by mass.
A scientist feeds cells glucose built from ¹³C. A day later the fat the cells have made carries ¹³C.
Which of the following was the source of that fat’s carbon?
- A. ✓ The labeled glucose
- B. Carbon dioxide from the airThe air’s carbon dioxide carries almost no ¹³C; the labeled glucose was the only source of ¹³C.
Why: The labeled glucose was the only source of ¹³C given to the cells.
The ¹³C turned up in the fat.
So the fat’s carbon came from the glucose.
A researcher gives cells oxygen gas in which every oxygen atom is ¹⁸O. The ¹⁸O turns up in the water the cells make. The carbon dioxide they give off carries only ordinary oxygen.
Which of the following does this show?
- A. The cells did not use the oxygenThe ¹⁸O turned up in water, so the cells did use the oxygen.
- B. The oxygen the cells take in becomes carbon dioxideNo ¹⁸O turned up in the carbon dioxide, so the oxygen taken in did not become carbon dioxide.
- C. ✓ The oxygen the cells take in becomes water
Why: The labeled oxygen gas was the only source of ¹⁸O.
The ¹⁸O turned up in water and not in carbon dioxide.
So the oxygen the cells take in becomes water.
44Six carbons, all breathed out
Video: Watch: Six carbons, all breathed out
The three stages in a row for one glucose. Glycolysis releases no carbon dioxide. Pyruvate oxidation releases two. The Krebs cycle releases four. All six carbons are carbon dioxide, and no oxygen has been used.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L16Bc.mp4
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Now put the three stages together for one glucose, and follow its six carbons.
Here is a table of the six carbons across the three stages: glycolysis, pyruvate oxidation and the Krebs cycle.
| glycolysis cytosol | pyruvate oxidation matrix | Krebs cycle, twice matrix | total | |
|---|---|---|---|---|
| carbons still in organic molecules after the stage | 6 (in 2 pyruvate) | 4 (in 2 fragments) | 0 | — |
| carbon dioxide given off | 0 | 2 | 4 | 6 |
| oxygen used | none | none | none | none |
the six carbons of one glucose: all six leave as carbon dioxide, and no oxygen has been used
Six carbons went in. Glycolysis released none of them: all six were still in the two pyruvate.
Two carbons left as carbon dioxide when the two pyruvate were oxidized.
Four carbons left as carbon dioxide in the two turns of the Krebs cycle.
All six carbons are now carbon dioxide.
Oxygen has not been used yet. So none of that carbon dioxide can have been made from the oxygen. The carbon in the carbon dioxide came from the glucose.
The oxygen a cell takes in is not turned into carbon dioxide.
Back to the yeast fed glucose in which every carbon was ¹³C. Within minutes, the carbon dioxide the yeast gave off carried ¹³C.
The labeled glucose was the only source of ¹³C. So the carbon dioxide’s carbon came from the glucose.
The oxygen those yeast took in ends up in water, not in carbon dioxide.
What you are expected to know Trace, for one glucose, where its six carbons are by the end of the Krebs cycle: all six have left as carbon dioxide (two at pyruvate oxidation, four in the cycle) before any oxygen is used, so the carbon in carbon dioxide comes from glucose.
In which of the following places does glycolysis happen?
- A. ✓ The cytosol
- B. The mitochondrial matrixThe matrix is where pyruvate is oxidized and the Krebs cycle turns, after glycolysis has finished.
- C. The inner membraneGlycolysis happens in a fluid, not in a membrane.
Why: The enzymes of glycolysis are in the cytosol.
So glucose is split into two pyruvate in the cytosol, before anything enters the mitochondrion.
In which of the following places is pyruvate oxidized?
- A. The cytosolGlycolysis happens in the cytosol, and pyruvate leaves the cytosol before it is oxidized.
- B. ✓ The mitochondrial matrix
- C. The inner membranePyruvate is oxidized in a fluid, not in a membrane.
Why: The cell moves pyruvate from the cytosol across both membranes into the mitochondrial matrix.
An enzyme in the matrix oxidizes the pyruvate.
So pyruvate is oxidized in the mitochondrial matrix.
At which of the following stages does carbon dioxide first leave?
- A. GlycolysisGlycolysis splits glucose into two pyruvate and releases no carbon dioxide; all six carbons are still in the two pyruvate.
- B. ✓ Pyruvate oxidation
- C. The Krebs cycleCarbon dioxide has already left before the cycle: one carbon from each pyruvate.
Why: Glycolysis releases no carbon dioxide: all six carbons are still in the two pyruvate.
When each pyruvate is oxidized in the matrix, one carbon leaves as carbon dioxide.
So carbon dioxide first leaves at pyruvate oxidation.
Which of the following stages loads FAD to FADH₂?
- A. GlycolysisGlycolysis loads only NAD⁺, two per glucose.
- B. Pyruvate oxidationPyruvate oxidation loads only NAD⁺, two per glucose.
- C. ✓ The Krebs cycle
Why: Glycolysis and pyruvate oxidation load only NAD⁺.
The Krebs cycle loads FAD as well as NAD⁺: two FADH₂ per glucose.
So the Krebs cycle is the stage that loads FAD to FADH₂.
Which of the following stages loads the most NADH per glucose?
- A. GlycolysisGlycolysis loads two NADH per glucose.
- B. Pyruvate oxidationPyruvate oxidation loads two NADH per glucose.
- C. ✓ The Krebs cycle
Why: Glycolysis loads two NADH per glucose.
Pyruvate oxidation loads two NADH per glucose.
The Krebs cycle loads six NADH per glucose.
So the Krebs cycle loads the most NADH per glucose.
One glucose has been through the split in the cytosol, the oxidation of pyruvate and the cycle in the matrix.
Which of the following is true of the oxygen the cell took in, by the end of the Krebs cycle?
- A. ✓ It has not been used yet
- B. It has been used in glycolysisGlycolysis happens with no oxygen; a red blood cell with no mitochondria lives on it for months.
- C. It has been used in the Krebs cycleThe Krebs cycle releases carbon dioxide and loads carriers, and uses no oxygen to do it.
Why: Glycolysis, pyruvate oxidation and the Krebs cycle all happen before oxygen is used.
So by the end of the Krebs cycle the oxygen has not been used yet.
A researcher feeds yeast cells glucose in which every carbon atom is ¹³C, with ordinary oxygen. Within minutes, the carbon dioxide the yeast release carries ¹³C.
Which of the following does this show?
- A. Oxygen was turned into carbon dioxide and picked up ¹³COxygen carries no carbon, so oxygen cannot become carbon dioxide.
- B. ✓ The carbon in the carbon dioxide came from the glucose
- C. The labeled glucose made the cells respire faster¹³C is only a heavier carbon that can be traced; it changes nothing about the rate.
- D. The ¹³C traveled with the electrons to oxygenNADH and FADH₂ carry electrons, and carbon does not travel with the electrons; the carbon leaves as carbon dioxide.
Why: The glucose was the only source of ¹³C.
The ¹³C appeared in the carbon dioxide.
So the carbon dioxide’s carbon came from the glucose: two carbons at pyruvate oxidation and four in the cycle.
Oxygen supplies none of it.
A researcher gives muscle cells with a good oxygen supply glucose in which every carbon atom is ¹³C. Within minutes the carbon dioxide they release carries ¹³C. In a second dish, a drug stops pyruvate from entering the cells’ mitochondria, while glycolysis still happens.
(a) Describe how the six carbon atoms of one glucose have left the organic molecules by the end of the Krebs cycle. (1 pt)
Two left when the two pyruvate were oxidized in the matrix.
Four left in the two turns of the Krebs cycle.
- Award 1 point for: all six carbons released as carbon dioxide, two at pyruvate oxidation and four in the Krebs cycle.
- Accept: “two, then four” with the two stages named.
Slip Sending carbon into the electron carriers. NADH and FADH₂ carry electrons, not carbon; every carbon leaves as carbon dioxide.
(b) Explain why the released carbon dioxide carries ¹³C even though the oxygen the cells took in was ordinary. (1 pt)
The labeled carbons are removed from pyruvate and from the cycle’s molecules as carbon dioxide.
Oxygen gas has not even been used at these stages.
So the carbon dioxide carries ¹³C.
- Award 1 point for: the carbon dioxide’s carbon comes from glucose (the labeled carbons are released as carbon dioxide), so oxygen supplies none of it.
Slip Having the oxygen taken in become carbon dioxide. The oxygen is used elsewhere; the carbon dioxide’s carbon is glucose carbon.
(c) Predict what happens to the release of carbon dioxide carrying ¹³C in the second dish, and justify your prediction. (1 pt)
Carbon dioxide is released only when pyruvate is oxidized in the matrix and in the Krebs cycle.
Glycolysis releases none.
If pyruvate cannot enter the mitochondria, neither of those stages happens.
So no labeled carbon leaves as carbon dioxide.
- Award 1 point for: the release of carbon dioxide carrying ¹³C falls to near zero, because carbon dioxide is released only at pyruvate oxidation and in the Krebs cycle, which the pyruvate can no longer reach, and glycolysis releases none.
Slip Predicting that glycolysis makes up the carbon dioxide. Glycolysis splits glucose into pyruvate and releases no carbon dioxide at all.
66Where the energy is
Video: Watch: Where the energy is
The three-stage ledger for one glucose. Four ATP have been made directly: two in glycolysis, two in the Krebs cycle. Ten NADH and two FADH₂ have been loaded with electrons taken from the sugar, and they hold most of the energy.
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Now follow the energy of the same glucose.
Here is a table of the three stages for one glucose: where each happens, the carbon dioxide given off, the ATP made directly and the carriers loaded.
| glycolysis cytosol | pyruvate oxidation matrix | Krebs cycle, twice matrix | total | |
|---|---|---|---|---|
| carbon dioxide given off | 0 | 2 | 4 | 6 |
| ATP made directly | 2 | 0 | 2 | 4 |
| carriers loaded | 2 NADH | 2 NADH | 6 NADH, 2 FADH₂ | 10 NADH, 2 FADH₂ |
one glucose by the end of the Krebs cycle: four ATP made directly; most of the energy on ten NADH and two FADH₂
Only four ATP have been made directly: two in glycolysis and two in the Krebs cycle.
The electron carriers hold most of the energy released: ten NADH and two FADH₂ per glucose.
Each carrier is loaded with electrons taken from the sugar. The energy travels with those electrons.
What you are expected to know Trace, for one glucose, where its energy is by the end of the Krebs cycle: four ATP made directly, and most of the energy carried by ten NADH and two FADH₂.
By the end of the Krebs cycle, one glucose molecule is gone.
Which of the following molecules carry most of the energy the glucose released?
- A. ATPOnly four ATP have been made directly by this point.
- B. Carbon dioxideCarbon dioxide is what is left after the carbons have lost their electrons; the energy left with the electrons.
- C. ✓ NADH and FADH₂
- D. PyruvateBoth pyruvate were oxidized and their carbons have all left as carbon dioxide.
Why: The electrons taken from the sugar carry most of the energy released.
Ten NADH and two FADH₂ hold those electrons.
Only four ATP have been made directly.
So NADH and FADH₂ carry most of the energy.
A researcher gives muscle cells with a good oxygen supply glucose in which every carbon atom is ¹³C. By the end of the Krebs cycle, each glucose molecule is gone: all six of its carbons have left as carbon dioxide carrying ¹³C.
(a) Identify the molecules carrying most of the glucose’s energy at the end of the Krebs cycle. (1 pt)
- Award 1 point for: NADH and FADH₂ (the loaded electron carriers) carry most of the energy.
- Accept: the point stands with or without the count of ATP made directly so far (four: two in glycolysis, two in the cycle). Do not award the point for ATP, carbon dioxide or pyruvate.
Slip Counting the loaded carriers as ATP. A loaded carrier holds electrons taken from the sugar; it is not ATP.
Back to the yeast fed glucose in which every carbon atom was ¹³C. Within minutes their carbon dioxide carried ¹³C, and the oxygen they took in was not yet used.
The glucose’s carbons left as carbon dioxide at pyruvate oxidation and in the Krebs cycle, before any oxygen was used. That is why the ¹³C appeared in the carbon dioxide so soon.
The glucose’s energy is not gone. Only four ATP have been made; the rest of the energy rides on ten NADH and two FADH₂, loaded with the sugar’s electrons.
79Mixed practice mixed practice
In a heart muscle cell, the Krebs cycle turns.
In which of the following places does it turn?
- A. The cytosolThe cytosol is where glycolysis happens; the Krebs cycle turns inside the mitochondrion.
- B. ✓ The mitochondrial matrix
- C. The inner membraneThe Krebs cycle turns in the fluid the inner membrane encloses, not in the membrane.
Why: The enzymes of the Krebs cycle are in the mitochondrial matrix.
So the Krebs cycle turns in the matrix.
A liver cell breaks down three glucose molecules through glycolysis, pyruvate oxidation and the Krebs cycle.
How many carbon dioxide molecules does the cell release in total?
Answer: 18 (tolerance ±0)
A scientist feeds a plant sugar built from ¹³C. Later the ¹³C turns up in the plant’s starch.
Which of the following does this show?
- A. ✓ The starch was built from the labeled sugar
- B. The plant made the sugar heavierA plant cannot change the mass of a carbon atom; the ¹³C was in the sugar it was fed.
- C. The starch came from carbon dioxide in the airThe air’s carbon dioxide carries almost no ¹³C; the labeled sugar was the only source of ¹³C.
Why: The labeled sugar was the only source of ¹³C given to the plant.
The ¹³C turned up in the starch.
So the starch was built from the labeled sugar.
A yeast cell has broken one glucose down as far as the end of the Krebs cycle.
How many ATP has the cell made directly from that glucose so far?
- A. TwoTwo is glycolysis alone; the Krebs cycle adds two more.
- B. ✓ Four
- C. TenTen is the count of NADH loaded, not of ATP made.
Why: Glycolysis makes a net two ATP.
The two turns of the Krebs cycle make two more.
So four ATP have been made directly.
A student says: “The carbon dioxide I breathe out is the oxygen I breathed in, changed into carbon dioxide.”
Is the student correct?
- A. Yes, the oxygen becomes carbon dioxideThe carbon in the carbon dioxide comes from food; the oxygen breathed in ends up in water.
- B. ✓ No, the oxygen ends up in water
Why: The carbon in carbon dioxide leaves food molecules at pyruvate oxidation and in the Krebs cycle.
Those stages happen before any oxygen is used.
The oxygen breathed in ends up in water.
So the oxygen is not changed into carbon dioxide.
A researcher feeds yeast cells glucose in which every carbon atom is ¹³C, with a good oxygen supply. A drug stops the enzymes of the Krebs cycle, while glycolysis and pyruvate oxidation still happen.
(a) Predict how many of the six carbons of each glucose leave the cells as carbon dioxide carrying ¹³C with the drug present, and justify your prediction. (1 pt)
Glycolysis releases no carbon dioxide.
Pyruvate oxidation releases one carbon from each of the two pyruvate, so two carbons leave as carbon dioxide.
The other four carbons would leave in the Krebs cycle, and the drug has stopped it.
So those four stay in the two-carbon fragments.
- Award 1 point for: two carbons per glucose leave as carbon dioxide carrying ¹³C (one from each pyruvate at pyruvate oxidation), because glycolysis releases none and the four the Krebs cycle would release stay in the fragments.
Slip Predicting six. Four of the six carbons leave only in the Krebs cycle, which the drug has stopped.
Glossary
- Krebs cycle (citric acid cycle)
- A cycle of reactions in the mitochondrial matrix that finishes oxidizing the carbon from glucose: the remaining carbon leaves as carbon dioxide, most of the released energy goes to NAD⁺ and FAD (making NADH and FADH₂), and a small amount of ATP is made from ADP and Pi.
- label (heavy-atom label)
- A heavier form of an atom, such as ¹³C or ¹⁸O, built into a molecule so that the atom can be traced: enzymes treat the heavier form like the ordinary one, but an instrument can tell it apart by its mass. Glucose built from ¹³C is labeled glucose.
APBIO-U03-L17 Downhill to oxygen
The oxygen in every breath you take is used at the folded inner membrane of a mitochondrion.
Yet the oxygen never touches the sugar. The oxygen picks up electrons that left the sugar three stages ago. What happens to those electrons on the way, and what is the oxygen for?
Unit 3 · Cellular Energetics
1Protein to protein: the electron transport chain
Video: Watch: Protein to protein
A stretch of the inner membrane with four proteins set in it. NADH hands two electrons to the first protein and is oxidized to NAD⁺. The electrons pass from protein to protein, each protein reduced then oxidized in turn, and each transfer releases a little energy. This series of proteins is the electron transport chain.
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Where is most of the cell’s ATP made, and what does the oxygen do?
Here is the whole answer, in four steps:
- The inner membrane of the mitochondrion makes most of the cell’s ATP. Proteins set in that membrane pass the carriers’ electrons from one protein to the next. Each hand-over releases a little energy.
- Oxygen waits at the end of the chain of proteins. Oxygen takes the electrons and hydrogen ions, and becomes water.
- The chain uses the released energy to pump protons out of the matrix into the intermembrane space. So protons pile up on one side of the membrane.
- That pile-up is stored energy. The pH difference across the membrane is how you can measure that stored energy.
One glucose has been through glycolysis, pyruvate oxidation and the Krebs cycle.
Where is most of its energy now?
- A. In the four ATP made directlyOnly four ATP have been made directly; the electrons taken from the sugar carry most of the energy.
- B. ✓ In the electrons carried by NADH and FADH₂
Why: Most of glucose’s energy is carried by NADH and FADH₂, as electrons taken from the sugar.
Set in the inner membrane is a series of proteins. Here is a stretch of that membrane, with the matrix below it and the intermembrane space above.
NADH arrives from the matrix and hands its two electrons to the first protein. NADH loses electrons, so NADH is oxidized to NAD⁺. The protein gains electrons, so the protein is reduced.
That protein hands the electrons to the next protein. So the first protein is oxidized again, and the next protein is reduced. Protein to protein, the electrons pass along the series in a sequence of redox reactions.
Each transfer releases a little energy. Step by step, the electrons give up energy.
FADH₂ delivers its electrons a little further along the series, so its electrons pass through fewer steps.
This series of proteins is called the , or ETC.
The proteins transport electrons along a chain, one protein to the next. That is why the series is called the electron transport chain.
What you are expected to know Describe the electron transport chain: proteins in the inner mitochondrial membrane that pass electrons delivered by NADH and FADH₂ from one to the next in redox reactions, each transfer releasing a little energy.
In a respiring mitochondrion, the first protein of the electron transport chain hands two electrons to the second protein.
Which of the following happens at that transfer?
- A. ✓ A little energy is released
- B. A little energy is taken inEach transfer along the chain releases energy; the electrons give up energy step by step.
- C. No energy is released or taken inEach transfer along the chain releases a little energy.
Why: Electrons pass from protein to protein along the electron transport chain.
Each transfer releases a little energy.
So the transfer from the first protein to the second releases a little energy.
In a respiring mitochondrion, NADH in the matrix is oxidized to NAD⁺ at the inner membrane. Oxygen sits at the far end of the electron transport chain.
(a) Explain how NADH is oxidized at the inner membrane. (1 pt)
Losing electrons is oxidation, so NADH is oxidized to NAD⁺.
The first protein hands the electrons to the next protein.
So the electrons pass from protein to protein along the chain to oxygen.
NADH only had to hand its electrons to the first protein, not to oxygen.
- Award 1 point for: NADH hands its electrons to the first protein of the electron transport chain (so it is oxidized there), and the proteins pass the electrons on from one to the next.
16Quick quiz: electron transport chain mixed practice
What is the electron transport chain?
- A. ✓ A series of proteins in the inner mitochondrial membrane that pass electrons from one to the next
- B. A series of enzymes in the matrix that take carbons off pyruvate as carbon dioxideThe enzymes that take carbons off as carbon dioxide are the Krebs cycle’s; the chain passes electrons.
- C. A series of enzymes in the cytosol that split each glucose into two pyruvate, using no oxygenThe enzymes that split glucose are glycolysis’s, in the cytosol; the chain is in the inner membrane.
Why: The electron transport chain is a series of proteins set in the inner mitochondrial membrane.
The proteins pass electrons, delivered by NADH and FADH₂, from one to the next.
A biologist describes the electron transport chain of a liver cell’s mitochondria.
(a) State what the electron transport chain is. (1 pt)
- Award 1 point for: a series of proteins (in the inner mitochondrial membrane) that pass electrons from one to the next.
19Oxygen at the end of the chain
Video: Watch: Oxygen at the end of the chain
The same stretch of membrane. Oxygen waits at the end of the chain, takes the electrons together with hydrogen ions from the matrix, and becomes water: oxygen + electrons + hydrogen ions → water. Oxygen is the terminal electron acceptor. It supplies no energy; the energy was the food’s.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L17b.mp4
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At the end of the series is oxygen. Oxygen takes the electrons, together with hydrogen ions from the matrix, and becomes water.
Here is that reaction as a word equation.
What happens at the end of the chain, as a word equation
Oxygen, which takes the electrons off the end of the chain, is called the : terminal because it is at the end of the chain.
Oxygen does not supply the energy. The energy comes from the electrons taken from food. Oxygen’s job is to take those electrons off the end of the chain.
What you are expected to know State what oxygen does as the terminal electron acceptor: it takes the electrons and hydrogen ions off the end of the chain and becomes water, and it supplies no energy.
A student feeds sugar to yeast cells in a flask. The oxygen in the flask falls steadily.
Which of the following is the oxygen doing inside the yeast cells?
- A. Handing electrons to NADHNADH delivers electrons to the start of the chain, and oxygen takes them at the end.
- B. Splitting glucose into pyruvateGlycolysis uses no oxygen.
- C. ✓ Taking electrons off the end of the chain
Why: Oxygen is the terminal electron acceptor.
Oxygen takes the electrons off the last protein of the electron transport chain and becomes water.
So the yeast use oxygen up as they respire.
A student says: “The oxygen the yeast take in supplies the energy that ends up in ATP.”
Is the student correct?
- A. Yes, the oxygen supplies the energyOxygen adds no energy to the chain.
- B. ✓ No, the oxygen supplies no energy
Why: Oxygen supplies no energy.
The energy comes from the electrons taken from the sugar.
Each transfer along the chain releases a little of that energy.
Oxygen’s job is to take the electrons off the end of the chain.
A student says: “The oxygen the yeast take in supplies the energy that ends up in ATP.” The student is wrong.
(a) Explain why the student is wrong. (1 pt)
The energy comes from the electrons taken from the sugar.
Each time the electrons pass from one protein to the next, a little of that energy is released.
Oxygen sits at the end of the chain.
Oxygen’s job is to take the electrons off the last protein and become water.
So oxygen keeps the chain going, but the energy was the sugar’s.
- Award 1 point for: the energy comes from the electrons taken from the food (released as they pass down the chain); oxygen only takes the electrons off the end of the chain (the terminal electron acceptor) and supplies none.
29Quick quiz: terminal electron acceptor mixed practice
What is the terminal electron acceptor?
- A. The carrier that hands electrons to the first protein of the electron transport chainThe carriers that hand electrons to the first protein are NADH and FADH₂.
- B. The last protein of the electron transport chainThe terminal electron acceptor is not a chain protein; it waits at the end of the chain.
- C. ✓ The molecule that takes the electrons off the end of the electron transport chain
Why: Terminal means at the end.
The terminal electron acceptor is the molecule that takes the electrons off the end of the electron transport chain.
In respiration that molecule is oxygen, which becomes water.
In a respiring muscle cell, oxygen is the terminal electron acceptor.
(a) State what oxygen does as the terminal electron acceptor. (1 pt)
- Award 1 point for: oxygen takes the electrons off the end of the electron transport chain (with hydrogen ions) and becomes water.
32Pumping protons across
Video: Watch: Pumping protons across
The same membrane. At several chain proteins the released energy pumps hydrogen ions, protons, from the matrix into the intermembrane space. Protons pile up outside and become scarce inside, and the outside becomes positive relative to the matrix: a proton gradient.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L17c.mp4
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Follow the energy the electrons give up. At several of the proteins, that energy pumps hydrogen ions, H⁺, across the membrane.
A hydrogen ion, H⁺, is a hydrogen atom that has given up its electron. What is left is a single proton, so hydrogen ions are also called .
The chain proteins pump the protons from the matrix into the intermembrane space. So protons pile up in the intermembrane space and become scarce in the matrix.
Each proton carries a positive charge, so the intermembrane space also becomes positive relative to the matrix.
A positive ion sits outside a cell. Its concentration is higher outside than inside, and the inside of the cell is negative.
Which of the following pull the ion inward?
- A. The concentration difference; the charge across the membrane pulls it outwardThe inside of the cell is negative, and a negative inside pulls a positive ion inward, not outward.
- B. ✓ The concentration difference and the charge across the membrane
Why: The concentration difference pulls the ion toward the side where it is less concentrated: inward.
The inside is negative, so the charge across the membrane pulls the positive ion inward too.
Together the two pulls are its electrochemical gradient.
The protons’ difference in concentration and charge across the inner membrane is called a .
What you are expected to know Explain what the energy released along the chain is used for: pumping protons from the matrix into the intermembrane space, so that protons pile up outside the inner membrane and are scarce inside, a proton gradient.
Electrons are passing along the electron transport chain of a mitochondrion.
Which way do the chain proteins pump protons?
- A. ✓ Out of the matrix, into the intermembrane space
- B. Into the matrix, from the intermembrane spaceThe chain pumps protons out of the matrix, so protons become scarce in the matrix and pile up in the intermembrane space.
Why: The energy the electrons give up along the chain drives the pumps.
The pumps move protons from the matrix into the intermembrane space.
So protons pile up in the intermembrane space and become scarce in the matrix.
Here are the proton concentrations on the two sides of a respiring mitochondrion’s inner membrane. A tiny pore opens in the membrane.
Which way do protons move through the pore on their own?
- A. Out of the matrixThe bar chart shows more protons in the intermembrane space than in the matrix; protons move on their own toward where they are scarcer.
- B. ✓ Into the matrix
- C. Neither wayThe two bars differ, so there is a proton gradient, and given a path the protons flow down it.
Why: The bar chart shows more protons in the intermembrane space than in the matrix.
Protons move on their own toward where they are scarcer.
The intermembrane space is also positive relative to the matrix.
So both pulls send protons through the pore into the matrix.
Here are the proton concentrations inside and outside an artificial vesicle whose membrane has a pore. There is no charge difference across the membrane.
Which way is the net movement of protons through the pore?
- A. InwardThe two bars are the same height, so protons are no more concentrated outside than inside.
- B. OutwardThe two bars are the same height, so protons are no more concentrated inside than outside.
- C. ✓ Neither way
Why: The two bars are the same height, so the proton concentration is the same inside and outside.
Protons move through the pore in both directions.
The same number move in as move out.
So there is no net movement: neither way.
Here are the proton concentrations inside and outside another artificial vesicle whose membrane has a pore. There is no charge difference across the membrane.
Which way do protons move through the pore on their own?
- A. ✓ Outward
- B. InwardThe bar chart shows more protons inside the vesicle than outside, and protons move on their own from where they are more concentrated to where they are scarcer.
- C. Neither wayThe two bars differ, so there is a proton gradient, and given a path the protons flow down it.
Why: The bar chart shows more protons inside the vesicle than outside.
Protons move on their own from where they are more concentrated to where they are scarcer.
So the protons flow through the pore out of the vesicle, down their proton gradient.
45Quick quiz: proton and proton gradient mixed practice
What is a proton, in the mitochondrion?
- A. A hydrogen atom that still has its one electronA hydrogen atom that keeps its electron is neutral; a proton is what is left when the electron is given up.
- B. ✓ A hydrogen ion, H⁺: a hydrogen atom that has lost its electron
- C. An electron taken from the sugar by NAD⁺ or FADAn electron carries a negative charge; a proton carries a positive charge.
Why: A hydrogen atom that has given up its electron is a hydrogen ion, H⁺.
What is left is a single proton.
So hydrogen ions are also called protons.
What is a proton gradient?
- A. ✓ A difference in proton concentration and charge across a membrane
- B. The flow of electrons along the electron transport chainElectrons flow along the chain; the proton gradient is a difference across the membrane.
- C. The number of protons in a mitochondrionA proton gradient is a difference between two sides of a membrane, not a count on one side.
Why: The chain pumps protons to one side of the inner membrane.
So the two sides differ in proton concentration and in charge.
That difference across the membrane is a proton gradient.
A respiring mitochondrion has a proton gradient across its inner membrane.
(a) State what a proton gradient is. (1 pt)
- Award 1 point for: a difference in proton (H⁺) concentration and charge across a membrane.
49Reading the pH
Video: Watch: Reading the pH
The same membrane with pH readings: 6.8 in the intermembrane space, 7.8 in the matrix. More H⁺ means a lower pH, and one pH unit is a tenfold difference, so the intermembrane space holds ten times the H⁺ of the matrix. The readings are evidence that the chain pumped protons out of the matrix.
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The pH of a solution falls from pH 8 to pH 7.
What happens to its concentration of hydrogen ions?
- A. ✓ It rises tenfold
- B. It falls tenfoldA lower pH means more hydrogen ions, not fewer.
- C. It stays the sameOne pH unit is a tenfold change in the concentration of hydrogen ions.
Why: A lower pH means more hydrogen ions.
One pH unit is a tenfold difference.
So the concentration of hydrogen ions rises tenfold.
Here is the same membrane with pH readings: 6.8 in the intermembrane space and 7.8 in the matrix.
More H⁺ means a lower pH. The intermembrane space has more H⁺, so the intermembrane space has the lower pH.
One pH unit is a tenfold difference. So the intermembrane space has ten times the H⁺ concentration of the matrix.
So the two pH readings are evidence that the chain pumped protons out of the matrix.
What you are expected to know Read two pH values as evidence of proton pumping: the lower pH is on the side the protons were pumped to, and one pH unit is a tenfold difference.
Electrons are passing along the electron transport chain of a mitochondrion.
Which of the following has the higher pH?
- A. The intermembrane spaceThe chain pumps protons into the intermembrane space, so the intermembrane space has more H⁺, and more H⁺ means a lower pH.
- B. ✓ The matrix
Why: The chain pumps protons out of the matrix into the intermembrane space.
So the matrix has fewer H⁺ than the intermembrane space.
Fewer H⁺ means a higher pH.
So the matrix has the higher pH.
Right after a burst of electron transport, a mitochondrion’s intermembrane space is at pH 7.0 and its matrix at pH 8.0.
Which of the following do the two readings show?
- A. ✓ More protons are outside the matrix than inside
- B. More protons are inside the matrix than outsideA lower pH means more protons, and the intermembrane space, at pH 7.0, has the lower pH.
- C. The same number of protons are inside and outsideThe two readings differ by one pH unit, and one pH unit is a tenfold difference in proton concentration.
Why: A lower pH means more H⁺.
The intermembrane space, at pH 7.0, has the lower pH.
One pH unit is a tenfold difference, so the intermembrane space holds ten times the H⁺ of the matrix.
The chain pumped protons out of the matrix, and the protons have piled up there.
Right after a burst of electron transport, a mitochondrion’s intermembrane space is at pH 7.0 and its matrix at pH 8.0. There are more protons outside the matrix than inside.
(a) Explain how the two pH readings show that the chain pumped protons out of the matrix. (1 pt)
The intermembrane space is at pH 7.0 and the matrix at pH 8.0, so the intermembrane space has the lower pH.
One pH unit is a tenfold difference in H⁺ concentration.
So the intermembrane space holds about ten times as many protons as the matrix.
Protons are scarce in the matrix and piled up outside it.
So the chain pumped protons out of the matrix into the intermembrane space.
- Award 1 point for: the lower pH (7.0) means more H⁺ in the intermembrane space, about ten times more than in the matrix at pH 8.0, so the protons were pumped out of the matrix into the intermembrane space.
Back to the oxygen in your breath, used at the inner membrane of a mitochondrion. The sugar’s electrons passed down the electron transport chain, protein to protein.
Each hand-over released a little energy. That energy pumped protons into the intermembrane space.
The oxygen waited at the end of the chain, took the electrons and hydrogen ions, and became water. So the oxygen never touched the sugar: it only took the sugar’s electrons off the end of the chain.
63Mixed practice mixed practice
Yeast respire in a flask, and the oxygen falls.
What is the oxygen doing?
- A. ✓ Taking electrons off the end of the chain
- B. Splitting glucoseGlycolysis uses no oxygen.
Why: Oxygen is the terminal electron acceptor.
It takes the electrons off the last protein of the chain and becomes water.
Electrons pass down the chain and release energy.
What does that energy do?
- A. It joins ADP and Pi directlyThe chain never touches ADP; the energy pumps protons.
- B. ✓ It pumps protons out of the matrix
Why: The chain uses the electrons’ energy to pump protons from the matrix into the intermembrane space.
The intermembrane space is at pH 7.0 and the matrix at pH 8.0.
Which holds more protons?
- A. The matrixA higher pH is fewer H⁺.
- B. ✓ The intermembrane space
Why: A lower pH is more H⁺.
The intermembrane space has the lower pH, so it holds more protons: the chain pumped them there.
Oxygen takes the electrons off the end of the electron transport chain.
What does the oxygen become?
- A. ✓ Water
- B. Carbon dioxideThe carbon dioxide left in the Krebs cycle; oxygen joins electrons and hydrogen ions to make water.
Why: Oxygen takes the electrons, together with hydrogen ions, and becomes water.
NADH hands its two electrons to the first protein of the electron transport chain.
What happens to NADH?
- A. ✓ It is oxidized to NAD⁺
- B. It is reducedGaining electrons is reduction; NADH loses electrons here.
Why: NADH loses its two electrons to the first protein.
Losing electrons is oxidation, so NADH is oxidized to NAD⁺.
A mitochondrion’s intermembrane space is at pH 6.8 and its matrix at pH 7.8.
How many times more H⁺ does the intermembrane space hold than the matrix?
- A. Two timesOne pH unit is a tenfold difference, not a twofold one.
- B. ✓ Ten times
Why: The two readings differ by one pH unit.
One pH unit is a tenfold difference in H⁺ concentration.
So the intermembrane space holds ten times the H⁺ of the matrix.
A researcher measures the pH on the two sides of the inner membrane of respiring mitochondria. The intermembrane space is at pH 6.9 and the matrix is at pH 7.9.
(a) Explain how the electron transport chain produced this pH difference. (1 pt)
Each transfer releases a little energy.
That energy pumps protons out of the matrix into the intermembrane space.
So the intermembrane space gains H⁺ and the matrix loses H⁺.
More H⁺ means a lower pH.
So the intermembrane space, at pH 6.9, has the lower pH.
- Award 1 point for: the energy released as electrons pass along the chain pumps protons out of the matrix into the intermembrane space, so the intermembrane space holds more H⁺ and has the lower pH.
Slip Saying oxygen supplies the energy for the pumping. The energy comes from the electrons taken from the food; oxygen only takes them off the end of the chain.
Glossary
- electron transport chain (ETC)
- A series of proteins set in the inner mitochondrial membrane that pass electrons, delivered by NADH and FADH₂, from one to the next in redox reactions, down to oxygen.
- terminal electron acceptor
- The molecule that takes the electrons off the end of the electron transport chain. In aerobic respiration it is oxygen, which becomes water.
- proton
- A hydrogen ion, H⁺: a hydrogen atom that has given up its electron, leaving a single proton with a positive charge.
- proton gradient
- The difference in proton concentration and charge across a membrane. In a mitochondrion, protons pumped by the chain pile up in the intermembrane space, which is more acidic and more positive than the matrix.
APBIO-U03-L17B The one way back
Protons pile up in the intermembrane space, on one side of a membrane they cannot cross on their own.
In a separate test, artificial vesicles hold nothing but ATP synthase, ADP and Pi. With the fluid outside them at pH 4, they make 96 ATP per minute. At pH 6 they make 30 ATP per minute. At pH 8 they make 1 ATP per minute. What links the piled-up protons to the ATP?
Unit 3 · Cellular Energetics
1Almost the only way back: ATP synthase
Video: Watch: Almost the only way back
The inner membrane with protons piled up in the intermembrane space. Ions cannot cross the membrane’s hydrophobic interior on their own, so the protons have almost only one way back: through ATP synthase. As they flow down the proton gradient through it, ATP synthase joins ADP and Pi into ATP. That flow is chemiosmosis; the whole process from the chain to the ATP is oxidative phosphorylation.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L17Ba.mp4
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How does a pile of protons become ATP?
Here is the whole answer, in four steps:
- The protons have almost only one way back into the matrix: through one kind of protein set in the membrane.
- As protons flow through that protein, down the proton gradient, the protein joins ADP and Pi into ATP.
- This is how the cell makes most of its ATP.
- A more folded inner membrane holds more chain and more of that protein. So a more folded membrane makes more ATP.
Electrons are passing along the electron transport chain of a mitochondrion, and the chain is pumping protons.
Where do the protons pile up?
- A. ✓ In the intermembrane space
- B. In the matrixThe chain pumps protons out of the matrix, so the matrix is where protons become scarce.
Why: The chain pumps protons from the matrix into the intermembrane space.
So protons pile up in the intermembrane space.
Ions cannot pass through a membrane’s hydrophobic interior on their own. For the piled-up protons there is almost only one way back into the matrix.
That way is through a single kind of enzyme set in the inner membrane. Protons flow down the proton gradient through the enzyme, into the matrix.
As the protons flow through, the enzyme joins ADP and Pi into ATP. Making ATP needs an input of energy. Here that energy comes from the proton gradient.
Here is that reaction as a word equation.
What ATP synthase does, as a word equation: it joins ADP and Pi into ATP
The enzyme is called .
The flow of protons through ATP synthase, down the proton gradient, is called .
As electrons pass down the electron transport chain, the energy they release pumps protons across the membrane, and the protons flowing back down their proton gradient through ATP synthase drive the formation of ATP from ADP and inorganic phosphate.
The whole process, from the chain to the ATP, is called . ADP is phosphorylated: it gains a phosphate. The energy comes from oxidizing food, with oxygen at the end of the chain.
ATP synthase uses the proton gradient. ATP synthase does not make the proton gradient; the chain does.
What you are expected to know Explain how protons flowing back through ATP synthase drive the making of ATP from ADP and Pi.
In a respiring mitochondrion, ATP synthase joins ADP and Pi into ATP. Making ATP needs an input of energy.
Which of the following supplies that energy?
- A. The oxygen in the matrixOxygen takes electrons off the end of the chain; it supplies no energy to ATP synthase.
- B. The ADP and Pi themselvesADP and Pi are the pieces joined; joining them needs energy from somewhere else.
- C. ✓ The flow of protons through ATP synthase
Why: Protons are piled up in the intermembrane space.
They flow down the proton gradient through ATP synthase into the matrix.
That flow supplies the energy ATP synthase uses to join ADP and Pi into ATP.
A student says: “ATP synthase pumps the protons out of the matrix to build the proton gradient.”
Is the student correct?
- A. Yes, ATP synthase builds the proton gradientATP synthase does not pump protons; the energy released along the chain does the pumping.
- B. ✓ No, the chain builds the proton gradient
Why: The chain builds the proton gradient.
The energy released along the electron transport chain pumps protons out of the matrix.
ATP synthase only lets protons flow back in, down the proton gradient the chain built.
So ATP synthase uses the proton gradient; it does not make it.
A student says: “ATP synthase pumps the protons out of the matrix to build the proton gradient.” The student is wrong.
(a) Explain why the student is wrong. (1 pt)
The electrons passing down the electron transport chain release energy.
That energy pumps protons out of the matrix into the intermembrane space.
So the chain builds the proton gradient.
ATP synthase is the path by which protons flow back into the matrix, down that proton gradient.
As the protons flow through, ATP synthase joins ADP and Pi into ATP.
So ATP synthase uses the proton gradient; it does not make it.
- Award 1 point for: the energy released along the electron transport chain pumps the protons out (the chain builds the proton gradient); ATP synthase only lets protons flow back down the proton gradient, making ATP as they do.
19Quick quiz: ATP synthase, chemiosmosis and oxidative phosphorylation mixed practice
What is ATP synthase?
- A. ✓ The enzyme set in the inner membrane through which protons flow back into the matrix, making ATP
- B. The last protein of the electron transport chain, which hands the electrons on to oxygenThe proteins that pass electrons are the chain’s; ATP synthase passes protons, not electrons.
- C. The enzyme in the cytosol that splits each glucose into two pyruvate and makes two ATPGlucose is split by the enzymes of glycolysis in the cytosol; ATP synthase sits in the inner membrane.
Why: ATP synthase is an enzyme set in the inner membrane.
Protons flow back into the matrix through it, down the proton gradient.
As they flow through, ATP synthase joins ADP and Pi into ATP.
What is chemiosmosis?
- A. The pumping of protons out of the matrix by the electron transport chainThe chain pumps protons out; chemiosmosis is their flow back in, through ATP synthase.
- B. ✓ The flow of protons down the proton gradient through ATP synthase, which drives the making of ATP
- C. The passing of electrons from protein to protein along the electron transport chainElectrons passing along the chain is electron transport; chemiosmosis is the protons’ flow back through ATP synthase.
Why: Protons piled up outside flow back into the matrix through ATP synthase, down the proton gradient.
That flow drives the making of ATP.
The flow is called chemiosmosis.
What is oxidative phosphorylation?
- A. The splitting of glucose into two pyruvate in the cytosol, with no oxygen usedSplitting glucose into pyruvate is glycolysis.
- B. The taking of carbons off pyruvate as carbon dioxide in the matrix of the mitochondrionTaking carbons off as carbon dioxide is pyruvate oxidation and the Krebs cycle.
- C. ✓ The whole process from the electron transport chain to the ATP made by ATP synthase
Why: Electrons passing down the chain pump protons across the membrane.
Protons flowing back through ATP synthase drive the making of ATP.
The whole process, from the chain to the ATP, is oxidative phosphorylation.
In a muscle cell’s mitochondria, protons flow from the intermembrane space into the matrix through ATP synthase, and ATP synthase makes ATP.
(a) State what ATP synthase is. (1 pt)
- Award 1 point for: the enzyme (in the inner membrane) through which protons flow back into the matrix, making ATP from ADP and Pi.
(b) State what the flow of protons through ATP synthase is called. (1 pt)
- Award 1 point for: chemiosmosis.
(c) State what oxidative phosphorylation is. (1 pt)
- Award 1 point for: the whole process from the electron transport chain to the ATP (electron transport pumping protons, and the protons’ flow back through ATP synthase making ATP).
24The proton gradient alone drives the making of ATP
Video: Watch: The proton gradient alone
Three vesicles, each holding only ATP synthase, ADP and Pi at pH 8 inside, with the outside at pH 4, 6 and 8. They make 96, 30 and 1 ATP per minute. Nothing differed but the proton difference across the membrane, so the proton gradient alone drives the making of ATP.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L17Bb.mp4
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Here is the test that the proton gradient alone drives the making of ATP.
Researchers build vesicles from membrane holding only ATP synthase. Inside each vesicle they put ADP and Pi. There is no chain at all.
Here are the three results:
- Inside pH 8, outside pH 4: ATP forms fast, 96 ATP per minute.
- Inside pH 8, outside pH 6: ATP forms slowly, 30 ATP per minute.
- Inside pH 8, outside pH 8: ATP barely forms at all, 1 ATP per minute.
The only thing that differed between the three vesicles was the proton difference across the membrane. A bigger proton difference made ATP form faster.
So the proton gradient alone drives the making of ATP.
What you are expected to know Explain how the vesicle experiment shows that the proton gradient alone drives the making of ATP.
The figure shows the vesicle experiment: three vesicles, each with ATP synthase in its membrane and ADP and Pi inside at pH 8, the outside at pH 4, 6 or 8, and the ATP each vesicle makes per minute. A researcher then adds a chemical that lets protons leak through the membrane anywhere. The pH 4 vesicle’s rate falls from 96 ATP per minute to 2.
Which of the following drives ATP formation?
- A. ✓ Protons flowing through ATP synthase
- B. The enzyme by itself, whatever the pH on each sideWith pH 8 on both sides the synthase is present and makes almost no ATP; the rate rises as the proton difference grows.
- C. Protons leaking through the membrane anywhereThe chemical let protons leak past the synthase, and the rate fell from 96 ATP per minute to 2; protons that bypass the synthase make no ATP.
Why: The only thing supplied was a proton difference across a membrane holding ATP synthase.
A bigger difference made ATP form faster.
Letting the protons leak past the synthase stopped it.
So the flow of protons through ATP synthase makes the ATP.
A researcher sets ATP synthase in an artificial membrane between a left chamber and a right chamber. Protons can cross the membrane only through ATP synthase. The right chamber holds ADP and Pi.
Which of the following starting conditions gives the fastest ATP formation in the right chamber?
- A. Left chamber pH 4, right chamber pH 7, ATP synthase blockedBlocked ATP synthase passes no protons and makes no ATP, however big the proton gradient.
- B. Left chamber pH 7, right chamber pH 4, ATP synthase workingWith pH 7 on the left and pH 4 on the right, the protons would flow into the left chamber, away from the ADP and Pi.
- C. Both chambers pH 4, ATP synthase workingEqual pH on both sides means no net flow of protons and almost no ATP.
- D. ✓ Left chamber pH 4, right chamber pH 7, ATP synthase working
Why: ATP forms when protons flow down the proton gradient through working ATP synthase into the chamber holding ADP and Pi.
Protons flow from the side with more H⁺, the lower pH.
So the left chamber must be at pH 4, the right chamber at pH 7, and the synthase working.
34The same chain in a bacterium
Video: Watch: The same chain in a bacterium
A bacterium with no mitochondria. Its electron transport chain and ATP synthase sit in its plasma membrane. The chain pumps protons out of the cell, and the protons flow back in through ATP synthase, making ATP.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L17Bc.mp4
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Now consider a bacterium. A bacterium has no mitochondria. Its cell has a plasma membrane, cytosol, ribosomes, and DNA with no membrane around it.
The bacterium’s electron transport chain sits in its plasma membrane. The chain pumps protons out across that membrane.
The protons pile up outside the cell. Then the protons flow back in through ATP synthase set in the same membrane.
An aerobic soil bacterium given glucose and oxygen uses up the oxygen and makes ATP, with no mitochondria at all.
What you are expected to know State where a prokaryote’s electron transport chain sits and which membrane it pumps protons across: its plasma membrane.
A researcher gives live cells of an aerobic soil bacterium, which has no mitochondria, glucose and oxygen. The oxygen falls and the cells’ ATP rises. Heat-killed cells show no change in either.
Which of the following were the live cells doing?
- A. Carrying out glycolysis alone in their cytosolGlycolysis uses no oxygen, and the cells used oxygen up; oxygen is used at the end of an electron transport chain.
- B. Making ATP in the cytosol with no membrane involvedThe chain and ATP synthase are membrane proteins, and in a bacterium that membrane is the plasma membrane.
- C. ✓ Pumping protons out across their plasma membrane
- D. Taking up ready-made ATP from the soil around themThe heat-killed cells sat in the same soil and gained no ATP, so the live cells made their own ATP, using up oxygen as they did.
Why: A bacterium has no mitochondria.
So its electron transport chain sits in its plasma membrane.
The chain pumps protons out of the cell.
The protons flow back in through ATP synthase, and ATP is made.
Oxygen is used up at the end of the chain.
42More folds, more ATP
Video: Watch: More folds, more ATP
Two mitochondria cut across: heart muscle with dense folds, liver with few. The chain and ATP synthase sit in the inner membrane, so more folded membrane holds more of both, and the heart mitochondrion makes ATP faster.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L17Bd.mp4
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A membrane is folded many times.
What does the folding do to the membrane’s surface area?
- A. ✓ It increases the surface area
- B. It leaves the surface area unchangedFolding packs more membrane into the same space, so there is more surface.
Why: Folding a membrane packs more membrane into the same space.
So the surface area increases.
Inside a eukaryotic cell the inner mitochondrial membrane does the same job as the bacterium’s plasma membrane. The folds of the inner membrane give it a large surface.
More membrane holds more chain proteins and more ATP synthase. So more ATP can be made.
Heart muscle cells never stop making ATP. Their mitochondria have far denser folds than a liver cell’s.
Denser folds mean more membrane, more chain and more ATP synthase.
What you are expected to know Explain why a more folded inner membrane makes more ATP.
Heart muscle mitochondria have far denser inner-membrane folds than liver mitochondria.
Which of the following does the denser folding let the heart mitochondria do?
- A. Store more oxygen for the chainOxygen dissolves and diffuses in; folds do not store oxygen.
- B. ✓ Fit more chain proteins and more ATP synthase
- C. Hold more glucose in the matrixGlucose is split outside the mitochondrion; what the folds add is membrane surface.
- D. Carry out the steps of glycolysis fasterGlycolysis happens in the cytosol, not in the mitochondrion.
Why: The chain and ATP synthase sit in the inner membrane.
More folded membrane holds more chain proteins and more ATP synthase.
So the heart mitochondria make ATP faster, which heart muscle, never resting, needs.
Back to the protons piled up in the intermembrane space, and the vesicles that held only ATP synthase, ADP and Pi. With pH 4 outside and pH 8 inside, protons flowed in through ATP synthase, and the vesicles made 96 ATP per minute.
With pH 8 on both sides, no protons flowed, and the vesicles made 1 ATP per minute.
So the flow of protons through ATP synthase is what links the piled-up protons to the ATP.
54Mixed practice mixed practice
Protons flow back into the matrix through ATP synthase.
What does that flow do?
- A. ✓ It makes ATP
- B. It pumps more protons outATP synthase does not pump; it lets protons back in.
Why: Protons flowing down the proton gradient through ATP synthase drive it to join ADP and Pi into ATP.
A student says ATP synthase builds the proton gradient.
Is the student correct?
- A. Yes, ATP synthase builds the proton gradientThe chain builds the proton gradient; ATP synthase uses it.
- B. ✓ No, the chain builds the proton gradient
Why: The energy released along the chain pumps the protons out.
ATP synthase only lets them flow back, so it uses the proton gradient.
A soil bacterium’s electron transport chain is pumping protons.
Where do the protons pile up?
- A. In the cytosolThe chain pumps protons out of the cell, so the cytosol is where protons become scarce.
- B. ✓ Outside the cell
Why: A bacterium’s chain sits in its plasma membrane.
The chain pumps protons out across that membrane.
So protons pile up outside the cell.
Artificial vesicles hold only ATP synthase, ADP and Pi. The pH is 8 inside and 8 outside.
How much ATP do the vesicles make?
- A. ✓ Almost none
- B. PlentyWith the same pH on both sides there is no proton gradient, so no protons flow through ATP synthase.
Why: The same pH on both sides means no proton gradient.
So no protons flow through ATP synthase.
So almost no ATP is made.
Protons flow down the proton gradient through ATP synthase, and ATP synthase makes ATP.
What is that flow called?
- A. ✓ Chemiosmosis
- B. GlycolysisGlycolysis is the splitting of glucose in the cytosol.
Why: The flow of protons down the proton gradient through ATP synthase is called chemiosmosis.
A liver mitochondrion has fewer inner-membrane folds than a heart mitochondrion.
Which mitochondrion holds more ATP synthase?
- A. The liver mitochondrionFewer folds is less membrane, and ATP synthase sits in the membrane.
- B. ✓ The heart mitochondrion
Why: ATP synthase sits in the inner membrane.
Denser folds mean more membrane.
So the heart mitochondrion holds more ATP synthase.
Heart muscle mitochondria have far more folds in their inner membrane than skin cell mitochondria.
(a) Explain why heart mitochondria can make ATP faster. (1 pt)
More folds mean more membrane area.
So a heart mitochondrion holds more chain proteins and more ATP synthase.
So it pumps more protons and makes ATP faster.
- Award 1 point for: the chain and ATP synthase sit in the inner membrane, so more folded membrane holds more of them and ATP is made faster.
Slip Saying the folds store more oxygen or more glucose. The folds add membrane area, and the membrane is where the machine sits.
Glossary
- ATP synthase
- The enzyme set in the inner membrane that is almost the only way for protons to flow back into the matrix, down the proton gradient; as they flow through it, ATP synthase joins ADP and Pi into ATP.
- chemiosmosis
- The flow of protons down the proton gradient through ATP synthase, which drives the formation of ATP from ADP and inorganic phosphate.
- oxidative phosphorylation
- The whole process from the electron transport chain to the ATP: electrons passing down the chain pump protons across the membrane, and the protons flowing back through ATP synthase drive the formation of ATP from ADP and inorganic phosphate.
APBIO-U03-L18 Break the machine and see
Photo: Vanessa Kay, Wikimedia Commons, CC BY 3.0 (cropped and resized).
Here is a newborn baby, asleep, with the patch of brown fat between its shoulder blades marked, and one mitochondrion from that fat.
A newborn baby is not able to shiver. Yet that patch of brown fat keeps it warm.
The brown-fat mitochondria use more oxygen than ordinary mitochondria, 165 nmol per minute instead of 100. Yet they make less ATP, 70 nmol per minute instead of 125.
How can a mitochondrion burn more fuel and make less ATP?
Unit 3 · Cellular Energetics
1Break the chain
Video: Watch: Break the chain
The chain, the proton gradient and ATP synthase working as one machine in the inner membrane; then a poison blocks a protein near the end of the chain, and oxygen use falls, NADH piles up, the proton gradient drains away and ATP falls.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L18a.mp4
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How do we know the chain, the proton gradient and ATP synthase work as one machine?
Researchers block one part at a time and watch what changes: oxygen use, NADH, the proton gradient and ATP.
- Block the chain, and everything downstream stops.
- Block ATP synthase, and the proton gradient grows while the chain nearly stops.
- Let protons leak back without passing through ATP synthase, and the proton gradient’s energy leaves as heat. That leak is how brown fat warms a newborn.
Once you can predict those four changes from one block, you can read any poisoned or leaking mitochondrion.
In the inner membrane, electrons from NADH pass along the electron transport chain to oxygen.
What does the energy they release do?
- A. ✓ It pumps protons out of the matrix
- B. It joins ADP and Pi directlyThe chain never touches ADP; it pumps protons, and the protons flowing back through ATP synthase make the ATP.
Why: The energy the electrons release pumps protons out of the matrix.
The protons flowing back through ATP synthase make the ATP.
Here the electron transport chain and ATP synthase are working together in the inner membrane.
As the electrons pass along, the chain pumps protons out of the matrix into the intermembrane space.
The protons flow back into the matrix through ATP synthase, and that flow makes ATP.
The chain and ATP synthase work as one machine.
Now suppose a researcher gives liver cells a poison that binds one protein near the end of the chain. Three things change.
- The cells’ oxygen use falls to 5% of normal, though oxygen is still plentiful.
- NADH piles up in the matrix.
- ATP production falls to 14% of normal.
Here is why. The poisoned protein can no longer pass its electrons on, so the electrons stop at the block.
No electrons reach oxygen. So the cells use almost no oxygen.
NADH arrives at the chain, but the blocked chain cannot take its electrons. So NADH stays loaded, and NADH piles up.
No electrons move along the chain, so the chain pumps no protons.
The protons already in the intermembrane space flow back into the matrix through ATP synthase. No new protons replace them.
So the proton gradient disappears.
Once the proton gradient is gone, no proton flow drives ATP synthase. So ATP synthase makes almost no ATP.
The 14% that remains is made by glycolysis, in the cytosol.
What you are expected to know Predict what a block in the electron transport chain does to oxygen use, NADH, the proton gradient and ATP output.
A poison blocks a protein near the end of the electron transport chain. Oxygen stays plentiful.
What happens to the cells’ NADH?
- A. NADH fallsNADH unloads its electrons only at the chain, and the chain is blocked.
- B. ✓ NADH rises
Why: NADH unloads its electrons only at the chain.
The blocked chain cannot take them.
So NADH stays loaded, and NADH piles up.
A poison blocks a protein near the end of the electron transport chain. Oxygen stays plentiful.
What happens to the cells’ oxygen use?
- A. ✓ It falls
- B. It stays the sameOxygen is used at one place only: the end of the chain, where oxygen takes the electrons.
- C. It risesThe cells cannot use more oxygen when fewer electrons reach it.
Why: Oxygen is used at one place only: the end of the chain, where oxygen takes the electrons.
The electrons stop at the block.
So no electrons reach oxygen, and the cells use almost no oxygen.
A poison blocks a protein near the end of the electron transport chain. Oxygen stays plentiful.
What happens to the ATP that ATP synthase makes?
- A. It risesATP synthase is driven by protons flowing back through it, and no protons are being pumped out to flow back.
- B. It stays the sameATP synthase depends on the chain: the chain builds the proton gradient that drives ATP synthase.
- C. ✓ It falls
Why: The blocked chain pumps no protons.
So the proton gradient disappears.
So no proton flow drives ATP synthase, and ATP synthase makes almost no ATP.
A researcher gives liver cells a poison that blocks a protein near the end of the electron transport chain. Oxygen and glucose stay plentiful. Within minutes ATP synthase makes almost no ATP.
(a) Explain why ATP synthase makes almost no ATP after the poison. (1 pt)
The chain pumps protons only while electrons move along it, so the chain pumps no protons.
The protons already outside flow back in through ATP synthase, and no new protons replace them.
So the proton gradient disappears.
Protons flowing through ATP synthase are what drive it to make ATP.
With no proton gradient, no protons flow, so ATP synthase makes almost no ATP.
- Award 1 point for: the blocked chain no longer moves electrons, so it pumps no protons; the proton gradient disappears; so no proton flow drives ATP synthase, and ATP synthase makes almost no ATP.
26Block the synthase instead
Video: Watch: Block the synthase instead
A molecule plugs the channel of ATP synthase while the chain keeps pumping: protons pile up in the intermembrane space, its pH falls, the proton gradient grows, ATP falls, and the chain nearly stops.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L18b.mp4
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Now imagine a researcher leaves the chain alone and blocks ATP synthase instead, with a molecule that plugs its channel.
Within a minute the pH of the intermembrane space falls from pH 6.8 to pH 6.4. The pH of the matrix rises from pH 7.8 to pH 8.0.
The proton gradient has grown.
ATP production falls by 95%. Oxygen use falls to about 20% of normal.
Here is why the proton gradient grows. For the first minute the chain keeps passing electrons to oxygen, so the chain keeps pumping protons out of the matrix.
ATP synthase is almost the only way back into the matrix, and the plug closes it. So protons pile up in the intermembrane space, and the proton gradient grows.
Here is why ATP falls. Protons no longer flow through ATP synthase.
Only that flow joins ADP and Pi into ATP. So ATP production falls, even though the proton gradient is larger than ever.
Here is why oxygen use falls. Pumping a proton out against a larger proton gradient takes more energy.
The proton gradient keeps growing. Soon the electrons passing along the chain cannot release enough energy to pump against it.
So the chain nearly stops. Almost no electrons reach oxygen, so oxygen use falls.
ATP synthase uses the proton gradient; it does not make it. Block ATP synthase and the proton gradient grows while ATP falls.
What you are expected to know Predict what a block at ATP synthase does: protons are pumped but cannot return, so the proton gradient grows, ATP falls, and the chain nearly stops.
A molecule plugs the channel of ATP synthase in respiring mitochondria. For the first minute the electron transport chain keeps passing electrons to oxygen.
What happens to the pH of the intermembrane space during that first minute?
- A. The pH risesThe chain, not ATP synthase, pumps the protons, and the chain is still passing electrons and pumping.
- B. The pH stays the sameATP synthase is almost the only way back into the matrix for the protons.
- C. ✓ The pH falls
Why: The chain keeps pumping protons into the intermembrane space.
The plugged ATP synthase gives them almost no way back.
So protons build up in the intermembrane space, and its pH falls, from pH 6.8 to pH 6.4 in the measurement.
A molecule plugs ATP synthase, blocking the protons’ way through it. For the first minute the chain keeps passing electrons to oxygen.
What happens to the proton gradient across the inner membrane during that first minute?
- A. ✓ It grows
- B. It disappearsThe proton gradient disappears only when the pumping stops, and the chain is still pumping.
Why: The chain keeps pumping protons out of the matrix.
The plugged ATP synthase gives them no way back in.
So protons pile up in the intermembrane space, and the proton gradient grows.
A molecule plugs ATP synthase, blocking the protons’ way through it. The chain keeps passing electrons to oxygen for the first few minutes.
What happens to the mitochondria’s oxygen use over the next few minutes?
- A. It risesThe chain slows, and only the chain uses oxygen.
- B. It stays the sameThe chain does not keep passing electrons at its old speed once the protons it pumps have no way back.
- C. ✓ It falls
Why: The proton gradient grows.
Pumping a proton out against a larger proton gradient takes more energy.
Soon the electrons cannot release enough energy to pump against it, so the chain nearly stops.
Almost no electrons reach oxygen, so oxygen use falls.
A molecule plugs the channel of ATP synthase in respiring mitochondria. For the first minute the electron transport chain keeps passing electrons to oxygen. The pH of the intermembrane space falls.
(a) Explain why the pH of the intermembrane space falls. (1 pt)
ATP synthase is almost the only way back into the matrix for those protons.
The plug closes that way back.
So the protons stay in the intermembrane space, and more keep arriving.
More protons make the pH lower.
So the pH of the intermembrane space falls.
- Award 1 point for: the chain keeps pumping protons into the intermembrane space, and with ATP synthase plugged they cannot return, so protons build up there and the pH falls.
A researcher gives heart cells a poison. Their ATP output falls, and the pH of the intermembrane space rises from pH 6.8 to pH 7.6. A student says: “The poison must have blocked ATP synthase.”
Which of the following statements about the student’s claim is correct?
- A. ✓ The student is wrong: the poison blocked the chain
- B. The student is correct: the poison blocked ATP synthaseA blocked ATP synthase makes the pH of the intermembrane space fall, and here the pH rose.
Why: A blocked ATP synthase would trap protons outside, so the pH of the intermembrane space would fall.
Here the pH rose.
So the protons outside are draining away and no new ones are being pumped.
Only the chain pumps protons.
So the poison blocked the chain.
A researcher gives heart cells a poison. Their ATP output falls, and the pH of the intermembrane space rises from pH 6.8 to pH 7.6. The poison blocked the electron transport chain rather than ATP synthase.
(a) Explain how the rising pH shows that the poison blocked the chain. (1 pt)
If ATP synthase were blocked, the chain would keep pumping and the protons would have no way back, so the pH outside would fall.
Here the pH rose: fewer protons outside.
So no new protons were being pumped, and the protons already outside were draining back into the matrix.
Only a stopped chain pumps no protons.
So the poison blocked the chain.
- Award 1 point for: a blocked ATP synthase would make protons pile up outside and the pH fall; the pH rose instead, so no protons were being pumped, which means the chain, the only proton pump, was blocked.
A researcher gives yeast cells a drug. Their proton gradient grows and their ATP output falls.
Which of the following did the drug block?
- A. The electron transport chainA blocked chain pumps no protons, so the proton gradient would disappear, and here the proton gradient grew.
- B. ✓ ATP synthase
Why: A proton gradient that grows while ATP falls means protons are still being pumped but cannot return.
The chain is still pumping, so the chain is not blocked.
The way back, ATP synthase, is blocked.
48Let the protons leak
Video: Watch: Let the protons leak
A leak protein beside ATP synthase lets protons back into the matrix. Their energy leaves as heat instead of making ATP; the chain passes electrons faster and uses more oxygen. This is uncoupling.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L18c.mp4
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Now consider the brown-fat mitochondria from the newborn baby. They break the machine a third way.
Here is a table comparing brown-fat mitochondria with ordinary mitochondria: the oxygen they use, the ATP they make and the heat they give off.
Brown-fat mitochondria use more oxygen than ordinary mitochondria: 165 nmol per minute instead of 100.
Yet they make less ATP: 70 nmol per minute instead of 125. And the heat they give off more than doubles.
A cell breaks down its food and releases energy. Some of that energy is caught in ATP.
Where does the rest of the energy go?
- A. ✓ It leaves the cell as heat
- B. It disappearsEnergy never disappears; energy released and not caught in ATP leaves as heat.
- C. It stays in the foodThe food has been broken down, so its energy has already been released.
Why: Energy released by a reaction and not caught in ATP leaves as heat.
Energy never disappears.
The inner membrane of a brown-fat mitochondrion carries a protein that lets protons back into the matrix. Protons that pass through this leak protein do not pass through ATP synthase.
A proton that returns through ATP synthase gives up its energy to the making of ATP. A proton that returns through the leak protein gives up the same energy as heat.
So the leak warms the cell.
The leak keeps draining the proton gradient, so the proton gradient stays small.
Pumping a proton out against a small proton gradient takes little energy, so the chain passes electrons along faster.
A faster chain passes more electrons to oxygen each minute. So brown-fat mitochondria use more oxygen.
Fewer protons pass through ATP synthase, so ATP synthase makes less ATP. More of the proton gradient’s energy leaves as heat.
Protons bypass ATP synthase like this. So electron transport no longer drives the making of ATP. We call this .
The chain and ATP synthase are no longer coupled: the chain keeps passing electrons, but the ATP it should drive is not made.
The heat is not energy that has disappeared. The heat is the energy the electrons gave up, spread into the surroundings instead of caught in ATP.
What you are expected to know Explain how a proton leak in the inner membrane makes heat.
What you are expected to know Predict what a proton leak does to a mitochondrion’s oxygen use and ATP output.
The leak protein in a brown-fat mitochondrion switches from inactive to active.
What happens to the ATP the mitochondrion makes?
- A. ✓ It falls
- B. It risesProtons that return through the leak do not pass through ATP synthase, and only protons passing through ATP synthase make ATP.
Why: Protons return through the leak instead of through ATP synthase.
So fewer protons pass through ATP synthase.
So ATP synthase makes less ATP.
A brown-fat mitochondrion has a leak protein in its inner membrane that lets protons back into the matrix without passing through ATP synthase. The leak protein switches from inactive to active.
What happens to the mitochondrion’s oxygen use?
- A. It fallsThe leak drains the proton gradient, so the chain pumps against a smaller proton gradient and passes more electrons to oxygen each minute.
- B. ✓ It rises
Why: The leak keeps draining the proton gradient.
Pumping a proton out against a small proton gradient takes little energy, so the chain passes electrons along faster.
A faster chain passes more electrons to oxygen each minute.
So the mitochondrion uses more oxygen.
Brown-fat mitochondria use more oxygen than ordinary mitochondria, yet they make less ATP.
(a) Explain why brown-fat mitochondria use more oxygen than ordinary mitochondria. (1 pt)
Protons return to the matrix through the leak instead of through ATP synthase.
So the leak keeps draining the proton gradient, and the proton gradient stays small.
Pumping a proton out against a small proton gradient takes little energy.
So the chain passes electrons along faster.
A faster chain passes more electrons to oxygen each minute.
So the brown-fat mitochondria use more oxygen.
- Award 1 point for: the leak drains the proton gradient, so the chain pumps against a small proton gradient and passes electrons faster, so more electrons reach oxygen each minute and more oxygen is used.
A student says: “In brown fat the energy the electrons release disappears instead of making ATP.”
Which of the following statements about the student’s claim is correct?
- A. The student is correct: the energy disappearsEnergy never disappears.
- B. ✓ The student is wrong: the energy leaves as heat
Why: Energy never disappears.
The electrons release energy as they pass along the chain, and the chain puts that energy into the proton gradient.
Protons returning through the leak give that energy up as heat.
So the energy leaves as heat and warms the animal.
71Quick quiz: uncoupling mixed practice
What is uncoupling?
- A. A poison stops the chain passing its electrons on to oxygenA blocked chain pumps no protons at all; in uncoupling the chain keeps pumping and the protons return by a route that bypasses ATP synthase.
- B. A plug traps the pumped protons in the intermembrane spaceTrapped protons are a blocked ATP synthase; in uncoupling the protons do return to the matrix, by a route that bypasses ATP synthase.
- C. ✓ Protons return to the matrix by a leak, bypassing ATP synthase
Why: In uncoupling, protons return to the matrix through a leak, bypassing ATP synthase.
The chain keeps pumping, but the ATP it should drive is not made.
A chemical uncoupler acts on the inner membrane of liver mitochondria.
(a) State what uncoupling is. (1 pt)
- Award 1 point for: protons return to the matrix by a route that bypasses ATP synthase, so the proton gradient’s energy leaves as heat instead of making ATP.
74Warm from within
Video: Watch: Warm from within
Mammals warm their bodies from within with heat their own cells release; newborn humans and hibernating mammals carry brown fat in quantity. The three breaks compared in one table.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L18d.mp4
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Mammals keep their bodies warm from within, using heat their own cells release. An animal that does this is called : endo means inside and therm means heat.
Newborn humans and hibernating mammals carry brown fat in quantity. The heat from that brown fat keeps them warm.
A fish, a frog and a lizard are not endothermic. Each animal takes its body temperature from the water, the pond or the rock around it.
So none of them has brown fat.
What you are expected to know Say which animals warm themselves with brown fat.
Brown fat warms an animal from within by letting protons leak past ATP synthase in its mitochondria.
Which of the following animals warms itself with brown fat?
- A. A trout swimming in a cold streamA trout is a fish.
A fish’s body stays at the temperature of the water around it.
So a fish is not endothermic, and a fish has no brown fat. - B. A lizard basking on a warm rockA lizard is a reptile.
A lizard warms itself from outside, on the rock.
So a lizard is not endothermic, and a lizard has no brown fat. - C. A frog in a pond in winterA frog is an amphibian.
A frog’s body follows the pond’s temperature.
So a frog is not endothermic, and a frog has no brown fat. - D. ✓ A squirrel waking from hibernation
Why: A squirrel is a mammal.
Mammals are endothermic: they warm their bodies from within.
Brown fat is one source of that heat, so a squirrel waking from hibernation uses it to rewarm.
A trout, a lizard and a frog take their temperature from their surroundings, so none has brown fat.
Two more things follow from what the chain is doing. NADH unloads its electrons only onto the chain.
So when the chain stops, or nearly stops, NADH piles up. When the chain passes electrons faster, NADH keeps unloading.
Heat comes from the energy the electrons release. A chain that has stopped, or nearly stopped, releases little energy, so little heat leaves.
The leak turns the proton gradient’s energy into heat, so heat more than doubles.
Here is a table comparing a blocked chain, a blocked ATP synthase and a proton leak: what each does to oxygen use, NADH, the proton gradient, ATP and heat.
Back to the newborn baby that cannot shiver, and the patch of brown fat between its shoulder blades. The mitochondria in that fat let protons leak straight back across the inner membrane, past ATP synthase.
The energy that would have made ATP heats the baby instead.
The chain passes electrons faster and uses more oxygen, 165 nmol per minute instead of 100, to keep pumping protons out.
That is why the brown fat burns more fuel and makes less ATP, 70 nmol per minute instead of 125.
91Quick quiz: endothermic mixed practice
What does endothermic mean?
- A. Taking the body’s temperature from the surroundingsA fish, a frog or a lizard takes its temperature from its surroundings; that is the opposite of endothermic.
- B. ✓ Keeping the body warm from within, using heat the animal’s own cells release
- C. Keeping the body cool by giving heat to the surroundingsEndo means inside and therm means heat: heat made inside, keeping the body warm.
Why: Endo means inside and therm means heat.
An endothermic animal keeps its body warm from within, using heat its own cells release.
A dormouse keeps its body at 37 °C through a cold night.
(a) State what it means to say the dormouse is endothermic. (1 pt)
- Award 1 point for: the animal warms its body from within, with heat its own cells release (not from its surroundings).
94Mixed practice mixed practice
Cyanide blocks the last protein of the electron transport chain in a liver cell.
What happens to the cell’s NADH?
- A. ✓ It piles up
- B. It is used up fasterNADH unloads only at the chain, and the chain is blocked.
Why: NADH hands its electrons to the chain.
The blocked chain cannot take them, so NADH stays loaded and piles up.
A pesticide blocks the chain in an insect’s flight muscle. Oxygen is plentiful.
What happens to the muscle’s oxygen use?
- A. It risesOxygen is used only where electrons reach the end of the chain.
- B. ✓ It falls to almost nothing
Why: Electrons stop at the block.
So none reach oxygen, and the cells use almost no oxygen.
An antibiotic plugs ATP synthase in a bacterium’s plasma membrane while its chain keeps pumping protons out.
What happens to the proton gradient across that membrane?
- A. ✓ It grows
- B. It disappearsThe proton gradient disappears only when pumping stops.
Why: The chain keeps pumping protons out, and the plugged synthase gives them no way back.
So protons pile up and the proton gradient grows.
A researcher gives kidney cells a drug: their oxygen use stops and their NADH piles up.
Which was blocked?
- A. ATP synthaseA blocked synthase leaves the chain passing electrons for a while, still using oxygen and unloading NADH.
- B. ✓ The chain
Why: Oxygen is used only at the end of the chain, and NADH unloads only onto the chain.
Both stopped at once, so the chain itself was blocked.
In a newborn baby’s brown fat, a leak protein lets protons back into the matrix by a route that bypasses ATP synthase.
What happens to the ATP made per glucose in those mitochondria?
- A. ✓ Less ATP is made
- B. More ATP is madeOnly protons passing through ATP synthase make ATP.
Why: Protons returning through the leak bypass ATP synthase.
So fewer protons drive it, and less ATP is made.
A chemical uncoupler lets protons leak across the inner membrane of muscle mitochondria, bypassing ATP synthase.
What happens to the mitochondria’s oxygen use?
- A. It fallsThe chain speeds up when the proton gradient stays small.
- B. ✓ It rises
Why: The leak drains the proton gradient, so pumping protons out against it takes little energy.
The chain passes electrons along faster, so more electrons reach oxygen each minute.
A hibernating mammal’s brown fat switches its leak protein on as the animal wakes.
(a) Explain how the leak warms the animal. (1 pt)
Protons returning through the leak bypass ATP synthase.
A proton returning through the leak gives up its energy as heat instead of making ATP.
The proton gradient keeps draining, so the chain passes electrons faster and uses more fuel and oxygen.
So the brown fat releases heat and warms the animal.
- Award 1 point for: protons returning through the leak bypass ATP synthase, so the proton gradient’s energy leaves as heat; the chain passes electrons faster to rebuild the proton gradient, using more fuel, and the heat warms the animal.
Slip Saying the leak ‘makes energy’. Energy is never made; the proton gradient’s energy leaves as heat instead of being captured in ATP.
Glossary
- uncoupling
- Letting protons cross the inner membrane back into the matrix through a leak protein instead of through ATP synthase, so the energy of the proton gradient is released as heat rather than caught in ATP, and electron transport no longer drives the making of ATP.
- endothermic
- Keeping the body warm from within, using heat the animal’s own cells release. Mammals are endothermic.
APBIO-U03-L19 When there is no oxygen
Photos: Ruth Hartnup, Wikimedia Commons, CC BY 2.0 (dough, resized); Joshua Sheppard, US Department of Defense via Wikimedia Commons, public domain (sprint, cropped and resized).
Here is bread dough rising in a covered bowl, and a sprinter ten seconds into a race.
The bowl has no air inside it, yet the dough keeps rising. The sprinter’s muscles cannot take up oxygen fast enough, yet the legs keep driving.
Without oxygen the electron transport chain stops, and the carriers stay loaded as NADH. So how do the yeast and the muscle keep making ATP?
Unit 3 · Cellular Energetics
1No oxygen, no NAD⁺
Video: Watch: No oxygen, no NAD⁺
A muscle fiber loses its oxygen. Oxygen was taking the electrons off the last protein, so the chain stops. NADH cannot unload and piles up; within seconds almost every NAD⁺ is NADH. Glycolysis needs NAD⁺, so glycolysis halts too.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L19a.mp4
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How does a cell make ATP when there is no oxygen to take the electrons?
Here is the whole answer, in four steps:
- Glycolysis still makes two ATP per glucose, but only while it has empty NAD⁺ to load.
- With the electron transport chain stopped, almost all the NAD⁺ is tied up as NADH. So glycolysis stalls too.
- There is a way round. NADH hands its electrons to pyruvate itself. That frees NAD⁺. So glycolysis keeps going.
- Muscle turns the pyruvate into a molecule that climbs in a sprinter’s legs. Yeast turns the pyruvate into an alcohol and carbon dioxide. That carbon dioxide is what makes the dough rise.
NADH is the loaded form of an electron carrier.
What is the empty form called?
- A. ✓ NAD⁺
- B. FADFAD is the empty form of a different carrier.
Why: NADH unloads its two electrons and becomes NAD⁺ again.
Oxygen sits at the end of the electron transport chain.
What does the oxygen do there?
- A. Hands electrons to the first protein of the chainNADH hands electrons to the first protein; oxygen takes them off the last.
- B. ✓ Takes the electrons off the last protein of the chain
Why: Oxygen is the terminal electron acceptor.
It takes the electrons off the last protein of the chain and becomes water.
Now imagine a muscle fiber that loses its oxygen supply.
Oxygen is the terminal electron acceptor. So with no oxygen, the last protein of the chain has nothing to hand its electrons to.
So no protein can pass its electrons on. The chain stops.
NADH arrives at the chain with nowhere to unload its electrons. So NADH piles up.
Within seconds almost every NAD⁺ in the fiber has been loaded and is now NADH. Almost no empty electron carrier is left.
Glycolysis needs NAD⁺: as glycolysis splits glucose, it hands electrons to NAD⁺.
No NAD⁺ is free. So glycolysis halts too.
So a cell with no oxygen loses more than the chain’s ATP. Unless the cell can turn NADH back into NAD⁺, the cell makes no ATP from glucose at all.
What you are expected to know Explain why a cell with no oxygen cannot keep glycolysis going on its own: the chain stops, almost all its NAD⁺ is tied up as NADH, and glycolysis needs NAD⁺ to accept electrons.
A muscle fiber loses its oxygen supply.
Within seconds, what has happened to the fiber’s NAD⁺?
- A. Nothing has changedGlycolysis keeps loading NAD⁺ with electrons, and the stopped chain no longer empties NADH.
- B. Almost all of it is now empty NAD⁺NADH is emptied back to NAD⁺ only at the chain, and the chain has stopped.
- C. ✓ Almost all of it is now NADH
Why: Glycolysis keeps loading NAD⁺ with electrons, making NADH.
NADH is emptied back to NAD⁺ only at the chain.
The chain has stopped.
So almost every carrier ends up loaded as NADH.
A muscle fiber loses its oxygen supply. Within seconds its electron transport chain has stopped, and soon afterwards glycolysis in the fiber stops as well.
(a) Explain why glycolysis stops. (1 pt)
So glycolysis needs empty NAD⁺.
NADH is emptied back to NAD⁺ only when it hands its electrons to the chain.
The chain has stopped, because no oxygen is there to take the electrons off its end.
So NADH cannot unload.
Within seconds almost every carrier in the fiber is loaded as NADH.
So glycolysis has almost no empty NAD⁺ to hand its electrons to, and glycolysis stops.
- Award 1 point for: glycolysis needs empty NAD⁺ to accept electrons; with the chain stopped, NADH cannot unload, so almost every carrier stays as NADH, so glycolysis has almost no NAD⁺ and stops.
A student says: “Glycolysis stops because glycolysis needs oxygen.”
Which of the following statements about the student’s claim is correct?
- A. The student is correct: glycolysis needs oxygenGlycolysis happens in the cytosol and uses no oxygen at any step.
- B. ✓ The student is wrong: glycolysis uses no oxygen
Why: Glycolysis uses no oxygen at any step.
Glycolysis stops because it needs empty NAD⁺, and with the chain stopped almost every carrier stays loaded as NADH.
A researcher gives isolated mitochondria pyruvate and a limited amount of oxygen. After a few minutes the oxygen is used up.
Which of the following happens to the NADH in the matrix?
- A. ✓ The NADH piles up
- B. The NADH is used upThe chain can oxidize NADH only while oxygen takes electrons off the end, and the oxygen is gone.
- C. The NADH is unchangedThe chain stops when the oxygen is gone, so NADH is no longer being oxidized.
Why: Oxygen takes the electrons off the last protein of the chain.
With no oxygen, the last protein cannot hand its electrons on.
So every protein stays loaded, and no more electrons can pass along the chain.
NADH cannot unload its electrons onto the first protein.
So NADH piles up.
20Fermentation hands the electrons on
Video: Watch: Fermentation hands the electrons on
In the sprinter’s muscle, NADH hands its electrons to pyruvate, making lactate. NAD⁺ is free again, so glycolysis keeps making its two ATP per glucose. Passing NADH’s electrons to an organic molecule like this is fermentation.
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A sprinter’s muscle, ten seconds into a race, is short of oxygen. Yet its ATP holds almost steady. And a molecule called lactate climbs in the muscle, from 1.5 to 8 mmol per liter. Muscle has a way around the stalled chain.
NADH hands its electrons to pyruvate itself, the three-carbon molecule glycolysis made. So NAD⁺ is free again.
Pyruvate carrying those extra electrons is called , the form of lactic acid found in cells. Lactate is the molecule that climbed in the sprinter’s muscle.
Here is the word equation for the lactate-forming step.
The lactate route in words: pyruvate takes the electrons from NADH and becomes lactate; NADH becomes NAD⁺ again
Glycolysis uses the freed NAD⁺ again. So glycolysis keeps making its two ATP per glucose.
When a cell passes the electrons on NADH to an organic molecule like this, freeing the NAD⁺ that glycolysis needs, we call it . Fermentation lets glycolysis keep going when there is no oxygen.
Now consider a red blood cell. A red blood cell has no mitochondria. So it has no electron transport chain.
The red blood cell does the same as the muscle: it hands the electrons on NADH to pyruvate, making lactate. So its glycolysis keeps going for the cell’s whole four months.
The sprinter’s climbing lactate is the sign that fermentation is keeping glycolysis going, and with it the two ATP per glucose.
What you are expected to know Describe how fermentation to lactate frees the NAD⁺ that glycolysis needs.
A resting muscle fiber has plenty of oxygen.
Does the fiber ferment?
- A. YesA cell ferments only when its chain cannot empty NADH.
- B. ✓ No
Why: With plenty of oxygen, the chain is working.
The chain takes the electrons from NADH, so NAD⁺ is freed at the chain.
So the fiber does not need to hand the electrons to pyruvate, and it does not ferment.
A red blood cell has no mitochondria. Oxygen is plentiful around it.
Does the cell ferment?
- A. ✓ Yes
- B. NoThe red blood cell has no mitochondria, so it has no electron transport chain to empty its NADH.
Why: The red blood cell has no mitochondria, so it has no electron transport chain.
Without a chain, NADH can be emptied only by handing its electrons to pyruvate.
So the red blood cell ferments, making lactate, even with oxygen all around it.
During a sprint, lactate climbs in a runner’s muscle while the muscle’s ATP holds steady. A student says: “The lactate-forming step is what makes the muscle’s ATP.”
Which of the following statements about the student’s claim is correct?
- A. The student is correct: the lactate-forming step makes the ATPThe lactate-forming step only moves electrons from NADH to pyruvate; no ATP is made in that step.
- B. ✓ The student is wrong: the lactate-forming step makes no ATP
Why: The lactate-forming step makes no ATP.
It moves electrons from NADH to pyruvate, freeing NAD⁺.
Glycolysis makes the ATP.
During a sprint, lactate climbs in a runner’s muscle while the muscle’s ATP holds steady. The lactate-forming step itself makes no ATP.
(a) Explain why the muscle keeps making ATP while it ferments. (1 pt)
Glycolysis needs empty NAD⁺, because it hands electrons to NAD⁺ as it splits glucose.
The muscle is short of oxygen, so the chain cannot empty NADH.
Instead NADH hands its electrons to pyruvate, making lactate.
That frees NAD⁺ again.
Glycolysis loads the freed NAD⁺ and keeps going.
So glycolysis keeps making its two ATP per glucose, and the muscle’s ATP holds steady.
- Award 1 point for: glycolysis makes the ATP (two per glucose); making lactate hands NADH’s electrons to pyruvate, which frees the NAD⁺ glycolysis needs, so glycolysis keeps going.
A bacterium in yogurt has no electron transport chain at all. It lives in the milk’s sugar with oxygen all around it.
Does the bacterium ferment?
- A. ✓ Yes
- B. NoWith no chain, oxygen cannot take the electrons off NADH; only pyruvate can.
Why: The bacterium has no electron transport chain.
So oxygen cannot take the electrons off its NADH.
NADH can be emptied only by handing its electrons to pyruvate.
So the bacterium ferments, even with oxygen all around it.
37Quick quiz: fermentation and lactate mixed practice
What is fermentation?
- A. Passing the electrons on NADH down the electron transport chain to oxygen, making waterPassing the electrons down the chain to oxygen is what a cell with oxygen does; fermentation hands them to an organic molecule instead.
- B. ✓ Passing the electrons on NADH to an organic molecule such as pyruvate, freeing NAD⁺
- C. Splitting one glucose into two pyruvate molecules in the cytosol, making two ATPSplitting glucose into two pyruvate is glycolysis; fermentation is what frees the NAD⁺ glycolysis needs.
Why: Fermentation passes the electrons on NADH to an organic molecule such as pyruvate.
That frees the NAD⁺ glycolysis needs.
So glycolysis keeps making its two ATP per glucose with no oxygen.
What is lactate?
- A. ✓ The three-carbon molecule made when pyruvate takes the electrons from NADH
- B. The three-carbon molecule glycolysis makes when it splits one glucoseThe three-carbon molecule glycolysis makes is pyruvate; lactate is pyruvate after it has taken NADH’s electrons.
- C. The empty form of the electron carrier that glycolysis needs to loadThe empty carrier is NAD⁺; lactate is a three-carbon molecule.
Why: Pyruvate takes the electrons from NADH.
Pyruvate carrying those extra electrons is lactate, the form of lactic acid found in cells.
A shark’s swimming muscle ferments during a burst of speed, making lactate.
(a) State which molecule fermentation frees for glycolysis. (1 pt)
- Award 1 point for: NAD⁺ (the empty carrier that glycolysis needs).
41Two routes: to lactate or to ethanol
Video: Watch: Two routes: to lactate or to ethanol
In yeast, pyruvate first loses one carbon as carbon dioxide; the two-carbon piece takes the electrons from NADH and becomes ethanol. In muscle, pyruvate itself takes the electrons and becomes lactate, with no gas. Both happen without oxygen: anaerobic.
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Now consider the yeast cells in the bread dough. The covered bowl has no air inside it, so the yeast have no oxygen.
Yeast ferment in two steps.
First pyruvate loses one carbon as carbon dioxide. Then the two-carbon piece left takes the electrons from NADH and becomes an alcohol called .
Here is the word equation for the ethanol route.
The ethanol route in words: pyruvate loses one carbon as carbon dioxide, and the two-carbon piece left takes the electrons from NADH and becomes ethanol
So there are two routes, told apart by their product and their gas:
- To lactate (muscle and many bacteria): the electrons from NADH go to pyruvate itself. The product is lactate. No gas is given off.
- To ethanol (yeast): pyruvate first loses one carbon as carbon dioxide. The electrons from NADH go to the two-carbon piece left. The product is ethanol. Carbon dioxide is given off.
So the gas tells the routes apart. Carbon dioxide given off means the ethanol route; no gas means the lactate route.
Both kinds of fermentation happen with no oxygen at all. A process that happens without oxygen is called : an means without, and aer means air, the oxygen in it.
What you are expected to know Tell the lactate route and the ethanol route apart by their product and their gas.
Yeast cells in bread dough have used up the oxygen in the dough.
Which molecule do the yeast make from pyruvate?
- A. LactateMuscle and many bacteria make lactate; yeast do not.
- B. ✓ Ethanol
Why: Yeast ferment in two steps.
Pyruvate first loses one carbon as carbon dioxide.
Then the two-carbon piece left takes the electrons from NADH and becomes ethanol.
A sprinter’s leg muscle is short of oxygen.
Which molecule does the muscle make from pyruvate?
- A. ✓ Lactate
- B. EthanolMuscle cells make no ethanol; in muscle the electrons from NADH go onto pyruvate itself, making lactate.
Why: In muscle, NADH hands its electrons to pyruvate itself.
Pyruvate carrying those extra electrons is lactate.
Fermentation takes one of two routes: to lactate or to ethanol.
Which route gives off carbon dioxide?
- A. ✓ The ethanol route
- B. The lactate routeThe lactate route keeps all three carbons of pyruvate in lactate, so no gas leaves.
Why: On the ethanol route, pyruvate loses one carbon as carbon dioxide before the two-carbon piece takes the electrons.
On the lactate route, all three carbons stay in lactate, so no gas leaves.
Yeast ferment grape sugar in a sealed vat with no air, making wine.
Which molecule do the yeast make from pyruvate?
- A. LactateYeast make no lactate; the two-carbon piece left from pyruvate takes the electrons and becomes ethanol.
- B. ✓ Ethanol
Why: Yeast ferment by the ethanol route.
Pyruvate loses one carbon as carbon dioxide.
The two-carbon piece left takes the electrons from NADH and becomes ethanol, the alcohol in the wine.
Bacteria in sauerkraut ferment the cabbage’s sugar. No gas is given off.
Which route are the bacteria using?
- A. The ethanol routeThe ethanol route gives off carbon dioxide, and no gas is given off here.
- B. ✓ The lactate route
Why: No gas is given off.
On the lactate route, all three carbons of pyruvate stay in lactate, so no gas leaves.
So the bacteria are using the lactate route.
A leaping frog’s leg muscle is short of oxygen and fermenting.
Which gas, if any, does the muscle’s fermentation give off?
- A. ✓ None
- B. Carbon dioxideMuscle ferments by the lactate route, and all three carbons of pyruvate stay in lactate.
Why: Muscle ferments by the lactate route.
Pyruvate itself takes the electrons from NADH and becomes lactate.
All three carbons stay in lactate, so no gas is given off.
Back to the bread dough rising in its covered bowl with no air inside. Its yeast ferment sugar to ethanol and carbon dioxide, and that carbon dioxide is the gas that lifts the dough.
And back to the sprinter ten seconds into the race, with muscles short of oxygen. The muscle hands NADH’s electrons to pyruvate, making lactate, so glycolysis keeps its NAD⁺ and its two ATP per glucose.
59Quick quiz: ethanol and anaerobic mixed practice
What is ethanol?
- A. The three-carbon molecule made when pyruvate itself takes the electrons from NADHThe three-carbon molecule made when pyruvate itself takes the electrons is lactate.
- B. ✓ The two-carbon alcohol made when the piece left from pyruvate takes the electrons from NADH
- C. The one-carbon gas given off when pyruvate loses a carbon atom in yeastThe gas given off when pyruvate loses a carbon is carbon dioxide.
Why: In yeast, pyruvate first loses one carbon as carbon dioxide.
The two-carbon piece left takes the electrons from NADH.
That two-carbon alcohol is ethanol.
What does anaerobic mean?
- A. Without glucoseA fermenting cell still uses glucose; anaerobic means the process uses no oxygen.
- B. ✓ Without oxygen
- C. Without an electron carrierA fermenting cell still uses NAD⁺; anaerobic says the process uses no oxygen.
Why: An means without, and aer means air, the oxygen in it.
So an anaerobic process is one that happens without oxygen.
Yeast in a sealed bottle of grape juice ferment the sugar with no oxygen.
(a) State the two products the yeast make from pyruvate. (1 pt)
- Award 1 point for: ethanol AND carbon dioxide.
(b) Explain why this fermentation is described as anaerobic. (1 pt)
A process that happens without oxygen is anaerobic.
- Award 1 point for: the fermentation happens without oxygen (an- = without, aer- = air).
63Mixed practice mixed practice
A muscle fiber is short of oxygen and fermenting.
Which of the following does fermentation do for the fiber?
- A. ✓ It frees the NAD⁺ that glycolysis needs
- B. It turns lactate back into glucoseLactate is where the electrons end up; the fiber does not turn it back into glucose.
- C. It lets the electron transport chain work without oxygenThe chain needs a terminal electron acceptor, and it stays stopped without oxygen; fermentation works around the chain rather than restarting it.
- D. It makes ATP as pyruvate becomes lactateThe lactate-forming step itself makes no ATP; it only passes electrons from NADH to pyruvate.
Why: Fermentation passes the electrons on NADH to pyruvate.
So NAD⁺ is empty again.
Glycolysis loads that NAD⁺ and keeps making its two ATP per glucose.
The lactate-forming step itself makes none.
Yeast in a sealed flask of sugar solution have used up the oxygen in the flask.
Over the next seconds, before fermentation starts, what happens to the yeast’s NAD⁺?
- A. Almost all of it stays as empty NAD⁺Glycolysis keeps loading NAD⁺ with electrons, and the stopped chain no longer empties NADH.
- B. ✓ Almost all of it is loaded as NADH
Why: With the oxygen gone, the chain stops.
NADH is emptied back to NAD⁺ only at the chain.
Glycolysis keeps loading NAD⁺ with electrons.
So almost every carrier ends up loaded as NADH.
A cheese bacterium ferments milk sugar to lactate.
Which stage makes the bacterium’s ATP?
- A. The electron transport chainA fermenting bacterium’s chain is not taking the electrons; fermentation works around it.
- B. The lactate-forming stepThe lactate-forming step only moves electrons from NADH to pyruvate; it makes no ATP.
- C. ✓ Glycolysis
Why: Glycolysis makes two ATP for each glucose it splits.
The lactate-forming step makes none; it frees the NAD⁺ that glycolysis needs.
A fish’s swimming muscle is short of oxygen during a burst of speed.
What happens to the lactate concentration in the muscle?
- A. It fallsShort of oxygen, the muscle hands NADH’s electrons to pyruvate, making more lactate, not less.
- B. It stays the sameThe muscle is fermenting, and each pyruvate that takes NADH’s electrons becomes lactate.
- C. ✓ It rises
Why: Short of oxygen, the chain stops.
The muscle hands the electrons on NADH to pyruvate, making lactate.
So the lactate concentration in the muscle rises.
Brewers seal fermenting beer in a tank. Bubbles of gas collect at the top.
Which gas is it?
- A. OxygenFermenting yeast use no oxygen and give off none; the gas comes from pyruvate losing a carbon.
- B. ✓ Carbon dioxide
Why: Yeast ferment by the ethanol route.
Pyruvate loses one carbon as carbon dioxide.
So the gas collecting in the tank is carbon dioxide.
A student says: “Yeast in bread dough use oxygen to make the carbon dioxide that lifts the dough.”
Which of the following statements about the student’s claim is correct?
- A. The student is correct: the carbon dioxide comes from the electron transport chainThe electron transport chain gives off no carbon dioxide; it hands electrons to oxygen and makes water.
- B. ✓ The student is wrong: the carbon dioxide comes from fermentation, which uses no oxygen
Why: The covered bowl has no air, so the yeast have no oxygen.
The yeast ferment: pyruvate loses one carbon as carbon dioxide.
That carbon dioxide lifts the dough, and no oxygen is used.
A student sets up two flasks of yeast in sugar solution. One flask is open to the air. The other flask is sealed, and its yeast soon use up the oxygen inside. After an hour the sealed flask smells of alcohol and the open flask does not.
(a) Explain how the sealed flask demonstrates that fermentation frees the NAD⁺ glycolysis needs. (1 pt)
NADH cannot unload at the chain, so almost all the NAD⁺ is tied up as NADH.
The alcohol shows the yeast are fermenting: the two-carbon piece left from pyruvate takes the electrons from NADH and becomes ethanol.
That empties NADH, so NAD⁺ is free again.
Glycolysis loads that NAD⁺ and keeps making its two ATP per glucose.
- Award 1 point for: the alcohol (ethanol) shows NADH’s electrons were handed to the piece left from pyruvate, which frees NAD⁺, so glycolysis can keep going with the chain stopped.
(b) Predict which gas collects in the sealed flask. (1 pt)
- Award 1 point for: carbon dioxide.
Glossary
- fermentation
- Passing the electrons on NADH to an organic molecule such as pyruvate, which frees the NAD⁺ that glycolysis needs, so glycolysis can keep making its two ATP per glucose without oxygen. The lactate-forming or ethanol-forming step itself makes no ATP.
- anaerobic
- Happening without oxygen. Fermentation is anaerobic.
- lactate (lactic acid)
- The three-carbon molecule made when pyruvate takes the electrons from NADH, as in hard-working muscle and many bacteria. Lactate is the form of lactic acid found in cells.
- ethanol
- The two-carbon alcohol yeast make when pyruvate loses one carbon as carbon dioxide and the piece left takes the electrons from NADH.
APBIO-U03-L19B Two ATP or thirty
Here are two yeast cultures, one with oxygen and one without, and beside them a jar of mud with no oxygen in it.
Each yeast culture grows for ten minutes. The culture with oxygen uses 3 mmol of glucose and makes 90 mmol of ATP. The culture without oxygen uses 12 mmol of glucose and makes only 24 mmol of ATP.
A bacterium from the mud makes 2 ATP per glucose on glucose alone. Given nitrate as well, it makes 12 ATP per glucose, and its culture grows five times as much.
Why does the yield per glucose differ so much? And how can nitrate stand in for oxygen?
Unit 3 · Cellular Energetics
1ATP per glucose
Video: Watch: ATP per glucose
The table of two yeast cultures. ATP per glucose is the ATP made divided by the glucose used: 90 mmol over 3 mmol is 30 with oxygen; 24 mmol over 12 mmol is 2 without.
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How much ATP does a cell get from one glucose, and what decides it?
Here is the whole answer, in four steps:
- With oxygen, the electron transport chain and ATP synthase bring the total to about thirty ATP per glucose.
- Fermenting, the cell gets only the two ATP from glycolysis. So a fermenting cell must use far more glucose for the same ATP.
- Some prokaryotes pass their electrons down a chain that ends at nitrate or sulfate instead of oxygen. The chain still pumps protons. So ATP is still made.
- Nitrate and sulfate are weaker acceptors than oxygen. So the energy drop is smaller. So the yield sits between two and thirty.
Dividing the ATP made by the glucose used tells you which route a culture is using.
A muscle fiber short of oxygen is fermenting, making lactate.
Which step makes the fiber’s ATP?
- A. ✓ Glycolysis
- B. The lactate-forming stepThe lactate-forming step only moves electrons from NADH to pyruvate; it makes no ATP.
Why: Glycolysis makes two ATP for each glucose it splits.
The lactate-forming step only frees NAD⁺ for glycolysis.
The lactate-forming step itself makes no ATP. Glycolysis makes the two ATP per glucose.
Fermentation regenerates NAD⁺, so glycolysis keeps going.
Many books count glycolysis inside fermentation and say that fermentation yields two ATP per glucose.
That ATP is made by glycolysis. Fermentation keeps glycolysis going.
Here is a table of two yeast cultures, each grown for ten minutes: the glucose each used and the ATP each made.
With oxygen: 3 mmol of glucose used, 90 mmol of ATP made. Without oxygen: 12 mmol of glucose used, 24 mmol of ATP made.
The culture with oxygen used 3 mmol of glucose and made 90 mmol of ATP. How many ATP did it make per glucose?
The yeast culture without oxygen was fermenting. The table shows how much glucose it used and how much ATP it made.
Calculate how many ATP the culture without oxygen made per glucose.
Answer: 2 (tolerance ±0)
A culture of gut bacteria kept with no oxygen was breaking glucose down. In an hour it used 7 mmol of glucose and made 14 mmol of ATP.
Calculate how many ATP the culture made per glucose.
Answer: 2 (tolerance ±0)
What you are expected to know Calculate ATP per glucose by dividing the ATP made by the glucose used.
17Two against about thirty
Video: Watch: Two against about thirty
About thirty ATP per glucose with oxygen, two without. The fermenting culture used four times the glucose and still made about a quarter of the ATP, so a fermenting cell must use far more glucose for the same ATP.
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A cell has plenty of oxygen.
Where is most of its ATP made?
- A. In glycolysis, as glucose is splitGlycolysis makes only two ATP per glucose; most of a cell’s ATP is made at ATP synthase.
- B. ✓ At ATP synthase, as protons flow back through it
Why: The chain pumps protons out of the matrix.
The protons flow back through ATP synthase.
That flow drives ATP synthase to make most of the cell’s ATP.
With oxygen, the culture made about thirty ATP per glucose. Without oxygen, the culture made two ATP per glucose.
The culture without oxygen used four times the glucose, 12 mmol against 3 mmol. It still made only 24 mmol of ATP against 90 mmol.
The exact aerobic total varies from cell to cell. Use about thirty, against the two that glycolysis alone gives.
So a fermenting cell must use far more glucose for the same ATP.
What you are expected to know Predict how much more glucose a fermenting cell must use for the same ATP, from two ATP per glucose against about thirty.
A bacterial culture kept without oxygen is fermenting, so it makes 2 ATP per glucose. Over an hour the culture needs 90 mmol of ATP.
Calculate how much glucose the culture must use to make that ATP.
Answer: 45 mmol (tolerance ±0)
Two more yeast cultures were breaking glucose down for ten minutes. The culture without oxygen used 15 mmol of glucose, and the culture with oxygen used 3 mmol.
Calculate how many times as much glucose the culture without oxygen used.
Answer: 5 (tolerance ±0)
During a sprint a muscle’s ATP supply stays steady while its oxygen concentration falls.
What happens to the muscle’s glucose use?
- A. It fallsThe muscle’s ATP still comes from splitting glucose, and each glucose now gives less ATP.
- B. It stays the sameA glucose gives about thirty ATP with oxygen and only two when the muscle ferments.
- C. ✓ It rises
Why: Short of oxygen, the chain has stopped.
So each glucose gives the muscle only glycolysis’s two ATP, instead of about thirty.
The muscle needs the same ATP each second.
So the muscle must split far more glucose each second.
So glucose use rises.
During a sprint a muscle’s ATP supply stays steady while its oxygen concentration falls, and the muscle’s glucose use rises.
(a) Explain why the muscle’s glucose use rises. (1 pt)
Frame Glucose use rises because …
With oxygen, the chain works, and each glucose gives about thirty ATP.
Short of oxygen, the chain has stopped.
So each glucose gives only the two ATP that glycolysis makes.
The muscle needs the same ATP each second as before.
So the muscle must split about fifteen times as much glucose each second to make that ATP.
So its glucose use rises.
- Award 1 point for: each glucose now yields only glycolysis’s two ATP instead of about thirty (the chain has stopped), so to keep its ATP supply steady the muscle must split far more glucose.
29A chain that ends somewhere else
Video: Watch: A chain that ends somewhere else
A bacterium from mud, given nitrate, makes 12 ATP per glucose. Its chain sits in the plasma membrane and hands its electrons to nitrate instead of oxygen; the chain pumps protons and ATP synthase makes ATP. A chain that ends at a molecule other than oxygen is anaerobic respiration.
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A soil bacterium has an electron transport chain.
Where does the chain sit?
- A. ✓ In its plasma membrane
- B. In the inner membrane of a mitochondrionA bacterium is a prokaryote and has no mitochondria; its chain sits in its plasma membrane.
Why: A bacterium is a prokaryote and has no mitochondria.
Its electron transport chain sits in its plasma membrane and pumps protons out across that membrane.
Now consider a bacterium from mud with no oxygen. Given glucose alone, it makes 2 ATP per glucose.
Given glucose and nitrate, the bacterium makes 12 ATP per glucose, uses the nitrate up, and its culture grows five times as much.
Twelve is far more than the two a fermenting cell gets from glycolysis. So a chain must be working.
These bacteria have an electron transport chain set in their plasma membrane. At the end of the chain sits nitrate instead of oxygen.
Nitrate takes the electrons as the terminal electron acceptor. So the chain keeps pumping protons, and ATP synthase keeps making ATP, all with no oxygen.
When a chain ends at a molecule other than oxygen like this, we call it : respiration, because a chain and ATP synthase make the ATP, and anaerobic, because no oxygen is used.
Other prokaryotes use sulfate the same way.
Here is a table comparing fermentation, anaerobic respiration and aerobic respiration: whether oxygen is used, what takes the electrons off NADH, whether the electron transport chain is working, the ATP per glucose, and where each is found.
What you are expected to know Describe anaerobic respiration: an electron transport chain and ATP synthase working with nitrate or sulfate as the terminal electron acceptor.
A bacterium from lake sediment grows with no oxygen. With glucose alone it makes 6 mmol of ATP from 3 mmol of glucose. With glucose and nitrate it makes 36 mmol of ATP from 3 mmol of glucose, and the nitrate is used up.
Which of the following is the nitrate doing?
- A. Releasing oxygen that the chain uses as its acceptorNitrate does not release oxygen.
Nitrate is itself the acceptor: it takes the electrons directly. - B. Speeding up the fermentation of the glucoseA fermenting cell gets only glycolysis’s two ATP per glucose, and this culture made twelve per glucose.
- C. Supplying nitrogen for the bacterium’s proteinsNitrogen taken into proteins would not raise the ATP made per glucose from two to twelve; only a chain working to an acceptor does that.
- D. ✓ Taking the electrons at the end of an electron transport chain
Why: With nitrate the culture made twelve ATP per glucose; without it, two.
Twelve is more than the two a fermenting cell gets from glycolysis, so a chain must be working.
Nitrate is the terminal electron acceptor: the chain ends at nitrate instead of oxygen, and ATP synthase makes ATP.
A bacterium from a hot spring grows with no oxygen. It makes 7 ATP per glucose and uses up nitrate as it grows.
Which of the following processes is the bacterium using?
- A. Fermentation to lactateA fermenting cell gets only glycolysis’s two ATP per glucose, and this bacterium makes seven.
- B. ✓ Anaerobic respiration
- C. Aerobic respirationAerobic respiration needs oxygen as the terminal electron acceptor, and there is no oxygen.
- D. Glycolysis aloneGlycolysis alone gives two ATP per glucose, and this bacterium makes seven.
Why: Seven ATP per glucose is more than the two a fermenting cell gets from glycolysis.
So a chain and ATP synthase are working.
The nitrate that is used up is the terminal electron acceptor of that chain.
A chain that ends at a molecule other than oxygen is anaerobic respiration.
43Quick quiz: anaerobic respiration mixed practice
What is anaerobic respiration?
- A. Respiration in which the electron transport chain ends at oxygen, which becomes waterA chain that ends at oxygen is aerobic respiration.
- B. Passing the electrons on NADH to pyruvate, so that glycolysis can keep going without oxygenPassing NADH’s electrons to pyruvate is fermentation; no chain is working.
- C. ✓ Respiration in which the electron transport chain ends at a molecule other than oxygen, such as nitrate
Why: In anaerobic respiration the electron transport chain is working.
The chain ends at a molecule other than oxygen, such as nitrate or sulfate.
The chain pumps protons and ATP synthase makes the ATP, with no oxygen used.
Some bacteria in waterlogged soil carry out anaerobic respiration with nitrate.
(a) State what the nitrate does in these bacteria. (1 pt)
- Award 1 point for: nitrate is the terminal electron acceptor (takes the electrons at the end of the chain).
46Why the yield sits between
Video: Watch: Why the yield sits between
Oxygen is the strongest acceptor, so a chain ending at oxygen gives the biggest energy drop and pumps the most protons. Nitrate and sulfate are weaker, so the drop is smaller and ATP synthase makes less ATP: more than fermentation’s two, less than the aerobic thirty.
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How much energy the electrons release depends on both ends of the chain.
Oxygen pulls electrons harder than any other acceptor: oxygen is the strongest acceptor. So a chain that ends at oxygen gives the biggest energy drop.
Nitrate and sulfate are weaker acceptors. So a chain that ends at nitrate or sulfate gives a smaller energy drop.
With a smaller energy drop, the chain pumps fewer protons across the membrane. So ATP synthase makes less ATP.
So a chain that ends at nitrate or sulfate yields less ATP per glucose than a chain that ends at oxygen. It still yields more than the two a fermenting cell gets from glycolysis.
What you are expected to know Predict, for a prokaryote whose chain ends at nitrate or sulfate (anaerobic respiration), an ATP yield per glucose above the fermenting cell’s two and below the aerobic thirty.
A bacterium from lake sediment grows with no oxygen. With glucose alone it makes only the ATP that glycolysis gives. With glucose and nitrate it makes several times as much ATP per glucose, and the nitrate is used up.
(a) Explain why the culture given nitrate makes more ATP per glucose than the culture given glucose alone. (1 pt)
It ferments, and glycolysis alone makes its ATP: two per glucose.
With nitrate, the chain has a terminal electron acceptor: nitrate takes the electrons off the end of the chain.
So the chain works and pumps protons across the plasma membrane.
The protons flow back through ATP synthase, and that flow makes ATP.
So the bacterium gains the chain’s ATP on top of glycolysis’s two.
- Award 1 point for: nitrate serves as the terminal electron acceptor, so the electron transport chain works, pumps protons and drives ATP synthase, adding ATP beyond the two that glycolysis gives a fermenting cell.
(b) Explain why the culture given nitrate still makes less ATP per glucose than the same bacterium would with oxygen. (1 pt)
So a chain that ends at nitrate gives a smaller energy drop.
With a smaller energy drop, the chain pumps fewer protons.
So ATP synthase makes less ATP per glucose than it would with oxygen.
- Award 1 point for: nitrate is a weaker acceptor than oxygen, so the energy drop along the chain is smaller and less ATP is made.
Two cultures of a sediment bacterium were breaking glucose down with no oxygen, one given nitrate and one fermenting. Each used 5 mmol of glucose. The culture given nitrate made 60 mmol of ATP; the fermenting culture made 10 mmol.
Calculate how many times as much ATP per glucose the culture given nitrate made.
Part 1. Calculate the ATP per glucose of the culture given nitrate.
Answer: 12 (tolerance ±0)
Part 2. Calculate the ATP per glucose of the fermenting culture.
Answer: 2 (tolerance ±0)
Answer: 6 (tolerance ±0)
Back to the two yeast cultures, one with oxygen and one without. The culture with oxygen made about thirty ATP from each glucose, 90 mmol from 3 mmol; the fermenting culture made two, 24 mmol from 12 mmol.
And back to the bacterium from the mud with no oxygen. Given nitrate, its chain ended at nitrate and ATP synthase made ATP: 12 per glucose instead of the fermenting two.
58Mixed practice mixed practice
Yeast in a sealed wine vat use up their oxygen.
What happens to the ATP each glucose gives the yeast?
- A. ✓ It falls from about thirty to two
- B. It stays at about thirtyWith the oxygen gone the chain stops, so the chain’s ATP is lost and only glycolysis’s two are left.
- C. It rises from two to about thirtyWith oxygen a glucose gave about thirty; fermenting, it gives only glycolysis’s two.
Why: With the oxygen gone, the chain stops.
So ATP synthase makes no more ATP.
Only glycolysis makes ATP: two per glucose instead of about thirty.
A culture of gut bacteria with no oxygen and no nitrate makes 2 ATP per glucose.
Which of the following processes is the culture using?
- A. Aerobic respirationAerobic respiration needs oxygen as the terminal electron acceptor, and there is none.
- B. Anaerobic respirationAnaerobic respiration needs a chain working to nitrate or sulfate, and it would give more than two ATP per glucose.
- C. ✓ Fermentation
Why: Two ATP per glucose is what glycolysis alone gives.
So no chain is working.
A cell making ATP from glycolysis alone, with no oxygen, is fermenting.
A sediment bacterium given sulfate and no oxygen makes 8 ATP per glucose.
Which molecule takes the electrons off the end of its electron transport chain?
- A. ✓ Sulfate
- B. OxygenThere is no oxygen, and the bacterium still makes more than the two ATP of a fermenting cell.
- C. PyruvatePyruvate takes the electrons in fermentation, which gives only two ATP per glucose.
Why: Eight ATP per glucose is more than the two a fermenting cell gets, so a chain is working.
There is no oxygen.
So sulfate is the terminal electron acceptor at the end of the chain.
Two cultures of the same bacterium need the same ATP each hour. One culture has oxygen. The other culture has no oxygen and ferments.
Which culture uses more glucose each hour?
- A. The culture with oxygenThe culture with oxygen gets about thirty ATP from each glucose, so it needs less glucose for the same ATP.
- B. ✓ The culture without oxygen
Why: The culture with oxygen gets about thirty ATP from each glucose.
The fermenting culture gets only two.
Both cultures need the same ATP.
So the culture without oxygen must split far more glucose.
A student says: “A bacterium using nitrate instead of oxygen must get more ATP per glucose than a cell using oxygen.”
Which of the following statements about the student’s claim is correct?
- A. ✓ The student is wrong: oxygen gives the bigger yield
- B. The student is correct: nitrate gives the bigger yieldNitrate is a weaker acceptor than oxygen, so the energy drop along the chain is smaller.
Why: Nitrate is a weaker acceptor than oxygen.
So a chain that ends at nitrate gives a smaller energy drop.
With a smaller drop the chain pumps fewer protons, so ATP synthase makes less ATP per glucose.
A culture of yeast with oxygen was breaking glucose down for ten minutes. It used 4 mmol of glucose and made 116 mmol of ATP.
Calculate how many ATP the culture made per glucose.
Answer: 29 (tolerance ±0)
A brewer measures a yeast culture in a sealed tank. Over an hour the yeast use 40 mmol of glucose and make 80 mmol of ATP.
(a) Explain how these measurements demonstrate that the yeast in the sealed tank were fermenting. (1 pt)
Glycolysis alone gives two ATP per glucose.
With oxygen, the chain and ATP synthase would bring the total to about thirty.
So the chain was not working: the sealed tank had no oxygen.
Only glycolysis was making ATP, kept going by fermentation.
- Award 1 point for: 80 ÷ 40 = 2 ATP per glucose, the yield of glycolysis alone, so the chain was not working and the yeast were fermenting (with oxygen the yield would be about thirty).
(b) Predict how the amount of glucose the yeast use to make the same 80 mmol of ATP changes when air reaches them. (1 pt)
- Award 1 point for: glucose use falls (far less glucose for the same ATP).
(c) Explain your prediction. (1 pt)
The chain pumps protons and ATP synthase makes ATP.
So each glucose gives about thirty ATP instead of two.
The yeast need the same ATP, so they split far less glucose.
- Award 1 point for: with oxygen the chain and ATP synthase work, so each glucose gives about thirty ATP instead of two, so less glucose is needed for the same ATP.
Glossary
- anaerobic respiration
- Respiration in which an electron transport chain ends at a molecule other than oxygen, such as nitrate or sulfate; some prokaryotes do this, gaining more ATP per glucose than fermentation gives but less than oxygen allows.
APBIO-U03-L20 Graph the yeast
Here is a class data table: five sucrose concentrations, the mean carbon dioxide the yeast made in 20 minutes at each, and its standard error. Beside it, a blank pair of axes.
Five groups each put yeast into sucrose solutions of 0.0, 0.2, 0.4, 0.6 and 0.8 M (M is short for mol/L). Each group measured the carbon dioxide the yeast made in 20 minutes, in mL. The twenty-five volumes became five means, 0.5, 6.2, 9.8, 11.9 and 12.4 mL, each with its standard error. The class needs one picture that shows what it found and how sure it can be of it. Which graph, and how do you draw the uncertainty on it?
Unit 3 · Cellular Energetics
1Choose the graph: bars or points
Video: Watch: Bars or points
The class table of five means beside two graphs: three sugars as three bars, and the yeast means as points against sucrose concentration. What was set decides which: separate categories take bars; a measured amount takes points on the x-axis.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L20a.mp4
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How do you choose the right graph for a set of measurements? And how do you show how sure you are of each point?
Here is the whole answer, in five steps:
- What the class set decides the graph.
- Categories, such as three sugars, get a bar graph.
- A measured amount, such as sucrose concentration in M, gets points, joined one to the next or with a straight best-fit line.
- Each point is a mean. Its ±2SE error bar shows the range the true mean is likely to lie in.
- Two bars that do not overlap show a real difference. Two bars that overlap leave the difference unsettled.
Here is a table of the class means: 0.5, 6.2, 9.8, 11.9 and 12.4 mL of carbon dioxide in 20 minutes, one for each sucrose concentration, each with its standard error.
Which graph fits the data depends on what was set: separate categories, or a measured amount.
Glucose, sucrose and lactose, fed to three sets of yeast, are three separate kinds of sugar. No amount runs between them. Separate categories take a bar graph, one bar per category.
Here is the potato graph from Unit 2 again: six single values against sucrose concentration, a measured amount. That graph shows them as points.
The yeast concentrations are measured in M, which is short for mol/L. They run from 0.0 M to 0.8 M, measured amounts too. So the yeast graph shows the means as points against concentration on the x-axis.
What you are expected to know Choose a bar graph for separate categories, and a point graph, with the set quantity on the x-axis, for a measured amount.
A class feeds yeast glucose, sucrose or lactose and measures the carbon dioxide made in 20 minutes.
Which kind of graph fits these results?
- A. ✓ A bar graph, one bar per sugar
- B. Points against the kind of sugar on the x-axisThe kind of sugar is a category, and points are for a measured amount on the x-axis.
Why: Glucose, sucrose and lactose are separate categories.
No amount runs between them.
So each sugar gets its own bar.
A class puts yeast into 0.4 M sucrose at pH 4, 5, 6, 7 and 8 and measures the carbon dioxide made in 20 minutes.
Which kind of graph fits these results?
- A. A bar graph, one bar per pHThe pH is a measured amount, with values running between 4 and 8, and bars are for separate categories.
- B. ✓ Points against pH on the x-axis
Why: The class set the pH.
pH is a measured amount, with values running between 4 and 8.
So the means are plotted as points against pH on the x-axis.
A class tests four brands of dried yeast, each in 0.4 M sucrose, and measures the carbon dioxide made in 20 minutes.
Which kind of graph fits these results?
- A. ✓ A bar graph, one bar per brand
- B. Points against the brand on the x-axisThe brand is a category, and points are for a measured amount on the x-axis.
No amount runs between one brand of yeast and another.
Why: The four brands are separate categories.
No amount runs between them.
So each brand gets its own bar.
14Best-fit line, or joined one to the next
Video: Watch: Which line?
The potato points, which follow one straight trend, get one straight best-fit line. The yeast means, which rise and then level off, are joined one to the next. The three graph choices end up in one table.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L20b.mp4
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Here is the potato graph again. Its six points follow one straight trend. So that graph has one straight best-fit line through them.
A straight best-fit line fits only when the points follow one straight trend. If the points rise and then level off, the means are joined one to the next instead.
Here is a table comparing the three graph choices: a bar graph, points joined one to the next, and points with a straight best-fit line. It shows what was set, the shape the points make, and an example of each.
What you are expected to know Decide whether one straight best-fit line fits the points or the means are joined one to the next.
Here are five yeast means plotted against sucrose concentration.
Which line fits these means?
- A. One straight best-fit lineThese means rise steeply and then level off, so one straight line would miss the low end and the high end.
- B. ✓ A line joining the means one to the next
Why: These means rise steeply and then level off.
So they do not follow one straight trend.
A straight best-fit line fits only when the points follow one straight trend.
So these means are joined one to the next.
Here are a second class’s five yeast means plotted against sucrose concentration.
Which line fits these means?
- A. ✓ One straight best-fit line
- B. A line joining the means one to the nextThese means rise by about the same amount from each concentration to the next, so they follow one straight trend.
Why: These means rise by about the same amount from each concentration to the next.
So they follow one straight trend.
A straight best-fit line fits when the points follow one straight trend.
So one straight best-fit line fits these means.
22The graph: axes, means and error bars
Video: Watch: Axes, means and error bars
The axes drawn and labelled with units, the five means placed, then the 0.2 M bar worked from 5.2 to 7.2 mL and drawn through its mean; the finished graph with its legend, Error bars represent ±2SE.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L20c.mp4
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Here are the axes for the yeast data. Sucrose concentration (M) goes on the x-axis, because it was set. Carbon dioxide made in 20 min (mL) goes on the y-axis, because it was measured. Each label carries its unit.
The scales fit the data. Across: 0.0 to 0.8 M, each concentration placed at its value. Up: 0 to 16 mL, leaving room above the highest mean for its error bar.
Each mean sits at its concentration: 0.5 mL at 0.0 M, 6.2 mL at 0.2 M, 9.8 mL at 0.4 M, 11.9 mL at 0.6 M and 12.4 mL at 0.8 M.
Each of the five means will get a ±2SE error bar.
What does a ±2SE error bar show?
- A. How spread out the five groups’ volumes wereThe spread of the five volumes is what a standard-deviation bar shows; a ±2SE bar is about the mean.
- B. ✓ The range the true mean is likely to lie in
Why: Two standard errors either side of a mean is the range the true mean is likely to lie in.
So a ±2SE bar shows how sure the class can be of that mean.
Each mean gets its error bar: two standard errors above and two below. The bar’s lower end is the mean minus 2SE. Its upper end is the mean plus 2SE.
The mean at 0.2 M is 6.2 mL, with a standard error of 0.5 mL. Where does its ±2SE error bar run?
So the 0.2 M bar runs from 5.2 to 7.2 mL, through its mean. The other four bars are worked out the same way, one concentration at a time.
The mean at 0.0 M is 0.5 mL, with a standard error of 0.2 mL.
Calculate the upper end of its ±2SE error bar.
Part 1. Double the standard error. What is 2SE?
Answer: 0.4 mL (tolerance ±0.05)
Answer: 0.9 mL (tolerance ±0.05)
The mean at 0.4 M is 9.8 mL, with a standard error of 0.6 mL.
Calculate the upper end of its ±2SE error bar.
Part 1. Double the standard error. What is 2SE?
Answer: 1.2 mL (tolerance ±0.05)
Answer: 11 mL (tolerance ±0.05)
The mean at 0.8 M is 12.4 mL, with a standard error of 0.8 mL.
Calculate the upper end of its ±2SE error bar.
Answer: 14 mL (tolerance ±0.05)
Here is the finished graph. The means are joined one to the next. One line inside the frame says what the bars are: “Error bars represent ±2SE”.
That line is the graph’s legend, the key that names what is plotted. A graph with two sets of points would name each set. This graph has one set of points, and its bars, to name.
What you are expected to know Describe a finished graph of means with ±2SE error bars, and calculate the two ends of each bar from its mean and standard error.
Here is a student’s yeast graph.
Which of the following must be added before the error bars can be read?
- A. How many groups measured the gasThe number of groups behind each mean is not what a reader needs in order to read a bar.
- B. The standard deviation of each set of readingsThese bars are two standard errors, which show how sure each mean is; a standard-deviation bar would show something else.
- C. ✓ A legend saying what the error bars represent
- D. Nothing is missing; the bars can be read as drawnA bar cannot be read as drawn: its length means nothing until the graph says what it represents.
Why: The graph must say what the bars represent, here “Error bars represent ±2SE”.
A bar of the same length could be a standard deviation or ±2SE, and the two mean different things.
With the legend, a reader knows the bars show how sure each mean is.
38Read it: the trend
Video: Watch: The trend
The finished yeast graph read from the legend outward: the bars are ±2SE, and the means rise steeply from 0.0 to 0.4 M and then level off.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L20d.mp4
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First, read the legend: these bars are ±2SE, the range each true mean is likely to lie in.
Two means each have a ±2SE bar, and the two bars overlap.
What does the overlap tell you?
- A. ✓ The data do not show a difference between the means
- B. The two true means must be equalOverlapping bars fail to show a difference; they do not show that the two means are equal.
Why: When two ±2SE bars overlap, the true means could be the same or could differ a little.
So the data do not show a difference.
So the overlap rule applies here.
Then read the trend. Carbon dioxide rises steeply from 0.0 to 0.4 M, then levels off: 9.8, 11.9 and 12.4 mL climb only a little.
What you are expected to know Describe, from a graph with ±2SE bars, the trend and where it levels off.
Here is another class’s graph of five yeast means, on a grid with a line every 1 mL.
At which concentration does the plateau begin?
- A. 0.2 MFrom 0.2 to 0.4 M the mean still climbs, from 7 to 11 mL, read on the y-axis.
- B. ✓ 0.4 M
- C. 0.6 MThe mean at 0.6 M is 11 mL, read on the y-axis, the same as the mean at 0.4 M; the rise had already stopped at 0.4 M.
Why: From 0.0 to 0.2 M the mean climbs from 2 to 7 mL, read on the y-axis.
From 0.2 to 0.4 M the mean climbs from 7 to 11 mL.
From 0.4 M on the mean stays at 11 mL.
So these means stop rising from 0.4 M on.
46Which pairs differ: the overlap rule
Video: Watch: Which pairs differ
The 0.2 M and 0.4 M bars, 5.2 to 7.2 mL and 8.6 to 11.0 mL, with a gap between them: a real difference. The 0.6 M and 0.8 M bars, 10.5 to 13.3 mL and 10.8 to 14.0 mL, overlapping: no difference shown, which is not the same as the same.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L20e.mp4
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The 0.2 M bar runs from 5.2 to 7.2 mL and the 0.4 M bar from 8.6 to 11.0 mL. The bars do not overlap. So more sucrose made more gas between these two concentrations; the difference is unlikely to be chance.
The 0.6 M bar runs from 10.5 to 13.3 mL and the 0.8 M bar from 10.8 to 14.0 mL. The bars overlap. So the data do not show a difference between these two concentrations.
Overlapping bars mean “no difference shown”, not “the same”. The class cannot claim that 0.8 M made more gas than 0.6 M. The class also cannot claim the two made the same.
What you are expected to know Use bar overlap to say which pairs of conditions the data show to differ.
Here is the class graph with the ends of the ±2SE bars printed.
Do the 0.2 M and 0.4 M bars overlap?
- A. YesOverlap is decided by the ends of the bars: the 0.2 M bar ends at 7.2 mL and the 0.4 M bar starts at 8.6 mL.
- B. ✓ No
Why: The 0.2 M bar reaches up to 7.2 mL.
The 0.4 M bar starts at 8.6 mL.
There is a gap between 7.2 and 8.6 mL.
So the bars do not overlap.
Here is the same graph.
Do the 0.4 M and 0.6 M bars overlap?
- A. ✓ Yes
- B. NoOverlap is decided by the ends of the bars, not by the gap between the means.
Why: The 0.4 M bar reaches up to 11.0 mL.
The 0.6 M bar starts at 10.5 mL.
So the two bars share the range 10.5 to 11.0 mL, and they overlap.
Here is the class graph with the ends of the ±2SE bars printed. The 0.6 M and 0.8 M bars overlap.
(a) Explain what the overlapping bars tell the class about the gas made at 0.6 M and at 0.8 M. (1 pt)
The 0.6 M bar runs from 10.5 to 13.3 mL and the 0.8 M bar from 10.8 to 14.0 mL: they overlap.
So the true mean at 0.6 M could be as large as the true mean at 0.8 M, or larger.
So the difference between the two class mean volumes could be chance.
So the data show no difference between the gas made at 0.6 M and at 0.8 M.
- Award 1 point for: the ±2SE bars at 0.6 M and 0.8 M overlap, so the true means could be the same or the other way round; the difference between the class means could be chance, so the data do not show a difference.
A student looks at the 0.6 M and 0.8 M bars and says: “The bars overlap, so the two concentrations made the same amount of gas.”
Which of the following statements about the student’s claim is correct?
- A. The student is correct: overlapping bars show the same amountOverlapping bars do not show that two means are equal.
- B. ✓ The student is wrong: overlapping bars show no difference
Why: Overlapping ±2SE bars mean the true means could be the same or could differ a little, and these readings cannot tell which.
So the data show no difference.
That is not the same as showing that the two made the same amount.
Back to the class table: five means, 0.5, 6.2, 9.8, 11.9 and 12.4 mL of carbon dioxide in 20 minutes, each with its standard error. The class plotted them as points against sucrose concentration, joined one to the next, each with its ±2SE bar.
The means rise steeply and then level off past 0.4 M. The bars at 0.6 and 0.8 M overlap, so the class cannot claim more sugar made more gas there.
58Mixed practice mixed practice
A class puts yeast into 0.4 M sucrose at 10, 20, 30 and 40 °C and measures the carbon dioxide made in 20 minutes at each temperature.
Which kind of graph fits these results?
- A. A bar graph, one bar per temperature10 to 40 °C is a measured amount, with temperatures running between the values; it is not a set of separate categories.
- B. A bar graph, one bar per tube of yeastThe tubes at one temperature become one mean; each temperature was set and its gas measured.
- C. Means plotted as points against carbon dioxide on the x-axisThe quantity that was set goes on the x-axis and the quantity measured on the y-axis, and the carbon dioxide was measured.
- D. ✓ Means plotted as points against temperature on the x-axis
Why: The class set the temperature, and temperature is a measured amount.
So the means are plotted as points against temperature on the x-axis.
The gas was measured, so the gas goes up the y-axis.
Here is the yeast graph with both axis labels left blank.
Which pair of labels is correct?
- A. x-axis: carbon dioxide made in 20 min (mL); y-axis: sucrose concentration (M)Sucrose concentration was set, so it goes on the x-axis; the gas was measured, so it goes on the y-axis.
- B. ✓ x-axis: sucrose concentration (M); y-axis: carbon dioxide made in 20 min (mL)
- C. x-axis: sucrose concentration; y-axis: carbon dioxide made in 20 minA reader cannot tell 12 mL from 12 L without units; every axis label carries its unit in brackets.
- D. x-axis: sucrose concentration (mL); y-axis: carbon dioxide made in 20 min (M)Concentration is measured in M and a volume of gas in mL, not the other way round.
Why: The set quantity, sucrose concentration (M), goes across.
The measured quantity, carbon dioxide made in 20 min (mL), goes up.
Each label carries its unit.
Another class’s mean at 0.6 M is 10.6 mL, with a standard error of 0.4 mL.
Calculate the upper end of its ±2SE error bar.
Answer: 11.4 mL (tolerance ±0.05)
Another class’s mean at 0.4 M is 8.0 mL, with a standard error of 0.5 mL.
Calculate the lower end of its ±2SE error bar.
Answer: 7 mL (tolerance ±0.05)
Here is another class’s yeast graph: three means with their ±2SE error bars, on a grid with a line every 1 mL.
Read the mean at 0.4 M from the graph, to the nearest 0.5 mL.
Answer: 9.5 mL (tolerance ±0.5)
Here is another class’s graph, with the two ends of the ±2SE bars printed.
Do the two bars overlap?
- A. ✓ The bars overlap
- B. The bars do not overlapOverlap is decided by the ends of the bars, not by the gap between the means.
Why: The 0.4 M bar starts at 5.6 mL.
The 0.2 M bar reaches 5.9 mL.
So the two bars share the range 5.6 to 5.9 mL: they overlap.
Here is another class’s graph, with the two ends of the ±2SE bars printed. The two bars overlap.
(a) Explain what the overlap means for the two means. (1 pt)
Each ±2SE bar is the range in which the true mean is likely to lie.
The two ranges share values.
So the two true mean volumes could be the same, or could differ a little.
These readings cannot tell which.
So the data do not show a difference between the two mean volumes.
- Award 1 point for: overlapping ±2SE bars mean the true means could be the same or could differ a little, so the data do not show a difference between the two means.
Here is a class graph whose legend says the bars represent ±2SE. The bars at 0.4 M and 0.6 M overlap.
Which conclusion do the overlapping bars support?
- A. The two concentrations made the same amount of gasOverlapping bars show that no difference has been demonstrated; they do not show the two are equal.
- B. ✓ The data do not show a difference between the two concentrations
- C. The concentration with the higher mean made more gasEach true mean could sit anywhere in its bar, and the bars overlap, so the higher mean may be chance.
- D. The readings at the two concentrations were equally spread out±2SE bars show how sure each mean is, not how spread out the readings were.
Why: Overlapping ±2SE bars mean the true means could be the same or could differ a little.
These readings cannot tell which.
So the data do not show a difference.
Another class’s five yeast means are plotted below.
Which line fits these means?
- A. A line joining the means one to the nextJoining one mean to the next is for means with no straight trend.
These five means rise by about the same amount from each concentration to the next. - B. One straight line from the corner of the graphThe graph’s corner is where both axes read zero, and the 0.0 M mean is 2.0 mL, above it.
A best-fit line follows the means, not the corner. - C. A line through the first and last points onlyA line through the first and last points ignores the three means between them.
A best-fit line is placed to sit as close as it can to all five. - D. ✓ One straight best-fit line through all five
Why: These five means rise by about the same amount from each concentration to the next.
So the five means follow one straight trend.
A straight best-fit line fits when the points follow one straight trend.
So one straight best-fit line fits all five.
Another class’s 0.2 M mean is 6.0 mL with a standard error of 0.4 mL, and its 0.4 M mean is 7.9 mL with a standard error of 0.5 mL.
Calculate the gap between the upper end of the 0.2 M bar and the lower end of the 0.4 M bar.
Answer: 0.1 mL (tolerance ±0.05)
Here is the class graph with the ends of the ±2SE bars printed.
For which of the following pairs of concentrations do the data show no difference in the gas made?
- A. 0.0 M and 0.2 MThe 0.0 M bar lies below 1 mL and the 0.2 M bar starts at 5.2 mL, so the bars do not overlap: the data show a difference.
- B. 0.2 M and 0.6 MThe 0.2 M bar reaches 7.2 mL and the 0.6 M bar starts at 10.5 mL, so the bars do not overlap: the data show a difference.
- C. 0.2 M and 0.8 MThe 0.2 M bar reaches 7.2 mL and the 0.8 M bar starts at 10.8 mL, so the bars do not overlap: the data show a difference.
- D. ✓ 0.4 M and 0.8 M
Why: The 0.4 M bar reaches 11.0 mL and the 0.8 M bar starts at 10.8 mL.
The two bars share the range 10.8 to 11.0 mL, so they overlap.
Overlapping bars show no difference.
Every other pair here has a gap between its bars.
APBIO-U03-L20B From the gas back to the pathway
Here is one of the class’s yeast tubes: sealed, its oxygen gone, and carbon dioxide still bubbling out of the solution.
The yeast tubes were sealed. The little oxygen dissolved in the solution was gone within minutes. Yet carbon dioxide kept coming for the rest of the 20 minutes. Which stage of respiration made that carbon dioxide once the oxygen was gone?
Unit 3 · Cellular Energetics
1From the gas back to the pathway
Video: Watch: From the gas back to the pathway
The sealed yeast tube. Oxygen is taken only at the end of the electron transport chain, so it is gone within minutes; after that the carbon dioxide comes from pyruvate losing a carbon on the way to ethanol. Each gas traced back to its stage.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L20Ba.mp4
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How do you work out what a cell is doing from the gas it gives off or takes in?
Here is the whole answer, in four steps:
- Each gas belongs to a stage.
- Only the end of the electron transport chain uses oxygen.
- Pyruvate oxidation, the Krebs cycle and fermentation to ethanol each give off carbon dioxide.
- So carbon dioxide made after the oxygen is gone must have come from fermentation.
Yeast in a sealed tube use up the little oxygen dissolved in the solution.
Where in respiration is that oxygen used?
- A. In glycolysis, in the cytosolGlycolysis splits glucose into two pyruvate and uses no oxygen.
- B. In the Krebs cycle, in the matrixThe Krebs cycle passes its electrons to NAD⁺ and FAD, not to oxygen.
- C. ✓ At the end of the electron transport chain
Why: Oxygen is the terminal electron acceptor.
It takes the electrons off the end of the electron transport chain and becomes water.
So oxygen is used only there.
With no oxygen, yeast ferment pyruvate to ethanol.
Which gas does that fermentation give off?
- A. OxygenOxygen is taken up at the end of the chain; respiration never gives it off.
- B. ✓ Carbon dioxide
- C. No gasPyruvate has three carbons and ethanol has two, and the carbon that leaves goes as carbon dioxide.
Why: Pyruvate has three carbons.
Ethanol has two.
The carbon that leaves goes as carbon dioxide.
So fermentation to ethanol gives off carbon dioxide.
The tubes were sealed. The little oxygen dissolved in the solution was used up in the first minutes, at the end of the electron transport chain. After that the yeast fermented.
So most of the gas the class measured is the carbon dioxide yeast give off as pyruvate loses a carbon on the way to ethanol. Glycolysis itself gives off no carbon dioxide.
The little gas made while the oxygen lasted came from pyruvate oxidation and the Krebs cycle, the two stages that release carbon dioxide when oxygen is present.
Here is the class graph again: carbon dioxide made in 20 minutes against sucrose concentration in M, which is short for mol/L.
More sucrose fed glycolysis faster, so more pyruvate lost its carbon, up to 0.4 M. Past 0.4 M the yeast could use the extra sugar no faster. So the means level off.
You read any change to a sealed tube the same way, from the gas back to the pathway: which stage makes or uses that gas, and what the change does to that stage.
A poison on the chain, no oxygen, a warmer bath, more sugar: you predict each change by naming the stage it acts on and following the effect through to the gas that is measured.
What you are expected to know Explain, from gas readings on a graph with error bars, which pathway the cell used and why the gas changed, and predict the effect of a named change stage by stage.
The yeast tubes were sealed, and the little oxygen dissolved in the solution was gone within minutes. Carbon dioxide kept coming for the rest of the 20 minutes.
Which of the following processes made most of the carbon dioxide the class measured?
- A. GlycolysisGlycolysis splits glucose into two pyruvate and releases no carbon dioxide.
- B. The Krebs cycleThe Krebs cycle needs NAD⁺ that the chain has emptied, and the chain needs oxygen, which was gone within minutes.
- C. ✓ Fermentation to ethanol
- D. The electron transport chainThe chain uses oxygen and makes water; it releases no carbon dioxide at all.
Why: Once the oxygen was gone, the yeast fermented.
Each pyruvate lost one carbon as carbon dioxide on the way to ethanol.
That gas is what the class collected for the rest of the 20 minutes.
The yeast tubes were sealed. The little oxygen dissolved in the solution was gone within minutes, and fermentation to ethanol made most of the carbon dioxide the class measured.
(a) Explain why the yeast fermented for most of the 20 minutes. (1 pt)
The tubes were sealed, so the little dissolved oxygen was used up within minutes.
With no oxygen, the chain stopped, so NADH could not be emptied back to NAD⁺.
Glycolysis needs NAD⁺.
So the yeast passed NADH’s electrons to the two-carbon piece left from pyruvate, making ethanol and regenerating NAD⁺.
So glycolysis kept splitting glucose, and the yeast fermented for the rest of the 20 minutes.
- Award 1 point for: the yeast in the sealed tubes used up the oxygen, so the chain stopped and NADH could not be emptied; the yeast regenerated NAD⁺ by passing NADH’s electrons to pyruvate’s two-carbon piece (making ethanol), so glycolysis kept splitting glucose.
Here is the class graph again, with the ends of the ±2SE bars printed. The tubes were sealed, and the oxygen was gone within minutes.
Which of the following statements about the gas made past 0.4 M is correct?
- A. Past 0.4 M the yeast used up the oxygen, so the Krebs cycle stopped making gasThe oxygen was gone within minutes in every tube, whatever the concentration; the gas came from fermentation throughout.
- B. Past 0.4 M more sucrose made more gas, because the 0.8 M mean is the largestThe 0.6 M and 0.8 M bars overlap, so the data do not show that 0.8 M made more gas.
- C. ✓ Past 0.4 M the data show no further rise; the yeast fermented the extra sugar no faster
- D. Past 0.4 M the yeast switched from fermentation to the Krebs cycle, so less gas was madeThe Krebs cycle needs the chain to unload NADH, and the chain needs oxygen; with none, the yeast fermented throughout.
Why: The 0.6 M and 0.8 M bars overlap, so the data show no further rise past 0.4 M.
The pathway explains it: glycolysis was already splitting glucose as fast as it could.
So the yeast could ferment the extra sugar no faster, and no more carbon dioxide came off.
Back to the yeast tubes that the class sealed: the oxygen was gone within minutes, and carbon dioxide kept coming for the rest of the 20 minutes. That gas was the carbon dioxide yeast give off as they ferment pyruvate to ethanol.
19Practice mixed practice
Germinating pea seeds were sealed in tubes fitted with a gas gauge. A chemical in each tube absorbed the carbon dioxide the seeds gave off, so the gauge showed oxygen use alone. Five tubes sat at 10 °C and five at 20 °C. Oxygen used in 20 minutes: mean 0.42 mL (standard error 0.03 mL) at 10 °C and mean 0.95 mL (standard error 0.05 mL) at 20 °C. The graph shows the two means with error bars that represent ±2SE.
(a) Explain why the amount of oxygen in the tubes fell. (1 pt)
Oxygen takes the electrons that came from the seeds’ stored food, together with hydrogen ions, and becomes water.
So oxygen is used up as the seeds respire.
- Award 1 point for: oxygen accepts the electrons at the end of the electron transport chain (and becomes water), so it is used up as the seeds respire.
- Accept: oxygen is the final electron acceptor of respiration, stated with the chain named.
Slip Saying oxygen supplies the energy or makes the ATP. Oxygen only takes the electrons off the end of the chain; the energy came from the food.
(b) Support the claim that the peas at 20 °C used more oxygen than the peas at 10 °C, using the error bars. (1 pt)
The ±2SE bars do not overlap, so the difference is very unlikely to be chance: the peas at 20 °C used more oxygen.
- Award 1 point for: the evidence (the ±2SE error bars, 0.36–0.48 mL and 0.85–1.05 mL, do not overlap) AND the reasoning that links it to the claim: so the difference is very unlikely to be chance, and the peas at 20 °C used more oxygen.
- Accept: the bars stated as “do not overlap” with the conclusion that the difference is unlikely to be chance.
Slip Comparing the two means alone. The claim rests on the bars: only because they do not overlap can the class say the difference is real.
(c) Explain why the peas at 20 °C used more oxygen. (1 pt)
Warming a solution makes its molecules move faster.
So enzyme and substrate collide more often and with more energy.
So glycolysis, the Krebs cycle and the chain each break down more food a minute at 20 °C.
More electrons reach the end of the chain each minute.
So the peas take up oxygen faster.
- Award 1 point for: respiration is enzyme-catalyzed and its enzymes work faster at 20 °C (more frequent, more energetic collisions), so electrons reach oxygen faster and more oxygen is used.
- Accept: a faster rate of respiration at the warmer temperature, explained through the enzymes or the collisions.
Slip Writing “warmer means more energy” and stopping. The point needs the mechanism, faster enzyme-catalyzed reactions, followed through to more oxygen used.
(d) Predict what the gauge would show for a tube of peas that had been boiled and then kept at 20 °C, and justify your prediction. (2 pt)
Boiling denatures the peas’ enzymes and kills the cells.
So glycolysis, the Krebs cycle and the electron transport chain stop.
No electrons arrive at the end of the chain.
So oxygen is no longer taken up.
- Award 1 point for: the prediction that the boiled peas use little or no oxygen (the gauge stays almost still).
- Award 1 point for: the justification that boiling denatures the enzymes of respiration, so the chain stops and no electrons reach oxygen.
Slip Predicting the reading changes without saying why, or predicting faster oxygen use because the peas were heated. Boiled peas have denatured enzymes, so respiration has stopped.
APBIO-U03-P35 Practice questions: Topic 3.5
Answer every question. For each multiple-choice question, pick one option and press Check; the feedback gives the reasoning. For the free-response questions, write one short sentence per step of your reasoning, in order, and show any calculation. In the exam, write the steps as a paragraph: a bulleted list is not scored. The first free-response question walks you through the reasoning one part at a time, and you can open a hint for each part; the second and third are at the level of the test. When you finish a question, open the scoring guide and mark your own work against it. Error bars in these questions are ±2SE.
Video: Watch first: Topic 3.5 summary: cellular respiration
Glycolysis, pyruvate oxidation and the Krebs cycle send carbons out as carbon dioxide and load the carriers; the chain pumps protons and ATP synthase makes most of the ATP; the energy not caught as ATP leaves as heat.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-T35-summary.mp4
Video file not found on this machine: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-T35-summary.mp4
A student wants to show that slices of carrot root, a plant organ with no chloroplasts, respire. The student seals the slices in a clear jar with an oxygen sensor and a carbon dioxide sensor and leaves the jar for two hours.
Which of the following results would show that the root cells are respiring?
- A. The oxygen rises and the carbon dioxide fallsOxygen rising with carbon dioxide falling is the signature of photosynthesis, and root cells have no chloroplasts.
- B. ✓ The oxygen falls and the carbon dioxide rises
- C. The oxygen and the carbon dioxide both fallA respiring cell gives carbon dioxide out; the carbon dioxide in the jar would rise, not fall.
- D. The oxygen stays the same and the carbon dioxide risesOxygen unchanged with carbon dioxide rising is the signature of fermentation, which uses no oxygen; cellular respiration uses oxygen as the terminal electron acceptor.
Why: Oxygen is the terminal electron acceptor, so a respiring cell takes oxygen in.
Glucose’s carbons leave as carbon dioxide, so it gives carbon dioxide out.
Every living cell respires, chloroplasts or not.
So respiring root cells make the oxygen fall and the carbon dioxide rise.
In the cytosol, an enzyme of glycolysis removes two electrons (with hydrogen) from a three-carbon molecule, and NAD⁺ picks them up, becoming NADH. The enzyme comes out of the reaction unchanged.
Which of the following describes NAD⁺?
- A. An enzyme: a protein that speeds the reaction up without being changed by itNAD⁺ is not a protein, and NAD⁺ is changed by the reaction: it becomes NADH.
The enzyme is the protein that speeds the reaction up. - B. A protein of the electron transport chain, set in the inner membrane of the mitochondrionThe chain’s proteins are set in the inner membrane and pass electrons along it.
NAD⁺ is a small molecule that picks electrons up from the reaction. - C. A product of the reaction: the three-carbon molecule the enzyme has changedThe product is what the three-carbon molecule becomes.
NAD⁺ is a separate small molecule that carries the electrons away. - D. ✓ A coenzyme: a non-protein molecule that works alongside the enzyme and takes part in the reaction
Why: An enzyme is a protein that speeds a reaction up, unchanged.
NAD⁺ is not a protein and does not speed the reaction up.
NAD⁺ takes part in the reaction: it picks up the two electrons and becomes NADH.
A non-protein molecule that works alongside an enzyme is called a coenzyme.
In a muscle fiber short of oxygen, NADH hands its two electrons (traveling with hydrogen) to pyruvate, which becomes lactate.
Which molecule is oxidized?
- A. ✓ NADH
- B. PyruvatePyruvate gains the electrons, and gaining electrons is reduction.
- C. LactateLactate is the product made when pyruvate gains the electrons; lactate is not a reactant in this step.
- D. NAD⁺NAD⁺ is what NADH becomes after it has lost its electrons; NAD⁺ is the product of the oxidation, not the molecule oxidized.
Why: Oxidation is losing electrons, reduction gaining them; the two happen together.
NADH hands its electrons to pyruvate, so NADH loses electrons: NADH is oxidized, and becomes NAD⁺.
Pyruvate gains those electrons, so pyruvate is reduced, and becomes lactate.
NAD⁺ is the empty carrier that glycolysis can load again.
A researcher breaks yeast cells open and removes every mitochondrion, leaving only the cytosol fluid. The researcher seals this fluid in a tube with glucose, ADP, Pi and NAD⁺ under pure nitrogen. Within minutes the tube holds pyruvate, ATP and NADH.
What does this result show about glycolysis?
- A. Glycolysis needs oxygen, so some must have dissolved in before the tube was sealedGlycolysis uses no oxygen at any step.
Oxygen is used only later, at the end of the electron transport chain in the mitochondria. - B. Glycolysis happens in the matrix, so a few mitochondria must have stayed in the fluidEvery mitochondrion had been removed, and the pathway still went ahead.
The matrix is where pyruvate is oxidized and the Krebs cycle turns, after glycolysis has finished. - C. ✓ Glycolysis happens entirely in the cytosol and at no step uses oxygen
- D. Glycolysis releases carbon dioxide, which is what filled the gas space above the fluidGlycolysis releases no carbon dioxide.
One six-carbon glucose becomes two three-carbon pyruvates, and all six carbons are still there.
Why: Glycolysis splits glucose into two pyruvates, making a net two ATP and two NADH, and uses no oxygen.
The fluid had no mitochondria and no oxygen, yet it still made pyruvate, ATP and NADH from glucose.
So glycolysis happens in the cytosol and needs neither mitochondrion nor oxygen.
Three batches of artificial vesicles hold only ATP synthase, ADP and phosphate: no fuel and no electron transport chain. Inside every vesicle the pH is 7.5. A researcher keeps the outside of one batch at pH 7.5, of a second batch at pH 6.5 and of a third batch at pH 5.5.
Which batch forms ATP fastest, and why?
- A. ✓ The batch with pH 5.5 outside, because the proton gradient across its membrane is the steepest, so protons flow fastest through ATP synthase
- B. The batch with pH 7.5 outside, because with the same pH on both sides nothing disturbs ATP synthaseWith the same pH on both sides there is no proton gradient.
With no proton gradient, no protons flow through ATP synthase, and almost no ATP forms. - C. The batch with pH 6.5 outside, because a moderate proton gradient suits ATP synthase best and too many protons outside block itNothing blocks ATP synthase at pH 5.5 outside.
The steeper the proton gradient, the faster protons flow through ATP synthase and the faster ATP forms. - D. All three batches at the same rate, because ATP synthase alone makes ATP whatever the pH outsideATP synthase makes no ATP by itself.
The energy comes from protons flowing through it down a proton gradient, and the pH 7.5 batch has no proton gradient.
Why: The three batches differ only in their proton gradient.
pH 5.5 outside is a hundred times more protons than pH 7.5: the steepest proton gradient.
So protons flow into its vesicles fastest, through ATP synthase.
That flow drives ATP formation, so the pH 5.5 batch forms ATP fastest.
The figure shows a mitochondrion in cross-section, inside a cell. Four positions are numbered.
Which number marks the fluid in which the Krebs cycle happens?
- A. 1Number 1 ends on the outer membrane, the smooth boundary of the whole mitochondrion.
A membrane is not a fluid, and no Krebs cycle enzyme is set in it. - B. 2Number 2 ends in the intermembrane space, the fluid between the two membranes.
Protons pile up there, but the Krebs cycle’s enzymes are in the matrix. - C. ✓ 3
- D. 4Number 4 ends on a fold of the inner membrane, which holds the electron transport chain and ATP synthase.
A membrane is not a fluid.
Why: Number 3 sits in the matrix, the fluid the inner membrane encloses.
The Krebs cycle’s enzymes are dissolved in that fluid.
Numbers 1, 2 and 4 are the outer membrane, the intermembrane space and the inner membrane: none of them holds the Krebs cycle.
A bacterium from pond water, which has no mitochondria, is growing on glucose and taking up oxygen. The water just outside its plasma membrane is at pH 6.5 and its cytosol is at pH 7.6. A researcher adds a poison that blocks the bacterium's electron transport chain. Within a minute the water outside is at pH 7.4 and the cytosol is at pH 7.4.
Which of the following explains the change in the two pH values?
- A. The blocked chain pumps protons the other way, from the water outside into the cytosolA blocked chain pumps no protons in either direction.
Inward pumping would carry the cytosol below the outside pH; instead the two pH values became equal. - B. The bacterium switches to fermentation, and the lactate it releases neutralizes the water outsideLactate is an acid, so releasing it would lower the outside pH, not raise it.
The outside pH fell to 6.5 because the chain pumped protons out. - C. ATP synthase in the plasma membrane starts pumping protons into the cell to make up for the chainATP synthase does not pump protons; protons flow through it down their proton gradient, into the cell, and that flow makes ATP.
- D. ✓ The chain in the plasma membrane has stopped pumping protons out of the cell, so the protons outside flow back in
Why: A prokaryote’s chain sits in its plasma membrane.
The chain pumps protons out: pH 6.5 outside, pH 7.6 inside.
The poison stops the electrons, so pumping stops.
Protons outside flow back in through ATP synthase, unreplaced.
So the difference in proton concentration shrinks until both sides are at pH 7.4.
Which of the following animals warms itself from within, using brown fat?
- A. A shark in cold waterA shark is a fish.
Fish take their body temperature from the water around them and have no brown fat. - B. ✓ A newborn seal pup on the ice
- C. A tortoise on a sunny rockA tortoise is a reptile.
Reptiles take their body temperature from their surroundings: a tortoise warms up in the sun, not from within. - D. A toad in a cold ditchA toad is an amphibian.
Amphibians take their body temperature from their surroundings and have no brown fat.
Why: Mammals keep their bodies warm from within: they are endothermic.
A seal is a mammal, and a newborn mammal carries brown fat.
The proton leak in its brown fat turns the proton gradient’s energy into heat.
Fish, amphibians and reptiles take their body temperature from their surroundings.
A bacterium from waterlogged rice-paddy soil is grown on glucose with no oxygen. With dissolved iron(III) ions added, it makes 9 ATP per glucose and the iron(III) becomes iron(II). With the iron left out, it makes 2 ATP per glucose and releases lactate. The same bacterium can also use oxygen as the terminal electron acceptor of its electron transport chain.
Which of the following is the best prediction for its ATP per glucose with oxygen, and why?
- A. ✓ About 30, because oxygen is a stronger acceptor than iron(III), so the electrons release more energy
- B. About 9, because the chain makes the same ATP whatever molecule accepts the electrons at its endThe energy the electrons release depends on both ends of the chain; a stronger acceptor at the end gives a bigger drop and more ATP.
- C. About 11, because oxygen adds its own 2 ATP to the 9 that the chain to iron(III) givesOxygen makes no ATP of its own; oxygen takes the electrons at the end of the chain, and a stronger acceptor lets the whole chain release more energy.
- D. About 2, because oxygen stops the fermentation and the bacterium then keeps only glycolysis's ATPWith oxygen the chain passes its electrons to the strongest acceptor, so the cell gets the chain’s ATP on top of glycolysis’s two.
Only fermentation alone leaves two.
Why: Iron(III) takes the electrons at the end of the chain, so the chain works: 9 ATP per glucose.
The energy released depends on both ends of the chain.
Oxygen is the strongest acceptor: a bigger drop, more protons pumped, more ATP.
So with oxygen the yield rises to about thirty.
A class feeds yeast four flours, wheat, rye, corn and rice, and measures the carbon dioxide each culture makes in 20 minutes, with a mean and a standard error for each flour. A student plots the four means as points in the order wheat, rye, corn, rice, joins the points with a line, and adds a ±2SE error bar to each point.
Which of the following is the mistake in the student's graph?
- A. The error bars should be ±1SE, because one standard error is what the class calculated±2SE bars are the convention the class uses, and the student drew them correctly; the mistake is in what the means are drawn as.
- B. ✓ The four flours are separate categories, so the means should be bars, one per flour, and never joined
- C. The flours should be plotted in alphabetical order, so that the line rises steadilyThe flours have no order at all, alphabetical or otherwise; putting them in a different order still draws a line between categories that no flour sits between.
- D. A straight best-fit line should be drawn through the four points instead of joining themA best-fit line describes how one measured quantity changes with another, and flour type is a category with no number to put on the x-axis.
Why: Bars are for categories; a line is for a measured amount on the x-axis.
Wheat, rye, corn and rice are categories with no order or spacing.
A line between them would draw a flour that does not exist.
So each flour gets a bar with its ±2SE error bar.
Students measured the oxygen used by mealworms (beetle larvae) with respirometers: sealed tubes in which a chemical absorbs all the carbon dioxide given off, so the gas volume falls only as oxygen is used. At each of 15, 25 and 35 °C, six respirometers each held 5 g of live mealworms; six more held 5 g of glass beads at 25 °C. Each sat for 10 minutes. The table gives the mean oxygen used and the standard error (SE) of each set of six.
(a) Identify the set of respirometers that serves as the control, and state what it lets the students rule out. (1 pt)
Frame The control is the set of respirometers holding …, which lets the students rule out …
Hint What is a control for in an experiment, and which set of respirometers here does that job? What would a change in that set's gas volume have to be caused by?
It lets the students rule out any fall in gas volume that does not come from a living organism.
The bead respirometers hold everything the other tubes hold except the mealworms.
So any fall in their volume (0.02 mL) comes from the apparatus: the chemical, the seal, or a change in temperature.
So the far larger fall in the mealworm tubes came from the mealworms.
- Award 1 point for: the glass-bead respirometers are the control, and they let the students rule out a change in gas volume caused by anything other than the mealworms (temperature or pressure changes in the tube, the absorbing chemical itself), so the fall in the mealworm tubes can be put down to the mealworms.
- Accept "the beads show the volume change with no organism" as the ruled-out cause. Do not award the point for naming the 15 °C tubes as the control, or for the beads with no statement of what they rule out.
Slip Calling the 15 °C tubes 'the control'. The 15 °C tubes are a second treatment. A control has the organism removed and everything else kept the same.
(b) Calculate the upper and lower ends of the ±2SE error bar on the 25 °C mean. (1 pt)
Frame The 25 °C bar runs from … mL to … mL.
Hint Which formula gives each end of a ±2SE bar from the mean and its standard error?
Two standard errors is 2 × 0.06 = 0.12 mL.
The bar reaches 0.12 mL below the mean of 1.05 mL and 0.12 mL above it.
- Award 1 point for: 0.93 mL to 1.17 mL (the mean of 1.05 mL, minus and plus 2 × 0.06 mL).
- Accept 0.93–1.17 mL with the working shown as 1.05 − 0.12 and 1.05 + 0.12. Do not award the point for 0.99–1.11 mL (±1SE) or for "1.05 ± 0.06" written as the bar.
Slip Using ±1SE (0.99 to 1.11 mL). The convention is two standard errors each side, so the bar is twice that long.
(c) Describe the trend in oxygen use across the three temperatures, and state how the plotted means should be connected. (1 pt)
Frame Oxygen use … from 15 °C to 25 °C and … from 25 °C to 35 °C, so the means should be …
Hint Compare the size of the rise between 15 and 25 °C with the size of the rise between 25 and 35 °C. Do the three means follow one straight trend? What does that decide about how they are connected?
The rise from 15 °C to 25 °C is 0.45 mL.
The rise from 25 °C to 35 °C is 0.07 mL: the trend levels off.
The means do not follow one straight trend.
So they are joined one to the next, not fitted with one straight best-fit line.
- Award 1 point for: the trend (oxygen use rises with temperature: steeply from 15 to 25 °C and much less from 25 to 35 °C, or "rises and then levels off") AND the connection: the means are joined one to the next, because they do not follow one straight trend.
- Accept a smooth curve through the means for the connection. Do not award the point for one straight best-fit line through the three means, or for a trend with no connection stated.
Slip Drawing one straight best-fit line through the three means. A best-fit line is for means that follow one straight trend. These means rise steeply and then level off, so they are joined one to the next.
(d) Determine, using the error bars, whether the data show a difference in oxygen use between 15 °C and 25 °C. (1 pt)
Frame The 15 °C bar (… to … mL) and the 25 °C bar (… to … mL) …, so the data …
Hint Do the two bars overlap? What does a gap between two bars, or an overlap, let you claim about the two means?
The 25 °C bar runs from 0.93 to 1.17 mL.
There is a clear gap between the two bars, so they do not overlap.
So the difference is unlikely to be chance.
Therefore the data show that the mealworms used more oxygen at 25 °C than at 15 °C.
- Award 1 point for: the decision (the data do show a difference: the mealworms used more oxygen at 25 °C than at 15 °C) AND the observation it rests on: the 15 °C bar (0.50–0.70 mL) and the 25 °C bar (0.93–1.17 mL) do not overlap, so the difference is unlikely to be chance.
- Determine needs the decision and the observation it rests on. Accept "the null hypothesis of no difference between the temperatures is rejected". Do not award the point for "25 °C is higher" with no reference to the bars, or for a claim that the bars overlap.
Slip Comparing the two means alone. Two means always differ a little. Only a gap between the ±2SE bars lets you claim the difference is real.
(e) Explain why the gas volume in a respirometer of live mealworms falls. (1 pt)
Frame The volume falls because the mealworms' cells take up …, which is used to …, while the carbon dioxide they release …
Hint Where in cellular respiration is oxygen actually used, and what happens to the carbon dioxide inside this apparatus?
The cells are respiring: they break food down to make ATP.
Oxygen takes the electrons off the end of the chain, with hydrogen ions, and becomes water.
The chemical absorbs the carbon dioxide, so the only gas change left is the oxygen taken up.
- Award 1 point for: the mealworms' cells are respiring (breaking food down to make ATP) and take up oxygen, the terminal electron acceptor at the end of the electron transport chain (it takes the electrons and hydrogen ions and becomes water), while the carbon dioxide they release is absorbed by the chemical, so the volume falls by the oxygen used.
- Accept "oxygen accepts the electrons at the end of the chain" for oxygen's role. Do not award the point for "the mealworms breathe the air" with no role for oxygen, for oxygen turned into carbon dioxide, or for an answer that leaves out the absorbed carbon dioxide.
Slip Saying the mealworms 'use up the air'. The point needs oxygen's job, taking the electrons at the end of the chain, and a word about where the carbon dioxide went.
(f) Predict what happens to the oxygen used in 10 minutes if the students give the mealworms at 25 °C a substance that lets protons leak straight back across the inner mitochondrial membrane, bypassing ATP synthase, and justify your prediction. (1 pt)
Frame Oxygen use would …, because the leak …, so the electron transport chain …
Hint Which stage of respiration uses the oxygen, and how is that stage linked to the proton gradient? What does the leak change for it?
A faster chain passes more electrons to oxygen each minute.
So more oxygen is used, and the volume falls faster than 1.05 mL in 10 minutes.
- Award 1 point for: oxygen use rises (the volume falls faster), because the leak drains the proton gradient, so the chain pumps against a smaller proton gradient and passes electrons faster, passing more electrons to oxygen; the proton gradient's energy leaves as heat instead of ATP.
- Accept a prediction that ATP output falls or that the mealworms warm up, alongside the oxygen prediction. Do not award the point for "oxygen use falls because ATP is no longer made", or for a prediction with no link between the proton gradient and the chain's speed.
Slip Predicting that oxygen use falls because 'less ATP is made'. ATP output does fall. But the chain, freed from a steep proton gradient, passes electrons faster and uses more oxygen, as it does in brown fat.
A researcher grows yeast cells in a stirred flask with plenty of glucose and dissolved oxygen, then adds a poison that stops electron transfer at a protein near the end of the electron transport chain; glucose and oxygen stay plentiful. In the hour before the poison the culture used 5 mmol of glucose and made 140 mmol of ATP, and the flask's oxygen sensor showed a steady fall. In the hour after, the culture used 40 mmol of glucose and made 80 mmol of ATP, the oxygen reading stopped falling, and ethanol began to build up in the flask.
(a) Describe how the untreated yeast cells made ATP by oxidative phosphorylation, from the electrons delivered by NADH to the ATP. (1 pt)
The electrons pass from protein to protein toward oxygen.
Oxygen, the terminal electron acceptor, takes the electrons off the end and becomes water.
The energy the electrons release pumps protons from the matrix into the intermembrane space: a proton gradient.
Protons flow back into the matrix down their proton gradient, almost only through ATP synthase.
That flow drives the formation of ATP from ADP and inorganic phosphate.
- Award 1 point for: electrons delivered by NADH pass down the electron transport chain from protein to protein to oxygen, the terminal electron acceptor, which becomes water; the energy the electrons release pumps protons out of the matrix into the intermembrane space; the protons flow back down their proton gradient into the matrix almost only through ATP synthase, and that flow drives the formation of ATP from ADP and inorganic phosphate (chemiosmosis).
- Accept "a difference in proton concentration and charge across the membrane" for the proton gradient. Do not award the point for ATP synthase pumping the protons, for oxygen supplying the energy, or for the chain making the ATP directly.
Slip Giving ATP synthase the pumping job, or the chain the ATP-making job. The chain pumps protons out; ATP synthase is the way back, and that is where the ATP is made.
(b) Calculate the ATP made per glucose before and after the poison, and explain why the yeast used more glucose after it. (2 pt)
After it, they made 80 ÷ 40 = 2 ATP per glucose.
Each glucose now gives 2 ATP instead of 28.
So the yeast must break down far more glucose for the ATP they make.
- Award 1 point for: 140 ÷ 5 = 28 ATP per glucose with oxygen, and 80 ÷ 40 = 2 ATP per glucose without.
- Award 1 point for: without oxygen only glycolysis makes ATP, about 2 per glucose instead of about 30, so the yeast must split far more glucose for the same ATP.
Slip Subtracting instead of dividing, or giving the two values with no reason for the extra glucose. The yield is ATP made divided by glucose used, for each hour separately; a smaller yield per glucose means more glucose for the same ATP.
(c) Explain why ethanol appeared in the flask after the poison. (1 pt)
So the cell’s NAD⁺ is soon all tied up as NADH.
Glycolysis needs NAD⁺ to accept electrons, so glycolysis would stop.
Fermentation rescues it.
Pyruvate loses a carbon as carbon dioxide.
NADH hands its electrons to the two-carbon fragment that is left, making ethanol.
That regenerates NAD⁺, so glycolysis keeps going and keeps making its two ATP per glucose.
- Award 1 point for: with the chain blocked, NADH can no longer unload its electrons to the chain, so the cell's NAD⁺ would all become NADH and glycolysis would stop; fermentation passes NADH's electrons to the two-carbon fragment left when pyruvate loses a carbon as carbon dioxide, making ethanol and regenerating the NAD⁺ that glycolysis needs.
- Accept "NADH is oxidized back to NAD⁺ by making ethanol" with the blocked chain as the reason. Accept "the yeast ferment, making 2 ATP per glucose" provided NAD⁺ regeneration or the blocked chain is given as the reason for the ethanol. Do not award the point for "the yeast switch to fermentation to make ATP" with no mention of NAD⁺, for the ethanol-forming step itself producing the ATP, or for ethanol as a leftover of the blocked chain.
Slip Saying that the ethanol-forming step itself makes the ATP. Glycolysis makes the two ATP per glucose. Fermentation regenerates NAD⁺, so glycolysis can keep making them.
(d) The researcher gives a second flask of the same yeast, with plenty of glucose and oxygen, a drug that blocks only the channel through ATP synthase. Predict what happens to the pH of the intermembrane space in the first minute after the poison in the first flask, and in the first minute after the drug in the second flask. Justify each prediction. (2 pt)
The poison blocks transfer near the end of the chain, so the whole chain backs up and pumping stops.
Protons already outside keep flowing back into the matrix through ATP synthase.
So the concentration of protons in the intermembrane space falls, and its pH rises.
In the second flask, the pH of the intermembrane space falls.
The chain is not blocked, so it keeps pumping protons out of the matrix into the intermembrane space.
The blocked ATP synthase lets none flow back into the matrix.
So protons pile up in the intermembrane space, and its pH falls.
- Award 1 point for the first flask: the pH rises (toward the matrix pH), because the blocked chain stops pumping protons into the intermembrane space while protons keep flowing back into the matrix through ATP synthase, so the concentration of protons in the intermembrane space falls.
- Award 1 point for the second flask: the pH falls (the intermembrane space becomes more acidic), because the chain is not blocked and keeps pumping protons into the intermembrane space, while the blocked ATP synthase no longer lets them flow back into the matrix, so protons pile up there.
- Accept "the proton gradient collapses" for the first flask and "the proton gradient grows" for the second, each with the direction of the pH change stated. Do not award a point for a prediction with no cause, or for the two directions swapped.
Slip Swapping the two flasks. A blocked chain stops the pump, so the protons outside drain back through ATP synthase and the pH rises. A blocked ATP synthase shuts only the way back while the pump keeps working, so protons accumulate outside and the pH falls.
A hummingbird beats its wings about 50 times a second. Its flight-muscle cells are packed with mitochondria, and their inner membranes are folded far more densely than the inner membranes of the mitochondria in the bird’s liver cells. A researcher feeds a hummingbird sugar water in which every carbon atom of the sugar is the heavy form ¹³C. Within minutes, the carbon dioxide the bird breathes out carries ¹³C. The table shows what one glucose gives a flight-muscle cell, stage by stage, by the end of the Krebs cycle.
(a) Describe what the mitochondria do for a flight-muscle cell, and what happens to each pyruvate from glycolysis when it reaches a mitochondrion. (2 pt)
There the cell breaks food down with oxygen and makes most of its ATP.
Pyruvate is transported from the cytosol into the mitochondrial matrix.
There it is oxidized: one of its three carbons leaves as carbon dioxide.
The electrons it gives up load NAD⁺, making NADH.
The two-carbon fragment left enters the Krebs cycle.
- Award 1 point for the mitochondria's job: they make most of the cell's ATP by breaking food down with oxygen (most of the steps of respiration happen inside them).
- Award 1 point for pyruvate: it is moved from the cytosol into the mitochondrial matrix and oxidized there: one of its three carbons leaves as carbon dioxide, its electrons load NAD⁺ to make NADH, and the two-carbon fragment left enters the Krebs cycle.
- Accept "the mitochondria carry out cellular respiration, which makes the cell's ATP" for the job, and an answer without the name "pyruvate oxidation" for pyruvate. Do not award the job point for the mitochondria storing energy or storing glucose. Do not award the pyruvate point for pyruvate entering the Krebs cycle whole, or for all three carbons leaving as carbon dioxide at this step.
Slip Saying the mitochondria store the cell's energy, or sending the whole pyruvate into the Krebs cycle. A mitochondrion stores nothing: it breaks food down and makes ATP as the cell needs it. One carbon of pyruvate leaves first, as carbon dioxide, and the electrons go to NAD⁺; only the two-carbon fragment enters the cycle.
(b) Identify, using the table, the molecules that carry most of the glucose’s energy by the end of the Krebs cycle. (1 pt)
The carrier columns add to 10 NADH and 2 FADH₂.
Each loaded carrier holds two electrons taken from the glucose.
So most of the glucose’s energy is on the 10 NADH and 2 FADH₂, not in the 4 ATP.
- Award 1 point for: the loaded electron carriers, 10 NADH and 2 FADH₂ (the ATP column adds to only 4).
- Accept "NADH and FADH₂" without the totals. Do not award the point for ATP, or for carbon dioxide.
Slip Answering 'ATP'. Only 4 ATP have been made directly. The electrons taken from the glucose, on NADH and FADH₂, carry most of the energy, and they have not reached the chain yet.
(c) Explain how the ¹³C in the bird’s breath shows that the carbon of the carbon dioxide came from the sugar. (1 pt)
An instrument can tell ¹³C from ordinary carbon by its mass.
Only the sugar was labeled, so wherever ¹³C turns up is where the sugar’s carbon went.
The ¹³C turned up in the carbon dioxide within minutes.
So the carbon of the carbon dioxide came from the sugar: two carbons per glucose at pyruvate oxidation and four in the Krebs cycle.
- Award 1 point for: enzymes treat ¹³C like ordinary carbon (so the labeled sugar is broken down in the usual way) but an instrument tells ¹³C apart by its mass; only the sugar was labeled, so the ¹³C in the carbon dioxide can only have come from the sugar's carbon.
- Accept an answer that names where the carbons leave (two at pyruvate oxidation, four in the Krebs cycle). Do not award the point for "the ¹³C makes the bird respire faster", or for the carbon dioxide's carbon coming from the oxygen the bird breathed in.
Slip Saying the carbon dioxide's carbon came from the oxygen the bird breathed in. Oxygen gas becomes water at the end of the chain. The carbon dioxide's carbon is the sugar's carbon, which is why it carries the sugar's label.
(d) Explain why the densely folded inner membranes let the flight-muscle mitochondria make ATP faster than the liver mitochondria. (1 pt)
Folding the membrane increases its surface area.
More surface fits more chain proteins and more ATP synthase.
So the flight-muscle mitochondria make ATP faster.
- Award 1 point for: the electron transport chain and ATP synthase are set in the inner membrane; folding gives the membrane more surface area, so more chain proteins and more ATP synthase fit in it, so more ATP is made each second.
- Accept "more surface area, so more ATP synthase". Do not award the point for the folds holding more oxygen or more glucose, or for each ATP synthase turning faster.
Slip Saying the folds hold more oxygen or more fuel. Folds hold nothing. They give the membrane more surface, and the surface is where the chain and ATP synthase sit.
APBIO-U03-T35 End-of-topic test: Cellular Respiration
Answer every question. For each multiple-choice question, pick one option and press Check; the feedback gives the reasoning. For the two free-response questions, write one short sentence per step of your reasoning, in order, and show any calculation. In the exam, write the steps as a paragraph: a bulleted list is not scored. Then open the scoring guide and mark your own work against it. Error bars in this test are ±2SE.
A student claims that only animal cells carry out cellular respiration, because plants make their own food by photosynthesis.
Which of the following observations contradicts the student’s claim?
- A. ✓ A bunch of fresh spinach leaves sealed in a dark box lowers the oxygen in the box and raises the carbon dioxide
- B. A bunch of fresh spinach leaves sealed in a lit box raises the oxygen in the box and lowers the carbon dioxideRaising oxygen and lowering carbon dioxide in the light is what photosynthesis does.
That observation fits the student’s claim. - C. A bunch of spinach leaves kept in the dark for a week turns yellowTurning yellow shows only that the leaves stopped making chlorophyll in the dark.
Yellowing measures neither oxygen nor carbon dioxide, so it does not test respiration. - D. A spinach plant in bright light gains dry mass over a weekGaining dry mass in the light is the work of photosynthesis.
That observation fits the student’s claim.
Why: Every plant, animal and fungus respires, in light and in dark.
In the dark, photosynthesis stops, so nothing masks respiration.
The leaf cells take in oxygen and give out carbon dioxide.
So the oxygen fall and the carbon dioxide rise show that the spinach cells respire.
The figure shows a mitochondrion in cross-section, inside a cell. Four positions are numbered.
Which number marks the membrane that holds the electron transport chain and ATP synthase?
- A. 1Number 1 sits in the matrix, which is a fluid, not a membrane.
The Krebs cycle happens in that fluid, but the chain’s proteins are set in a membrane. - B. ✓ 2
- C. 3Number 3 ends on the outer membrane, the smooth boundary of the whole mitochondrion, and the outer membrane holds no electron transport chain.
- D. 4Number 4 ends in the intermembrane space, the fluid between the two membranes; the chain pumps protons into that space, but the chain itself is set in a membrane.
Why: Number 2 ends on a fold of the inner membrane.
The chain and ATP synthase are set in the inner membrane; the folds give it more area for them.
Numbers 1, 3 and 4 are the matrix, the outer membrane and the intermembrane space: none holds the chain.
In one step of respiration, a three-carbon molecule hands two electrons (traveling with hydrogen) to NAD⁺.
Which molecule is reduced?
- A. The three-carbon moleculeThe three-carbon molecule gave the two electrons away, and losing electrons is oxidation, not reduction.
- B. Both moleculesElectrons cannot be gained by both partners.
In every transfer one partner loses electrons and the other gains them. - C. ✓ NAD⁺
- D. Neither moleculeTwo electrons did move, from the three-carbon molecule to NAD⁺.
Whenever electrons move, the molecule that gains them is reduced.
Why: Gaining electrons is called reduction.
NAD⁺ gained the two electrons and became NADH.
So NAD⁺ was reduced.
Losing electrons is called oxidation.
The three-carbon molecule lost the two electrons, so the three-carbon molecule was oxidized at the same time.
A researcher puts mitochondria from potato tubers in a tube with oxygen, ADP and phosphate. One batch also gets NADH and makes ATP steadily. A second batch gets the same amount of NAD⁺ instead and makes almost no ATP.
Why does only the NADH batch make ATP?
- A. ✓ NADH carries electrons taken from food; NAD⁺ is the empty form with none to deliver
- B. NADH is itself a fuel that the Krebs cycle breaks down to carbon dioxide and waterNADH is not a fuel and is not taken apart.
NADH is a carrier: it hands its two electrons to the chain and becomes NAD⁺ again. - C. NAD⁺ is a protein that must first be switched on by the electron transport chainNAD⁺ is a coenzyme, a small non-protein molecule.
NAD⁺ is not switched on; it is simply empty. - D. NADH supplies the phosphate that joins ADP to make ATP; NAD⁺ has none to giveThe phosphate that joins ADP comes from the inorganic phosphate in the mixture.
The energy to join it comes from the proton gradient.
Why: NADH is the loaded form of the electron carrier NAD⁺, holding two electrons taken from food.
NADH delivers them to the chain; their energy pumps protons, which drives ATP synthesis.
NAD⁺ is the same carrier, empty, so with no electrons to deliver, the chain has nothing to pass along.
A researcher gives two dishes the same mixture of glucose, oxygen, ADP and phosphate. One dish holds intact liver cells. The other holds mitochondria isolated from the same cells. After 10 minutes the intact cells have made 20.0 μmol of ATP and the isolated mitochondria 0.3 μmol.
Why did the isolated mitochondria make so little ATP?
- A. Glycolysis needs oxygen, and the isolated mitochondria used up their oxygen before making ATPGlycolysis uses no oxygen at all, and oxygen was plentiful in both dishes.
- B. Glucose is too large to enter a mitochondrion, but small enough to enter a whole cellThe size of glucose is not the problem: glucose is never used inside a mitochondrion, whatever its size.
- C. Isolating the mitochondria stripped them of the Krebs cycle enzymes, which intact cells keep outside their mitochondriaThe Krebs cycle enzymes sit inside the mitochondrion, in its matrix, so the isolated mitochondria still have them.
What the isolated mitochondria lack is glycolysis, which happens outside the mitochondrion. - D. ✓ Glycolysis happens in the cytosol, which the isolated mitochondria lack; only pyruvate is used inside a mitochondrion
Why: Glycolysis splits glucose into two pyruvates in the cytosol, outside the mitochondrion.
The isolated mitochondria have no cytosol, so they cannot split glucose, and no pyruvate reaches them.
The intact cells still have cytosol: glycolysis splits the glucose, pyruvate enters the mitochondria, and respiration makes the ATP.
Glycolysis has just produced two pyruvate molecules in the cytosol of a cell that has plenty of oxygen.
What happens to each pyruvate next?
- A. It stays in the cytosol, where oxygen breaks all three of its carbons to CO₂ at oncePyruvate does not stay in the cytosol when oxygen is present, and oxygen never breaks carbons off a fuel directly.
- B. ✓ It enters the matrix and is oxidized: one carbon leaves as CO₂ and NAD⁺ is loaded to NADH
- C. It is reduced to lactate in the cytosol, which frees NAD⁺ so glycolysis can continueTurning pyruvate into lactate is fermentation, the route a cell takes when it has no oxygen.
- D. It passes its electrons straight to the electron transport chain in the inner membranePyruvate is not an electron carrier.
NAD⁺ picks up the electrons pyruvate gives up, and NADH later delivers them to the chain.
Why: With oxygen present, each pyruvate is carried from the cytosol into the mitochondrial matrix.
There the pyruvate is oxidized.
One of its three carbons leaves as carbon dioxide.
Its electrons are handed to NAD⁺, which becomes NADH.
The two-carbon fragment that remains enters the Krebs cycle.
In the matrix of a potato cell’s mitochondrion, a two-carbon fragment from pyruvate oxidation enters the Krebs cycle.
Which of the following happens to the fragment and its energy in the Krebs cycle?
- A. The fragment’s carbons stay in the cycle, and most of the energy released goes directly into ATP made in the matrixThe carbons do not stay: both leave as carbon dioxide.
The Krebs cycle makes only a small amount of ATP directly; most of the energy released loads NAD⁺ and FAD. - B. The fragment is joined to a second fragment to remake glucose, which stores the energy for laterThe Krebs cycle finishes oxidizing the carbon; it never rebuilds glucose.
Both carbons of the fragment leave as carbon dioxide. - C. ✓ The fragment’s two carbons leave as carbon dioxide, and most of the energy released loads NAD⁺ and FAD, with a little going into ATP
- D. The fragment passes its electrons straight to oxygen, which becomes water in the matrixOxygen takes no part in the Krebs cycle.
The fragment’s electrons load NAD⁺ and FAD, and the loaded carriers deliver them to the electron transport chain later.
Why: The Krebs cycle happens in the matrix.
It finishes oxidizing the fragment: both carbons leave as carbon dioxide.
The electrons the carbons give up load NAD⁺ and FAD, making NADH and FADH₂.
So most of the energy released is on NADH and FADH₂; only a little goes directly into ATP.
A researcher lets a mouse breathe, for ten minutes, air in which the oxygen atoms are the heavy form ¹⁸O, so that those atoms can be traced. As the mouse’s cells respire, they make water and carbon dioxide.
Which product do the cells make directly from the oxygen the mouse breathes in?
- A. Neither productThe oxygen is not lost.
At the end of the chain the oxygen gains electrons and hydrogen ions and becomes water. - B. ✓ Water only
- C. Carbon dioxide onlyThe carbon dioxide is made before the breathed oxygen is involved at all.
Its oxygen atoms come from the glucose and from water added along the way. - D. Both water and carbon dioxideThe breathed oxygen ends up in one product only.
The carbon dioxide is made earlier, from the glucose and from water added in the Krebs cycle.
Why: The oxygen the mouse breathes in is used only at the end of the chain, where it accepts electrons and hydrogen ions and becomes water.
So the ¹⁸O appears in water.
The carbon dioxide is made earlier, in pyruvate oxidation and the Krebs cycle, from the glucose and added water.
The table shows what one glucose molecule gives a yeast cell, stage by stage, by the end of the Krebs cycle.
By the end of the Krebs cycle, how many ATP has the cell made directly from the glucose, and where is most of the glucose’s energy?
- A. 2 ATP; most of the energy is in the 2 NADH from glycolysisGlycolysis is only the first of the three stages in the table.
The three stages together give 4 ATP directly and load 10 NADH and 2 FADH₂. - B. 4 ATP; most of the energy is in the 6 carbon dioxide moleculesCarbon dioxide is the low-energy waste left when the carbon has given up its electrons.
The energy left with the electrons, on NADH and FADH₂. - C. ✓ 4 ATP; most of the energy is in the 10 NADH and 2 FADH₂
- D. About 30 ATP; most of the energy is already in ATPOnly 4 ATP have been made directly: 2 in glycolysis and 2 in the Krebs cycle.
The rest is made when the loaded carriers deliver their electrons to the chain.
Why: The ATP column adds to 4: 2 in glycolysis and 2 in the Krebs cycle.
The NADH column adds to 10, the FADH₂ column to 2.
Each loaded carrier holds two electrons from the glucose.
So most of the glucose’s energy is on those carriers, not yet in ATP.
Artificial vesicles hold only ATP synthase, ADP and phosphate: no fuel and no electron transport chain. A researcher keeps the inside of every vesicle at pH 8 and the outside at pH 7, and the vesicles make ATP steadily.
Which of the following changes would make the vesicles form ATP faster?
- A. Adding glucose to the fluid around the vesiclesThe vesicles hold no enzymes that break glucose down and no electron transport chain.
Glucose outside a vesicle changes nothing inside it. - B. Raising the outside pH to 8, the same as the insideWith pH 8 on both sides there is no proton gradient across the membrane.
With no proton gradient, no protons flow through ATP synthase, and ATP formation stops. - C. Adding NADH to the fluid around the vesiclesNADH hands its electrons to an electron transport chain, and the vesicles have no chain.
NADH outside a vesicle changes nothing inside it. - D. ✓ Lowering the outside pH to 5
Why: pH 5 outside means a hundred times more protons than pH 7, so the proton gradient grows.
Protons flow into the vesicle down that proton gradient, only through ATP synthase.
A faster flow through ATP synthase joins ADP and phosphate into ATP faster.
So the vesicles form ATP faster.
A gut bacterium has no mitochondria. Given glucose and oxygen, its live cells use up the oxygen and their ATP rises. When a researcher adds a chemical that lets protons pass freely across the plasma membrane, the cells keep using oxygen, but their ATP stops rising.
How do the live bacteria make their ATP?
- A. ✓ By an electron transport chain that pumps protons across their plasma membrane
- B. By glycolysis alone; the oxygen use is a separate process unrelated to ATPGlycolysis uses no oxygen, and the cells used oxygen.
Glycolysis also needs no proton gradient, yet the ATP stopped rising as soon as protons could leak across the membrane. - C. By tiny mitochondria too small to be seen with a microscopeProkaryotes have no mitochondria of any size.
The chain and ATP synthase sit in the plasma membrane instead. - D. By taking in ATP made by other gut organisms, using oxygen to power the uptakeCells make their own ATP.
ATP is not absorbed from the surroundings, and a proton leak across the membrane would not stop an uptake.
Why: Prokaryotes have the chain and ATP synthase in their plasma membrane.
Electrons pass down the chain to oxygen, pumping protons out across the membrane.
Protons returning through ATP synthase make ATP.
A leak lets protons back anywhere, so the proton gradient’s energy leaves as heat and no ATP is made.
Mitochondria in a hummingbird’s flight muscle have an inner membrane folded far more densely than the mitochondria in its fat cells. Both kinds of mitochondria have plenty of pyruvate and oxygen.
Which of the following explains why the flight-muscle mitochondria make ATP faster?
- A. The denser folds hold more oxygen in the matrix, so the chain never waits for its terminal electron acceptorFolds hold no oxygen.
Oxygen is plentiful in both kinds of mitochondria, so the supply of the terminal electron acceptor is not what differs. - B. The denser folds make room for glycolysis inside the mitochondrion as well as in the cytosolGlycolysis happens only in the cytosol, in every cell.
Folding the inner membrane changes nothing about glycolysis. - C. ✓ The denser folds give the inner membrane more surface, so more chain proteins and more ATP synthase fit in it
- D. The denser folds let each chain protein pump more protons, so each ATP synthase turns fasterEach chain protein pumps the same way whatever the folding.
The folds change how many proteins fit in the membrane, not how each one works.
Why: The electron transport chain and ATP synthase are set in the inner membrane.
Folding a membrane increases its surface area.
More surface fits more chain proteins and more ATP synthase.
So the flight-muscle mitochondria make ATP faster.
A bacterium from estuary mud respires with oxygen when oxygen is present, and with nitrate when there is no oxygen. Given glucose and oxygen, it makes about 30 ATP per glucose. Given glucose and nitrate with no oxygen, it makes 12 ATP per glucose.
Why does the bacterium make less ATP per glucose with nitrate?
- A. Nitrate takes the electrons before they enter the chain, so the chain pumps no protons and only glycolysis makes ATPWith nitrate the chain still works: 12 ATP per glucose is far more than the 2 that glycolysis gives.
Nitrate takes the electrons at the end of the chain. - B. ✓ Nitrate is a weaker electron acceptor than oxygen, so the electrons release less energy along the chain and fewer protons are pumped
- C. Nitrate must be broken down before it can accept electrons, and breaking it down uses up some of the ATP madeNo ATP is used up breaking nitrate down.
Nitrate simply accepts the electrons at the end of the chain. - D. Nitrate stops the Krebs cycle, so fewer NADH are loaded and fewer electrons reach the chainThe Krebs cycle does not depend on which molecule ends the chain.
The same NADH reaches the chain; the electrons just release less energy on the way to nitrate.
Why: The electrons drop furthest in energy on the way to oxygen, the strongest acceptor.
Nitrate is a weaker acceptor, so the energy drop along the chain is smaller.
A smaller energy drop pumps fewer protons.
Fewer protons flow back through ATP synthase, so less ATP is made.
A newborn lamb in a cold field warms itself with brown fat. In its brown-fat mitochondria a protein in the inner membrane lets protons leak back into the matrix. Compared with the lamb's liver mitochondria, they use oxygen twice as fast, make a third as much ATP, and give off far more heat.
Why does the leak have these three effects?
- A. The leak jams the enzyme that makes ATP, so protons pile up outside and the trapped proton gradient is turned into heatThe leak protein does not jam ATP synthase.
It opens a second route for protons that bypasses ATP synthase. - B. The leak lets oxygen into the matrix, where it burns fuel directly, releasing heat instead of ATPOxygen reaches the matrix in every mitochondrion, and oxygen never burns fuel directly.
- C. The leak slows the chain, so electrons stay on NADH and their energy is released as heatThe chain speeds up, not down.
That is why oxygen use rises. - D. ✓ Protons return past ATP synthase, so the proton gradient’s energy leaves as heat and the chain speeds up to rebuild it
Why: Normally protons return only through ATP synthase, and their flow makes ATP.
The leak lets protons return without ATP synthase, so the proton gradient’s energy escapes as heat.
The proton gradient keeps draining, so the chain passes electrons faster to rebuild it, using more oxygen, while ATP output falls.
A student seals two jars, and both jars soon use up their oxygen. The apple-juice jar holds apple juice with yeast: over a week, bubbles of gas collect at the top and alcohol builds up. The cucumber jar holds cucumbers in salty water with bacteria: over a week, the water turns sour and no gas collects.
Which fermentation route is each jar using?
- A. ✓ Apple-juice jar: the ethanol route (alcohol fermentation); cucumber jar: the lactate route (lactic acid fermentation)
- B. Apple-juice jar: the lactate route (lactic acid fermentation); cucumber jar: the ethanol route (alcohol fermentation)Alcohol built up in the apple-juice jar, and the ethanol route makes alcohol.
The lactate route makes lactic acid and no gas, which fits the sour cucumber jar. - C. Both jars: the ethanol route (alcohol fermentation)The ethanol route gives off carbon dioxide.
The cucumber jar gave off no gas, so it is not using the ethanol route. - D. Both jars: the lactate route (lactic acid fermentation)The lactate route gives off no gas.
The apple-juice jar gave off gas and made alcohol, so it is not using the lactate route.
Why: In the ethanol route, pyruvate loses a carbon as carbon dioxide, and the rest becomes ethanol.
So gas and alcohol mean the ethanol route: the apple-juice jar.
In the lactate route, pyruvate itself becomes lactic acid, without gas.
So sour and no gas means the lactate route: the cucumber jar.
Two flasks of a bacterium from salt-marsh mud are grown with glucose and no oxygen. Flask 1 also contains sulfate; flask 2 contains none. After a day, the sulfate in flask 1 is used up, and lactate has built up in flask 2. The other results are in the table.
Which of the following best explains the role of sulfate in flask 1?
- A. Sulfate releases oxygen when it is broken down, which allows aerobic respirationSulfate does not release oxygen, and the flasks had none.
- B. Sulfate speeds up fermentation, so glycolysis yields more ATP per glucoseGlycolysis always yields two ATP per glucose, and fermentation only regenerates the NAD⁺ that glycolysis needs.
So a yield of 10 per glucose cannot come from speeding either up. - C. ✓ Sulfate serves as the terminal electron acceptor for an electron transport chain
- D. Sulfate supplies sulfur for growth; the ATP comes from fermentation in both flasksIf the ATP came from glycolysis and fermentation in both flasks, the yield would be 2 per glucose in both.
Flask 1 made 10 per glucose.
Why: Flask 1 made 10 ATP per glucose; flask 2 made 2, glycolysis’s yield with fermentation.
Ten is more than two, so a chain and ATP synthase are at work in flask 1.
Sulfate is the terminal electron acceptor at the end of that chain: anaerobic respiration.
Which of the following animals warms itself from within, using brown fat?
- A. A cod swimming in a cold seaA cod is a fish.
Fish take their body temperature from the water around them and have no brown fat. - B. A crocodile lying on a riverbankA crocodile is a reptile.
Reptiles take their body temperature from their surroundings: a crocodile warms up by lying in the sun, not from within. - C. A newt in a cold pondA newt is an amphibian.
Amphibians take their body temperature from their surroundings and have no brown fat. - D. ✓ A hedgehog waking from hibernation
Why: Mammals keep their bodies warm from within: they are endothermic.
A hedgehog is a mammal, and a hibernating mammal carries brown fat.
As it wakes, the proton leak in its brown fat turns the proton gradient’s energy into heat.
Fish, amphibians and reptiles take their body temperature from their surroundings.
A bee’s flight-muscle cells are packed with mitochondria.
Which of the following do those mitochondria do for the cell?
- A. Store energy, and release it when the muscle contractsA mitochondrion stores no energy.
It breaks food down and makes ATP as the muscle needs it. - B. ✓ Make most of the cell’s ATP by breaking food down with oxygen
- C. Store the glucose the muscle will use during flightGlucose is stored elsewhere in the body, not in mitochondria.
The mitochondrion breaks food down; it does not store it. - D. Make the proteins the muscle is built fromRibosomes make the cell’s proteins.
The mitochondrion’s job is ATP.
Why: Most of the steps of respiration happen inside the mitochondrion.
There the cell breaks food down with oxygen and makes most of its ATP.
A flight muscle uses ATP fast, so its cells are packed with mitochondria.
The mitochondrion stores no energy; it makes ATP as needed.
In the matrix, an enzyme removes two electrons (with hydrogen) from a molecule made from the fragments of glucose, and FAD picks them up, becoming FADH₂. The enzyme comes out of the reaction unchanged.
Which of the following describes FAD?
- A. An enzyme: a protein that speeds the reaction up without being changed by itFAD is not a protein, and FAD is changed by the reaction: it becomes FADH₂.
The enzyme is the protein that speeds the reaction up. - B. A protein of the electron transport chain, set in the inner membrane of the mitochondrionThe chain’s proteins pass electrons along the membrane.
FAD is a small non-protein molecule that picks up electrons from the reaction.
FAD is not one of the chain’s proteins. - C. A sugar that the enzyme breaks down to release energyFAD is not broken down.
FAD picks up the electrons and becomes FADH₂, then hands them on and becomes FAD again. - D. ✓ A coenzyme: a non-protein molecule that works alongside the enzyme and takes part in the reaction
Why: An enzyme is a protein that speeds a reaction up, unchanged.
FAD is not a protein and does not speed the reaction up.
FAD takes part in the reaction: it picks up the two electrons and becomes FADH₂.
A non-protein molecule that works alongside an enzyme is called a coenzyme.
Students measured the oxygen used by germinating mung bean seeds. Fifteen grams of beans were sealed in a respirometer, a tube in which a chemical absorbs all the carbon dioxide the beans give off, so the gas volume falls only as oxygen is used. Five respirometers sat for 20 minutes at each of three temperatures, 10, 20 and 30 °C, and five more at 20 °C held 15 g of beans that had been boiled and cooled. The table gives the mean oxygen used and the standard error (SE) of each set of five.
(a) Describe the graph the students should construct from the living-bean data: the kind of graph, what goes on each axis, the trend it shows, and how the plotted means should be joined. (2 pt)
So the means are plotted as points, not bars.
Temperature (°C), the quantity the students set, goes on the x-axis.
Oxygen used in 20 minutes (mL), the quantity measured, goes on the y-axis.
Oxygen use rises steeply from 10 °C to 20 °C and only a little from 20 °C to 30 °C: the trend levels off.
The means do not follow one straight trend.
So they are joined one to the next, not fitted with one straight best-fit line.
- Award 1 point for the graph: a point graph (points, not bars), with temperature (°C) on the x-axis and oxygen used in 20 min (mL) on the y-axis.
- Award 1 point for the trend and the joining: oxygen use rises with temperature, steeply from 10 to 20 °C and much less from 20 to 30 °C (or "rises and then levels off"), so the means are joined one to the next, because they do not follow one straight trend.
- Accept "line graph" for a point graph, and a smooth curve through the means for the joining. Do not award the graph point for a bar graph (temperature is a measured amount, not a set of separate categories) or for the axes swapped. Do not award the trend point for one straight best-fit line through the three means, or for a trend with no joining stated.
Slip Drawing bars, one per temperature, or fitting one straight best-fit line through the three means. Temperature is a measured amount, so each mean is a point on a temperature scale. The means rise steeply and then level off, so they are joined one to the next.
(b) Calculate the upper end of the ±2SE error bar on the 30 °C mean. (1 pt)
Answer: 1.04 mL (tolerance ±0.005)
- Award 1 point for: 1.04 mL (the mean of 0.88 mL plus 2 × 0.08 mL).
- Accept 1.04 mL with the working shown as 0.88 + 0.16. Do not award the point for 0.96 mL (±1SE) or for the lower end, 0.72 mL.
(c) Determine, using the error bars, whether the data show a difference in oxygen use between 20 °C and 30 °C. Explain why the gas volume falls in the respirometers of living beans but hardly at all in the respirometers of boiled beans. (2 pt)
The 30 °C bar runs from 0.72 to 1.04 mL.
The two bars overlap, between 0.72 and 0.84 mL.
Overlapping ±2SE bars mean the data do not show a difference.
So the data do not show a difference in oxygen use between 20 °C and 30 °C.
The living beans’ cells respire: they break food down to make ATP.
Oxygen takes the electrons off the end of the electron transport chain and becomes water.
So the living cells take oxygen out of the gas, and the volume falls.
The chemical absorbs the carbon dioxide released.
Boiling denatured the boiled beans’ enzymes, so those cells are dead and do not respire.
So they take up almost no oxygen, and their volume hardly changes.
- Award 1 point for the determination: the decision (the data do not show a difference in oxygen use between 20 °C and 30 °C) AND the observation it rests on: the 20 °C bar runs from 0.64 to 0.84 mL and the 30 °C bar from 0.72 to 1.04 mL, and the two bars overlap.
- Award 1 point for the explanation: the living beans' cells are respiring (breaking food down to make ATP), and oxygen is the terminal electron acceptor at the end of their electron transport chain (it takes the electrons and becomes water), so the living cells take oxygen out of the gas; boiling killed the beans (their enzymes are denatured), so their cells no longer respire and take up almost no oxygen.
- Determine needs the decision and the observation it rests on. Accept "the null hypothesis of no difference is not rejected for 20 versus 30 °C". Do not award the determination point for "20 and 30 °C are the same", or for claiming they differ because the means differ. For the explanation, accept "oxygen is used up by respiration" or "by the electron transport chain" for the living beans, with the boiled beans described as dead or as unable to respire. Do not award the explanation point for "the beans breathe" or "the beans use up air" with no role for oxygen, for oxygen turned into carbon dioxide, or for an answer that does not mention the boiled beans.
Slip Reading the overlapping bars as 'the same', or treating the gap between the means (0.74 and 0.88 mL) as a difference: overlap means no difference shown. For the explanation, saying the beans 'breathe' or 'use up air': the point needs oxygen's job, taking electrons at the end of the chain, and the reason the boiled beans use none, that their cells are dead.
(d) A student adds a poison that stops electron transfer at a protein near the end of the chain to a respirometer of living beans at 20 °C. Predict what happens to the gas volume in that respirometer, and justify your prediction. (1 pt)
Oxygen is taken up only at the end of the electron transport chain, where it accepts the electrons.
The poison blocks transfer near the end of the chain.
So electrons no longer reach oxygen.
So the beans stop using oxygen, and the volume stays constant.
- Award 1 point for: the volume stops falling (or falls far more slowly), because electrons can no longer be passed along the chain to oxygen, so oxygen is no longer taken up; oxygen is used nowhere else in respiration.
- Accept a note that NADH builds up, or that ATP output falls, alongside the oxygen prediction. Do not award the point for a prediction with no link to oxygen's role as the terminal electron acceptor, or for "the beans use more oxygen to make up for it".
Slip Predicting what happens to ATP, or that the beans 'use more oxygen to compensate'. The reading measures oxygen. So the answer must follow the block to oxygen uptake: electrons no longer reach oxygen, so oxygen is no longer used.
Human liver cells are grown in a dish with plenty of glucose and oxygen. A researcher adds a drug that blocks the channel through ATP synthase, so protons can no longer pass through it. The drug does not bind to any protein of the electron transport chain. The measurements for the hour before the drug and the hour after it are in the table.
(a) Describe how the untreated cells made ATP by oxidative phosphorylation, from the electrons delivered by NADH to the ATP. (1 pt)
Their energy pumps protons from the matrix into the intermembrane space, which is why that space (pH 6.8) is more acidic than the matrix (pH 7.8).
The inner membrane lets protons back into the matrix almost only through ATP synthase.
Protons flowing down their proton gradient through ATP synthase drive the formation of ATP from ADP and inorganic phosphate.
- Award 1 point for: electrons delivered by NADH (and FADH₂) pass down the electron transport chain from protein to protein toward oxygen, and the energy they release pumps protons out of the matrix into the intermembrane space; the protons then flow back down their proton gradient into the matrix almost only through ATP synthase, and that flow drives the formation of ATP from ADP and inorganic phosphate (chemiosmosis).
- Accept "a difference in concentration and charge across the membrane" for the proton gradient, and "ATP synthase uses the proton flow to join ADP and phosphate" for the last step. Do not award the point for ATP synthase making the proton gradient, for protons pumped into the matrix, or for the chain making the ATP directly.
Slip Saying that ATP synthase pumps the protons, or that the chain makes the ATP. The chain pumps, outward into the intermembrane space. ATP synthase is the return path, and that is where the ATP is made.
(b) Calculate the ATP made per glucose before and after the drug, and explain why the cells used more glucose after it. (2 pt)
After it, they made 2 ATP per glucose.
Each glucose now gives 2 ATP instead of 30.
So the cells must break down far more glucose for the ATP they make.
- Award 1 point for the calculation: 360 ÷ 12 = 30 ATP per glucose before the drug and 80 ÷ 40 = 2 ATP per glucose after it.
- Award 1 point for the explanation: each glucose now gives only 2 ATP, so the cells must break down far more glucose for the ATP they make.
- Accept the two values with their working shown, and any reason that links the smaller yield per glucose to the greater glucose use. Do not award the calculation point for one value only or for dividing the glucose by the ATP. Do not award the explanation point for the values restated with no reason.
Slip Dividing the glucose by the ATP, or giving the two values with no reason for the extra glucose. The yield is the ATP made divided by the glucose used; a smaller yield per glucose means more glucose for the same ATP.
(c) Describe the effect of the drug on the proton gradient across the inner membrane. Use the pH readings to support your answer. (1 pt)
The chain keeps pumping protons out of the matrix.
The channel through ATP synthase is blocked, so the protons cannot flow back.
So they pile up in the intermembrane space.
That is why its pH fell from pH 6.8 to pH 6.4: more hydrogen ions outside.
The matrix rose from pH 7.8 to pH 8.0: fewer hydrogen ions inside.
So the proton gradient is steeper than before.
- Award 1 point for: the proton gradient grows (gets steeper), because the chain keeps pumping protons into the intermembrane space while the blocked ATP synthase no longer lets them return; the fall in intermembrane-space pH from pH 6.8 to pH 6.4 (more H⁺), with the matrix rising from pH 7.8 to pH 8.0, is the evidence.
- Accept "the difference in pH across the membrane widened" as the justification if the direction (more H⁺ outside) is clear. Do not award the point for the proton gradient collapsing, or for a prediction about ATP output with nothing said about the proton gradient.
Slip Answering about ATP ('ATP falls') when the question asks about the proton gradient, or predicting that the proton gradient collapses. The chain is still pumping. Only the return path is shut, so protons accumulate.
(d) Explain why lactate appeared in the dish after the drug. (1 pt)
The chain kept pumping protons out until it could no longer pump against the grown proton gradient, and nearly stopped.
A stopped chain cannot take electrons from NADH, so NADH could not be unloaded and glycolysis, which needs NAD⁺, was about to stall.
The cells passed NADH’s electrons to pyruvate instead, making lactate: fermentation.
That regenerates NAD⁺, so glycolysis kept going.
- Award 1 point for: with the channel through ATP synthase blocked, the protons the chain pumps cannot return, so the proton gradient grows until the chain can no longer pump against it and nearly stops (which is why oxygen use fell); a chain that has stopped no longer unloads NADH to NAD⁺, so glycolysis would use up its NAD⁺; the cells pass NADH's electrons to pyruvate instead, making lactate, and that regenerates the NAD⁺ glycolysis needs (fermentation).
- Accept "NADH can no longer be unloaded", "the concentration of NAD⁺ falls" or "the chain has stopped because the protons it pumps can no longer return" as the reason the cells ferment; no name for the chain's stalling is needed. Accept "the cells ferment, making 2 ATP per glucose" or "fermentation yields 2 ATP per glucose", provided NAD⁺ regeneration or the stopped chain is given as the reason for the lactate. Do not award the point for the lactate-forming step itself producing ATP, for fermentation making ATP instead of glycolysis, or for "the cells used up their oxygen" (oxygen was plentiful).
Slip Saying that the cells used up their oxygen, or that the lactate-forming step itself makes the ATP. Oxygen was plentiful; the chain stopped because the protons it pumps had no way back. Glycolysis makes the two ATP per glucose, and fermentation regenerates the NAD⁺ that lets it keep going.
APBIO-U03-L21 The reaction, written out
Photo: Ursus sapien, Wikimedia Commons, CC BY-SA 3.0 (resized).
Here is a water plant called pondweed. Stand it in a beaker of water in bright light, and it gives off a steady stream of bubbles.
In the dark, the pondweed gives off almost none.
Collect the gas from the lit beaker and hold a glowing splint in it. The splint relights. Only oxygen relights a glowing splint. So the gas is oxygen.
Where is the plant getting oxygen from, and what is it making at the same time?
Unit 3 · Cellular Energetics
1The reaction, written out
Video: Watch: The reaction, written out
The pondweed’s bubbles are oxygen. The word equation for photosynthesis, then the same reaction with every molecule counted: carbon dioxide and water are the reactants, glucose and oxygen the products, and light is the energy input, written above the arrow because it supplies no atoms.
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A plant makes sugar in its chloroplasts.
What does it make the sugar from?
- A. Oxygen and water, using the energy of lightOxygen is what photosynthesis gives off; the sugar is built from carbon dioxide and water.
- B. ✓ Carbon dioxide and water, using the energy of light
Why: In a chloroplast, a plant makes sugar from carbon dioxide and water, using the energy of light.
What is the pondweed doing when it bubbles in the light?
The plant takes in carbon dioxide and water.
Using the energy of light, it builds them into glucose and gives off oxygen.
Making glucose this way is photosynthesis.
Here is the whole reaction written out as a word equation, with light energy written above the arrow.
Every part of photosynthesis is one piece of this line.
So read the line first: which substances go in, which come out, and what light does.
Beneath the word equation is the same reaction with every molecule counted: 6CO₂ + 6H₂O → C₆H₁₂O₆ + 6O₂, light energy above the arrow.
Six carbon dioxide molecules and six water molecules become one glucose molecule and six oxygen molecules.
Every atom on the left is on the right.
On the left of the arrow are the reactants, carbon dioxide and water.
On the right are the products, glucose and oxygen.
Light is written above the arrow, not among the reactants.
Light supplies the energy that drives the reaction.
Light supplies no atoms. So light is the energy input, not a reactant.
What you are expected to know Read the equation for photosynthesis, carbon dioxide + water → glucose + oxygen with light energy above the arrow: carbon dioxide and water are the reactants, glucose and oxygen are the products, and light is the energy input.
In the equation for photosynthesis, which of the following is light?
- A. A reactantA reactant supplies atoms, and light has no atoms.
- B. A productA product is a new substance the reaction forms, and the reaction forms no light.
- C. ✓ The energy input
Why: Light is written above the arrow, not on either side of it.
Light supplies the energy that drives the reaction.
Light supplies no atoms.
So light is the energy input.
In the equation for photosynthesis, which of the following is oxygen?
- A. A reactantOxygen is written on the right of the arrow, and the reactants are written on the left.
- B. ✓ A product
- C. The energy inputOxygen is a substance made of atoms, and the energy input is light.
Why: Oxygen is written on the right of the arrow.
The substances on the right are the new substances the reaction forms.
So oxygen is a product.
In the equation for photosynthesis, which of the following is water?
- A. ✓ A reactant
- B. A productWater is written on the left of the arrow, and the products are written on the right.
- C. The energy inputWater is a substance made of atoms, and the energy input is light.
Why: Water is written on the left of the arrow.
The substances on the left are the starting substances the reaction changes.
So water is a reactant.
In the equation for photosynthesis, which of the following is glucose?
- A. A reactantGlucose is written on the right of the arrow, and the reactants are written on the left.
- B. ✓ A product
- C. The energy inputGlucose is a substance made of atoms, and the energy input is light.
Why: Glucose is written on the right of the arrow.
The substances on the right are the new substances the reaction forms.
So glucose is a product.
In the equation for photosynthesis, which of the following is carbon dioxide?
- A. ✓ A reactant
- B. A productCarbon dioxide is written on the left of the arrow, and the products are written on the right.
- C. The energy inputCarbon dioxide is a substance made of atoms, and the energy input is light.
Why: Carbon dioxide is written on the left of the arrow.
The substances on the left are the starting substances the reaction changes.
So carbon dioxide is a reactant.
25Who photosynthesizes
Video: Watch: Who photosynthesizes
A spinach leaf cell, an onion bulb cell, a green alga, a cyanobacterium, then a mouse, a mushroom and a gut bacterium, each judged in the same words: does it make sugar from carbon dioxide and water using light? Plants, algae and cyanobacteria do; animals, fungi and most bacteria do not.
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Which living things photosynthesize? Judge each case by the same test: does it make sugar from carbon dioxide and water, using the energy of light?
A spinach leaf cell is packed with chloroplasts. In the light, the spinach leaf cell makes sugar from carbon dioxide and water.
So the spinach leaf cell photosynthesizes.
An onion bulb cell comes from a plant too. But the onion bulb cell holds no chloroplasts, and it makes no sugar from carbon dioxide and water.
So the onion bulb cell does not photosynthesize.
A single-celled green alga floating in a pond is not a plant. But the alga holds a chloroplast, and in the light it makes sugar from carbon dioxide and water.
So the alga photosynthesizes.
Now consider a green scum on a pond that bubbles oxygen in sunlight. The scum’s cells are bacteria, with no chloroplast at all.
But these bacteria catch light on membranes folded inside the cell itself, and in the light they make sugar from carbon dioxide and water.
So the scum’s cells photosynthesize.
Bacteria that photosynthesize the way plants do, releasing oxygen, are called .
Cyan is blue-green. A scum of cyanobacteria on a pond looks blue-green, and that is where the name comes from.
A mouse, a mushroom and a gut bacterium capture no light. None of the three makes sugar from carbon dioxide and water.
So the mouse, the mushroom and the gut bacterium do not photosynthesize. All three get their sugar from food.
No animal photosynthesizes.
An organism or a cell photosynthesizes when it captures light energy to make sugar from carbon dioxide and water.
Here is a table sorting the cases you have just seen: which photosynthesize, and which do not.
| photosynthesizes | does not photosynthesize |
|---|---|
| plant cells that hold chloroplasts | plant cells with no chloroplasts |
| algae | animals |
| cyanobacteria | fungi |
| most bacteria |
an organism or cell photosynthesizes when it captures light energy to make sugar from carbon dioxide and water
What you are expected to know Say whether a given organism or cell photosynthesizes.
A moss leaf cell is packed with chloroplasts.
Does the cell photosynthesize?
- A. ✓ Yes
- B. NoA cell that holds chloroplasts captures light in them.
Why: Within a plant, the cells that hold chloroplasts photosynthesize.
The moss leaf cell holds chloroplasts.
So the moss leaf cell photosynthesizes.
A carrot root cell, deep in the soil, holds no chloroplasts.
Does the cell photosynthesize?
- A. YesA plant cell photosynthesizes only in its chloroplasts, and this cell has none.
- B. ✓ No
Why: Within a plant, only the cells that hold chloroplasts photosynthesize.
The carrot root cell holds no chloroplasts.
So the carrot root cell does not photosynthesize.
A cyanobacterium lives in the warm water of a hot spring.
Does the cell photosynthesize?
- A. ✓ Yes
- B. NoA cell needs no chloroplast to photosynthesize; cyanobacteria catch light on membranes folded inside the cell.
Why: Cyanobacteria are bacteria that photosynthesize the way plants do.
They catch light on membranes folded inside the cell.
So the cyanobacterium photosynthesizes.
A seaweed grows on a rock that the tide uncovers each day.
Does the seaweed photosynthesize?
- A. ✓ Yes
- B. NoA seaweed is an alga, and algae capture light to make sugar.
Why: A seaweed is an alga.
Algae capture light energy to make sugar.
So the seaweed photosynthesizes.
A tapeworm lives in a cow’s gut.
Does the tapeworm photosynthesize?
- A. YesA tapeworm is an animal, and no animal captures light to make sugar.
- B. ✓ No
Why: A tapeworm is an animal.
No animal captures light energy to make sugar.
So the tapeworm does not photosynthesize.
A yeast cell grows in bread dough.
Does the yeast cell photosynthesize?
- A. YesYeast is a fungus, and fungi capture no light.
- B. ✓ No
Why: Yeast is a fungus.
Fungi capture no light energy.
So the yeast cell does not photosynthesize; it gets its sugar from the dough.
Back to the pondweed standing in a beaker of water in bright light, giving off a steady stream of bubbles.
The bubbles are oxygen: a product, on the right of the arrow.
At the same time the pondweed is making glucose, the other product, from carbon dioxide and water.
The light supplies the energy that drives the reaction.
In the dark there is no energy input. So the reaction almost stops, and the bubbles almost stop.
56Quick quiz: cyanobacteria mixed practice
What are cyanobacteria?
- A. Bacteria that live inside the chloroplasts of a plant cell and share the plant’s sugarCyanobacteria live on their own, in ponds, seas and hot springs, and have no chloroplast.
- B. Single-celled algae that float near the surface of ponds and hold one chloroplast eachAn alga has a chloroplast; a cyanobacterium is a bacterium and catches light on membranes folded inside the cell.
- C. ✓ Bacteria that capture light energy to make sugar from carbon dioxide and water, and give off oxygen
Why: Cyanobacteria are bacteria that photosynthesize the way plants do, releasing oxygen.
They catch light on membranes folded inside the cell itself, with no chloroplast.
A blue-green scum on a pond bubbles oxygen in sunlight. Its cells are cyanobacteria.
(a) State what cyanobacteria are. (1 pt)
- Award 1 point for: bacteria that photosynthesize (make sugar from carbon dioxide and water using light) and release oxygen, with no chloroplast.
59Mixed practice mixed practice
A pondweed in the dark gives off almost no bubbles.
Which of the following is missing in the dark?
- A. ✓ The energy input
- B. A reactantCarbon dioxide and water are still in the beaker in the dark; what is missing is the light.
- C. A productGlucose and oxygen are what the reaction makes; the reaction is short of what drives it, not of what it makes.
Why: Light is the energy input for photosynthesis.
In the dark there is no light.
So the reaction has no energy input, and it almost stops.
In the equation for photosynthesis, which of the following are the reactants?
- A. Glucose and oxygenGlucose and oxygen are on the right of the arrow: the products.
- B. ✓ Carbon dioxide and water
- C. Light and waterLight supplies energy and no atoms, so light is not a reactant.
Why: The reactants are the substances on the left of the arrow.
On the left are carbon dioxide and water.
A cyanobacterium and a spinach leaf cell both photosynthesize.
Which of the following does the spinach leaf cell have and the cyanobacterium lack?
- A. ✓ A chloroplast
- B. Membranes that catch lightThe spinach leaf cell and the cyanobacterium both have membranes that catch light; the cyanobacterium’s are folded inside the cell itself.
- C. A way to make sugar from carbon dioxideThe spinach leaf cell and the cyanobacterium both make sugar from carbon dioxide and water using light.
Why: A spinach leaf cell catches light in its chloroplasts.
A cyanobacterium is a bacterium and has no chloroplast.
The cyanobacterium catches light on membranes folded inside the cell itself.
A student says: “Only plants photosynthesize.”
Is the student correct?
- A. Yes, only plants photosynthesizeAlgae and cyanobacteria also make sugar from carbon dioxide and water using light.
- B. ✓ No, algae and cyanobacteria photosynthesize too
Why: Algae hold chloroplasts and make sugar from carbon dioxide and water using light.
Cyanobacteria do the same on membranes folded inside the cell.
So plants are not the only organisms that photosynthesize.
Which of the following supplies no atoms to the glucose photosynthesis makes?
- A. Carbon dioxideCarbon dioxide is a reactant: its atoms end up in the glucose.
- B. WaterWater is a reactant: its atoms end up in the products.
- C. ✓ Light
Why: Light is energy, not matter.
Light has no atoms.
So light supplies energy to the reaction and no atoms to the glucose.
A spinach leaf stands in bright light.
Which gas does the leaf give off overall?
- A. Carbon dioxideCarbon dioxide is a reactant: in bright light the leaf takes in far more carbon dioxide than it gives off.
- B. ✓ Oxygen
Why: Spinach leaf cells hold chloroplasts, so they photosynthesize in the light.
Oxygen is a product of photosynthesis.
In bright light the leaf makes far more oxygen than its own respiration uses.
So the leaf gives off oxygen overall.
A student stands pondweed in a beaker of water in bright light and counts 42 bubbles a minute rising from it. In the dark, the pondweed gives off 1 bubble a minute. The student collects the gas from the lit beaker, and it relights a glowing splint.
(a) Explain how the change from 42 bubbles a minute to 1 bubble a minute demonstrates that light is the energy input for photosynthesis. (1 pt)
In the dark it gave off 1 bubble a minute.
Only the light changed; the carbon dioxide and water were still in the beaker.
So light drives the reaction: it is the energy input.
- Award 1 point for: the reaction almost stopped when only the light was removed, with the reactants still present, so light supplies the energy that drives photosynthesis.
(b) Explain how the splint result identifies which product of photosynthesis the bubbles are. (1 pt)
The collected gas relit the splint.
So the gas is oxygen.
Oxygen is on the right of the arrow: it is a product of photosynthesis.
- Award 1 point for: only oxygen relights a glowing splint, so the bubbles are oxygen, the product on the right of the arrow.
Glossary
- cyanobacteria
- Bacteria that photosynthesize the way plants do, releasing oxygen: they capture light energy and make sugar from carbon dioxide and water with no chloroplast, on membranes folded inside the cell itself.
APBIO-U03-L21B Where a tree’s mass comes from
Here is a willow shoot planted in a tub of dried soil, and the same tree five years later.
Nearly four hundred years ago, Jan van Helmont planted a willow shoot with a mass of 2.3 kg in a tub holding 90 kg of dried soil. He watered it for five years.
The tree then had a mass of 76.7 kg, a gain of 74.4 kg. The soil had lost only 57 g.
Where did 74.4 kg of tree come from?
Unit 3 · Cellular Energetics
1Not from the soil
Video: Watch: Not from the soil
Van Helmont’s willow gained 74.4 kg while its soil lost 57 g. A tree cannot make atoms and light has none, so the new mass came from the air and the watering can, not the soil.
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Where does a tree’s mass come from, if not from the soil?
A tree cannot make atoms. So every atom in the new wood came in from outside the tree.
The carbon came in as carbon dioxide from the air.
The hydrogen came in as water.
The oxygen the tree gives off also came from water.
Light supplied the energy, and not one atom.
Following each kind of atom back to where it came in settles the question. Start with the soil.
A young tree doubles in mass over one summer.
Where did the atoms in its new wood come from?
- A. The tree made themNo organism can make an atom; a chemical reaction only rearranges the atoms it is given.
- B. ✓ They came in from the tree’s surroundings
Why: A tree cannot make atoms.
So every atom the tree adds came in from its surroundings: the air, the water and the soil.
Sunlight is energy, not matter. So sunlight supplies none of those atoms.
Van Helmont grew the willow in the tub nearly four hundred years ago. He measured the mass of the tree and of the dried soil at the start, and again after five years.
Here is a table of the two masses, at planting and five years later.
| at planting | five years later | change | |
|---|---|---|---|
| willow | 2.3 kg | 76.7 kg | gained 74.4 kg |
| soil | 90.000 kg | 89.943 kg | lost 0.057 kg (57 g) |
the soil lost less than a thousandth of what the willow gained
The willow gained 74.4 kg. Its soil lost 57 g, less than a thousandth of the gain.
So the soil supplied at most 57 g of the 74.4 kg.
The other 74.3 kg came from somewhere else: the air and the watering can.
What you are expected to know Justify, from the willow’s masses, the claim that the tree’s new mass did not come from the soil.
A tomato plant grows for six weeks with its roots in water that holds dissolved minerals, and its leaves in air and light. The chart shows the dry mass the plant gained and the mass of minerals the water lost.
Where did most of the plant’s new mass come from?
- A. The minerals in the waterThe water lost 7 g of minerals, and the plant gained 180 g.
So the minerals can account for at most 7 g of the gain. - B. ✓ Carbon dioxide and water
- C. The lightLight is energy, not matter, so light cannot become an atom of the plant.
Why: The water lost only 7 g of minerals; the plant gained 180 g.
So the minerals account for at most 7 g of the gain.
Light has no atoms.
So the new mass came from the carbon dioxide the leaves took in and the water the roots took up.
The tomato plant gained 180 g of dry mass over six weeks. In the same six weeks the water lost 7 g of minerals.
(a) Explain how the two masses rule the minerals out as the source of most of the plant’s new mass. (1 pt)
Frame The minerals lost
The plant gained 180 g.
So the minerals can account for at most 7 g of the 180 g.
The other 173 g came from something else the plant took in: carbon dioxide from the air and water from the roots.
- Award 1 point for: comparing the 7 g of minerals lost with the 180 g gained, so the minerals account for at most 7 g and the rest came from carbon dioxide and water.
A maple tree in a park has grown from a sapling into a tall tree. A student says: “The tree’s new mass came mainly from the soil its roots grow in.”
Is the student correct?
- A. Yes, the new mass came mainly from the soilA tree gains far more mass than its soil loses.
Van Helmont’s willow gained 74.4 kg while its soil lost 57 g. - B. No, the new mass came mainly from the lightLight is energy, not matter, so light cannot become the atoms of a tree.
- C. ✓ No, the new mass came mainly from carbon dioxide and water
Why: A tree gains far more mass than its soil loses, so the soil is not the main source.
Light has no atoms.
The leaves take in carbon dioxide and the roots take up water.
So the tree’s new mass came mainly from carbon dioxide and water.
21The carbon came in as carbon dioxide
Video: Watch: The carbon came in as carbon dioxide
Leaves given carbon dioxide made with labeled carbon, ¹³C, and ordinary water make sugar that carries the label within minutes. The sugar’s carbon came from the carbon dioxide; its hydrogen came from the water; light supplied the energy and no atoms.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L21Bb.mp4
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¹³C is a heavier form of carbon, one unit heavier than ordinary carbon.
Which of the following treats ¹³C exactly like ordinary carbon?
- A. ✓ An enzyme
- B. An instrument that measures massAn instrument that measures mass is what tells ¹³C apart from ordinary carbon.
Why: Enzymes treat ¹³C exactly like ordinary carbon.
An instrument can tell ¹³C from ordinary carbon by its mass.
So a molecule built with ¹³C goes through a cell’s reactions like any other, and can still be traced.
In the light, a leaf builds sugar from carbon dioxide and water: carbon dioxide + water → glucose + oxygen, with light energy above the arrow.
Which reactant supplies the sugar’s carbon? Follow the carbon.
Suppose a researcher gives leaves carbon dioxide made with labeled carbon, ¹³C, and ordinary water.
Within minutes the label appears in the leaves’ new sugar.
The label was supplied only in the carbon dioxide. So the sugar’s carbon came from the carbon dioxide.
Now follow the hydrogen. Carbon dioxide contains no hydrogen; water does.
So the sugar’s hydrogen came from the water.
So carbon dioxide and water between them supply every atom in the sugar.
Light supplies the energy to build the sugar.
Light has no atoms. So no part of the sugar is made of light.
A plant, an alga or a cyanobacterium builds itself from carbon dioxide and water, using the energy of light. From that sugar the organism builds everything else.
What you are expected to know Justify, from the labeled-carbon result, the claim that the sugar’s carbon comes from carbon dioxide and its hydrogen from water.
What you are expected to know Say that light supplies the energy to build the sugar, and no atoms.
A researcher gives wheat seedlings carbon dioxide made with labeled carbon, ¹³C, and ordinary water. An hour later the seedlings’ new sugar carries the label.
Which of the following supplied the sugar’s carbon?
- A. The waterWater contains hydrogen and oxygen, and no carbon.
- B. ✓ The carbon dioxide
- C. The lightLight is energy, not matter: it has no atoms to supply.
Why: The label was supplied only in the carbon dioxide.
The label appeared in the new sugar.
So the sugar’s carbon came from the carbon dioxide.
A tray of duckweed in a sealed chamber with carbon dioxide and water receives 250 kJ of light energy over a day, and its dry mass rises by 0.9 g.
Which of the following did the light contribute to the 0.9 g?
- A. The carbon atoms in the new sugarThe carbon in the new sugar comes from the carbon dioxide, and light has no atoms.
- B. Part of the massEnergy cannot become mass in a plant.
- C. ✓ Energy only, and no atoms
Why: Light supplies the energy that drives the building of sugar.
Light has no atoms.
So light contributed energy only, and all 0.9 g came from the carbon dioxide and water.
39Where the oxygen comes from
Video: Watch: Where the oxygen comes from
Algae given water made with labeled oxygen, ¹⁸O, give off oxygen gas that is 88% labeled; algae given labeled carbon dioxide give off oxygen gas that is barely labeled. The oxygen photosynthesis gives off comes from water.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L21Bc.mp4
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Both reactants contain oxygen atoms: carbon dioxide and water. Which one supplies the oxygen gas?
Oxygen, too, has a heavier form that can be traced: ¹⁸O, a labeled oxygen.
Suppose a researcher gives algae water made with labeled oxygen and ordinary carbon dioxide.
The oxygen gas the algae give off is 88% labeled.
Now suppose the researcher gives other algae labeled carbon dioxide and ordinary water.
Their oxygen gas is 0.3% labeled, about the same as algae given no label at all, 0.2%.
The label reaches the oxygen gas only when the label is in the water.
So the oxygen photosynthesis gives off comes from water, not from carbon dioxide.
No oxygen is created. The oxygen atoms that were in the water leave the plant as oxygen gas.
The balanced equation shows six water molecules for every glucose molecule.
The leaf splits twelve water molecules for every glucose molecule it makes. Six new water molecules form as the leaf builds the sugar.
So all twelve oxygen atoms in the six molecules of oxygen gas come from water. The equation shows only the difference in water, six molecules.
What you are expected to know Say where the oxygen photosynthesis gives off comes from, water, and cite the labeled-water result that shows it.
Where do the oxygen atoms in the oxygen gas that photosynthesis gives off come from?
- A. From carbon dioxideAlgae given labeled carbon dioxide gave off oxygen gas that was only 0.3% labeled, the same as algae given no label.
- B. From both reactants equallyThe two reactants did not share the label equally: labeled water put 88% of the label into the gas, and labeled carbon dioxide put in almost none.
- C. ✓ From water
Why: When the water carried the label, the oxygen gas was 88% labeled.
When the carbon dioxide carried the label, the gas was barely labeled at all.
So the oxygen gas is the oxygen that was in the water.
A researcher gives algae water made with labeled oxygen, ¹⁸O, and ordinary carbon dioxide. The oxygen gas the algae give off is 88% labeled.
(a) Explain how this result shows where the oxygen gas comes from. (1 pt)
Frame The label was in
The oxygen gas the algae gave off carried the label: 88% of it was labeled.
An atom in the gas that carries the label must have come from the water.
So the oxygen gas comes from the water.
- Award 1 point for: the label was supplied only in the water and appeared in the oxygen gas, so the oxygen gas comes from the water.
A student says: “The oxygen gas a plant gives off comes from the carbon dioxide it takes in.”
Is the student correct?
- A. Yes, the oxygen gas comes from the carbon dioxideAlgae given labeled carbon dioxide gave off oxygen gas that was barely labeled.
- B. ✓ No, the oxygen gas comes from the water
Why: When the water carried the label, the oxygen gas carried it too.
When the carbon dioxide carried the label, the oxygen gas was barely labeled.
So the oxygen gas is the oxygen that was in the water, not in the carbon dioxide.
Back to van Helmont’s willow: a 2.3 kg shoot planted in 90 kg of dried soil, watered for five years, then a 76.7 kg tree in soil only 57 g lighter.
The 74.4 kg of new tree came from the air and the watering can, not from the soil.
Its carbon came in as carbon dioxide from the air.
Its hydrogen came in as water from the watering can.
Five summers of light supplied the energy to build it, and not one atom.
The oxygen from that water went back into the air as oxygen gas.
63Mixed practice mixed practice
A student claims that the oxygen gas photosynthesis gives off comes from the carbon dioxide. To test the claim, a researcher gives algae ordinary water and carbon dioxide made with labeled oxygen atoms, ¹⁸O.
Which of the following results contradicts the claim?
- A. Algae given labeled carbon dioxide make labeled sugarLabeled sugar shows that some of the carbon dioxide’s oxygen atoms went into sugar.
Labeled sugar does not show whether any of those atoms left as oxygen gas. - B. Algae given labeled carbon dioxide give off oxygen gas only in the lightNeeding light shows that the reaction needs light energy.
Needing light does not show which reactant the oxygen atoms come from. - C. Algae given more carbon dioxide give off more oxygen gasMore carbon dioxide speeds up the whole reaction, so the algae make more of every product.
A faster rate does not show whose oxygen atoms leave as gas. - D. ✓ Algae given labeled carbon dioxide give off oxygen gas that is barely labeled
Why: The label was in the carbon dioxide’s oxygen atoms.
If the oxygen gas came from the carbon dioxide, the gas would carry that label.
The gas was barely labeled.
So the oxygen gas does not come from the carbon dioxide.
A bean plant grows in a pot of soil for a month and gains 30 g of dry mass.
Which of the following supplied most of those 30 g?
- A. The soilA plant gains far more mass than its soil loses; the soil supplies only a few grams of minerals.
- B. ✓ Carbon dioxide and water
- C. The lightLight is energy, not matter, so light cannot become an atom of the plant.
Why: A plant gains far more mass than its soil loses.
Light has no atoms.
The leaves take in carbon dioxide and the roots take up water.
So most of the 30 g came from carbon dioxide and water.
In the sugar a leaf makes, where did the hydrogen atoms come from?
- A. ✓ Water
- B. Carbon dioxideCarbon dioxide contains carbon and oxygen, and no hydrogen.
- C. LightLight is energy, not matter: it has no atoms to supply.
Why: Of the two reactants, only water contains hydrogen.
So the sugar’s hydrogen came from the water.
A researcher gives algae in the light water made with labeled oxygen, ¹⁸O, and ordinary carbon dioxide.
Which of the following will carry the label?
- A. ✓ The oxygen gas the algae give off
- B. Only the sugar the algae makeThe oxygen atoms that were in the water leave as oxygen gas, so the gas carries the label.
- C. Nothing the algae give offThe oxygen atoms that were in the water leave the algae as oxygen gas.
Why: The oxygen photosynthesis gives off comes from water.
The water carries the label.
So the oxygen gas the algae give off carries the label.
Which of the following supplies energy to photosynthesis but no atoms?
- A. WaterWater is a reactant: its hydrogen ends up in the sugar and its oxygen leaves as oxygen gas.
- B. Carbon dioxideCarbon dioxide is a reactant: its carbon ends up in the sugar.
- C. ✓ Light
Why: Light is energy, not matter.
Light has no atoms.
So light supplies energy to the reaction and no atoms.
A student says: “A plant makes its oxygen from nothing when the light is on.”
Is the student correct?
- A. Yes, the oxygen is created in the lightNo oxygen is created; the oxygen atoms that were in the water leave as oxygen gas.
- B. ✓ No, the oxygen was in the water the plant took in
Why: No atom is created in a chemical reaction.
The oxygen atoms that were in the water leave the plant as oxygen gas.
So the oxygen came from the water, not from nothing.
A researcher keeps a sealed tank of pond algae in bright light for a week. The researcher bubbles carbon dioxide through the water, and that carbon dioxide carries a labeled carbon, ¹³C. The researcher measures the minerals dissolved in the water at the start and at the end. Results: the algae’s dried mass rises by 40 g; the dissolved minerals fall by 0.5 g; the new sugar in the algae is rich in the labeled carbon; oxygen gas collects at the top of the tank.
(a) Identify the source of the carbon in the algae’s new sugar, and support your answer with one piece of evidence from the tank. (1 pt)
The labeled carbon was supplied only in the carbon dioxide.
The labeled carbon appears in the algae’s new sugar.
So the sugar’s carbon came from the carbon dioxide.
- Award 1 point for: carbon dioxide as the source of the sugar’s carbon, supported by the labeled carbon appearing in the new sugar.
- Accept: ‘the ¹³C went in as carbon dioxide and came out in sugar’.
Slip Naming the water or the minerals as the carbon source. Neither carried the label. The label came in as carbon dioxide and came out in sugar.
(b) Describe the role of light in the algae’s gain of 40 g. (1 pt)
Light is energy, not matter.
Light supplied no atoms.
So no part of the 40 g is made of light.
- Award 1 point for: light supplies the energy for the reaction and contributes no atoms or mass.
- Accept: ‘light is energy, not matter, so it drives the reaction but cannot become sugar’.
Slip Saying the light ‘became’ sugar or ‘turned into’ mass. Energy cannot become an atom. Every atom of the new sugar came from carbon dioxide and water.
(c) Evaluate the claim that the algae’s new mass came mostly from the minerals dissolved in the water, using the mineral measurement. (1 pt)
The minerals fell by only 0.5 g.
The algae gained 40 g.
So the minerals can account for at most 0.5 g of the gain.
The other 39.5 g came from the carbon dioxide and the water the algae took in.
- Award 1 point for: the judgement (the claim fails) AND the ground for it: the minerals fell by only 0.5 g while the algae gained 40 g, so minerals account for at most 0.5 g and the rest came from carbon dioxide and water.
- Accept: ‘the minerals lost are less than a fiftieth of the mass gained’, or ‘the minerals account for about 1% of the gain’.
Slip Comparing the amount of mineral left in the water with the algae’s final mass. The change in each, 0.5 g lost against 40 g gained, is what settles the claim.
(d) Predict what happens to the algae’s gain in mass if the researcher stops the carbon dioxide supply while the light stays on, and justify your prediction. (1 pt)
Carbon dioxide is the source of the carbon in the sugar.
Light supplies energy and no atoms.
So with no carbon dioxide the algae have no carbon to build new sugar from, however bright the light.
- Award 1 point for: the gain in mass stops (or falls to almost nothing), because carbon dioxide is the carbon source and light supplies energy only.
- Accept: ‘with no carbon dioxide there is no carbon for new sugar’.
Slip Predicting that the algae keep growing on light and water. Water supplies hydrogen and light supplies energy. The carbon has to come from carbon dioxide.
APBIO-U03-L22 What a leaf does with its sugar
Photo: Greg III Espera, Wikimedia Commons, CC BY 4.0 (cropped and resized).
Here is a plant whose leaves are green in the middle and white at the edges.
A gardener keeps the plant in the dark for two days. Then the gardener stands it in the light for a day.
The gardener boils one leaf and soaks it in hot alcohol. The hot alcohol strips out the green, so the iodine’s color can show.
Then the gardener dips the leaf in iodine solution. The green parts turn blue-black. The white parts stay yellow-brown.
What does the iodine find in the green parts, and where did it come from?
Unit 3 · Cellular Energetics
1Three fates for a leaf’s glucose
Video: Watch: Three fates for a leaf’s glucose
A leaf in the light makes glucose. Its cells break some down in respiration for ATP, build some into new molecules such as cellulose, and store the rest as starch.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L22a.mp4
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What does a leaf do with the glucose it makes?
The leaf breaks some of the glucose down in respiration, for ATP.
The leaf builds some of the glucose into new molecules.
The leaf stores the rest of the glucose as starch.
Iodine turns blue-black where starch is present.
So a blue-black patch on a leaf shows where the leaf has been making glucose.
A yellow-brown patch shows where it has not.
That is how a simple stain shows you where photosynthesis happened. Start with the glucose itself.
A leaf cell sits in the dark.
Is the cell respiring?
- A. ✓ Yes, the cell is respiring
- B. No, the cell is not respiringRespiration makes the ATP every living cell needs all the time, so it goes on in the dark too.
Why: Respiration goes on in every living cell, plants included, in light and in dark, making ATP from the energy in glucose.
A leaf in the light makes glucose. The leaf’s own cells use some of that glucose at once: they break it down in respiration to make ATP.
The leaf’s cells use some of the glucose as building material. They join glucose into cellulose for new cell walls, or build glucose into other molecules the cell needs.
The leaf stores the rest of the glucose. A plant stores glucose as starch.
So the glucose a leaf makes has three fates: broken down in respiration for ATP, built into new molecules, or stored as starch.
What you are expected to know State the three fates of the glucose a leaf makes: broken down in respiration for ATP, built into new molecules, or stored as starch.
A leaf cell joins glucose molecules into cellulose for a new cell wall.
Which of the following has the leaf cell done with the glucose?
- A. Broken down in respirationRespiration breaks glucose down; here the cell is joining glucose up into cellulose.
- B. ✓ Built into a new molecule
- C. Stored as starchStarch is the plant’s glucose store; cellulose is a building material for the cell wall.
Why: Cellulose is a new molecule the cell builds from glucose.
So the glucose has been built into a new molecule.
A leaf has made more glucose than its cells use today.
Which of the following does the leaf do with the extra glucose?
- A. ✓ Stores it as starch
- B. Breaks it all down in respirationRespiration breaks down only the glucose the cells need for ATP now.
- C. Gives it off as carbon dioxideA leaf gives off carbon dioxide from respiration, not from its spare glucose.
Why: The leaf’s cells use some glucose now, in respiration and in building.
The leaf keeps the glucose it does not use now.
A plant stores glucose as starch.
A gardener keeps a potted plant in the dark for two days. A student says: “The leaves still hold all the starch they had. Starch stays in a leaf once the leaf has made it.”
Is the student correct?
- A. Yes, the leaves still hold all their starchIn the dark the leaves make no new glucose, so their cells break the stored starch down to feed respiration; after two days little or none is left.
- B. No, the leaves turned the starch into celluloseA cell does not turn starch straight into cellulose; the cell breaks starch down to glucose first, and in the dark the cell needs that glucose for respiration.
- C. ✓ No, the leaves broke the starch down and used the glucose
Why: Starch is the plant’s glucose reserve.
In the dark the leaves made no new glucose.
So the leaf’s cells broke the stored starch down to glucose.
The cells used that glucose for respiration and for building.
After two days little or no starch is left.
A gardener keeps a potted plant in the dark for two days. At the end of the two days its leaves hold little or no starch.
(a) Explain why the leaves hold little or no starch after two days in the dark. (1 pt)
Frame In the dark the leaves
Every living cell keeps respiring, in light and in dark.
So the leaf cells need glucose for respiration.
So the cells break the stored starch down to glucose and use it.
After two days little or no starch is left.
- Award 1 point for: the leaves make no glucose in the dark, but their cells keep respiring, so the cells break the stored starch down and use the glucose.
21Reading an iodine test
Video: Watch: Reading an iodine test
Iodine turns blue-black where starch is present. A leaf with green parts and white parts, kept in the dark for two days and then given a day in the light, turns blue-black only on its green parts: the green parts made glucose and stored some as starch.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L22b.mp4
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Iodine solution shows where starch is. Where starch is present, the iodine turns blue-black.
Where there is no starch, the iodine stays yellow-brown.
Now consider a plant whose leaves have green parts and white parts.
A gardener keeps this plant in the dark for two days. In the dark the leaves make no new glucose.
So their cells use up the starch the leaves held.
Then the plant spends a day in the light.
The gardener boils a leaf and soaks it in hot alcohol. The hot alcohol strips out the green, so the iodine’s color can show.
Then the gardener dips the leaf in iodine. The green parts turn blue-black; the white parts stay yellow-brown.
New starch appears only where photosynthesis has been happening.
The green parts made glucose and stored some of it as starch. The white parts made none.
So a blue-black patch shows where the leaf has been making glucose. A yellow-brown patch shows where it has not.
What you are expected to know Read an iodine test on a leaf: a blue-black patch shows where starch is, so where photosynthesis has been happening.
A gardener keeps a plant in the dark for two days, then clips a strip of black card across the middle of one green leaf, covering both faces, and stands the plant in the light for a day. The gardener removes the card and dips the leaf in iodine.
Which parts of the leaf turn blue-black?
- A. The strip under the cardNo light reached the strip under the card, so that strip made no glucose and stored no starch.
- B. ✓ The uncovered parts
- C. The whole leafThe strip under the card was in the dark all day, and a leaf makes glucose only in the light.
Why: Starch appears only where photosynthesis has been happening.
Light reached the uncovered parts of the leaf.
So the uncovered parts made glucose, and they stored some of that glucose as starch.
No light reached the strip under the card.
So that strip made no glucose and stored no starch.
After the day in the light, the gardener dips the leaf in iodine. The strip that was under the card stays yellow-brown.
(a) Explain why the strip under the card stays yellow-brown. (1 pt)
Frame No light reached
A leaf makes glucose only in the light.
So that strip made no glucose during the day.
So that strip stored no starch.
Iodine turns blue-black only where starch is present.
So the strip stays yellow-brown.
- Award 1 point for: no light reached the strip, so it made no glucose and stored no starch, and iodine turns blue-black only where starch is present.
A student keeps a plant with green leaves in the dark for two days. Straight after the two days, with no time in the light, the student dips one leaf in iodine.
Which of the following does the student see?
- A. ✓ The whole leaf stays yellow-brown
- B. The whole leaf turns blue-blackBlue-black needs starch, and two days in the dark used the leaf’s starch up.
- C. Only the edges turn blue-blackNo part of the leaf has made new glucose, so no part holds starch.
Why: In the dark the leaf made no new glucose.
Its cells broke the stored starch down and used it.
The leaf had no time in the light to make more.
So the leaf holds no starch, and the iodine stays yellow-brown everywhere.
Back to the gardener’s plant, with its leaves green in the middle and white at the edges.
The gardener kept the plant in the dark for two days and then gave it a day in the light. The gardener stripped the green from one leaf and dipped it in iodine.
The green parts turned blue-black. The iodine found starch there.
That starch came from glucose the green parts made during the day in the light.
The white parts stayed yellow-brown. The white parts made no glucose, so they stored no starch.
43Mixed practice mixed practice
A student dips a leaf that has stood in the light all day in iodine. The leaf turns blue-black.
Which of the following does the blue-black show?
- A. The leaf was respiring in the lightIodine shows starch, not respiration.
Every living leaf respires, but iodine does not test respiration. - B. The leaf holds no sugarBlue-black means starch is present, and starch is stored glucose.
- C. The leaf’s enzymes have broken the iodine downThe iodine changes color because starch is present; the leaf’s enzymes do nothing to the iodine.
- D. ✓ The leaf holds starch
Why: Iodine turns blue-black where starch is present.
The leaf stood in the light all day.
So the leaf made glucose, and it stored some of that glucose as starch.
The blue-black shows that starch.
A leaf cell needs ATP.
Which of the three fates of glucose gives the cell its ATP?
- A. ✓ Broken down in respiration
- B. Built into a new moleculeBuilding glucose into cellulose or another molecule uses glucose as material; it makes no ATP.
- C. Stored as starchStarch is glucose kept for later; the cell must break starch back down to glucose first.
Why: Respiration breaks glucose down.
The energy released makes ATP from ADP and Pi.
A gardener keeps a plant with green leaves in the dark for three days, then dips one leaf in iodine.
Which of the following does the gardener see?
- A. The leaf turns blue-blackBlue-black needs starch, and in three days of dark the leaf’s cells used the stored starch up.
- B. ✓ The leaf stays yellow-brown
Why: In the dark the leaf made no new glucose.
Its cells broke the stored starch down and used the glucose.
So the leaf holds no starch, and the iodine stays yellow-brown.
A plant has leaves with green parts and white parts. The plant spends a day in the light after two days in the dark. A student dips one leaf in iodine.
Which parts of the leaf turn blue-black?
- A. ✓ The green parts
- B. The white partsThe white parts made no glucose during the day, so they stored no starch.
- C. The whole leafOnly the green parts made glucose, so only the green parts hold new starch.
Why: Starch appears only where photosynthesis has been happening.
The green parts made glucose in the light and stored some of it as starch.
The white parts made none.
So only the green parts turn blue-black.
After the iodine test, a student says: “The white parts stayed yellow-brown because iodine only works where a leaf is green.”
Is the student correct?
- A. Yes, iodine only works where a leaf is greenIodine reaches every part of the leaf; it turns blue-black wherever it finds starch.
- B. ✓ No, the white parts stayed yellow-brown because they hold no starch
Why: Iodine turns blue-black where starch is present.
The white parts made no glucose during the day.
So the white parts stored no starch.
So the iodine stays yellow-brown on the white parts.
Which of the three fates of a leaf’s glucose keeps the glucose for later?
- A. Broken down in respirationRespiration uses the glucose now, to make ATP.
- B. Built into a new moleculeBuilding uses the glucose now, as material for cellulose or another molecule.
- C. ✓ Stored as starch
Why: Starch is the plant’s glucose store.
The leaf stores the glucose it does not use now as starch, and breaks it down later.
A student keeps a plant in the dark for two days, then wraps half of one green leaf in foil and stands the plant in the light for a day. The student unwraps the leaf and dips it in iodine. The half that was in the foil stays yellow-brown. The half that was uncovered turns blue-black.
(a) Explain how this result demonstrates that a leaf makes starch only where photosynthesis has been happening. (2 pt)
Light reached the uncovered half, so that half made glucose and stored some of it as starch.
That half turned blue-black.
No light reached the half in the foil, so that half made no glucose and stored no starch.
That half stayed yellow-brown.
The only difference between the two halves was the light, so the starch appeared only where photosynthesis had been happening.
- Award 1 point for: the uncovered half was in the light, so it made glucose and stored starch, which the iodine shows as blue-black.
- Award 1 point for: the covered half had no light, so it made no glucose and no starch, and stayed yellow-brown; the light was the only difference between the halves.
Slip Saying the foil kept the iodine out. The student unwrapped the leaf before the iodine dip; the foil kept the light out, so that half made no glucose and stored no starch.
APBIO-U03-L22B A plant in a sealed jar, day and night
Here is a healthy plant sealed in a glass jar with an oxygen sensor.
Through the night the oxygen in the jar falls by 4 mL an hour. Through the day it rises by 10 mL an hour.
Yet the plant’s leaves make oxygen only while the light is on.
If the leaves make oxygen only by day, why does the oxygen fall at night? And is 10 mL an hour really how much they make?
Unit 3 · Cellular Energetics
1Photosynthesis minus respiration
Video: Watch: Photosynthesis minus respiration
The sealed jar in the dark: only respiration, oxygen falling. The jar in the light: respiration still going, the leaves making oxygen faster than respiration uses it, the sensor showing the difference.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L22Ba.mp4
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Why does the oxygen in the jar not simply follow the light?
The plant respires all the time, day and night. Respiration uses oxygen.
By day the leaves also make oxygen.
So the sensor shows the oxygen made minus the oxygen used.
To find how much oxygen the leaves really make, add the night’s 4 mL an hour back to the day’s 10 mL an hour.
The leaves make 14 mL of oxygen an hour, if respiration uses oxygen at the same rate in the light as in the dark.
Every measurement of photosynthesis needs this correction. Start with the jar in the dark.
A plant’s cells respire.
Which gas do the cells take in, and which do they give off?
- A. ✓ The cells take in oxygen and give off carbon dioxide
- B. The cells take in carbon dioxide and give off oxygenTaking in carbon dioxide and giving off oxygen is photosynthesis, not respiration.
Why: In respiration a cell breaks glucose down with oxygen.
The cell takes in oxygen and gives off carbon dioxide.
In the dark the sensor reading falls 4 mL an hour. In the dark the leaves make no oxygen.
So the sealed plant is only respiring: it takes in oxygen and gives off carbon dioxide.
Cellular respiration in words: glucose and oxygen become carbon dioxide and water, and the energy released makes ATP
That fall is the plant’s rate of respiration, 4 mL of oxygen used an hour. A rate is an amount per unit of time.
In the light the reading rises 10 mL an hour. The plant is still respiring, and its leaves are photosynthesizing as well.
Photosynthesis takes in carbon dioxide and gives off oxygen.
So the sensor shows the difference: the oxygen the leaves make minus the oxygen respiration uses. The reading rises because the leaves make oxygen faster than respiration uses it.
A change that shows what is left after one process has taken its share from another is called the . Net means what remains after the subtraction.
With a carbon dioxide sensor the two processes pull the other way. Respiration gives off carbon dioxide, so in the dark the carbon dioxide rises.
In bright light the leaves take in carbon dioxide faster than respiration gives it off. So the carbon dioxide falls.
In dim light the leaves may make oxygen exactly as fast as respiration uses it. Then the oxygen reading stays level.
What you are expected to know Predict whether the oxygen or the carbon dioxide in a sealed jar rises, falls or stays level in the dark, in bright light and in dim light.
A plant sealed in a jar stands in bright light.
What happens to the oxygen in the jar?
- A. ✓ It rises
- B. It fallsIn bright light the leaves make oxygen faster than respiration uses it.
- C. It stays levelThe oxygen stays level only when the leaves make oxygen exactly as fast as respiration uses it, and in bright light the leaves make it faster.
Why: In bright light the leaves make oxygen.
Respiration uses some of that oxygen, but less than the leaves make.
So the oxygen in the jar rises.
A plant sealed in a jar stands in the dark.
What happens to the oxygen in the jar?
- A. It risesA plant makes oxygen only in the light.
- B. ✓ It falls
- C. It stays levelRespiration keeps going in the dark, and respiration uses oxygen.
Why: In the dark the leaves make no oxygen.
Respiration keeps going, and respiration uses oxygen.
So the oxygen in the jar falls.
A plant sealed in a jar stands in the dark.
What happens to the carbon dioxide in the jar?
- A. ✓ It rises
- B. It fallsCarbon dioxide falls only when the leaves take it in, and the leaves take in carbon dioxide only in the light.
- C. It stays levelRespiration keeps going in the dark, and respiration gives off carbon dioxide.
Why: In the dark the leaves take in no carbon dioxide.
Respiration keeps going, and respiration gives off carbon dioxide.
So the carbon dioxide in the jar rises.
A plant sealed in a jar stands in bright light.
What happens to the carbon dioxide in the jar?
- A. It risesIn bright light the leaves take in carbon dioxide faster than respiration gives it off.
- B. ✓ It falls
- C. It stays levelThe carbon dioxide stays level only when the leaves take it in exactly as fast as respiration gives it off, and in bright light the leaves take it in faster.
Why: In bright light the leaves take in carbon dioxide.
Respiration gives off some carbon dioxide, but less than the leaves take in.
So the carbon dioxide in the jar falls.
A plant sealed in a jar stands in dim light. Its leaves make 4 mL of oxygen an hour. Its respiration uses 4 mL of oxygen an hour.
What happens to the oxygen in the jar?
- A. It risesThe oxygen rises only when the leaves make oxygen faster than respiration uses it.
- B. It fallsThe oxygen falls only when respiration uses oxygen faster than the leaves make it.
- C. ✓ It stays level
Why: The leaves make 4 mL of oxygen an hour.
Respiration uses 4 mL of oxygen an hour.
So the oxygen made equals the oxygen used.
So the oxygen in the jar stays level.
A plant sealed in a jar stands in dim light. Its leaves take in 3 mL of carbon dioxide an hour. Its respiration gives off 3 mL of carbon dioxide an hour.
What happens to the carbon dioxide in the jar?
- A. ✓ It stays level
- B. It fallsThe carbon dioxide falls only when the leaves take it in faster than respiration gives it off.
- C. It risesThe carbon dioxide rises only when respiration gives it off faster than the leaves take it in.
Why: The leaves take in 3 mL of carbon dioxide an hour.
Respiration gives off 3 mL of carbon dioxide an hour.
So the carbon dioxide taken in equals the carbon dioxide given off.
So the carbon dioxide in the jar stays level.
A student seals a plant in a jar with an oxygen sensor. In the light the jar’s oxygen reading rises by 10 mL in an hour.
Which of the following was the plant doing during that hour?
- A. Photosynthesizing onlyEvery living cell respires all the time, in light and in dark.
- B. Respiring onlyA plant that only respires uses oxygen, so the reading would fall.
The reading rose. - C. ✓ Photosynthesizing and respiring
Why: Every living cell respires all the time.
So the plant respired during the hour.
The reading rose, so its leaves made oxygen too.
The plant was photosynthesizing and respiring at the same time.
A student seals a plant in a jar with an oxygen sensor. The plant respires during the whole of an hour in the light, and the jar’s oxygen reading still rises by 10 mL.
(a) Explain why the reading rose even though the plant was respiring. (1 pt)
Frame The leaves made
Respiration used some of that oxygen.
The leaves made oxygen faster than respiration used it.
The sensor shows the oxygen made minus the oxygen used.
So the reading rose.
- Award 1 point for: photosynthesis made oxygen faster than respiration used it, and the sensor shows the difference, so the reading rose.
30Quick quiz: net mixed practice
A plant sealed in a jar stands in the light. Its oxygen sensor shows a net change.
What is the net change in the jar’s oxygen?
- A. The oxygen the leaves madeThe oxygen the leaves made is one of the two amounts; the net change is what is left after subtracting the other.
- B. The oxygen respiration usedThe oxygen respiration used is one of the two amounts; the net change is what is left after subtracting it from the oxygen made.
- C. ✓ The oxygen made minus the oxygen used
Why: Net means what remains after the subtraction.
The net change in the jar’s oxygen is the oxygen the leaves made minus the oxygen respiration used.
A plant sealed in a jar stands in the light, and its oxygen sensor shows a net change.
(a) State what the net change in the jar’s oxygen is. (1 pt)
- Award 1 point for: the oxygen made minus the oxygen used (what remains after the subtraction).
33The true rate of photosynthesis
Video: Watch: The true rate of photosynthesis
The jar in the light again: the sensor shows +10 mL an hour, but respiration was using 4 mL an hour all the while. Add the 4 back to the 10: the leaves made 14 mL of oxygen an hour.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L22Bb.mp4
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Now consider the sealed plant in the light again. The sensor shows a rise of 10 mL an hour, but respiration was using oxygen all the while.
Assume respiration uses oxygen at the same rate in the light as in the dark, 4 mL an hour.
So the rise the sensor shows in the light is the net change: photosynthesis minus respiration.
To find photosynthesis on its own, add the rate of respiration back to the net change.
The rate of photosynthesis is the net change in the light plus the rate of respiration; all three are in mL of oxygen an hour
In the dark the jar’s oxygen fell by 4 mL an hour. In the light it rose by 10 mL an hour. What was the plant’s rate of photosynthesis in the light?
What you are expected to know Calculate a plant’s rate of photosynthesis from sealed-jar readings: add the dark reading, respiration alone, to the change measured in the light, assuming respiration uses oxygen at the same rate in light and dark.
A sealed jar of pondweed loses 3 mL of oxygen an hour in the dark and gains 8 mL an hour in the light. Assume respiration uses oxygen at the same rate in light and dark.
Calculate the pondweed’s rate of photosynthesis in the light.
Part 1. Read the dark reading. What is the pondweed’s rate of respiration?
Answer: 3 mL/h (tolerance ±0)
Answer: 11 mL/h (tolerance ±0)
A sealed jar of pondweed loses 5 mL of oxygen an hour in the dark. In bright light it gains 9 mL an hour. Assume respiration uses oxygen at the same rate in light and dark.
Calculate the pondweed’s rate of photosynthesis in the bright light.
Answer: 14 mL/h (tolerance ±0)
With a carbon dioxide sensor the arithmetic is the same, in the other direction.
The fall in the light plus the rise in the dark gives the carbon dioxide photosynthesis takes in.
A student seals a plant in a jar. In the dark the volume of carbon dioxide in the jar rises by 5 mL an hour. In the light it falls by 12 mL an hour. Assume respiration gives off carbon dioxide at the same rate in light and dark.
Calculate the rate at which photosynthesis takes in carbon dioxide in the light.
Answer: 17 mL/h (tolerance ±0)
Back to the healthy plant sealed in its glass jar with the oxygen sensor: 4 mL an hour lost through the night, 10 mL an hour gained through the day.
The oxygen fell at night because the plant was respiring, using 4 mL of oxygen an hour. The plant was respiring in the day too.
So in the day its leaves were making 14 mL of oxygen an hour. The sensor showed the 10 mL left after respiration had used its 4 mL.
49Mixed practice mixed practice
A student seals a plant in a jar with an oxygen sensor. In the dark the jar’s oxygen reading falls 5 mL an hour.
Which of the following does the fall measure?
- A. ✓ The plant’s rate of respiration
- B. The plant’s rate of photosynthesisPhotosynthesis needs light and makes oxygen, and in the dark the oxygen fell.
- C. Photosynthesis alone, with respiration stoppedIn the dark photosynthesis is zero and respiration never stops, so the fall is respiration alone.
- D. Oxygen leaking out of the jarThe jar is sealed, so no oxygen can leak out; the plant is using the oxygen.
Why: In the dark the plant does not photosynthesize.
So the plant only respires.
Respiration uses oxygen.
So the fall in oxygen is the oxygen respiration uses in an hour: the plant’s rate of respiration.
A sprig of pondweed sealed in a tube of water stands in bright light.
What happens to the carbon dioxide in the tube?
- A. It risesCarbon dioxide rises only when respiration gives it off faster than the leaves take it in, as in the dark.
- B. ✓ It falls
- C. It stays levelThe carbon dioxide stays level only when the leaves take it in exactly as fast as respiration gives it off, and in bright light the leaves take it in faster.
Why: In bright light the pondweed takes in carbon dioxide for photosynthesis.
Its respiration gives off some carbon dioxide, but less than the pondweed takes in.
So the carbon dioxide in the tube falls.
A student seals a plant in a jar with an oxygen sensor. In the light the reading rises. The student says: “The oxygen rose, so the plant had stopped respiring while the light was on.”
Is the student correct?
- A. Yes, the plant stopped respiring in the lightEvery living cell respires all the time, in light and in dark.
- B. ✓ No, the plant was respiring the whole time
Why: Every living cell respires all the time.
So the plant respired while the light was on.
The leaves made oxygen faster than respiration used it.
So the oxygen rose even though respiration used some.
A student seals a plant in a jar. In the dark the volume of carbon dioxide in the jar rises by 6 mL an hour. In the light it falls by 9 mL an hour. Assume respiration gives off carbon dioxide at the same rate in light and dark.
Calculate the rate at which photosynthesis takes in carbon dioxide in the light.
Answer: 15 mL/h (tolerance ±0)
A student seals a plant in a jar with an oxygen sensor. In the dark the jar’s oxygen reading falls 4 mL an hour. Under dim light the reading stays level, 0 mL an hour. Assume respiration uses oxygen at the same rate in light and dark.
Which of the following is the plant doing in the dim light?
- A. Photosynthesizing onlyEvery living cell respires all the time, so the plant’s respiration is still using 4 mL of oxygen an hour.
- B. Respiring onlyA plant that only respires uses oxygen, so the reading would fall 4 mL an hour, as it did in the dark.
The reading is level. - C. ✓ Photosynthesizing and respiring at matching rates
- D. Neither photosynthesizing nor respiringRespiration is still using 4 mL of oxygen an hour; the reading is level because the leaves are making 4 mL an hour to match.
Why: A level reading means the oxygen made equals the oxygen used.
Respiration uses 4 mL of oxygen an hour, in light and in dark.
So in the dim light the leaves are making 4 mL of oxygen an hour.
The plant is photosynthesizing and respiring at matching rates.
A plant sealed in a jar stands in dim light. Its leaves make 2 mL of oxygen an hour. Its respiration uses 5 mL of oxygen an hour.
What happens to the oxygen in the jar?
- A. It risesThe oxygen rises only when the leaves make oxygen faster than respiration uses it, and here they make less.
- B. ✓ It falls
- C. It stays levelThe oxygen stays level only when the oxygen made equals the oxygen used, and here 2 mL is less than 5 mL.
Why: The leaves make 2 mL of oxygen an hour.
Respiration uses 5 mL of oxygen an hour.
Respiration uses oxygen faster than the leaves make it.
So the oxygen in the jar falls, even with the light on.
A sealed jar of pondweed stands in the light. Its oxygen sensor rises by 7 mL an hour. The pondweed’s respiration uses 2 mL of oxygen an hour.
Which quantity does the 7 mL an hour measure?
- A. The rate of photosynthesisThe rate of photosynthesis is the net change plus the rate of respiration, so it is 9 mL an hour, more than the sensor shows.
- B. The rate of respirationThe rate of respiration is the 2 mL an hour the pondweed uses.
- C. ✓ The net change
Why: The sensor shows the oxygen made minus the oxygen used.
That difference is the net change.
So the 7 mL an hour is the net change.
A student seals a sprig of pondweed in a tube of water with an oxygen sensor. The student measures the change in the tube’s oxygen for an hour in the dark, an hour in dim light and an hour in bright light: −6 mL in the dark, +2 mL in dim light and +11 mL in bright light. Assume the pondweed’s respiration uses oxygen at the same rate in light as in dark.
(a) Calculate the pondweed’s rate of photosynthesis in bright light. Show your working. (1 pt)
So the leaves made more oxygen than the sensor showed.
The rate of photosynthesis is the rise in bright light plus the rate of respiration, 17 mL an hour.
- Award 1 point for: rate of photosynthesis = 11 + 6 = 17 mL/h, the dark reading added to the rise in bright light.
- Accept: the working with the assumption stated that respiration uses oxygen at the dark rate in the light.
Slip Giving 11 mL/h, the rise the sensor showed, or 5 mL/h, the rise minus the dark reading. Respiration was using 6 mL an hour while the leaves worked. So you add those 6 mL to the rise; you do not subtract them or ignore them.
(b) Explain how the dark reading, −6 mL an hour, demonstrates that the pondweed respires in the dark. (1 pt)
So in the dark the pondweed makes no oxygen.
Yet the oxygen in the tube fell by 6 mL an hour.
Respiration uses oxygen.
So the fall shows the pondweed respiring, using 6 mL of oxygen an hour.
- Award 1 point for: photosynthesis makes no oxygen in the dark, so the fall of 6 mL an hour can only be oxygen that respiration used; the pondweed respires in the dark at 6 mL an hour.
Slip Calling the dark reading negative photosynthesis. Photosynthesis makes no oxygen in the dark, and photosynthesis never uses oxygen up. The fall is respiration.
(c) A second sprig of pondweed gives the same bright-light reading, +11 mL an hour, but its dark reading is −3 mL an hour. Identify the sprig with the higher rate of photosynthesis, and justify your answer. (1 pt)
Each bright-light reading is photosynthesis minus respiration.
The two sprigs show the same net rise, 11 mL an hour.
The first sprig respires at 6 mL an hour; the second at 3 mL an hour.
So the first sprig’s leaves make 17 mL of oxygen an hour and the second’s make 14 mL an hour.
- Award 1 point for: the first sprig, because the light reading is net (photosynthesis minus respiration), and the first sprig’s respiration takes more from the same net reading, so its leaves make more oxygen.
- Accept: ‘the sprig that respires faster must photosynthesize faster to give the same reading’, or the two rates calculated as 17 and 14 mL/h.
Slip Calling the two rates equal because the light readings match. The reading is what is left after respiration has used its share. The same leftover with more respiration means more photosynthesis.
(d) Predict the sensor reading at a light level where photosynthesis exactly matches respiration, and justify your prediction. (1 pt)
The leaves make 6 mL of oxygen an hour.
Respiration uses 6 mL of oxygen an hour.
So the oxygen in the tube stays the same, and the sensor shows no change.
- Award 1 point for: no change, 0 mL an hour, because the oxygen made equals the oxygen used.
- Accept: ‘the reading stays level’ with the two rates named as equal.
Slip Predicting a rise of 6 mL an hour. A rise appears only when photosynthesis makes oxygen faster than respiration uses it. When the two rates match, nothing is left over for the sensor to show.
Glossary
- net change
- What is left after one process has taken its share from another: in a sealed jar, the oxygen the leaves made minus the oxygen respiration used. Net means what remains after the subtraction.
APBIO-U03-L23 What a chloroplast is, and its six places
Here is a spinach leaf cell beside an onion bulb cell.
The spinach leaf cell is packed with green bodies. Each green body is a few times the length of a bacterium.
The onion bulb cell has none of them. The onion bulb cell makes no sugar.
What are the green bodies doing for the leaf cell?
Unit 3 · Cellular Energetics
1What a chloroplast is for
Video: Watch: What a chloroplast is for
A spinach leaf cell packed with chloroplasts beside an onion bulb cell with none. Carbon dioxide and water go into a chloroplast, light energy drives the work, and glucose and oxygen come out.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L23a.mp4
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Where in a plant cell does photosynthesis happen?
Each green body in the spinach leaf cell is a chloroplast.
Carbon dioxide and water go into the chloroplast.
Light energy drives the work.
Glucose and oxygen come out.
Inside its double membrane sit stacks of flattened sacs, floating in a clear fluid.
Photosynthesis is shared between these places. Each place has its own name, and each step of photosynthesis happens in one of them.
Start with what the whole chloroplast does.
A leaf photosynthesizes in the light.
Which of the following are the reactants of photosynthesis?
- A. ✓ Carbon dioxide and water
- B. Glucose and oxygenGlucose and oxygen are the products: the leaf makes them.
- C. Oxygen and waterWater is a reactant, and oxygen is a product: the leaf gives oxygen off.
Why: The leaf takes in carbon dioxide and water.
From them it makes glucose and oxygen.
So carbon dioxide and water are the reactants.
Here is the spinach leaf cell beside the onion bulb cell.
The spinach leaf cell is packed with green bodies. Each green body is a chloroplast.
Chloro means green, and plast means a formed body.
Inside each chloroplast, the leaf cell photosynthesizes.
Carbon dioxide and water go into the chloroplast.
Light energy drives the work.
Glucose and oxygen come out.
Here is that reaction as a word equation.
The onion bulb cell holds no chloroplasts. So the onion bulb cell makes no sugar.
Now consider a single-celled green alga floating in a pond.
The alga holds a chloroplast. So the alga photosynthesizes.
Now consider a cyanobacterium. A cyanobacterium photosynthesizes with no chloroplast at all: it catches light on membranes folded inside the cell itself.
What you are expected to know Say what goes into a chloroplast, carbon dioxide and water, and what comes out, glucose and oxygen, with light energy driving the work.
What you are expected to know Say that the photosynthesizing cells of plants, and algae, hold chloroplasts.
What you are expected to know Say that a cyanobacterium holds no chloroplast.
A chloroplast in a leaf cell is photosynthesizing.
Which of the following go into the chloroplast?
- A. ✓ Carbon dioxide and water
- B. Glucose and oxygenGlucose and oxygen come out of the chloroplast.
- C. Glucose and waterGlucose comes out of the chloroplast; the chloroplast makes it.
Why: Carbon dioxide and water are the reactants of photosynthesis.
The chloroplast is where the leaf cell photosynthesizes.
So carbon dioxide and water go into the chloroplast.
A chloroplast in a leaf cell is photosynthesizing.
Which of the following come out of the chloroplast?
- A. Carbon dioxide and waterCarbon dioxide and water go into the chloroplast.
- B. Oxygen and waterWater goes into the chloroplast; only the oxygen comes out.
- C. ✓ Glucose and oxygen
Why: Glucose and oxygen are the products of photosynthesis.
The chloroplast is where the leaf cell photosynthesizes.
So glucose and oxygen come out of the chloroplast.
Which of the following holds chloroplasts?
- A. A carrot root cellA carrot root cell photosynthesizes no more than an onion bulb cell does, and it holds no chloroplasts.
- B. ✓ A pond alga
- C. A cyanobacteriumA cyanobacterium catches light on membranes folded inside the cell itself, with no chloroplast.
Why: Algae photosynthesize.
An alga photosynthesizes inside its chloroplast.
So a pond alga holds a chloroplast.
A cyanobacterium photosynthesizes in sunlight.
How many chloroplasts does the cyanobacterium hold?
- A. ✓ None
- B. OneA cyanobacterium is a bacterium, and it holds no chloroplast.
- C. ManyA cyanobacterium is a bacterium, and it holds no chloroplast.
Why: A cyanobacterium is a bacterium.
It catches light on membranes folded inside the cell itself.
So it holds no chloroplast.
31Six places inside
Video: Watch: Six places inside a chloroplast
A chloroplast cut across, one label at a time: outer membrane, inner membrane, stroma, one thylakoid with its thylakoid membrane and thylakoid space, and a granum.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L23b.mp4
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Here is one chloroplast, cut across and magnified.
A chloroplast has two membranes, an outer membrane and an inner membrane.
Inside the inner membrane is a clear fluid. That fluid is called the .
Floating in the stroma are flattened sacs of membrane, each shaped like a coin. One sac is called a .
A thylakoid’s membrane is called the .
The space the thylakoid membrane encloses is called the .
Thylakoids sit in stacks, like piles of coins. One stack is called a .
Two or more stacks are called grana.
Here is the drawing with every label.
Here is a table of the six places: what each place is, and where each place sits.
| place | what it is | where it sits |
|---|---|---|
| outer membrane | a membrane | around the whole chloroplast |
| inner membrane | a second membrane | just inside the outer membrane |
| stroma | a clear fluid | inside the inner membrane, around the thylakoids |
| thylakoid | one flattened sac, wrapped by its thylakoid membrane | floating in the stroma |
| thylakoid space | the space inside one thylakoid | enclosed by the thylakoid membrane |
| granum | a stack of thylakoids | in the stroma |
the six places in a chloroplast, from the outside in
What you are expected to know Identify, on a drawn chloroplast, the outer and inner membranes, the stroma, a thylakoid with its thylakoid membrane and thylakoid space, and a granum.
Here is a chloroplast drawn with four numbered pointers.
Which number marks the stroma?
- A. 1Pointer 1 lands on a stack of sacs, a granum.
- B. 2Pointer 2 goes into the inside of one sac, the thylakoid space.
- C. 3Pointer 3 lands on the inner membrane, and the stroma is a fluid, not a membrane.
- D. ✓ 4
Why: The stroma is the fluid inside the inner membrane and outside the thylakoids.
Pointer 4 lands in that fluid, around the stacks.
So 4 marks the stroma.
Here is a chloroplast drawn with four numbered pointers.
Which number marks a granum?
- A. ✓ 1
- B. 2Pointer 2 goes into the inside of one sac, the thylakoid space.
- C. 3Pointer 3 lands on the inner membrane.
- D. 4Pointer 4 lands in the fluid around the stacks, the stroma.
Why: A granum is a stack of thylakoids, like a pile of coins.
Pointer 1 lands on a stack.
So 1 marks a granum.
Here is a chloroplast drawn with four numbered pointers.
Which number marks the thylakoid space?
- A. 1Pointer 1 lands on a stack of sacs, a granum.
- B. ✓ 2
- C. 3Pointer 3 lands on the inner membrane.
- D. 4Pointer 4 lands in the fluid outside the sacs, the stroma.
Why: The thylakoid space is the space a thylakoid’s membrane encloses.
Pointer 2 goes into the inside of one sac, drawn enlarged.
So 2 marks the thylakoid space.
Here is a chloroplast drawn with four numbered pointers. Pointer 3 lands on a line.
Which of the following does pointer 3 mark?
- A. ✓ The inner membrane
- B. The outer membraneThe outer membrane is the outermost line of the chloroplast, and pointer 3 lands on the line just inside it.
- C. A thylakoid membraneA thylakoid membrane is the edge of one sac, and pointer 3 lands on a line that runs around the whole chloroplast.
Why: The chloroplast has two membranes, one inside the other.
Pointer 3 ends with a dot on the line just inside the outermost line.
So 3 marks the inner membrane.
Back to the spinach leaf cell, packed with green bodies, beside the onion bulb cell with none.
Each green body is a chloroplast.
Inside each chloroplast, carbon dioxide and water become glucose and oxygen, with light energy driving the work.
Inside the chloroplast’s double membrane, stacks of thylakoids, the grana, float in the stroma.
The onion bulb cell has no chloroplasts. So the onion bulb cell makes no sugar.
53Quick quiz: the places in a chloroplast mixed practice
What is the stroma?
- A. The membrane around one thylakoidThe membrane around one thylakoid is the thylakoid membrane.
- B. ✓ The fluid inside the inner membrane
- C. A stack of thylakoidsA stack of thylakoids is a granum.
Why: The stroma is the clear fluid inside the inner membrane.
The thylakoids float in it.
What is a thylakoid?
- A. ✓ One flattened sac of membrane in the stroma
- B. A stack of flattened sacsA stack of flattened sacs is a granum; one sac is a thylakoid.
- C. The fluid inside the inner membraneThe fluid inside the inner membrane is the stroma.
Why: A thylakoid is one flattened sac of membrane, shaped like a coin.
Thylakoids float in the stroma, in stacks.
What is the thylakoid membrane?
- A. The inner membrane of the chloroplastThe inner membrane wraps the whole stroma; the thylakoid membrane wraps one sac.
- B. The outer membrane of the chloroplastThe outer membrane wraps the whole chloroplast; the thylakoid membrane wraps one sac.
- C. ✓ The membrane around one thylakoid
Why: A thylakoid is a flattened sac of membrane.
The membrane that wraps one thylakoid is the thylakoid membrane.
What is the thylakoid space?
- A. ✓ The space inside one thylakoid
- B. The fluid around the thylakoidsThe fluid around the thylakoids is the stroma.
- C. The gap between two thylakoids in a stackThe thylakoid space is inside a thylakoid, enclosed by its membrane, not between two of them.
Why: The thylakoid membrane wraps one thylakoid.
The space that membrane encloses is the thylakoid space.
What is a granum?
- A. The fluid inside the inner membraneThe fluid inside the inner membrane is the stroma.
- B. ✓ A stack of thylakoids
- C. One flattened sac of membraneOne flattened sac of membrane is a thylakoid; a granum is a stack of them.
Why: Thylakoids sit in stacks, like piles of coins.
One stack is a granum.
A thylakoid has its own membrane, encloses its own space, and sits in a stack with other thylakoids.
(a) State what the thylakoid membrane is. (1 pt)
- Award 1 point for: the membrane of one thylakoid (the membrane around one flattened sac).
(b) State what the thylakoid space is. (1 pt)
- Award 1 point for: the space inside one thylakoid (enclosed by the thylakoid membrane).
(c) State what a granum is. (1 pt)
- Award 1 point for: a stack of thylakoids.
Glossary
- stroma
- The clear fluid inside a chloroplast’s inner membrane, around the thylakoids.
- thylakoid, thylakoid membrane, thylakoid space, grana (granum)
- A thylakoid is a flattened sac of membrane floating in the stroma. Its membrane is the thylakoid membrane; the space it encloses is the thylakoid space. Thylakoids sit in stacks called grana (one stack is a granum).
APBIO-U03-L23B Two rooms, two jobs
Suppose a researcher breaks chloroplasts open and separates the thylakoid membranes from the stroma fluid.
She lights the thylakoid membranes in a tube with ADP, Pi and an empty electron carrier. They make no sugar.
She gives the stroma fluid carbon dioxide, on its own. It makes no sugar either.
Then she adds the fluid from the lit membranes to the stroma fluid, in the dark. Sugar forms.
What did the lit membranes make that the stroma needed?
Unit 3 · Cellular Energetics
1Light is captured in the thylakoid membranes
Video: Watch: Where light is captured
Light arrives at the grana. The thylakoid membranes stacked there capture the light energy: the light reactions.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L23Ba.mp4
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Why does photosynthesis need two places inside the chloroplast?
Photosynthesis is two sets of reactions.
In the thylakoid membranes, the first set captures light energy. The first set uses that energy to make ATP and to load an electron carrier.
In the stroma, the second set uses that ATP and that loaded carrier. It builds carbon dioxide into sugar.
The ADP and the emptied carrier go back to the thylakoid membranes to be reloaded.
Knowing which place makes what lets you predict what fails when one place is blocked.
A chloroplast is cut across and magnified.
Which of the following is a granum?
- A. The fluid inside the inner membraneThe fluid inside the inner membrane is the stroma.
- B. One flattened sac of membraneOne flattened sac of membrane is a thylakoid; a granum is a stack of them.
- C. ✓ A stack of thylakoids
Why: Thylakoids sit in stacks, like piles of coins.
One stack is a granum.
Photosynthesis is two sets of reactions, in two places in the chloroplast.
The thylakoid membranes, stacked as grana, capture light energy.
The reactions that capture the light energy need light.
So those reactions are called the .
What you are expected to know Say where the light reactions capture light energy: in the thylakoid membranes of the grana.
Where in the chloroplast is light energy captured?
- A. The stromaThe stroma is the fluid around the thylakoids, and the stroma captures no light.
- B. ✓ The thylakoid membranes
Why: The light reactions capture light energy.
The light reactions take place in the thylakoid membranes, which sit stacked as grana.
So light energy is captured in the thylakoid membranes of the grana.
In which of the following do the light reactions take place?
- A. ✓ The thylakoid membranes
- B. The outer membraneThe outer membrane wraps the whole chloroplast, and it captures no light.
- C. The stromaThe stroma is the fluid around the thylakoids, and it captures no light.
Why: The thylakoid membranes capture light energy.
The reactions that capture it are the light reactions.
So the light reactions take place in the thylakoid membranes.
17Quick quiz: light reactions mixed practice
What are the light reactions?
- A. The reactions that build sugar from carbon dioxide, in the stromaThe reactions that build sugar from carbon dioxide in the stroma capture no light.
- B. ✓ The reactions that capture light energy, in the thylakoid membranes
Why: The light reactions capture light energy.
They take place in the thylakoid membranes of the grana.
The light reactions are one of the two sets of reactions of photosynthesis.
(a) State where in the chloroplast the light reactions take place. (1 pt)
- Award 1 point for: the thylakoid membranes (of the grana).
(b) State what the light reactions capture. (1 pt)
- Award 1 point for: light energy.
20Sugar is built in the stroma
Video: Watch: Where sugar is built
In the stroma an enzyme attaches carbon dioxide to an organic molecule: carbon fixation. From the fixed carbon, a cycle of reactions builds sugar: the Calvin cycle.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L23Bb.mp4
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In the stroma, an enzyme attaches carbon dioxide to an organic molecule already in the cell.
Attaching carbon dioxide to an organic molecule like this is called .
The carbon that drifted in as a gas is now held fast in a larger molecule.
From the fixed carbon, the stroma builds sugar in a cycle of reactions.
That cycle is called the , after Melvin Calvin, who worked out its steps.
Here is a table of the two sets of reactions: where each takes place, and what happens there.
| reactions | where | what happens there |
|---|---|---|
| light reactions | the thylakoid membranes of the grana | light energy is captured |
| Calvin cycle | the stroma | carbon dioxide is fixed and built into sugar |
two sets of reactions, two places
What you are expected to know Say where the Calvin cycle fixes carbon dioxide and builds sugar: in the stroma.
Where in the chloroplast is sugar built?
- A. ✓ The stroma
- B. The thylakoid membranesThe thylakoid membranes capture light energy, and they build no sugar.
Why: The Calvin cycle builds sugar from the fixed carbon.
The Calvin cycle takes place in the stroma, the fluid inside the inner membrane.
So sugar is built in the stroma.
Where in the chloroplast does the Calvin cycle take place?
- A. The thylakoid membranesThe thylakoid membranes hold the light reactions; the Calvin cycle’s enzymes are dissolved in the stroma, not set in a membrane.
- B. ✓ The stroma
Why: The Calvin cycle fixes carbon dioxide and builds it into sugar.
Carbon dioxide is fixed in the stroma, the fluid inside the inner membrane.
So the Calvin cycle takes place in the stroma.
31Quick quiz: carbon fixation and the Calvin cycle mixed practice
What is carbon fixation?
- A. ✓ Attaching carbon dioxide to an organic molecule
- B. Capturing light energy in a membraneCapturing light energy is the job of the light reactions; carbon fixation attaches carbon dioxide to an organic molecule.
- C. Releasing carbon dioxide from a sugarCarbon fixation takes carbon dioxide in and holds its carbon fast in a larger molecule; it releases none.
Why: An enzyme attaches carbon dioxide to an organic molecule.
Attaching carbon dioxide like this is called carbon fixation.
What is the Calvin cycle?
- A. The cycle of reactions in the thylakoid membranes that captures light energyThe reactions that capture light energy in the thylakoid membranes are the light reactions.
- B. ✓ The cycle of reactions in the stroma that fixes carbon dioxide and builds it into sugar
Why: In the stroma, carbon dioxide is fixed.
From the fixed carbon, a cycle of reactions builds sugar.
That cycle is the Calvin cycle.
The Calvin cycle is the second of the two sets of reactions of photosynthesis.
(a) State what carbon fixation is. (1 pt)
- Award 1 point for: attaching carbon dioxide to an organic molecule (so its carbon becomes part of a larger molecule).
(b) State what the Calvin cycle builds. (1 pt)
- Award 1 point for: sugar (from fixed carbon dioxide).
(c) State where in the chloroplast the Calvin cycle takes place. (1 pt)
- Award 1 point for: the stroma.
35What passes between the two rooms
Video: Watch: What passes between the two rooms
The light reactions make ATP and NADPH in the thylakoid membranes. Both move into the stroma, where the Calvin cycle spends them to build sugar. ADP and NADP⁺ return to be reloaded.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L23Bc.mp4
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The light reactions capture light energy in the thylakoid membranes of the grana.
The Calvin cycle uses energy in the stroma.
So something must carry the energy from the thylakoid membranes to the stroma.
A cell remakes ATP, the molecule it uses to drive its work, from ADP and Pi.
What does the remaking need?
- A. Nothing: it happens by itselfATP holds more energy than ADP and Pi, so remaking it needs energy from somewhere.
- B. A release of energyHydrolysis of ATP releases energy; remaking ATP needs that energy put back in.
- C. ✓ An input of energy
Why: ATP hydrolysis releases energy, so remaking ATP from ADP and Pi needs an input of energy.
The light reactions use the captured light energy to make ATP from ADP and Pi.
ADP and Pi are joined into ATP; the energy comes from the captured light
In a mitochondrion, NAD⁺ has just taken two electrons, with hydrogen, from a food molecule.
Which form is the carrier now in?
- A. ✓ NADH
- B. NAD⁺NAD⁺ is the empty form, and this carrier has just picked up two electrons.
Why: NAD⁺ is the empty form of the carrier.
Loaded with two electrons, the carrier is called NADH.
The chloroplast uses a close relative of NAD⁺ that carries one extra phosphate group.
That relative is called : NAD⁺ with a P for the extra phosphate.
NADP⁺ picks up two electrons, with hydrogen, and becomes NADPH.
NADP⁺ takes two electrons, with a hydrogen ion, and becomes NADPH
So the light reactions make ATP and NADPH.
The ATP and the NADPH leave the thylakoid membranes and move into the stroma.
In the stroma, the Calvin cycle uses the energy of the ATP to build sugar from carbon dioxide.
The Calvin cycle also takes the electrons from the NADPH to build the sugar.
The ADP and NADP⁺ left behind return to the thylakoid membranes to be made into ATP and NADPH again.
Now consider isolated chloroplasts in the light. They make ATP and NADPH, and they fix carbon dioxide.
Now imagine the light is switched off.
Within seconds the chloroplasts’ ATP and NADPH are used up. So carbon fixation stops.
What you are expected to know Trace ATP and NADPH from the thylakoid membranes into the Calvin cycle, and ADP and NADP⁺ back.
In the dark, a researcher adds ATP and NADPH to stroma fluid that has carbon dioxide.
Does the stroma fluid build sugar?
- A. ✓ Yes
- B. NoThe Calvin cycle needs ATP and NADPH, and here the researcher has supplied both.
Why: The Calvin cycle in the stroma builds sugar from carbon dioxide.
It needs ATP and NADPH to do so.
The researcher supplied ATP and NADPH.
So the stroma fluid builds sugar, even in the dark.
In the dark, a researcher adds ADP and NADP⁺ to stroma fluid that has carbon dioxide.
Does the stroma fluid build sugar?
- A. YesADP and NADP⁺ are the emptied forms; the Calvin cycle needs ATP and NADPH.
- B. ✓ No
Why: The Calvin cycle needs ATP and NADPH to build sugar.
ADP and NADP⁺ are the emptied forms.
Only the light reactions, in the light, reload them.
So the stroma fluid builds no sugar.
A spinach leaf is photosynthesizing in the light. A researcher covers the leaf with foil. Within seconds, carbon fixation in the leaf’s chloroplasts stops.
(a) Explain how this result demonstrates that the Calvin cycle depends on the light reactions. (1 pt)
Frame The light reactions make
The Calvin cycle uses that ATP and NADPH to fix carbon dioxide and build sugar.
Under the foil no light reaches the leaf, so the light reactions stop.
So no new ATP and NADPH reach the stroma.
The stroma’s ATP and NADPH are used up within seconds.
So carbon fixation stops: the Calvin cycle depends on what the light reactions make.
- Award 1 point for: the light reactions stop in the dark, so the ATP and NADPH the Calvin cycle needs are used up, so carbon fixation stops.
A student says: “The Calvin cycle needs no light at all, because it uses no light directly.”
Is the student correct?
- A. Yes, the Calvin cycle builds sugar just as well in the dark as in the lightIn the dark the Calvin cycle stops within seconds.
- B. ✓ No, the Calvin cycle needs light, though it uses no light directly
- C. No, the Calvin cycle absorbs light itself, in the stromaThe Calvin cycle absorbs no light; the thylakoid membranes absorb the light.
Why: The Calvin cycle uses no light directly.
But the Calvin cycle needs ATP and NADPH.
Only the light reactions make ATP and NADPH, and the light reactions need light.
So the Calvin cycle needs light after all, through the ATP and NADPH.
Back to the researcher’s three tubes: lit thylakoid membranes with ADP, Pi and an empty electron carrier; stroma fluid with carbon dioxide; and the two fluids mixed in the dark.
The lit thylakoid membranes made ATP from the ADP and Pi, and NADPH from the empty carrier, NADP⁺.
The membranes on their own made no sugar, because the Calvin cycle is in the stroma.
The stroma fluid on its own made no sugar, because it had no ATP and NADPH.
The fluid from the lit membranes carried ATP and NADPH into the stroma fluid.
So the Calvin cycle built sugar from the carbon dioxide, even in the dark.
What the lit membranes made that the stroma needed was ATP and NADPH.
66Quick quiz: NADP⁺ and NADPH mixed practice
What is NADP⁺?
- A. The molecule a cell uses to drive its workThe molecule a cell uses to drive its work is ATP.
- B. NADH, the loaded form of the carrier in a mitochondrionNADH is NAD⁺ loaded with two electrons; NADP⁺ carries one more phosphate group than NAD⁺, and it is empty.
- C. ✓ NAD⁺ with one extra phosphate group, in its empty form
Why: NADP⁺ is NAD⁺ with an extra phosphate group.
It is the empty form of the chloroplast’s electron carrier.
Loaded with two electrons, it is NADPH.
In the light reactions, NADP⁺ picks up two electrons, with hydrogen.
Which form is the carrier now in?
- A. ✓ NADPH
- B. NADP⁺NADP⁺ is the empty form, and this carrier has just picked up two electrons.
Why: NADP⁺ is the empty form of the carrier.
Loaded with two electrons, the carrier is called NADPH.
NADP⁺ is an electron carrier of the chloroplast.
(a) State what NADP⁺ becomes when it picks up two electrons in the light reactions. (1 pt)
- Award 1 point for: NADPH (the loaded form).
70Mixed practice mixed practice
A researcher separates broken chloroplasts into two fractions: the thylakoid membranes, and the stroma fluid. The researcher gives each fraction carbon dioxide, ATP and NADPH.
Which fraction turns the carbon dioxide into sugar?
- A. The thylakoid membranesThe thylakoid membranes capture light energy, and they do not fix carbon dioxide.
- B. ✓ The stroma fluid
- C. Both fractionsThe two sets of reactions take place in two different places, so the two fractions do different jobs.
Why: The Calvin cycle fixes carbon dioxide and builds it into sugar.
The Calvin cycle takes place in the stroma.
So the stroma fraction turns carbon dioxide into sugar.
The thylakoid membranes capture light, and they do not fix carbon dioxide.
Which two molecules carry captured energy from the light reactions to the Calvin cycle?
- A. ADP and NADP⁺ADP and NADP⁺ are the emptied forms that return to the thylakoid membranes.
- B. Carbon dioxide and waterCarbon dioxide and water are the reactants of photosynthesis; they carry no captured energy.
- C. ✓ ATP and NADPH
Why: The light reactions make ATP and NADPH.
The ATP and NADPH move into the stroma.
There the Calvin cycle uses them to build sugar.
Where in the chloroplast is carbon dioxide fixed?
- A. ✓ The stroma
- B. The thylakoid membranesThe thylakoid membranes capture light energy; the enzyme that fixes carbon dioxide is dissolved in the stroma.
- C. The thylakoid spaceThe thylakoid space is the inside of one thylakoid; the enzyme that fixes carbon dioxide is dissolved in the stroma.
Why: An enzyme in the stroma attaches carbon dioxide to an organic molecule.
So carbon dioxide is fixed in the stroma.
Which two molecules return from the Calvin cycle to the thylakoid membranes to be reloaded?
- A. ATP and NADPHATP and NADPH are the loaded forms that leave the thylakoid membranes.
- B. ✓ ADP and NADP⁺
- C. Glucose and oxygenGlucose and oxygen are the products of photosynthesis, and they return nowhere.
Why: The Calvin cycle uses ATP, leaving ADP.
It takes the electrons from NADPH, leaving NADP⁺.
ADP and NADP⁺ return to the thylakoid membranes to be made into ATP and NADPH again.
Suppose a chloroplast’s thylakoid membranes are damaged and capture no light energy. Light shines on the chloroplast, and it has plenty of carbon dioxide.
Predict what happens to the Calvin cycle.
- A. The Calvin cycle builds sugar as beforeThe Calvin cycle needs ATP and NADPH, which only the light reactions make.
With no light captured, no ATP and NADPH are made. - B. The Calvin cycle builds sugar fasterThe Calvin cycle uses no light itself, so light reaching the stroma changes nothing.
- C. ✓ The Calvin cycle stops
Why: The damaged thylakoid membranes capture no light energy.
So the light reactions make no ATP and NADPH.
The Calvin cycle in the stroma needs ATP and NADPH.
So the Calvin cycle stops.
Which of the following do the light reactions capture?
- A. ✓ Light energy
- B. Carbon dioxideCarbon dioxide is fixed by the Calvin cycle, in the stroma.
- C. SugarSugar is built by the Calvin cycle, in the stroma.
Why: The light reactions take place in the thylakoid membranes.
They capture light energy and use it to make ATP and NADPH.
A researcher lights thylakoid membranes from broken chloroplasts in a tube with ADP, Pi and NADP⁺. She then adds the fluid from that tube, in the dark, to stroma fluid with carbon dioxide. Sugar forms.
(a) Explain how this result demonstrates that the light reactions supply what the Calvin cycle needs. (1 pt)
The fluid carried that ATP and NADPH into the stroma fluid.
The Calvin cycle in the stroma needs ATP and NADPH to build sugar from carbon dioxide.
With the ATP and NADPH supplied, the stroma built sugar even in the dark.
So the light reactions supply the ATP and NADPH the Calvin cycle needs.
- Award 1 point for: the lit membranes made ATP and NADPH, and the stroma built sugar only once it received them, so the light reactions supply the ATP and NADPH the Calvin cycle needs.
Slip Saying the lit membranes put light into the fluid. Light cannot be carried in a fluid; what moved was ATP and NADPH.
Glossary
- light reactions
- The reactions of photosynthesis that capture light energy, in the thylakoid membranes of the grana; they make ATP and NADPH.
- carbon fixation
- Attaching carbon dioxide to an organic molecule, so that its carbon becomes part of a larger carbon-containing molecule; the step that begins the Calvin cycle, in the stroma.
- Calvin cycle
- The cycle of reactions in the stroma that fixes carbon dioxide and, using ATP and NADPH from the light reactions, builds it into sugar.
- NADP⁺ / NADPH
- An electron carrier of the chloroplast, a close relative of NAD⁺: NADP⁺ picks up electrons in the light reactions and becomes NADPH, which carries them into the stroma for the Calvin cycle.
APBIO-U03-L23C Light and color
Here is a beam of sunlight passing through a glass prism. Sunlight looks white. On the far side of the prism, a band of colors spreads across a white screen.
Violet sits at one end of the band and red at the other. The prism added nothing to the light. So where were the colors before the prism?
Unit 3 · Cellular Energetics
1White light is a mix of colors
Video: Watch: The colors inside white light
Sunlight passes through a prism and spreads into a band from violet to red. Each color is light of a different wavelength, measured in nanometers.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L23Ca.mp4
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Where were the colors hiding? They were in the sunlight all along: white light is a mix of colors.
The prism bends each color by a different amount. So the prism spreads the mix out into a band.
Each color is light of a different wavelength.
When white light falls on an object, the object absorbs some of the colors and reflects the rest. The colors it reflects are the colors you see.
Light travels as a wave. The length of a wave is the distance from one wave crest to the next.
Light travels as a wave.
Which of the following is the wavelength of a wave?
- A. ✓ The distance from one wave crest to the next
- B. The height of a wave crestThe height of a crest measures how tall the wave is, not how far apart its crests are.
- C. The number of wave crests passing each secondHow many crests pass each second is a count, not a distance.
Why: The wavelength is the distance from one wave crest to the next crest.
So each color is light with its own distance from one wave crest to the next.
A wavelength of visible light is very short: a few hundred billionths of a meter.
A billionth of a meter is called a (nm). So 1 nm is 0.000 000 001 m.
Wavelengths of visible light are measured in nanometers.
Here is the band of colors, laid out by wavelength.
Violet light has the shortest wavelength, about 400 nm. Red light has the longest, about 700 nm.
Blue, green, yellow and orange lie between them, in that order.
Roughly, violet is 400 to 450 nm, blue 450 to 500 nm, green 500 to 570 nm, yellow 570 to 590 nm, orange 590 to 620 nm and red 620 to 700 nm.
So a wavelength names a color: light of 450 nm is blue, and light of 680 nm is red.
What you are expected to know Say that white light is a mix of colors, and that each color is light of a different wavelength.
What you are expected to know Name the color of visible light from its wavelength in nanometers, from violet near 400 nm to red near 700 nm.
A lamp gives out light of 690 nm.
Which color is the light?
- A. VioletViolet light has the shortest wavelength, about 400 nm.
- B. GreenGreen light has a wavelength near the middle of the band, about 500 to 570 nm.
- C. ✓ Red
Why: Light of 690 nm sits at the long-wavelength end of the band.
The long-wavelength end, from about 620 nm to 700 nm, is red.
A lamp gives out light of 415 nm.
Which color is the light?
- A. ✓ Violet
- B. GreenGreen light has a wavelength near the middle of the band, about 500 to 570 nm.
- C. RedRed light has the longest wavelength, about 700 nm.
Why: Light of 415 nm sits at the short-wavelength end of the band.
The short-wavelength end, from about 400 nm to 450 nm, is violet.
A lamp gives out light of 550 nm.
Which color is the light?
- A. BlueBlue light has a wavelength of about 450 to 500 nm.
- B. ✓ Green
- C. YellowYellow light has a wavelength of about 570 to 590 nm.
Why: Light of 550 nm sits in the middle of the band.
The middle of the band is green, about 500 to 570 nm.
A lamp gives out light of 640 nm.
Which color is the light?
- A. GreenGreen light has a wavelength of about 500 to 570 nm.
- B. YellowYellow light has a wavelength of about 570 to 590 nm.
- C. ✓ Red
Why: Light of 640 nm sits near the long-wavelength end of the band.
The long-wavelength end, from about 620 nm to 700 nm, is red.
Which of the following has the longer wavelength?
- A. Blue lightBlue light has a wavelength of about 450 to 500 nm, near the short end of the band.
- B. ✓ Red light
Why: Red light has a wavelength of about 700 nm.
Blue light has a wavelength of about 450 to 500 nm.
So red light has the longer wavelength.
Which of the following has the shorter wavelength?
- A. ✓ Violet light
- B. Green lightGreen light has a wavelength of about 500 to 570 nm, in the middle of the band.
Why: Violet light has a wavelength of about 400 nm.
Green light has a wavelength of about 500 to 570 nm.
So violet light has the shorter wavelength.
Which fraction of a meter is 1 nm?
- A. A millionth of a meterA millionth of a meter is 0.000 001 m, a thousand times too long.
- B. ✓ A billionth of a meter
- C. A trillionth of a meterA trillionth of a meter is 0.000 000 000 001 m, a thousand times too short.
Why: A nanometer is a billionth of a meter: 1 nm is 0.000 000 001 m.
A laser gives out light of 532 nm.
Which color is the light?
- A. BlueBlue light has a wavelength of about 450 to 500 nm.
- B. ✓ Green
- C. RedRed light has a wavelength of about 620 to 700 nm.
Why: Light of 532 nm sits in the middle of the band.
The middle of the band is green, about 500 to 570 nm.
28The color an object reflects
Video: Watch: Why an apple looks red
White light falls on a red apple. The apple absorbs most of the colors and reflects red, and the reflected red is the light that reaches your eye.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L23Cb.mp4
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Now consider a red apple in the same white light. All the colors of white light fall on the apple.
The apple absorbs most of the colors. The apple reflects red.
Only the reflected red light reaches your eye. So the apple looks red.
The color a thing appears is the color of the light it reflects.
Now consider black ink. Black ink absorbs nearly all the colors and reflects almost none.
So almost no light reaches your eye from the ink. The ink looks black.
Now consider white paper. White paper absorbs almost none of the colors and reflects nearly all of them.
So the whole white mix reaches your eye from the paper. The paper looks white.
Light can also pass through a thing, as it passes through a stained-glass window. Light that passes through is transmitted.
A molecule that absorbs some colors of light and reflects or transmits the rest is called a .
The red of the apple’s skin, the black of the ink and the green of a leaf each come from pigments.
What you are expected to know Explain the color of an object from the light it reflects: the object absorbs the other colors.
What you are expected to know Say that a molecule that absorbs some colors of light and reflects or transmits the rest is called a pigment.
White light falls on a red apple.
Which colors of light does the apple reflect to your eye?
- A. ✓ Red
- B. Every color except redThe apple absorbs every color except red.
- C. Every colorA thing that reflected every color would look white.
Why: The apple absorbs most of the colors.
The apple reflects red.
The reflected red light reaches your eye.
So the apple looks red.
A ripe tomato looks red in white light.
(a) Explain why the tomato looks red. (1 pt)
Frame The tomato absorbs
The tomato reflects red light.
Only the reflected red light reaches your eye.
The color a thing appears is the color it reflects.
So the tomato looks red.
- Award 1 point for: the tomato absorbs the other colors and reflects red, and the reflected red light is what reaches the eye.
A student says: “A leaf looks green because it absorbs green light.”
Is the student correct?
- A. ✓ No, a leaf looks green because it reflects green light
- B. Yes, a leaf looks green because it absorbs green lightThe color a thing appears is the color it reflects to your eye, not the color it absorbs.
Why: Absorbed light ends at the leaf, and absorbed light never reaches your eye.
Reflected light reaches your eye.
The leaf reflects green light.
So the leaf looks green because it reflects green light.
A shirt looks blue in white light.
Which colors of light does the shirt’s dye absorb?
- A. Blue onlyA dye that absorbed only blue would reflect the other colors, and the shirt would not look blue.
- B. ✓ Every color except blue
- C. Every colorA dye that absorbed every color would reflect none, and the shirt would look black.
Why: The shirt looks blue.
So the shirt reflects blue light to your eye.
The dye absorbs the other colors.
So the dye absorbs every color except blue.
Back to the sunlight passing through the prism and spreading into a band of colors on the screen. The colors were in the sunlight all along: white light is a mix of colors, and the prism sorts them by wavelength.
The prism’s band is also every color an object could reflect. A red apple reflects only the red stretch of it, and that reflected red is what you see.
49Quick quiz: pigment mixed practice
A red apple, blue ink and a green leaf each contain pigments.
A pigment is a molecule that does which of the following?
- A. Reflects every color of light that falls on itA molecule that reflected every color would look white, and the apple, the ink and the leaf each look one color.
- B. Lets every color of light pass straight through itA molecule that let every color pass through would absorb none, and a pigment absorbs some colors.
- C. ✓ Absorbs some colors of light and reflects or transmits the others
- D. Turns the light it catches straight into sugarA pigment absorbs light; the sugar is built separately, in the stroma, by the Calvin cycle.
Why: A pigment absorbs some colors of light.
A pigment reflects or transmits the other colors.
The colors a pigment reflects are the colors it appears: the apple red, the ink blue, the leaf green.
The skin of a red apple contains a pigment.
(a) State what a pigment is. (1 pt)
- Award 1 point for: a molecule that absorbs some colors (wavelengths) of light and reflects or transmits the rest.
52Mixed practice mixed practice
A lamp gives out light of 425 nm.
Which color is the light?
- A. ✓ Violet
- B. GreenGreen light has a wavelength of about 500 to 570 nm.
- C. RedRed light has a wavelength of about 620 to 700 nm.
Why: Light of 425 nm sits at the short-wavelength end of the band.
The short-wavelength end, from about 400 nm to 450 nm, is violet.
Which color of visible light has the longest wavelength?
- A. VioletViolet light has the shortest wavelength, about 400 nm.
- B. GreenGreen light has a wavelength in the middle of the band, about 500 to 570 nm.
- C. ✓ Red
Why: Red light has a wavelength of about 700 nm, the longest of visible light.
A frog’s skin looks green in white light.
Which colors of light does the skin’s pigment absorb?
- A. Green onlyA pigment that absorbed only green would reflect the other colors, and the skin would not look green.
- B. ✓ Every color except green
- C. Every colorA pigment that absorbed every color would reflect none, and the skin would look black.
Why: The skin looks green.
So the skin reflects green light to your eye.
The pigment absorbs the other colors.
So the pigment absorbs every color except green.
A student says: “Black ink looks black because it reflects every color of light.”
Is the student correct?
- A. ✓ No, black ink absorbs nearly every color of light
- B. Yes, black ink reflects every color of lightA thing that reflected every color would send the whole white mix to your eye and look white.
Why: Black ink absorbs nearly all the colors that fall on it.
So almost no light is reflected to your eye.
So the ink looks black.
White light shines through a sheet of red glass.
Which colors of light come out of the other side?
- A. Every colorIf every color passed through, the light coming out would still be white.
- B. Every color except redThe glass absorbs the other colors; red is the color it lets through.
- C. ✓ Red
Why: The red glass absorbs most of the colors.
The glass transmits red: red light passes through.
So red light comes out of the other side.
A lamp gives out light of 540 nm.
Which color is the light?
- A. BlueBlue light has a wavelength of about 450 to 500 nm.
- B. ✓ Green
- C. RedRed light has a wavelength of about 620 to 700 nm.
Why: Light of 540 nm sits in the middle of the band.
The middle of the band is green, about 500 to 570 nm.
A ripe strawberry looks red in white light. Under a lamp that gives out only green light, the same strawberry looks almost black.
(a) Explain how the strawberry’s appearance under the green lamp demonstrates that an object looks the color of the light it reflects. (2 pt)
The reflected red light reaches your eye, so the strawberry looks red.
Under the green lamp, only green light falls on the strawberry.
The pigment absorbs green light.
So almost no light is reflected to your eye.
So the strawberry looks almost black: with no red light falling on it, there is no red light for it to reflect.
- Award 1 point for: in white light the pigment reflects red and absorbs the other colors, so the reflected red is what reaches the eye.
- Award 1 point for: under the green lamp the pigment absorbs the green light and there is no red light to reflect, so almost no light reaches the eye and the strawberry looks almost black.
Glossary
- nanometer (nm)
- A billionth of a meter: 1 nm is 0.000 000 001 m. The wavelengths of visible light are measured in nanometers, from violet near 400 nm to red near 700 nm.
- pigment
- A molecule that absorbs some colors (wavelengths) of light and reflects or transmits the others. A thing looks the color its pigment reflects.
APBIO-U03-L23D Why leaves are green
Photo: Frank Vincentz, Wikimedia Commons, CC BY-SA 3.0 (resized).
Here is a sprig of pondweed, a water plant. Stand it in a beaker of water under a red lamp, and a brisk stream of oxygen bubbles rises from it.
Swap the red lamp for a green lamp of the same brightness. The stream slows to about a third as many bubbles. Why should the color of the light matter to a plant?
Unit 3 · Cellular Energetics
1Chlorophyll: the leaf’s pigment
Video: Watch: The pigment in the thylakoid membranes
White light falls on a leaf. The green pigment in its thylakoid membranes absorbs blue and red strongly and reflects green. That pigment is chlorophyll, and the reflected green is why the leaf looks green.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L23Da.mp4
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Why are leaves green, and why does green light drive photosynthesis so badly?
The thylakoid membranes hold a green pigment. That pigment absorbs blue and red light strongly and reflects green.
So a leaf looks green.
Only absorbed light can drive photosynthesis. So green light drives it least.
Read a graph of how much light a pigment absorbs, and you can predict which color of light drives any organism’s photosynthesis fastest.
Start with the pigment.
Which of the following is a pigment?
- A. ✓ A molecule that absorbs some colors of light and reflects or transmits the rest
- B. A molecule that reflects every color of light that falls on itA molecule that reflected every color would look white.
- C. A molecule that turns the light it catches straight into sugarA pigment absorbs light; the sugar is built separately, in the stroma, by the Calvin cycle.
Why: A pigment absorbs some colors of light and reflects or transmits the others.
The colors it reflects are the colors it appears.
Now consider a leaf in white light. All the colors of white light fall on the leaf.
The leaf absorbs most of the blue and red light falling on it. The leaf reflects the green light back to your eye.
So the leaf looks green: the color a thing appears is the color it reflects.
Hold a leaf up to the sun, and it glows green. The leaf transmits some of the green light too.
Which molecule does the absorbing? A pigment held in the leaf’s chloroplasts.
Which of the following is the thylakoid membrane of a chloroplast?
- A. The fluid around the flattened sacsThe fluid around the thylakoids is the stroma.
- B. ✓ The membrane of each flattened sac in the grana
- C. The outer boundary of the chloroplastThe outer boundary of the chloroplast is its outer membrane.
Why: A thylakoid is a flattened sac floating in the stroma.
The membrane of that sac is the thylakoid membrane.
The thylakoid membranes hold a green pigment. That pigment absorbs blue and red light strongly, and it reflects or transmits green.
The pigment is called : chloro means green, and phyll means leaf.
Chlorophyll is the main pigment of photosynthesis.
What you are expected to know Say that chlorophyll, the main pigment of photosynthesis, is held in the thylakoid membranes.
What you are expected to know Say which colors chlorophyll absorbs strongly, blue and red, and which it reflects or transmits, green.
Which colors of light does chlorophyll absorb strongly?
- A. ✓ Blue and red
- B. GreenChlorophyll reflects or transmits most green light.
- C. Every colorA pigment that absorbed every color would look black, and a leaf looks green.
Why: Chlorophyll absorbs blue and red light strongly.
Chlorophyll reflects or transmits green light.
Where in a chloroplast is chlorophyll held?
- A. In the stromaThe stroma is the fluid where the Calvin cycle builds sugar; it holds no chlorophyll.
- B. ✓ In the thylakoid membranes
- C. In the outer membraneThe outer membrane is the chloroplast’s boundary; it holds no chlorophyll.
Why: Chlorophyll is held in the thylakoid membranes of the grana.
A spinach leaf looks green in white light.
(a) Explain why the leaf looks green. (1 pt)
Frame Chlorophyll absorbs
Chlorophyll reflects green light.
The reflected green light reaches your eye.
The color a thing appears is the color it reflects.
So the leaf looks green.
- Award 1 point for: chlorophyll absorbs blue and red and reflects green, and the reflected green light is what reaches the eye.
24Quick quiz: chlorophyll mixed practice
What is chlorophyll?
- A. ✓ The main pigment of photosynthesis, held in the thylakoid membranes
- B. The fluid inside a chloroplast, around the thylakoidsThe fluid inside a chloroplast, around the thylakoids, is the stroma.
- C. The sugar a leaf builds from carbon dioxide in the lightThe sugar a leaf builds from carbon dioxide in the light is glucose.
Why: Chlorophyll is the main pigment of photosynthesis.
The thylakoid membranes hold it.
Chlorophyll is a pigment.
(a) State which colors of light chlorophyll absorbs strongly. (1 pt)
- Award 1 point for: blue and red.
27Only absorbed light drives photosynthesis
Video: Watch: Why green light drives photosynthesis least
The white parts of a green-and-white leaf hold no chlorophyll, absorb almost no light and store no starch. Only absorbed light drives photosynthesis, so the green light a leaf reflects drives it least.
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A gardener keeps a plant with green-and-white leaves in the dark for two days, then in the light for a day. The gardener dips one leaf in iodine solution.
Which parts of the leaf turn blue-black?
- A. The white partsThe white parts made no glucose, so they stored no starch for the iodine to find.
- B. ✓ The green parts
Why: Iodine turns blue-black where starch is present.
Only the green parts made glucose and stored some of it as starch.
So only the green parts turn blue-black.
Only the green parts of the leaf made starch in the light. Why the green parts?
The white parts of the leaf hold no chlorophyll. So the white parts absorb almost no light.
Light that a leaf reflects or transmits is not absorbed. Only absorbed light can drive photosynthesis.
So the white parts make no sugar, and they store no starch.
Back to the sprig of pondweed standing in its beaker of water under the red lamp, with a brisk stream of bubbles rising from it.
Chlorophyll absorbs red light strongly. So the red light drives photosynthesis fast, and the pondweed releases a brisk stream of oxygen bubbles.
Under the green lamp, chlorophyll reflects most of the green light. So little green light is absorbed.
So green light drives little photosynthesis, and the pondweed releases about a third as many bubbles as under the red lamp.
What you are expected to know Explain why green light drives a plant’s photosynthesis least: chlorophyll reflects most green light, and only absorbed light drives photosynthesis.
A student lights three trays of duckweed with red, blue or green light of equal brightness.
Which tray makes oxygen most slowly?
- A. The tray under red lightChlorophyll absorbs red light strongly, and absorbed light drives photosynthesis.
- B. The tray under blue lightChlorophyll absorbs blue light strongly, and absorbed light drives photosynthesis.
- C. ✓ The tray under green light
Why: Chlorophyll absorbs red and blue light strongly.
Chlorophyll reflects most green light.
Only absorbed light can drive photosynthesis.
So the tray under green light makes the least oxygen.
Of three trays of duckweed lit with red, blue or green light of equal brightness, the tray under green light makes oxygen most slowly.
(a) Explain why the tray under green light makes oxygen most slowly. (1 pt)
Frame Chlorophyll absorbs
Chlorophyll reflects most green light instead of absorbing it.
Only absorbed light can drive photosynthesis.
So green light drives the least photosynthesis.
Photosynthesis makes the oxygen.
So the tray under green light makes the least oxygen.
- Award 1 point for: chlorophyll reflects most green light rather than absorbing it, and only absorbed light drives photosynthesis, so green light drives the least photosynthesis and the least oxygen.
A student says: “Green light is the best color for growing plants, because plants are green.”
Is the student correct?
- A. Yes, green plants grow fastest in green lightA plant looks green because it reflects green light, and only absorbed light drives photosynthesis.
- B. ✓ No, plants reflect most green light
Why: A plant looks green because its chlorophyll reflects most green light.
Only absorbed light drives photosynthesis.
So green light drives the least photosynthesis.
So green is the worst color for growing plants, not the best.
A student stands a sprig of pondweed in a beaker of water under a red lamp and counts the bubbles the pondweed releases. The student then swaps the red lamp for a blue lamp of the same brightness.
About how many bubbles does the pondweed release under the blue lamp, compared with the count under the red lamp?
- A. ✓ About as many
- B. About a third as manyAbout a third as many is the count under green light, which chlorophyll reflects.
- C. Almost noneChlorophyll absorbs blue light strongly, so blue light drives photosynthesis fast.
Why: Chlorophyll absorbs blue light strongly, just as it absorbs red light strongly.
Only absorbed light drives photosynthesis.
So blue light drives photosynthesis about as fast as red light does.
So the pondweed releases about as many bubbles as under the red lamp.
43Read an absorption graph
Video: Watch: Reading a pigment’s absorption graph
Chlorophyll’s absorption graph: find the wavelength on the x-axis, read up to the curve, read across to the percentage absorbed. High in the blue and the red, low in the green.
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How strongly does chlorophyll absorb each color? A graph shows it.
Here is a graph of the percentage of light chlorophyll absorbs, plotted against wavelength in nanometers.
The x-axis is the wavelength of the light, in nanometers. The y-axis is the percentage of that light chlorophyll absorbs.
The curve is high at the blue end and high again at the red end. The curve is low in the middle, in the green.
To read how much of one color is absorbed, there are three steps:
- Find the wavelength on the x-axis.
- Read up to the curve.
- Read across to the y-axis.
Read up from 450 nm, in the blue: chlorophyll absorbs about 80%. Read up from 680 nm, in the red: chlorophyll absorbs about 80% again.
Read up from 550 nm, in the green: chlorophyll absorbs only about 25%.
Light that is absorbed can drive photosynthesis. Light that is reflected cannot.
So blue and red light drive photosynthesis fast, and green light barely does.
The colors a pigment absorbs strongly are the colors that drive photosynthesis fastest in the organism that holds it.
A graph of the percentage of light a pigment absorbs, against wavelength, is called an .
What you are expected to know Read from an absorption graph which wavelengths a pigment absorbs strongly and which weakly.
What you are expected to know Predict from a pigment’s absorption graph which color of light drives photosynthesis fastest in the organism that holds it.
Now consider a seaweed from a rocky shore. It looks red, not green.
Its main pigment is not chlorophyll. Here is that pigment’s absorption graph.
Here is the absorption graph of the red seaweed’s main pigment.
Which color is light of 650 nm?
- A. GreenGreen light has a wavelength of about 500 to 570 nm.
- B. YellowYellow light has a wavelength of about 570 to 590 nm.
- C. ✓ Red
Why: Light of 650 nm sits near the long-wavelength end of the band.
The long-wavelength end, from about 620 nm to 700 nm, is red.
Here is the absorption graph of the red seaweed’s main pigment.
About what percentage of 650 nm light does this pigment absorb?
- A. ✓ About 15%
- B. About 35%About 35% is the value at 450 nm, not at 650 nm.
- C. About 60%About 60% is the value near 575 nm, where the curve is on its way down.
- D. About 85%About 85% is the peak, near 525 nm.
Why: Find 650 nm on the x-axis.
Read up to the curve.
Read across to the y-axis: about 15%.
So this pigment absorbs about 15% of 650 nm light: little red light.
Here is the absorption graph of the red seaweed’s main pigment.
Between which wavelengths does this pigment absorb more than 80% of the light?
- A. 400 nm to 440 nmBetween 400 nm and 440 nm the curve sits at about 30%.
- B. ✓ 500 nm to 555 nm
- C. 620 nm to 700 nmBetween 620 nm and 700 nm the curve sits at about 10% to 20%.
Why: The curve rises above 80% at about 500 nm.
The curve stays above 80% until about 555 nm.
So this pigment absorbs more than 80% of the light between 500 nm and 555 nm, in the green.
Here is the absorption graph of the red seaweed’s main pigment.
Which color of light will drive this seaweed’s photosynthesis fastest?
- A. VioletIn the violet this pigment absorbs only about 30% of the light.
- B. BlueIn the blue this pigment absorbs only about 35% to 50%; chlorophyll’s peaks do not apply to a different pigment.
- C. ✓ Green
- D. RedIn the red this pigment absorbs only about 10% to 20%.
Why: The graph peaks between 500 and 570 nm, the green, at about 85% absorbed.
The color a pigment absorbs most strongly drives photosynthesis fastest.
So for this seaweed the color is green.
The seaweed whose main pigment’s absorption graph is shown looks red.
(a) Explain, from the absorption graph, why the seaweed looks red. (1 pt)
Frame The pigment absorbs
The pigment absorbs red light weakly, about 15% at 650 nm.
So the pigment reflects most of the red light.
The color a thing appears is the color it reflects.
So the seaweed looks red.
- Award 1 point for: the pigment absorbs little red light (about 15%) and so reflects most of it, and a thing looks the color it reflects.
Back to the sprig of pondweed in its beaker of water, bubbling briskly under the red lamp and slowly under the green lamp. Chlorophyll absorbs red light strongly and reflects most green light, and only absorbed light drives photosynthesis.
66Mixed practice mixed practice
Here is chlorophyll’s absorption graph.
About what percentage of 600 nm light does chlorophyll absorb?
- A. About 15%About 15% is the lowest point of the curve, near 525 nm, not the value at 600 nm.
- B. ✓ About 30%
- C. About 60%About 60% is the value near 650 nm, on the way up to the red peak.
- D. About 80%About 80% is the value at the peaks near 450 nm and 680 nm.
Why: Find 600 nm on the x-axis.
Read up to the curve.
Read across to the y-axis: about 30%.
So chlorophyll absorbs about 30% of 600 nm light.
Light of 430 nm is falling on chlorophyll, which absorbs about 80% of it. The rest is reflected or transmitted.
Calculate the percentage of 430 nm light that chlorophyll reflects or transmits.
Answer: 20 % (tolerance ±0.5)
A student holds a leaf up to the sun and looks through it.
Which color of light passes through the leaf to the student’s eye?
- A. BlueChlorophyll absorbs blue light strongly, so little blue light gets through.
- B. ✓ Green
- C. RedChlorophyll absorbs red light strongly, so little red light gets through.
Why: Chlorophyll absorbs blue and red light strongly.
Chlorophyll reflects or transmits green light.
So the light that passes through the leaf is green.
A brown seaweed’s main pigment absorbs blue and green light strongly and reflects most red light.
Which color of light drives this seaweed’s photosynthesis slowest?
- A. BlueThe pigment absorbs blue light strongly, and absorbed light drives photosynthesis.
- B. GreenThe pigment absorbs green light strongly, and absorbed light drives photosynthesis.
- C. ✓ Red
Why: The pigment reflects most red light.
Only absorbed light drives photosynthesis.
So red light drives this seaweed’s photosynthesis slowest.
Pondweed is photosynthesizing, and a student counts the bubbles of oxygen it releases. Under red light it releases 18 bubbles per minute. Under green light of the same brightness it releases a third as many.
Calculate the pondweed’s rate of oxygen production under green light.
Answer: 6 bubbles per minute (tolerance ±0.5)
A chloroplast has lost all of its chlorophyll but is otherwise intact. A researcher lights it and gives it plenty of carbon dioxide.
Predict what happens to the Calvin cycle.
- A. The Calvin cycle continues as beforeThe Calvin cycle needs ATP and NADPH, which only the light reactions make.
With no chlorophyll, no light is captured, so no ATP and NADPH are made. - B. Carbon fixation stops but the rest of the cycle continuesCarbon fixation begins the Calvin cycle, and the whole cycle needs the same ATP and NADPH.
With none made, the whole cycle stops. - C. ✓ The Calvin cycle stops
- D. The Calvin cycle speeds upThe Calvin cycle uses no light itself, so more light reaching the stroma changes nothing.
Why: Chlorophyll captures light.
With no chlorophyll, no light is captured.
So the light reactions make no ATP and NADPH.
The Calvin cycle in the stroma needs ATP and NADPH.
So the Calvin cycle stops.
A student says: “A plant’s white petals photosynthesize as fast as its leaves, because the same light falls on both.”
Is the student correct?
- A. Yes, the same light falls on the petals and the leavesLight that falls on a petal drives photosynthesis only if the petal absorbs it, and white petals absorb almost none.
- B. ✓ No, the white petals hold no chlorophyll
Why: White petals hold no chlorophyll.
So the petals absorb almost none of the light falling on them.
Only absorbed light drives photosynthesis.
So the petals photosynthesize far less than the leaves.
A grower raises lettuce in a windowless building under lamps that give out only red and blue light. The lamps use less electricity than white lamps of the same brightness, and the lettuce grows as fast as it does under white lamps.
(a) Explain how the lettuce’s growth under red and blue lamps demonstrates that only absorbed light drives photosynthesis. (2 pt)
Under white lamps, the lettuce reflects most of the green part of the light, so that part drives little photosynthesis.
The red and blue lamps give out only the colors chlorophyll absorbs.
So the lettuce absorbs almost all of their light.
So the lettuce grows as fast: the light it absorbs, not the light falling on it, drives its photosynthesis.
- Award 1 point for: chlorophyll absorbs red and blue strongly and reflects most green, so the green part of white light drives little photosynthesis.
- Award 1 point for: the lettuce grows as fast because it absorbs almost all the red and blue light, showing that absorbed light, not the total light falling on it, drives photosynthesis.
Glossary
- chlorophyll
- The main pigment of photosynthesis, held in the thylakoid membranes; it absorbs blue and red light strongly and reflects or transmits green, which is why leaves look green.
- absorption graph
- A graph of the percentage of light a pigment absorbs, plotted against wavelength in nanometers. Read it to find which colors the pigment absorbs strongly, and so which colors drive photosynthesis fastest in the organism that holds it.
APBIO-U03-L24 One electron's journey
Here are two tubes of chloroplasts taken out of spinach leaves, floating in a blue dye.
The tube in the light has gone colorless. The tube in the dark is still blue. The dye goes colorless only when it gains electrons. So something in the lit chloroplasts is pushing electrons out into the dye. What is it, and where do those electrons normally go?
Unit 3 · Cellular Energetics
1Light boosts an electron
Video: Watch: Light boosts an electron
A stretch of thylakoid membrane with chlorophyll, other pigments and proteins clustered in it. Light falls on the cluster and boosts an electron in chlorophyll to a higher energy level; the cluster passes that electron to a neighboring molecule. A cluster that captures light like this is a photosystem.
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How does light drive one electron from water to NADPH?
Light strikes a cluster of pigments and proteins in the thylakoid membrane. The light boosts one of chlorophyll’s electrons to a higher energy.
The cluster passes that electron on. Then the cluster takes a replacement electron from water.
That is why the plant gives off oxygen.
The electron passes along a chain of proteins. The chain pumps protons into the thylakoid space.
A second cluster boosts the electron again. The electron lands on NADP⁺, making NADPH.
Following one electron from water to NADPH is the spine of the light reactions. It also explains the bleached dye.
So start with what light does to one electron.
Two tubes of chloroplasts float in a blue dye. In the lit tube, the dye gains electrons and goes colorless.
Which of the following happens to the dye when the dye gains electrons?
- A. The dye is oxidizedLosing electrons is oxidation, and the dye gains electrons.
- B. ✓ The dye is reduced
Why: A molecule that gains electrons is reduced.
The dye gains electrons.
So the dye is reduced.
So in the light, electrons are leaving the chloroplasts. The electrons come from the thylakoid membranes, where chlorophyll is held.
In the thylakoid membrane, chlorophyll and other pigment molecules sit clustered together with proteins.
Light falling on the cluster boosts an electron in one of its chlorophyll molecules to a higher energy level.
The cluster passes the boosted electron to a neighboring molecule. So the cluster has lost an electron.
A cluster of pigments and proteins that captures light like this is called a .
Photo because it works on light, and system because it is a set of molecules working together.
In the tube of isolated chloroplasts, the boosted electrons had nowhere to go but out of the chloroplast, onto the dye.
In the dark, no light boosted any electron. So the dye stayed blue.
What you are expected to know Describe a photosystem: a cluster of chlorophyll, other pigment molecules and proteins in the thylakoid membrane, in which light boosts an electron in chlorophyll to a higher energy level and the photosystem passes that electron to a neighboring molecule.
Light falls on a photosystem in a thylakoid membrane.
Which of the following happens to an electron in one of its chlorophyll molecules?
- A. The electron drops to a lower energy levelAbsorbed light adds energy to the electron.
- B. The electron stays at the same energy levelThe electron takes in the light’s energy.
- C. ✓ The electron is boosted to a higher energy level
Why: Light falls on the photosystem.
The light’s energy lifts an electron in a chlorophyll molecule to a higher energy level.
So the electron is boosted.
The photosystem then passes that boosted electron to a neighboring molecule.
Two tubes of chloroplasts float in a blue dye. The tube in the light goes colorless. The tube in the dark stays blue. A third tube holds the dye alone, with no chloroplasts, in the light; that tube stays blue. A student, Amara, says: ‘The light itself bleaches the dye, so in the dark the dye stays blue.’
Is Amara correct?
- A. Yes, the light itself bleaches the dyeThe dye alone in the light stays blue, so light itself gives the dye no electrons.
- B. ✓ No, the chloroplasts bleach the dye, not the light itself
Why: The dye goes colorless only when it gains electrons.
The dye alone in the light stays blue, so light itself gives it none.
Light boosts electrons in the chloroplasts’ photosystems, and the photosystems pass those electrons out onto the dye.
So the chloroplasts bleach the dye, not the light itself.
Two tubes of chloroplasts float in a blue dye. The tube in the light goes colorless. The tube in the dark stays blue. A third tube holds the dye alone, with no chloroplasts, in the light; that tube stays blue.
(a) Explain why the dye in the dark tube stays blue. (1 pt)
Frame In the dark, no light …
So no electron in chlorophyll is boosted to a higher energy level.
So the photosystems pass no electron out of the chloroplast.
The dye goes colorless only when the dye gains electrons.
The dye in the dark tube gains no electrons.
So the dye stays blue.
- Award 1 point for: no light falls on the photosystems, so no electron is boosted, so no electron is passed to the dye, so the dye is not reduced and stays blue.
24Quick quiz: photosystem mixed practice
What is a photosystem?
- A. ✓ A cluster of chlorophyll, other pigments and proteins that captures light
- B. The membrane enzyme through which protons flow back, joining ADP and Pi into ATPThat enzyme is ATP synthase.
- C. The green pigment molecule in a leaf that absorbs red and blue lightThat pigment is chlorophyll; a photosystem is the cluster that holds chlorophyll with other pigments and proteins.
Why: A photosystem is a cluster of chlorophyll, other pigment molecules and proteins in the thylakoid membrane.
Light falling on it boosts an electron in chlorophyll to a higher energy level.
Light falls on a photosystem in a spinach chloroplast.
(a) State what a photosystem is. (1 pt)
- Award 1 point for: a cluster of chlorophyll (and other pigments) with proteins in the thylakoid membrane, in which light boosts an electron.
27Two photosystems, numbered by discovery
Video: Watch: Two photosystems
The thylakoid membrane holds two kinds of photosystem, photosystem II and photosystem I. The electron’s path starts at photosystem II; the numbers follow the order of discovery, not the order the electron visits them.
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The thylakoid membrane holds two kinds of photosystem, photosystem II and photosystem I.
The electron’s journey starts at photosystem II.
The two photosystems are numbered in the order scientists discovered them, not the order the electron visits them.
What you are expected to know Name the two kinds of photosystem in the thylakoid membrane, photosystem II and photosystem I, and say which one the electron’s path starts at.
Light boosts an electron out of a photosystem at the very start of the electron’s journey.
Which of the following is that photosystem?
- A. Photosystem IThe numbers follow the order of discovery, not the electron’s path.
- B. ✓ Photosystem II
Why: The electron’s journey starts at photosystem II.
The two photosystems are numbered in the order scientists discovered them.
So the numbers do not follow the order the electron visits them.
34Water refills photosystem II
Video: Watch: Water refills photosystem II
The same membrane. Photosystem II has lost an electron, so it splits a water molecule: the water’s electrons go into photosystem II, its protons go into the thylakoid space, and its oxygen leaves as O₂. Two water molecules are split for every O₂ released.
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A researcher gave algae water carrying labeled oxygen atoms.
Where did the label turn up?
- A. ✓ In the oxygen gas the algae gave off
- B. In the sugar the algae madeThe sugar’s oxygen atoms come from the carbon dioxide.
Why: The oxygen photosynthesis releases comes from water.
Photosystem II has lost an electron. If nothing replaced that electron, the flow would stop after one electron.
The replacement comes from water. Photosystem II splits a water molecule.
The water molecule’s electrons go into photosystem II.
The water molecule’s hydrogen ions (H⁺), which are protons, go into the thylakoid space. The water molecule’s oxygen leaves as O₂.
Photosystem II splits two water molecules for every O₂ released.
Here is that reaction as a word equation.
Photosystem II splits water: the word equation, and the same reaction in formulae
So this is the reason the oxygen comes from water. Photosystem II splits water, and the water’s oxygen leaves as O₂.
Now consider a herbicide that stops electrons leaving photosystem II.
Photosystem II loses no electrons. So photosystem II needs no replacement electrons.
So photosystem II splits no water. So the leaf releases no oxygen.
What you are expected to know Explain where photosystem II gets its replacement electrons: water is split, the water’s electrons refill the photosystem, the water’s protons enter the thylakoid space, and the water’s oxygen leaves as O₂.
In the light, photosystem II keeps losing electrons to the chain.
Which of the following supplies its replacement electrons?
- A. Carbon dioxideCarbon dioxide is not split.
The Calvin cycle fixes carbon dioxide into sugar in the stroma. - B. NADPHNADPH carries electrons away from the chain into the stroma.
NADPH does not bring electrons back. - C. Photosystem IElectrons flow from photosystem II to photosystem I, never back.
- D. ✓ Water
Why: Photosystem II splits water.
The water’s electrons replace the electrons photosystem II lost.
The water’s protons go into the thylakoid space.
The water’s oxygen leaves as O₂.
A pond alga is kept in the dark. A student, Leo, says: ‘Photosystem II still splits water in the dark, so the alga still releases oxygen.’
Is Leo correct?
- A. Yes, photosystem II splits water in the dark tooPhotosystem II splits water only to replace electrons it has lost.
In the dark no light boosts an electron out of photosystem II, so photosystem II loses none. - B. ✓ No, photosystem II splits water only in the light
Why: In the dark, no light boosts an electron out of photosystem II.
So photosystem II loses no electrons.
So photosystem II needs no replacements, and splits no water.
The oxygen an alga releases is the oxygen from split water.
So the alga releases no oxygen in the dark.
A pond alga is kept in the dark. The alga releases no oxygen.
(a) Explain why the alga releases no oxygen in the dark. (1 pt)
Frame In the dark, no light boosts …
So photosystem II loses no electrons.
So photosystem II needs no replacement electrons.
Photosystem II splits water only to replace the electrons it has lost.
So photosystem II splits no water.
The oxygen an alga releases is the oxygen from split water.
So the alga releases no oxygen.
- Award 1 point for: no light means no electrons are boosted out of photosystem II, so no replacements are needed, so no water is split, and the released oxygen comes only from split water.
51Down the chain, protons uphill
Video: Watch: Down the chain, protons uphill
The same membrane with the electron transport chain added. Electrons leaving photosystem II pass along it protein to protein and release energy; the chain uses that energy to pump protons from the stroma into the thylakoid space, which reaches pH 5 while the stroma stays near pH 8: a proton gradient.
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In a mitochondrion, electrons pass along the electron transport chain, protein to protein.
Which of the following happens at each transfer from one protein to the next?
- A. The electrons gain energyOnly light or food adds energy to electrons; along the chain they give energy up.
- B. ✓ A little energy is released
Why: Electrons pass from protein to protein along the electron transport chain.
Each transfer releases a little energy.
The thylakoid membrane holds an electron transport chain too. Electrons leaving photosystem II pass along the chain, protein to protein, toward photosystem I.
Each protein in the chain is reduced when the protein takes the electron. The protein is oxidized when the protein passes the electron on.
The electrons release energy as they pass along the chain. The chain uses that energy to pump protons from the stroma into the thylakoid space.
So protons pile up inside the thylakoid space. So protons grow scarce in the stroma.
This difference in proton concentration and charge across the thylakoid membrane is a proton gradient, just like the proton gradient across the inner mitochondrial membrane.
More H⁺ means a lower pH. In a lit chloroplast the thylakoid space reaches about pH 5, while the stroma stays near pH 8.
What you are expected to know Explain that electrons leaving photosystem II pass along an electron transport chain in the thylakoid membrane, and that the energy they release pumps protons from the stroma into the thylakoid space, building a proton gradient.
Here is the thylakoid membrane with its electron transport chain. The chain uses the energy the electrons release to pump protons across the membrane.
Which region does the chain pump the protons into?
- A. ✓ Into the thylakoid space
- B. Into the stromaThe chain pumps protons out of the stroma, not into it.
Why: The chain uses the energy the electrons release to pump protons from the stroma into the thylakoid space.
So protons pile up in the thylakoid space.
So the thylakoid space reaches pH 5, while the stroma stays near pH 8.
A chloroplast is in the light. Its thylakoid space is at pH 5 and its stroma is at pH 8.
(a) Explain why the thylakoid space reaches pH 5 while the stroma stays near pH 8. (1 pt)
Frame Electrons passing along the chain …
The chain uses that energy to pump protons from the stroma into the thylakoid space.
So protons pile up in the thylakoid space.
So protons grow scarce in the stroma.
More H⁺ means a lower pH.
So the thylakoid space reaches pH 5, and the stroma stays near pH 8.
- Award 1 point for: the chain uses the energy the electrons release to pump protons from the stroma into the thylakoid space, so protons are concentrated inside the thylakoid space (low pH) and scarce in the stroma (high pH).
63Photosystem I and NADP⁺
Video: Watch: Photosystem I and NADP⁺
The same membrane with photosystem I added. Light boosts the electrons a second time, and photosystem I passes them to NADP⁺ in the stroma, which is reduced to NADPH. NADP⁺ is the chloroplast chain’s terminal electron acceptor, as oxygen is the mitochondrion’s.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L24e.mp4
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NADP⁺ is the chloroplast’s electron carrier.
Which of the following does NADP⁺ become when NADP⁺ picks up electrons?
- A. NAD⁺NAD⁺ is the mitochondrion’s carrier, and NAD⁺ is the empty form.
- B. ✓ NADPH
- C. ATPATP carries energy for the cell’s work, not electrons.
Why: NADP⁺ picks up electrons.
Loaded with electrons, the carrier is called NADPH.
By the time the electrons reach photosystem I, the electrons have given up most of their energy along the chain.
Light falling on photosystem I boosts the electrons a second time.
Photosystem I passes the electrons to NADP⁺, the chloroplast’s electron carrier. NADP⁺ gains the electrons, so NADP⁺ is reduced to NADPH.
Here is that reaction as a word equation.
NADP⁺ takes the electrons from photosystem I and is reduced to NADPH: the word equation, and the same reaction in formulae
NADPH carries the electrons into the stroma, where the Calvin cycle uses the electrons to build sugar.
NADP⁺ is the end of the electron’s journey.
Oxygen is the terminal electron acceptor of the mitochondrion’s chain. NADP⁺ is the terminal electron acceptor of the chloroplast’s chain.
Here is the whole journey of one electron: out of water, boosted at photosystem II, down the chain, boosted again at photosystem I, onto NADP⁺.
What you are expected to know Explain that light boosts the electrons again at photosystem I, and that photosystem I passes them to NADP⁺, reducing NADP⁺ to NADPH, the carrier that supplies electrons to the Calvin cycle.
Photosystem I passes its electrons on to the end of the chloroplast’s electron transport chain.
Which of the following molecules takes the electrons from photosystem I?
- A. ✓ NADP⁺
- B. OxygenOxygen is the terminal electron acceptor of the mitochondrion’s chain, not the chloroplast’s.
- C. Carbon dioxideCarbon dioxide never touches the chain.
The Calvin cycle fixes carbon dioxide in the stroma. - D. WaterWater supplies electrons at the start of the journey, at photosystem II.
Water does not take electrons at the end.
Why: Photosystem I passes the electrons to NADP⁺.
NADP⁺ gains the electrons, so NADP⁺ is reduced to NADPH.
NADP⁺ is the terminal electron acceptor of the chloroplast’s chain.
A researcher lights isolated chloroplasts in a solution that holds no NADP⁺.
Which of the following happens to the flow of electrons along the thylakoid chain?
- A. The flow speeds upNADP⁺ is the acceptor at the end of the chain, not a brake on the flow.
- B. The flow continues unchangedThe chloroplast’s electrons end on NADP⁺, and there is no NADP⁺ to take them.
- C. ✓ The flow slows
Why: NADP⁺ is the terminal electron acceptor of the chloroplast’s chain.
Photosystem I hands its electrons to NADP⁺.
With no NADP⁺, photosystem I cannot hand its electrons on.
So the electrons back up, and the flow along the chain slows.
A researcher lights isolated chloroplasts in a solution that holds no NADP⁺. The flow of electrons along the thylakoid chain slows.
(a) Explain why the flow of electrons slows with no NADP⁺ present. (1 pt)
Frame Photosystem I hands its electrons to …
NADP⁺ is the terminal electron acceptor of the chloroplast’s chain.
With no NADP⁺ present, photosystem I cannot hand its electrons on.
So the electrons back up along the chain.
So the flow of electrons slows.
- Award 1 point for: photosystem I has nothing to hand its electrons to, so electrons back up along the chain and the flow slows.
Back to the two tubes of chloroplasts taken out of spinach leaves, floating in a blue dye, one in the light and one in the dark.
In the lit tube, light at photosystem II boosted electrons. Those boosted electrons left the chloroplasts and reduced the dye.
So the dye in the lit tube went colorless.
In the dark tube, no light boosted any electron. So the dye stayed blue.
Inside an intact leaf, the same electrons would have passed down the chain. Their energy would have pumped protons into the thylakoid space.
The electrons would have ended on NADP⁺, making NADPH. Photosystem II would have split water to refill itself.
84Mixed practice mixed practice
Light falls on a photosystem.
What happens to an electron in its chlorophyll?
- A. ✓ It is boosted to a higher energy level
- B. It drops to a lower energy levelAbsorbed light adds energy to the electron.
Why: The light’s energy lifts an electron in chlorophyll to a higher energy level.
The photosystem passes that boosted electron on.
Photosystem II has lost an electron to the chain.
Where does its replacement come from?
- A. ✓ From water
- B. From NADPHNADPH carries electrons away from the chain, not back.
Why: Photosystem II splits water.
The water’s electrons replace the ones the photosystem lost; its oxygen leaves as O₂.
Electrons pass along the thylakoid chain from one photosystem toward the other.
Which photosystem do they leave?
- A. Photosystem IPhotosystem I is where the chain ends, not where it starts.
- B. ✓ Photosystem II
Why: The electron’s path starts at photosystem II.
Electrons leave photosystem II, pass down the chain and reach photosystem I.
A pond alga sits in the dark, so no light boosts electrons out of photosystem II.
Does the alga release oxygen?
- A. YesWater is split only to replace lost electrons.
- B. ✓ No
Why: With no electrons lost, photosystem II needs no replacements.
So no water is split, and no oxygen is released.
The chain in the thylakoid membrane pumps protons.
Into which region does the chain pump the protons?
- A. ✓ The thylakoid space
- B. The stromaProtons are pumped out of the stroma, not into it.
Why: The chain pumps protons from the stroma into the thylakoid space.
So the thylakoid space reaches pH 5 while the stroma stays near pH 8.
Electrons leave photosystem I.
Which molecule takes them at the end?
- A. ✓ NADP⁺
- B. OxygenOxygen is the terminal electron acceptor of the mitochondrion’s chain, not the chloroplast’s.
Why: Photosystem I passes its electrons to NADP⁺, which is reduced to NADPH.
A chloroplast is in the light.
Which region holds more protons?
- A. The stromaThe chain pumps protons out of the stroma.
- B. ✓ The thylakoid space
Why: The chain pumps protons from the stroma into the thylakoid space.
So the thylakoid space holds more protons, and has the lower pH.
A researcher lights isolated chloroplasts in a solution that holds no NADP⁺. The chloroplasts release almost no oxygen.
(a) Explain how this result shows that the electron’s path from water to NADP⁺ is one connected chain. (1 pt)
With no NADP⁺ present, photosystem I cannot hand its electrons on.
So electrons back up along the chain, and photosystem II cannot pass its electrons on.
So photosystem II loses no electrons and needs no replacements.
So photosystem II splits no water, and no oxygen is released.
A missing acceptor at the end of the path stopped the splitting of water at its start, so the path is one connected chain.
- Award 1 point for: with no NADP⁺ the electrons back up along the whole chain to photosystem II, which then loses no electrons, splits no water and releases no oxygen; a missing acceptor at the end stopping the splitting of water at the start shows one connected path.
Slip Saying photosystem II splits water whenever light falls on it. Photosystem II splits water only to replace electrons it has lost.
Glossary
- photosystem
- A cluster of chlorophyll and other pigment molecules with proteins in the thylakoid membrane, in which absorbed light boosts an electron in chlorophyll to a higher energy level. There are two kinds, photosystem II and photosystem I.
APBIO-U03-L24B The same machine, powered by light
Here are lit chloroplasts that a researcher has given ADP and Pi. They make ATP.
Then she adds a substance that lets protons leak freely across the thylakoid membrane. The electrons keep flowing along the chain, yet ATP production stops. Nothing in the electron’s journey so far has made a single ATP. So where does the chloroplast’s ATP come from, and why does a proton leak stop it?
Unit 3 · Cellular Energetics
1The same machine, powered by light
Video: Watch: The same machine, powered by light
The thylakoid membrane with ATP synthase added. Protons piled up in the thylakoid space flow back into the stroma through ATP synthase, and as they flow ATP synthase joins ADP and Pi into ATP. Light built the proton gradient, so this ATP-making is photophosphorylation; switch the light off and it stops within seconds.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L24Ba.mp4
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How does the chloroplast turn a proton gradient into ATP?
The chain pumped protons into the thylakoid space, to about pH 5. The stroma stayed near pH 8.
Those protons flow back into the stroma through ATP synthase. As they pass, ATP synthase joins ADP and Pi into ATP.
This is the same machine as in the mitochondrion. Because light built the proton gradient, this way of making ATP gets its own name.
That ATP and the NADPH are everything the light reactions hand to the stroma.
So tracing one electron from water to NADPH, and naming what each step makes, sums up the whole of the light reactions.
In a mitochondrion, protons are piled up in the intermembrane space.
Which of the following does the mitochondrion do with that proton gradient?
- A. ✓ It lets the protons flow back through ATP synthase, making ATP
- B. It lets the protons leak back anywhere, making heatOnly brown-fat mitochondria leak protons for heat; the ordinary route back is through ATP synthase, making ATP.
Why: The protons flow back down their proton gradient through ATP synthase.
As they flow through, ATP synthase joins ADP and Pi into ATP.
Protons are piled up inside the thylakoid space. The chloroplast uses them the same way the mitochondrion does.
As electrons pass down the electron transport chain, the energy they release pumps protons across the membrane, and the protons flowing back down their proton gradient through ATP synthase drive the formation of ATP from ADP and inorganic phosphate.
The thylakoid membrane holds the same ATP synthase.
Protons flow through ATP synthase from the thylakoid space back into the stroma. So ATP forms on the stroma side.
Here is that reaction as a word equation.
What ATP synthase does, as a word equation: it joins ADP and Pi into ATP
Adding a phosphate to ADP is phosphorylation. Here the proton gradient that drives the phosphorylation was built with light energy.
So ATP-making driven by a proton gradient that light built is called : photo for the light, phosphorylation for the phosphate added to ADP.
Now imagine the light is switched off.
No light boosts any electron. So the chain pumps no protons.
So the proton gradient fades. So ATP production stops within seconds.
What you are expected to know Explain how the light reactions make ATP: the chain pumps protons into the thylakoid space, and the protons flowing back into the stroma through ATP synthase drive the formation of ATP from ADP and inorganic phosphate, which is photophosphorylation.
Here is the thylakoid membrane with its two photosystems, its chain and its ATP synthase. Protons flow through ATP synthase.
Which region do the protons flow into?
- A. ✓ The stroma
- B. The thylakoid spaceProtons flow through ATP synthase down their proton gradient, out of the region where they piled up.
Why: The chain pumped the protons into the thylakoid space.
So the protons flow back down their proton gradient through ATP synthase into the stroma.
ATP forms in the stroma.
Photosystem II splits water and releases the water’s hydrogen ions (H⁺), which are protons.
Which region are the water’s protons released into?
- A. The stromaPhotosystem II splits water on the thylakoid-space side of the membrane.
- B. ✓ The thylakoid space
Why: Photosystem II splits water in the thylakoid space.
The water’s electrons go into photosystem II.
The water’s protons go into the thylakoid space.
So the water’s protons add to the protons the chain pumps there.
ATP synthase makes ATP from ADP and Pi.
Which region does the ATP form in?
- A. ✓ The stroma
- B. The thylakoid spaceATP forms where the protons flow to, not where they piled up.
Why: Protons flow through ATP synthase from the thylakoid space into the stroma.
ATP forms on the side the protons flow to.
So the ATP forms in the stroma.
Photosystem I passes its electrons to NADP⁺, making NADPH.
Which region is the NADPH made in?
- A. The thylakoid spaceNADP⁺ waits on the stroma side of photosystem I.
- B. ✓ The stroma
Why: NADP⁺ takes the electrons from photosystem I on the stroma side of the membrane.
So NADPH is made in the stroma.
The Calvin cycle in the stroma then uses the NADPH.
A chloroplast is in the light.
Which region has the lower pH?
- A. The stromaThe stroma is where protons grow scarce, and fewer protons means a higher pH.
- B. ✓ The thylakoid space
Why: The chain pumps protons into the thylakoid space.
So the thylakoid space holds more protons than the stroma.
More H⁺ means a lower pH.
So the thylakoid space has the lower pH, about pH 5, while the stroma stays near pH 8.
A researcher gives lit chloroplasts ADP and Pi, and they make ATP. The researcher then adds a substance that lets protons leak freely across the thylakoid membrane. Electrons keep flowing along the chain.
Which of the following happens to ATP production?
- A. ATP production risesProtons leaking anywhere across the membrane build no proton gradient.
So nothing drives protons through ATP synthase. - B. ATP production continues unchangedThe electrons do not make ATP directly.
The electrons only build the proton gradient, and the leak destroys the proton gradient. - C. ✓ ATP production stops
Why: Protons flowing back down their proton gradient through ATP synthase make ATP.
If protons can leak across the membrane anywhere, no proton gradient builds up.
So nothing drives protons through ATP synthase.
So ATP synthase makes no ATP, although the electrons keep flowing.
A researcher gives lit chloroplasts ADP and Pi, and they make ATP. The researcher then adds a substance that lets protons leak freely across the thylakoid membrane. Electrons keep flowing along the chain. ATP production stops.
(a) Explain why ATP production stops although electrons keep flowing along the chain. (1 pt)
Frame ATP synthase makes ATP only when …
The chain still pumps protons into the thylakoid space.
But the protons leak straight back across the membrane.
So no proton gradient builds up.
So no protons flow through ATP synthase.
So ATP synthase makes no ATP, although the electrons keep flowing.
- Award 1 point for: with protons leaking back across the membrane no proton gradient builds up, so nothing drives protons through ATP synthase, so no ATP is made.
28Quick quiz: photophosphorylation mixed practice
What is photophosphorylation?
- A. ✓ Making ATP with a proton gradient that light built, as protons flow back through ATP synthase
- B. Adding a phosphate to ADP with energy from oxidizing food, with oxygen at the end of the chainATP-making with a proton gradient built by oxidizing food is oxidative phosphorylation.
- C. Splitting water at photosystem II so that its oxygen leaves as O₂Splitting water refills photosystem II; it adds no phosphate to ADP.
Why: Phosphorylation is adding a phosphate to ADP.
Here the proton gradient that drives it was built with light energy.
So this ATP-making is called photophosphorylation.
In a lit chloroplast, protons flow from the thylakoid space into the stroma through ATP synthase, and ATP synthase makes ATP.
(a) State what photophosphorylation is. (1 pt)
- Award 1 point for: making ATP from ADP and Pi (phosphorylation) driven by a proton gradient that light energy built.
31One electron, from water to NADPH
Video: Watch: One electron, from water to NADPH
The energy of one electron along its path: taken from water at photosystem II, where oxygen is given off; boosted by light; falling down the chain, whose energy pumps protons into the thylakoid space; those protons flowing back through ATP synthase make ATP; boosted again at photosystem I; ending on NADP⁺ as NADPH.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L24Bb.mp4
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Now follow one electron along its whole path, from water to NADPH.
The whole of the light reactions is this one path.
Along the path, each step makes something the chloroplast uses: oxygen where water is split, a proton gradient along the chain, and NADPH at the end.
The protons then flow back through ATP synthase, and ATP synthase makes the ATP.
So if you can trace the electron and name what each step makes, you can explain all of the light reactions at once.
What you are expected to know Trace one electron from water to NADPH, naming what each step makes.
One electron travels from water to NADPH.
Which of the following is the order of the electron’s path?
- A. ✓ water → photosystem II → electron transport chain → photosystem I → NADP⁺
- B. water → photosystem I → electron transport chain → photosystem II → NADP⁺Photosystem II comes first on the path; the numbers follow the order of discovery.
- C. water → electron transport chain → photosystem II → photosystem I → NADP⁺Light must boost the electron at photosystem II before the electron can pass down the chain.
Why: Photosystem II takes the electron from water and boosts it.
The electron passes down the electron transport chain to photosystem I.
Photosystem I boosts the electron again and passes it to NADP⁺.
The electron’s path builds a proton gradient.
Where is the ATP then made?
- A. At photosystem IIPhotosystem II boosts the electron and splits water; it makes no ATP.
- B. Along the electron transport chainThe chain pumps protons; the protons make ATP only when they flow back through ATP synthase.
- C. ✓ At ATP synthase
Why: The chain pumps protons into the thylakoid space, building a proton gradient.
Protons flow back through ATP synthase into the stroma.
As they flow, ATP synthase joins ADP and Pi into ATP.
Along the electron’s path, oxygen is given off at one step.
Which of the following is that step?
- A. ✓ At photosystem II
- B. At photosystem IPhotosystem I passes electrons to NADP⁺; it splits no water.
- C. At ATP synthaseATP synthase joins ADP and Pi into ATP; it splits no water.
Why: Photosystem II takes its replacement electrons from water.
To do so, photosystem II splits water.
The water’s oxygen leaves as O₂.
A leaf in the light gives off oxygen, and its chloroplasts make ATP and NADPH.
(a) Explain how the path of one electron from water to NADPH produces all three: the oxygen, the ATP and the NADPH. (3 pt)
Frame Photosystem II takes an electron from water, …
Light boosts the electron at photosystem II.
The electron passes down the electron transport chain, and its energy pumps protons into the thylakoid space.
Those protons flow back into the stroma through ATP synthase, which joins ADP and Pi into ATP.
Light boosts the electron again at photosystem I.
Photosystem I passes the electron to NADP⁺, making NADPH.
- Award 1 point for the oxygen: photosystem II takes electrons from water, so water is split and its oxygen leaves as O₂.
- Award 1 point for the ATP: the electron’s energy along the chain pumps protons into the thylakoid space, and the protons flowing back through ATP synthase drive ADP + Pi → ATP.
- Award 1 point for the NADPH: light boosts the electron again at photosystem I, which passes it to NADP⁺, making NADPH.
Slip Saying the electron itself becomes part of the ATP. The electron’s energy pumps protons; the protons, not the electron, drive ATP synthase.
Pumping protons against a steeper proton gradient takes more energy, as it does in a mitochondrion whose ATP synthase is blocked.
So once the proton gradient is steep enough, the electrons’ energy can no longer pump protons against it. Then the flow of electrons along the chain slows.
Isolated thylakoid membranes are lit but given no ADP.
(a) Explain what happens to the proton gradient across the thylakoid membrane over the next minutes. (1 pt)
Protons return to the stroma through ATP synthase only while ATP synthase joins ADP and Pi into ATP.
With no ADP, ATP synthase has nothing to make, so protons cannot flow back through it.
So the protons stay in the thylakoid space, and the proton gradient grows steeper.
- Award 1 point for: the chain keeps pumping protons in, but with no ADP the protons cannot return through ATP synthase, so the proton gradient grows steeper.
Slip Saying the proton gradient disappears because ATP synthase makes no ATP. The chain still pumps; it is the way back that is closed.
(b) Explain what happens to the flow of electrons along the chain. (1 pt)
Once the proton gradient is steep enough, the electrons’ energy can no longer pump protons against it.
So the proton gradient stops growing, and the flow of electrons along the chain slows.
- Award 1 point for: pumping against the steeper proton gradient takes more energy, so pumping stalls and the flow of electrons along the chain slows.
Back to the researcher’s lit chloroplasts, given ADP and Pi and making ATP.
The chain pumped protons into the thylakoid space. Those protons flowed back into the stroma through ATP synthase.
As they flowed, ATP synthase joined ADP and Pi into ATP.
Then the added substance let protons leak back across the thylakoid membrane anywhere. So no proton gradient built up.
So no protons flowed through ATP synthase. So ATP production stopped, although the electrons kept flowing.
51Mixed practice mixed practice
Protons flow from the thylakoid space back into the stroma through ATP synthase.
Where does the ATP form?
- A. In the thylakoid spaceATP forms where the protons flow to.
- B. ✓ In the stroma
Why: The protons flow to the stroma side.
ATP forms there, ready for the Calvin cycle.
A lit chloroplast has a proton gradient across its thylakoid membrane.
Which of the following built that proton gradient?
- A. ✓ The electron transport chain
- B. ATP synthaseATP synthase uses the proton gradient; it does not make it.
Why: The energy the electrons release along the chain pumps protons into the thylakoid space.
ATP synthase only lets the protons flow back, so ATP synthase uses the proton gradient the chain built.
Electrons reach the end of the chloroplast’s electron transport chain.
Which molecule takes them?
- A. WaterWater supplies electrons at the start of the path, at photosystem II.
- B. ✓ NADP⁺
- C. OxygenOxygen is the terminal electron acceptor of the mitochondrion’s chain, not the chloroplast’s.
Why: Photosystem I passes the electrons to NADP⁺.
NADP⁺ is reduced to NADPH.
A leaf is moved into the dark.
What happens to ATP production in its chloroplasts within seconds?
- A. It continues unchangedWith no light, no electron is boosted, so the chain pumps no protons.
- B. ✓ It stops
Why: No light boosts any electron, so the chain pumps no protons.
So the proton gradient fades.
So no protons flow through ATP synthase, and ATP production stops.
In a chloroplast, a proton gradient that light built drives the making of ATP.
What is this ATP-making called?
- A. GlycolysisGlycolysis splits glucose in the cytosol and uses no proton gradient.
- B. Oxidative phosphorylationOxidative phosphorylation uses a proton gradient built by oxidizing food.
- C. ✓ Photophosphorylation
Why: Adding a phosphate to ADP is phosphorylation.
Light built the proton gradient that drives it.
So it is photophosphorylation.
A chloroplast is in the light.
Which region has the higher pH?
- A. ✓ The stroma
- B. The thylakoid spaceThe thylakoid space is where the protons pile up, and more H⁺ means a lower pH.
Why: The chain pumps protons from the stroma into the thylakoid space.
So the stroma has fewer H⁺.
Fewer H⁺ means a higher pH.
A researcher keeps isolated thylakoid membranes in the dark in a solution at pH 4, until the thylakoid space is also at pH 4. She then moves them, still in the dark, into a solution at pH 8 that holds ADP and Pi. The membranes make a burst of ATP in the dark.
(a) Explain how this result shows that the proton gradient alone drives ATP synthase. (1 pt)
Moved to pH 8, the thylakoid space held many protons and the outside held few.
That difference is a proton gradient across the thylakoid membrane.
Protons flowed down their proton gradient through ATP synthase to the outside.
As they flowed, ATP synthase joined ADP and Pi into ATP.
No light fell on the membranes, so the proton gradient alone drove ATP synthase.
- Award 1 point for: the pH difference is a proton gradient across the thylakoid membrane; protons flowing down it through ATP synthase made ATP with no light, so the proton gradient, not light itself, drives ATP synthase.
Slip Saying light is needed at ATP synthase. Light builds the proton gradient by driving the chain; ATP synthase itself only needs the proton gradient.
Glossary
- photophosphorylation
- Making ATP from ADP and inorganic phosphate with a proton gradient that light energy built: protons pumped into the thylakoid space by the chain flow back into the stroma through ATP synthase.
APBIO-U03-L25 Building sugar in the stroma
Photo: Andrei Savitsky, Wikimedia Commons, CC BY 4.0 (cropped and resized).
Here are single-celled green algae under a microscope. A researcher gives them a two-second pulse of carbon dioxide made with labeled carbon, ¹³C, and follows where the label goes.
Within two seconds the labeled carbon is in a three-carbon molecule. Within two minutes most of it is in sugar. In the dark, almost none of it leaves the carbon dioxide.
How does the stroma build sugar from carbon dioxide, and in what order?
Unit 3 · Cellular Energetics
1Carbon dioxide into sugar
Video: Watch: Carbon dioxide into sugar
Inside a chloroplast: the thylakoid membranes send ATP and NADPH into the stroma. There the Calvin cycle fixes carbon dioxide and builds it into a three-carbon sugar, sending ADP, Pi and NADP⁺ back.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L25a.mp4
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How does a plant turn carbon dioxide into sugar?
In the stroma, the Calvin cycle first fixes each carbon dioxide into a three-carbon molecule. This step is called carbon fixation.
The Calvin cycle then uses the ATP and NADPH from the light reactions to build those three-carbon molecules into sugar.
The Calvin cycle sends ADP, Pi and NADP⁺ back to the light reactions.
The Calvin cycle uses no light directly.
Yet the Calvin cycle stops in the dark within seconds. Its supply of ATP and NADPH stops.
Where the labeled carbon turns up, and when, is the evidence for this order. The labeled carbon shows that the Calvin cycle, not the light itself, builds the sugar.
A chloroplast has two working places: the thylakoid membranes and the stroma around them.
Where do the light reactions happen?
- A. In the stromaThe stroma is where the Calvin cycle happens; chlorophyll sits in the thylakoid membranes.
- B. ✓ In the thylakoid membranes
Why: Chlorophyll sits in the thylakoid membranes, so the light reactions happen there.
The Calvin cycle happens in the stroma around them.
So the light reactions happen in the thylakoid membranes, and the Calvin cycle happens in the stroma. ATP and NADPH cross out of the light reactions into the stroma; ADP, Pi and NADP⁺ cross back.
Now consider the stroma’s side. Carbon dioxide diffuses into the stroma from the air.
The Calvin cycle attaches the carbon dioxide to an organic molecule already in the stroma. This step is carbon fixation.
The ATP and NADPH from the light reactions then supply the energy and the electrons to build the fixed carbon up into a three-carbon sugar.
Here is the Calvin cycle written as a word equation.
The Calvin cycle as a word equation: what goes in before the arrow, what comes out after it
The cell uses that three-carbon sugar to make glucose and other carbohydrates.
The Calvin cycle uses no light directly. But the Calvin cycle uses ATP and NADPH, and the light reactions make those only in the light.
What you are expected to know Describe the Calvin cycle by what goes in (carbon dioxide, ATP and NADPH) and what comes out (a three-carbon sugar, with ADP, Pi and NADP⁺ sent back to the light reactions).
What you are expected to know Say that the Calvin cycle uses no light directly.
The Calvin cycle in a lit chloroplast is building sugar.
Which of the following does the Calvin cycle do with carbon dioxide?
- A. ✓ The Calvin cycle takes it in
- B. The Calvin cycle gives it outCarbon dioxide is the carbon source of the sugar.
Why: The Calvin cycle fixes carbon dioxide.
So carbon dioxide goes into the cycle.
The Calvin cycle takes carbon dioxide in.
The Calvin cycle in a lit chloroplast is building sugar.
Which of the following does the Calvin cycle do with the three-carbon sugar?
- A. The Calvin cycle takes it inThe three-carbon sugar is what the Calvin cycle builds.
- B. ✓ The Calvin cycle gives it out
Why: The Calvin cycle builds the fixed carbon up into a three-carbon sugar.
So the three-carbon sugar comes out of the cycle.
The Calvin cycle gives it out.
The Calvin cycle in a lit chloroplast is building sugar.
Which of the following does the Calvin cycle do with ATP?
- A. ✓ The Calvin cycle takes it in
- B. The Calvin cycle gives it outThe light reactions make the ATP, not the Calvin cycle.
Why: The light reactions make ATP in the thylakoid membranes.
The Calvin cycle uses that ATP to build the fixed carbon into sugar.
So the Calvin cycle takes ATP in, and gives ADP and Pi back.
The Calvin cycle in a lit chloroplast is building sugar.
Which of the following does the Calvin cycle do with NADP⁺?
- A. The Calvin cycle takes it inNADP⁺ is what is left after the Calvin cycle has taken the electrons from NADPH.
- B. ✓ The Calvin cycle gives it out
Why: The Calvin cycle takes the electrons from NADPH.
What is left is NADP⁺.
The Calvin cycle sends NADP⁺ back to the light reactions.
So the Calvin cycle gives NADP⁺ out.
The Calvin cycle builds a three-carbon sugar.
Which of the following supplies the sugar’s carbon?
- A. WaterWater has no carbon.
Water supplies electrons when photosystem II splits it. - B. ✓ Carbon dioxide
- C. ATP and NADPHATP and NADPH supply the energy and the electrons, not the carbon.
Why: The Calvin cycle fixes carbon dioxide.
So the sugar’s carbon comes from carbon dioxide.
ATP and NADPH supply the energy and the electrons to build the fixed carbon into sugar.
The Calvin cycle builds a three-carbon sugar.
Which of the following supplies the energy to build the sugar?
- A. Carbon dioxideCarbon dioxide supplies the carbon, not the energy.
- B. Light, directlyThe Calvin cycle uses no light directly.
- C. ✓ ATP and NADPH
Why: The light reactions capture light energy in ATP and NADPH.
ATP and NADPH cross into the stroma.
The Calvin cycle uses the energy of ATP and NADPH to build the fixed carbon into sugar.
So ATP and NADPH supply the energy.
26Where the labeled carbon turns up
Video: Watch: Where the labeled carbon turns up
Algae are given a two-second pulse of carbon dioxide built from ¹³C. The label is in three-carbon molecules after 2 seconds, spread through the cycle after 20 seconds, and mostly in sugars after 120 seconds: carbon dioxide is fixed into a three-carbon molecule first, then built up into sugar.
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Which does the Calvin cycle make first: the three-carbon molecule, or the sugar?
A researcher builds carbon dioxide from ¹³C, a heavier form of carbon, and gives it to algae.
Which of the following can tell the ¹³C apart from ordinary carbon?
- A. The algae’s enzymesEnzymes treat ¹³C exactly like ordinary carbon.
- B. ✓ An instrument that measures mass
- C. Both of themEnzymes treat ¹³C exactly like ordinary carbon; only an instrument tells the two apart, by mass.
Why: ¹³C is one unit heavier than ordinary carbon.
Enzymes treat ¹³C exactly like ordinary carbon.
An instrument can tell ¹³C from ¹²C by its mass.
So the ¹³C goes wherever the carbon dioxide’s carbon goes, and the instrument shows where.
Now consider the algae from the opening. A researcher gives them a two-second pulse of carbon dioxide built from ¹³C, labeled carbon.
The enzymes of the Calvin cycle treat the ¹³C like ordinary carbon. So the label goes wherever the carbon dioxide’s carbon goes.
Here is a bar chart of where the labeled carbon is at three times after the pulse.
After 2 seconds most of the labeled carbon is in three-carbon molecules.
After 20 seconds the labeled carbon has spread into the other molecules of the cycle.
After 120 seconds most of the labeled carbon is in sugars.
So the Calvin cycle fixes the carbon dioxide into a three-carbon molecule first. Then the Calvin cycle builds the three-carbon molecule up into sugar.
The label reaches each molecule in the order the Calvin cycle makes them. That order is the evidence for the order of the steps.
What you are expected to know Read where the labeled carbon turns up, and when, as evidence that carbon dioxide is fixed into a three-carbon molecule first and built up into sugar afterwards.
A researcher gives green algae a two-second pulse of carbon dioxide made with labeled carbon, ¹³C. Here is a bar chart of where the labeled carbon is at three times after the pulse.
After 2 seconds, in which of the following is most of the labeled carbon?
- A. ✓ Three-carbon molecules
- B. SugarsAfter 2 seconds only 2% of the labeled carbon is in sugars.
Why: Read the 2-seconds group.
The three-carbon-molecules bar is 82%.
The sugars bar is 2%.
So most of the labeled carbon is in three-carbon molecules.
A researcher gives a spinach leaf carbon dioxide carrying labeled carbon. After 5 seconds the labeled carbon is found mainly in three-carbon molecules; after 3 minutes it is found mainly in sugar.
Which of the following does this order show?
- A. ✓ Carbon dioxide is fixed into a three-carbon molecule first, then built up into sugar
- B. The light reactions fix the carbon into sugar before it reaches the stromaThe light reactions make ATP and NADPH.
The light reactions do not handle carbon. - C. Sugar is made first, then broken down into three-carbon moleculesThe labeled carbon appears in three-carbon molecules first and in sugar later.
So the sugar is built from the three-carbon molecules, not the other way round. - D. The three-carbon molecules are built from ATP and NADPH, and the sugar from carbon dioxideAll the sugar’s carbon comes from carbon dioxide.
ATP and NADPH supply energy and electrons, not carbon.
Why: The labeled carbon came in as carbon dioxide.
Within seconds the labeled carbon is in three-carbon molecules.
Only minutes later is the labeled carbon in sugar.
So carbon dioxide is fixed into a three-carbon molecule first.
Then the three-carbon molecule is built up into sugar.
A researcher gives a spinach leaf in bright light carbon dioxide carrying labeled carbon. After 5 seconds the labeled carbon is found mainly in three-carbon molecules. After 3 minutes it is found mainly in sugar.
(a) Explain how the timing of the labeled carbon demonstrates the order in which the Calvin cycle builds its molecules. (1 pt)
Frame The labeled carbon came in as …
Enzymes treat labeled carbon like ordinary carbon, so the label goes wherever the carbon dioxide’s carbon goes.
After 5 seconds the label is in three-carbon molecules.
So the Calvin cycle fixes carbon dioxide into a three-carbon molecule first.
Only after 3 minutes is the label mainly in sugar.
So the Calvin cycle builds the three-carbon molecules up into sugar afterwards.
- Award 1 point for: the label appears in three-carbon molecules before it appears in sugar, so carbon dioxide is fixed into a three-carbon molecule first and that molecule is built into sugar afterwards.
Back to the green algae given a two-second pulse of carbon dioxide built from ¹³C. After 2 seconds the ¹³C was in three-carbon molecules, because the Calvin cycle in the stroma fixed the carbon dioxide first.
After 2 minutes most of the ¹³C was in sugar.
The Calvin cycle had used ATP and NADPH from the light reactions to build the three-carbon molecules up into sugar.
In the dark almost none of the ¹³C left the carbon dioxide. The Calvin cycle uses no light directly, but the light reactions make its ATP and NADPH only in the light.
46Mixed practice mixed practice
The Calvin cycle in a lit chloroplast is building sugar in the stroma.
Which of the following lists what goes into the Calvin cycle and what comes out?
- A. In: light energy and water; out: oxygen gas, and ATP and NADPH for the stromaLight energy in, and oxygen gas, ATP and NADPH out, describes the light reactions in the thylakoid membranes, not the Calvin cycle.
- B. In: ATP, NADPH and water; out: carbon dioxide and the oxygen gas the leaf releasesThe Calvin cycle takes carbon dioxide in rather than giving it off, and takes in no water.
The oxygen a leaf releases comes from water split at photosystem II. - C. ✓ In: carbon dioxide, ATP and NADPH; out: a three-carbon sugar, ADP, Pi and NADP⁺
- D. In: sugar and oxygen gas; out: carbon dioxide, water and ATP for the cell’s workSugar and oxygen gas in, and carbon dioxide and water out, describes respiration.
The Calvin cycle builds sugar; it does not break sugar down.
Why: The Calvin cycle takes in carbon dioxide.
The Calvin cycle uses ATP and NADPH to build the carbon dioxide into a three-carbon sugar.
The ADP, Pi and NADP⁺ left over return to the light reactions.
A chloroplast in bright light is fixing carbon.
In which of the following places does the Calvin cycle fix the carbon?
- A. ✓ In the stroma
- B. In the thylakoid membranesThe thylakoid membranes hold the light reactions.
- C. In the thylakoid spaceThe thylakoid space is where protons pile up.
Why: The Calvin cycle happens in the stroma, the fluid around the thylakoids.
So the Calvin cycle fixes the carbon in the stroma.
A researcher gives pondweed in bright light a pulse of carbon dioxide carrying labeled carbon.
After 3 seconds, in which of the following is most of the labeled carbon?
- A. ✓ In three-carbon molecules
- B. In sugarsThe Calvin cycle builds sugar from the three-carbon molecules, so the label reaches sugar minutes later.
- C. In the oxygen the pondweed releasesThe oxygen a plant releases comes from water, which carried no label.
Why: The Calvin cycle fixes carbon dioxide into a three-carbon molecule first.
The labeled carbon came in as carbon dioxide.
So after 3 seconds most of the label is in three-carbon molecules.
The Calvin cycle builds a three-carbon sugar from fixed carbon.
Which of the following supplies the electrons for that building?
- A. Carbon dioxideCarbon dioxide supplies the carbon.
- B. ✓ NADPH
- C. Light, directlyThe Calvin cycle uses no light directly.
Why: The light reactions load electrons onto NADP⁺, making NADPH.
NADPH carries those electrons into the stroma.
The Calvin cycle takes the electrons from NADPH to build the fixed carbon into sugar.
In a lit chloroplast the Calvin cycle has just built a three-carbon sugar.
Which of the following does the Calvin cycle send back to the thylakoid membranes?
- A. ATP and NADPHATP and NADPH come from the thylakoid membranes into the stroma, not back.
- B. Carbon dioxideCarbon dioxide comes in from the air and is fixed; the Calvin cycle does not send it anywhere.
- C. ✓ ADP, Pi and NADP⁺
Why: The Calvin cycle uses ATP, leaving ADP and Pi.
The Calvin cycle takes the electrons from NADPH, leaving NADP⁺.
ADP, Pi and NADP⁺ go back to the thylakoid membranes to be reloaded.
A leaf cell is making starch to store.
Which of the following does the leaf cell make its glucose from?
- A. The ATP from the light reactionsATP supplies energy, not the carbon skeleton of glucose.
- B. ✓ The three-carbon sugar from the Calvin cycle
- C. The oxygen from split waterThe oxygen from split water leaves the leaf as O₂.
Why: The Calvin cycle gives out a three-carbon sugar.
The cell builds glucose and other carbohydrates from that three-carbon sugar.
Starch is made from the glucose.
A researcher keeps green algae in bright light and gives them a pulse of carbon dioxide carrying labeled carbon. After 2 minutes most of the label is in sugar. The ATP and NADPH in the algae carry no label at any time.
(a) Explain how this result supports the claim that the carbon in the sugar comes from carbon dioxide rather than from ATP and NADPH. (1 pt)
Frame The researcher put the label only in …
Enzymes treat labeled carbon like ordinary carbon, so the label goes wherever the carbon dioxide’s carbon goes.
After 2 minutes the label is in sugar.
So the sugar’s carbon atoms came from the carbon dioxide.
ATP and NADPH carried no label, so they supplied none of the sugar’s carbon.
- Award 1 point for: the label given as carbon dioxide appears in the sugar, so the sugar’s carbon came from carbon dioxide; ATP and NADPH carried no label, so they supplied energy and electrons, not carbon.
APBIO-U03-L25B Break one room and the other fails
Photo: Andrei Savitsky, Wikimedia Commons, CC BY 4.0 (cropped and resized).
Here are single-celled green algae in bright light. A herbicide blocks electron transfer along their thylakoid chain, and nothing else.
Within 3 minutes the stroma’s ATP is at 32% of normal and its NADPH at 29%. Carbon fixation in the stroma falls to 11% of normal, although carbon dioxide is still plentiful.
How does a poison that touches only the thylakoid membranes stop the work in the stroma?
Unit 3 · Cellular Energetics
1Cut the light reactions
Video: Watch: Cut the light reactions
A herbicide blocks the thylakoid chain of a lit alga. No protons are pumped and no electrons reach NADP⁺, so the stroma’s ATP and NADPH fall within minutes, and carbon fixation falls with them although carbon dioxide is plentiful. Darkness does the same.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L25Ba.mp4
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What happens to photosynthesis when one of its two supplies is cut?
The thylakoid membranes supply the stroma with ATP and NADPH. The air supplies the stroma with carbon dioxide.
Block the light reactions, by herbicide or by darkness, and ATP and NADPH fall. So carbon fixation falls within minutes.
Close the stomata in a drought, and carbon dioxide cannot get in. So sugar output falls even in bright light, while ATP and NADPH pile up unused.
Predicting which supply fails, and what piles up, is how you read any photosynthesis experiment.
Then you can support the whole claim: photosynthesis captures light energy and stores it in sugar. You trace the energy and the atoms step by step, using the evidence from the labeled atoms, the gases and the willow’s mass.
In a lit thylakoid membrane, electrons fall down the electron transport chain.
Which of the following does that fall of electrons do?
- A. ✓ Pumps protons into the thylakoid space
- B. Fixes carbon dioxideThe Calvin cycle in the stroma fixes carbon dioxide; the chain handles electrons and protons.
- C. Splits ATP into ADP and PiATP synthase makes ATP from ADP and Pi as protons flow back; the chain splits nothing.
Why: Electrons fall down the chain, protein to protein.
The energy they release pumps protons into the thylakoid space.
Protons flowing back through ATP synthase make ATP.
The light reactions and the Calvin cycle each depend on the other. Cut off what one supplies, and the other slows within minutes.
Now consider the green algae from the opening. A herbicide blocks electron transfer along their thylakoid chain, and nothing else.
Here is a bar chart of the stroma’s ATP, its NADPH and its carbon fixation, as a percentage of normal, before and 3 minutes after the herbicide.
Within 3 minutes the stroma’s ATP is at 32% of normal and its NADPH at 29%.
Carbon fixation falls to 11% of normal, although carbon dioxide is still plentiful.
The blocked chain pumps no protons. So ATP synthase makes no new ATP.
No electrons reach NADP⁺. So no new NADPH forms.
The Calvin cycle keeps using ATP and NADPH. So the stroma’s ATP and NADPH fall.
The Calvin cycle now has too little ATP and NADPH. So the Calvin cycle fixes less carbon.
Now imagine the light is switched off instead. Darkness does the same as the herbicide.
With no light, no electron is boosted. So the light reactions make no ATP and no NADPH.
So the stroma’s ATP and NADPH are used up within seconds. Carbon fixation stops.
What you are expected to know Predict what cutting the light reactions, by herbicide or by darkness, does to the stroma’s ATP and NADPH and to carbon fixation.
What you are expected to know Explain why carbon fixation falls when the light reactions are cut, although carbon dioxide is plentiful.
A herbicide blocks electron transfer along the thylakoid chain of a lit alga.
Which of the following happens to the ATP in the stroma?
- A. ✓ It falls
- B. It risesATP is made only when protons flow through ATP synthase, and the blocked chain pumps no protons.
- C. It stays the sameThe blocked chain pumps no protons, so ATP synthase makes no new ATP while the Calvin cycle keeps using it.
Why: The blocked chain passes no electrons.
So the chain pumps no protons.
So ATP synthase makes no new ATP.
The Calvin cycle keeps using ATP.
So the stroma’s ATP falls.
A herbicide blocks the electron transport chain in the thylakoid membrane. Carbon dioxide stays plentiful.
Which of the following happens to carbon fixation?
- A. It risesThe chain does not compete with the Calvin cycle; the chain supplies it.
- B. It stays the sameFixing carbon dioxide needs ATP and NADPH, and the blocked chain makes neither, however plentiful the carbon dioxide.
- C. ✓ It falls
Why: The blocked chain makes no ATP and no NADPH.
The Calvin cycle uses ATP and NADPH to fix carbon.
So carbon fixation falls, even with carbon dioxide plentiful.
Night falls on a pondweed with plenty of carbon dioxide dissolved in the water around it.
Which of the following happens to the NADPH in its stroma?
- A. It risesIn the dark no electron is boosted, so no electrons reach NADP⁺ and no new NADPH forms.
- B. ✓ It falls
- C. It stays the sameThe Calvin cycle keeps using NADPH while no new NADPH forms.
Why: With no light, no electron is boosted.
So no electrons reach NADP⁺, and no new NADPH forms.
The Calvin cycle keeps using NADPH.
So the stroma’s NADPH falls.
The Calvin cycle uses no light directly. A student, Rosa, says: ‘So in the dark the Calvin cycle keeps building sugar, as long as carbon dioxide is present.’
Is Rosa correct?
- A. Yes, the Calvin cycle keeps building sugar in the dark‘uses no light directly’ does not mean ‘needs no light’.
The Calvin cycle needs the ATP and NADPH that only the light reactions make. - B. ✓ No, the Calvin cycle stops within seconds in the dark
Why: The Calvin cycle uses ATP and NADPH.
The light reactions make ATP and NADPH only in the light.
In the dark the light reactions stop.
So the stroma’s ATP and NADPH are used up within seconds.
So the Calvin cycle stops, even with carbon dioxide present.
Isolated chloroplasts in the light make ATP and NADPH and fix carbon dioxide. When the light is switched off, their ATP and NADPH fall within seconds and carbon fixation stops, although carbon dioxide is still present.
(a) Explain how this result demonstrates that the Calvin cycle depends on the light reactions, although the Calvin cycle uses no light directly. (1 pt)
Frame The Calvin cycle uses …
Only the light reactions make that ATP and NADPH, and only in the light.
With the light off, no electron is boosted, so the light reactions make no ATP and no NADPH.
The stroma’s ATP and NADPH are used up within seconds.
Carbon fixation stops with carbon dioxide still present.
So the Calvin cycle stopped because its supply from the light reactions stopped.
- Award 1 point for: the Calvin cycle needs the ATP and NADPH the light reactions make; in the dark the light reactions stop, ATP and NADPH are used up, and carbon fixation stops with carbon dioxide still present, so the Calvin cycle depends on the light reactions.
29Cut the carbon dioxide
Video: Watch: Cut the carbon dioxide
Drought closes a leaf’s stomata. Carbon dioxide cannot get in, so the Calvin cycle has little carbon to fix and sugar output falls even in bright light, while the light reactions keep making ATP and NADPH, which pile up unused in the stroma.
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Now consider the other direction: the light reactions work normally, but the carbon dioxide is cut off.
Stomata are the small pores in a leaf’s surface.
Which of the following enters the leaf through the stomata?
- A. ✓ Carbon dioxide from the air
- B. Water from the soilWater from the soil reaches the leaf through the plant’s veins, not through the stomata.
- C. LightLight passes through the leaf’s surface itself; it needs no pore.
Why: Stomata are pores that open onto the air.
Carbon dioxide diffuses from the air through the open stomata into the leaf.
In drought a plant closes its stomata to save water. So carbon dioxide can no longer get in.
Here is a bar chart of a leaf’s net carbon dioxide uptake with its stomata open and with its stomata closed by drought, both in bright light.
Net carbon dioxide uptake falls from 16 mg of carbon dioxide an hour to 5 mg an hour. Photosystem II works normally throughout.
The Calvin cycle has little carbon dioxide to fix. So sugar output falls, even in bright light.
The light reactions keep making ATP and NADPH.
The Calvin cycle fixes little carbon. So the Calvin cycle uses less ATP and NADPH.
So ATP and NADPH build up in the stroma, unused.
What you are expected to know Predict what closing the stomata does to a lit leaf’s sugar output and to the ATP and NADPH in its stroma.
Drought closes a plant’s stomata. The plant stands in bright light, and its photosystems are working normally.
Which of the following happens to the NADPH in the stroma?
- A. It fallsThe light reactions still make NADPH, and the Calvin cycle uses less of it.
- B. ✓ It rises
- C. It stays the sameThe light reactions make NADPH as before while the Calvin cycle uses less of it, so the NADPH builds up.
Why: The photosystems work normally.
So the light reactions keep making NADPH.
Closed stomata keep carbon dioxide out of the leaf.
So the Calvin cycle fixes little carbon, and uses less NADPH.
So NADPH builds up in the stroma, and the stroma’s NADPH rises.
A plant stands in bright light with its stomata closed by drought.
Which of the following happens to the plant’s sugar output?
- A. It risesThe carbon in sugar comes from carbon dioxide, and the closed stomata cut the carbon dioxide supply.
- B. It stays the sameSugar is built from carbon dioxide, and little carbon dioxide gets in through closed stomata, however bright the light.
- C. ✓ It falls
Why: Closed stomata keep carbon dioxide out of the leaf.
So the Calvin cycle has little carbon dioxide to fix.
So sugar output falls, although the light reactions are working.
In drought a plant closes its stomata. Its leaves stand in bright light and its photosystems are working normally.
Which of the following is in short supply in the stroma?
- A. ATPThe light reactions are working normally.
So ATP is still being made. - B. NADPHThe photosystems are working.
So NADPH is still being made. - C. ✓ Carbon dioxide
Why: Closed stomata keep carbon dioxide out of the leaf.
The light reactions still make ATP and NADPH.
But the Calvin cycle has little carbon dioxide to fix.
So carbon dioxide is the supply that is short.
Drought closes a tomato plant’s stomata. The plant stands in bright light and its photosystems work normally. Here is a table of four measurements on the plant, with its stomata open and with its stomata closed.
(a) Explain how this result demonstrates that the Calvin cycle needs carbon dioxide as well as ATP and NADPH. (1 pt)
Frame Closed stomata keep …
So the Calvin cycle has little carbon dioxide to fix, and sugar output fell from 30 to 8 mg an hour.
The light reactions kept making ATP and NADPH, which rose to 160% and 150%.
The Calvin cycle had plenty of ATP and NADPH yet built little sugar.
So ATP and NADPH alone are not enough: the Calvin cycle needs carbon dioxide too.
- Award 1 point for: with the stomata closed the Calvin cycle has little carbon dioxide, so sugar output falls even though ATP and NADPH are plentiful (they rise to 160% and 150%), so the Calvin cycle needs carbon dioxide as well as ATP and NADPH.
45From light to sugar: the whole case
Video: Watch: From light to sugar, the whole case
The chloroplast with its regions named. The energy is traced from light to boosted electrons, to the proton gradient, to ATP and NADPH, to sugar; the carbon from carbon dioxide to sugar and the oxygen from water to O₂; each step placed, and the labeled-atom, gas and mass evidence set beside it.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L25Bc.mp4
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Now consider the whole claim: photosynthesis captures light energy and stores it in sugar. What is the evidence, and where does each step happen?
Van Helmont grew a willow in a pot of soil for five years, adding only water.
Which of the following did he find?
- A. ✓ The willow gained 74.4 kg and the soil lost 57 g
- B. The willow gained 74.4 kg and the soil lost 74.4 kgThe soil lost only 57 g, far less than the willow gained.
- C. The willow gained no massThe willow grew from a sapling to a tree, gaining 74.4 kg.
Why: The willow gained 74.4 kg.
The soil lost only 57 g.
So the willow’s new mass did not come from the soil.
Here is a drawing of a chloroplast with its regions named. Each step of the evidence happens in one of them.
First, trace the energy. Light boosts electrons at the photosystems.
As the electrons fall down the chain, the chain pumps protons into the thylakoid space.
Protons flowing back through ATP synthase make ATP.
NADPH carries the boosted electrons into the stroma.
The Calvin cycle uses the ATP and NADPH to build sugar. So the light’s energy is now in the sugar.
Next, trace the atoms.
Labeled carbon given as carbon dioxide turns up in sugar. So the carbon in the sugar comes from carbon dioxide.
Labeled oxygen given in water turns up in the oxygen released. So the oxygen released comes from water.
Van Helmont’s willow gained 74.4 kg while its soil lost only 57 g. So the willow’s new mass came from carbon dioxide and water, not from the soil.
Here is a table of the three steps of the claim, where each happens, and the evidence for each.
| step | where it happens | the evidence |
|---|---|---|
| light energy → ATP and NADPH | thylakoid membranes (protons pile up in the thylakoid space) | herbicide on the chain: ATP falls to 32%, NADPH to 29% |
| water → O₂ | thylakoid membrane, at photosystem II | labeled oxygen given in water appears in the O₂ released |
| carbon dioxide → sugar | stroma | labeled carbon given as carbon dioxide appears in sugar within minutes; the willow gained 74.4 kg while its soil lost 57 g |
Three steps of the claim, where each happens, and the observation that shows it
A student claims that the herbicide result shows that the Calvin cycle depends on the light reactions. Before reading on, write one short sentence per step in support of the claim: one naming the evidence, one giving the reasoning.
A model answer:
• The herbicide blocked only the thylakoid chain.
• Yet carbon fixation in the stroma fell to 11% of normal, with carbon dioxide still plentiful.
• The Calvin cycle uses the ATP and NADPH the light reactions supply, and ATP and NADPH fell to 32% and 29%.
• So the Calvin cycle slowed because its supply from the light reactions was cut.
What you are expected to know Trace the energy of photosynthesis from light to boosted electrons, to the proton gradient, to ATP and NADPH, to sugar, naming where each step happens.
What you are expected to know Trace the carbon from carbon dioxide to sugar and the oxygen from water to O₂, citing the labeled-atom results.
What you are expected to know Support the claim that photosynthesis captures light energy and stores it in sugar, with labeled-atom, gas or mass evidence.
Here is a chloroplast with five regions numbered.
In which numbered region does the Calvin cycle build sugar?
- A. ✓ 2
- B. 3Number 3 marks a stack of thylakoid membranes, a granum.
The thylakoid membranes hold the light reactions. - C. 4Number 4 marks the thylakoid space, where protons pile up.
- D. 5Number 5 marks the membrane of one thylakoid.
The thylakoid membranes hold the light reactions, not the Calvin cycle.
Why: Number 2 marks the stroma.
The stroma is the fluid inside the inner membrane and around the thylakoids.
The Calvin cycle happens in the stroma.
So the Calvin cycle builds sugar in the stroma, number 2.
Here are four observations on photosynthesizing plants and algae.
Which of the following observations shows that the carbon in the sugar comes from carbon dioxide?
- A. Labeled oxygen given in the water appears in the oxygen releasedThe oxygen tracer shows where the oxygen released comes from, water.
It does not show where the carbon in sugar comes from. - B. A willow gained 74.4 kg while its soil lost 57 gThe mass result rules out soil as the source of the mass.
It does not show which of air and water supplied the carbon. - C. A herbicide that blocks the thylakoid chain cuts carbon fixation to 11% of normalThe herbicide result shows the Calvin cycle depends on the light reactions, not where the carbon comes from.
- D. ✓ Labeled carbon given as carbon dioxide appears in the sugar within minutes
Why: The labeled carbon was supplied as carbon dioxide.
The labeled carbon then turned up in sugar.
So the carbon atoms in the sugar came from carbon dioxide.
A researcher grows three cultures of a green alga in bright light with plenty of carbon dioxide. One culture, the untreated culture, is left alone. The researcher gives a second culture, the herbicide culture, a herbicide that stops electrons leaving photosystem II. The table shows both cultures’ results after 3 minutes, each value as a percentage of the untreated culture’s. The researcher gives a third culture, the labeled-water culture, water made with labeled oxygen, ¹⁸O; the oxygen the labeled-water culture releases is 85% ¹⁸O. The chloroplast beneath the table has five regions numbered.
(a) Identify, by number, the membrane in which the herbicide acts and the fluid in which carbon is fixed. (1 pt)
So the herbicide acts at 5.
Number 2 marks the stroma, where the Calvin cycle fixes carbon.
So carbon is fixed at 2.
- Award 1 point for: 5 (the thylakoid membrane) or 3 (the stacked thylakoids, whose membranes are thylakoid membranes) for the herbicide, with the reason that photosystem II sits in the thylakoid membrane; and 2 (the stroma) for carbon fixation. Both parts must be correct.
- Accept: the region names in place of the numbers, if both are right. Either 5 or 3 earns the herbicide half, provided the answer names the thylakoid membrane as the site. Do not award the point for 4, the thylakoid space, or 1, the outer and inner membrane, as the herbicide’s site: photosystem II sits in the thylakoid membrane, not in the fluid inside the sac and not in the membranes at the edge.
Slip Putting the herbicide’s site in the thylakoid space (4), or carbon fixation there, because that is where the protons are. The photosystems and the chain sit in the thylakoid membrane. The protons drive ATP synthase. The sugar is built in the stroma.
(b) Explain how the labeled-water culture’s result demonstrates where the oxygen that photosynthesis releases comes from. (1 pt)
85% of the oxygen the labeled-water culture released carried the label.
So the released O₂ was oxygen that had been in water.
Photosystem II splits water, and the water’s oxygen leaves as O₂.
So the oxygen that photosynthesis releases comes from water, not from carbon dioxide.
- Award 1 point for: the label given only in water appears in the O₂ released, so the oxygen released comes from water.
- Accept: ‘water is split at photosystem II and its oxygen leaves as O₂’ with the 85% result cited.
Slip Saying the oxygen came from carbon dioxide. The carbon dioxide was unlabeled. The label that appeared in the O₂ had been given in the water.
(c) Explain how the herbicide culture’s results demonstrate that the Calvin cycle depends on the light reactions. (1 pt)
So no protons were pumped, and ATP fell to 6% of the untreated culture’s.
No electrons reached NADP⁺, so NADPH fell to 4%.
The Calvin cycle uses ATP and NADPH to build carbon dioxide into sugar.
Carbon fixation fell to 5%, although carbon dioxide and light were plentiful.
So the Calvin cycle slowed because the light reactions stopped supplying its ATP and NADPH: it depends on them.
- Award 1 point for: blocked electron flow means little ATP and NADPH is made, and carbon fixation falls with them although carbon dioxide is plentiful, so the Calvin cycle depends on the light reactions.
- Accept: the chain of reasoning given in either order, as long as the fall in ATP and NADPH is the link between the herbicide and the carbon fixation.
Slip Stopping at ‘the herbicide stopped photosynthesis’. The point is the link. The light reactions supply ATP and NADPH. The Calvin cycle cannot work without ATP and NADPH.
(d) The researcher now gives the untreated culture a substance that lets protons leak freely across its thylakoid membranes. Predict what happens to its carbon fixation, and justify your prediction. (1 pt)
Protons leak back across the thylakoid membrane.
So no proton gradient builds up.
So ATP synthase makes little ATP.
Electrons still reach NADP⁺, so NADPH is still made.
But the Calvin cycle needs ATP as well as NADPH.
So the Calvin cycle slows, and carbon fixation falls.
- Award 1 point for: carbon fixation falls, because without a proton gradient ATP synthase makes little ATP and the Calvin cycle needs ATP.
- Accept: ‘falls’ with the reasoning that the leak removes the proton gradient that drives ATP synthase, whether or not NADPH is mentioned.
Slip Predicting no change because the electrons still flow and NADPH is still made. The Calvin cycle needs ATP too. The leaking protons no longer drive ATP synthase, so ATP synthase makes little ATP.
Back to the green algae in bright light whose thylakoid chain a herbicide blocked, and nothing else. The blocked chain pumped no protons and passed no electrons to NADP⁺.
So the stroma’s ATP fell to 32% of normal and its NADPH to 29%.
The Calvin cycle in the stroma needs that ATP and NADPH to fix carbon. So carbon fixation fell to 11% of normal, although carbon dioxide was plentiful.
A poison that touched only the thylakoid membranes stopped the work in the stroma by cutting the stroma’s supply of ATP and NADPH.
72Mixed practice mixed practice
At noon a thick cloud covers the sun for a minute. Within seconds, the Calvin cycle in a leaf slows almost to a stop, although the Calvin cycle uses no light directly.
Why does the Calvin cycle slow?
- A. Carbon dioxide stops entering the stroma under the cloudCarbon dioxide diffuses into the stroma whether the sun is out or not.
- B. ✓ The supply of ATP and NADPH from the light reactions is used up
- C. The stroma cools under the cloud and the reactions slowThe stroma is no cooler seconds after the light dims.
- D. The three-carbon sugar is broken down under the cloudThe Calvin cycle slows for want of ATP and NADPH to build with.
The three-carbon sugar is not destroyed.
Why: The light reactions make ATP and NADPH.
The Calvin cycle uses that ATP and NADPH.
Under the cloud the light reactions slow almost to a stop.
So the stroma’s ATP and NADPH are used up within seconds.
So carbon fixation slows.
Lit chloroplasts are making ATP in their thylakoid membranes, and the ATP in the stroma is recorded. Untreated chloroplasts count as normal, 100%. Three minutes after a herbicide blocked the thylakoid chain, the stroma’s ATP stood at 32% of normal.
Calculate the percentage by which the stroma’s ATP had fallen.
Answer: 68 % (tolerance ±0.5)
A plant in drought has closed its stomata. It stands in bright light with its photosystems working normally.
Which of the following rises?
- A. The carbon dioxide inside the leafClosed stomata keep carbon dioxide out of the leaf, so the stroma’s carbon dioxide falls.
- B. The plant’s sugar outputThe Calvin cycle has little carbon dioxide to fix, so sugar output falls.
- C. ✓ The ATP in the stroma
Why: The light reactions keep making ATP.
The Calvin cycle fixes little carbon, so the Calvin cycle uses less ATP.
So ATP builds up in the stroma.
A mutant alga’s photosystem II cannot pass electrons to the chain. A researcher keeps the alga in bright light with plenty of carbon dioxide.
Which of the following fall in the mutant’s chloroplasts?
- A. ATP and NADPH onlyThe Calvin cycle uses ATP and NADPH on every sugar it builds.
So carbon fixation falls when ATP and NADPH fall. - B. Carbon fixation onlyNo electrons enter the chain.
So no protons are pumped, and no electrons reach NADP⁺.
So ATP and NADPH fall too. - C. ✓ ATP, NADPH and carbon fixation
- D. None of them‘uses no light directly’ does not mean ‘needs no light’.
The Calvin cycle needs the ATP and NADPH that only the light reactions make.
Why: Photosystem II passes no electrons to the chain.
So the chain pumps no protons, and no ATP is made.
No electrons reach NADP⁺, so no NADPH forms.
The Calvin cycle uses ATP and NADPH to fix carbon.
So carbon fixation falls too.
A bean plant in bright light is taking up carbon dioxide for its Calvin cycle, and the net uptake is recorded. The uptake fell from 20 mg an hour with the stomata open to 6 mg an hour with the stomata closed.
Calculate the fall as a percentage of the uptake with the stomata open, to the nearest whole percent.
Part 1. Calculate the fall in uptake, in mg an hour.
Answer: 14 mg/h (tolerance ±0)
Answer: 70 % (tolerance ±0.5)
Here are four observations on photosynthesizing plants and algae.
Which of the following observations shows that the oxygen released comes from water?
- A. Labeled carbon given as carbon dioxide appears in the sugar within minutesThe carbon tracer shows where the sugar’s carbon comes from, not where the oxygen comes from.
- B. ✓ Labeled oxygen given in the water appears in the oxygen released
- C. A willow gained 74.4 kg while its soil lost 57 gThe mass result rules out soil as the source of the willow’s mass.
It does not show where the oxygen released comes from. - D. A herbicide on the thylakoid chain cuts carbon fixation to 11% of normalThe herbicide result shows the Calvin cycle depends on the light reactions, not where the oxygen comes from.
Why: The labeled oxygen was supplied only in the water.
The labeled oxygen then turned up in the oxygen released.
So the oxygen atoms in the O₂ came from water.
Photosystem II splits water, and the water’s oxygen leaves as O₂.
Photosynthesis captures light energy and stores it in sugar.
Which of the following sequences traces the energy from light to sugar?
- A. ✓ Light → boosted electrons → proton gradient → ATP and NADPH → sugar
- B. Light → carbon dioxide → sugar → ATP and NADPH → boosted electronsLight does not put energy into carbon dioxide; carbon dioxide supplies carbon, not energy.
ATP and NADPH are used to build the sugar, not made from it. - C. Light → ATP synthase → boosted electrons → proton gradient → sugarLight boosts the electrons first.
Their fall down the chain builds the proton gradient, and only then does ATP synthase turn that proton gradient into ATP. - D. Light → proton gradient → boosted electrons → ATP and NADPH → sugarThe proton gradient comes from the electrons’ fall down the chain.
So the boosted electrons come before the proton gradient, not after it.
Why: Light boosts electrons at the photosystems.
The electrons fall down the chain, and that fall builds the proton gradient.
ATP synthase turns the proton gradient into ATP.
NADP⁺ takes the electrons at the end of the chain, making NADPH.
The Calvin cycle uses the ATP and NADPH to build sugar.
A mutant alga’s photosystem II cannot pass electrons to the chain. In bright light with plenty of carbon dioxide, its ATP, NADPH and carbon fixation all fall.
(a) Explain how the mutant demonstrates that carbon fixation depends on electron flow along the thylakoid chain, even when carbon dioxide is plentiful. (1 pt)
Frame No electrons move along the chain, so …
So ATP synthase makes no ATP.
No electrons reach NADP⁺, so no NADPH forms.
The Calvin cycle uses ATP and NADPH to fix carbon.
Carbon fixation falls although carbon dioxide is plentiful.
So carbon fixation depends on the electron flow that supplies its ATP and NADPH.
- Award 1 point for: with no electron flow little ATP and NADPH are made, the Calvin cycle needs both to fix carbon, and fixation falls with carbon dioxide plentiful, so fixation depends on the electron flow.
APBIO-U03-L26 One machine, three places
Photos: Masur, Wikimedia Commons, public domain (cyanobacteria, resized); Anders Damberg, Geological Survey of Sweden via Wikimedia Commons, CC BY 2.0 (sandstone, resized).
Here are cyanobacteria, photographed through a microscope. Each one is a single cell.
A cyanobacterium has no chloroplast and no mitochondrion. Yet it splits water with light. It pumps protons across a membrane of its own. And it makes ATP with the same ATP synthase your cells use.
Beside the cyanobacteria is a slab of red sandstone. Its iron rusted red. Red rock like this first becomes common in land rocks laid down about 2.4 billion years ago. That is when the oxygen released by early cyanobacteria began to build up in the air.
How did one machine end up in a bacterium, a chloroplast and a mitochondrion? And what did it do to the planet?
Unit 3 · Cellular Energetics
1One machine in three places
Video: Watch: One machine in three places
The mitochondrion’s inner membrane, the chloroplast’s thylakoid membrane and a bacterium’s plasma membrane, side by side: in each, electrons pass down a chain, the chain pumps protons across, and protons flowing back through ATP synthase make ATP.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L26a.mp4
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Why do a mitochondrion, a chloroplast and a bacterium all make ATP the same way?
In each one, electrons pass down a chain of proteins. The chain pumps protons across a membrane.
Protons flowing back through ATP synthase make ATP.
The three differ only in where the electrons come from, where they end, and which side of the membrane the protons are pumped to.
The machine evolved first in prokaryotes. The chloroplast descends from a cyanobacterium that a eukaryotic cell took inside itself.
The chloroplast’s DNA still shows that descent.
The oxygen those early cyanobacteria released rusted the land’s iron red about 2.4 billion years ago. That rust is the first mark of oxygen on the planet.
Start with the machine itself.
An aerobic bacterium’s electron transport chain sits in its plasma membrane.
On which side of the plasma membrane do its pumped protons pile up?
- A. ✓ Outside the cell
- B. Inside the cellThe chain pumps protons out of the cytosol, so they pile up outside the cell.
Why: The bacterium’s chain sits in its plasma membrane.
The chain pumps protons out across that membrane.
So the protons pile up outside the cell.
The machine has appeared twice: in the mitochondrion’s inner membrane, and in the chloroplast’s thylakoid membrane.
Here is a drawing of three membranes side by side: the mitochondrion’s inner membrane, the chloroplast’s thylakoid membrane and an aerobic bacterium’s plasma membrane.
In each membrane, electrons pass down a chain. The chain uses the energy the electrons release to pump protons across the membrane.
The protons flowing back through ATP synthase make ATP.
A prokaryote has no mitochondria. The same chain sits in its plasma membrane, and the chain pumps protons out of the cell.
Here is a table comparing the three chains on three things: where their electrons come from, where their electrons end, and where their protons are pumped to.
| mitochondrion | chloroplast | aerobic bacterium | |
|---|---|---|---|
| electrons come from | food, carried by NADH | chlorophyll, boosted by light | food, carried by NADH |
| electrons end on | oxygen | NADP⁺ | oxygen |
| protons pumped to | the intermembrane space | the thylakoid space | outside the cell |
one machine in three places: only the electrons’ source, their end and the protons’ destination differ
What you are expected to know Compare the electron transport chains of the mitochondrion, the chloroplast and a prokaryote’s plasma membrane by where their electrons come from, where they end and where their protons are pumped.
Which of the following has an electron transport chain in one of its membranes?
- A. The mitochondrionThe chloroplast’s thylakoid membrane holds an electron transport chain too.
- B. The chloroplastThe mitochondrion’s inner membrane holds an electron transport chain too.
- C. ✓ Both
Why: The mitochondrion’s inner membrane holds an electron transport chain.
The chloroplast’s thylakoid membrane holds one too.
So both have one.
Which of the following gets its electrons from light-boosted chlorophyll?
- A. The mitochondrionThe mitochondrion’s electrons come from food, carried by NADH.
- B. ✓ The chloroplast
- C. BothOnly the chloroplast has chlorophyll.
The mitochondrion’s electrons come from food.
Why: Light boosts electrons out of chlorophyll at the chloroplast’s photosystems.
The mitochondrion’s electrons come from food, carried by NADH.
So the chloroplast is the one.
Which of the following passes its electrons to oxygen at the end of the chain?
- A. ✓ The mitochondrion
- B. The chloroplastThe chloroplast’s electrons end on NADP⁺, making NADPH.
- C. BothThe chloroplast’s electrons end on NADP⁺, not on oxygen.
Why: Oxygen is the terminal electron acceptor of the mitochondrion’s chain.
The chloroplast’s electrons end on NADP⁺.
So the mitochondrion is the one.
Which of the following pumps its protons into the thylakoid space?
- A. The mitochondrionThe mitochondrion has no thylakoids.
The mitochondrion pumps its protons into the intermembrane space. - B. ✓ The chloroplast
- C. BothOnly the chloroplast has thylakoids.
The mitochondrion pumps its protons into the intermembrane space.
Why: Thylakoids are inside the chloroplast.
The chloroplast’s chain pumps protons into the thylakoid space.
The mitochondrion’s chain pumps protons into the intermembrane space.
So the chloroplast is the one.
Which of the following pumps its protons into the intermembrane space?
- A. ✓ The mitochondrion
- B. The chloroplastThe chloroplast pumps its protons into the thylakoid space.
- C. BothThe chloroplast pumps its protons into the thylakoid space, not into an intermembrane space.
Why: The intermembrane space lies between the mitochondrion’s two membranes.
The mitochondrion’s chain pumps protons out of the matrix into that space.
The chloroplast’s chain pumps protons into the thylakoid space.
So the mitochondrion is the one.
Which of the following gets its electrons from food?
- A. ✓ The mitochondrion
- B. The chloroplastThe chloroplast’s electrons come from chlorophyll, boosted by light.
- C. BothThe chloroplast’s electrons come from chlorophyll, not from food.
Why: The mitochondrion’s electrons come from food, carried by NADH.
The chloroplast’s electrons come from chlorophyll, boosted by light.
So the mitochondrion is the one.
25Photosynthesis began in prokaryotes
Video: Watch: Photosynthesis began in prokaryotes
A cyanobacterium photosynthesizes with no chloroplast. Inside it and inside a chloroplast: the same photosystems, the same chain, the same ATP synthase.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L26b.mp4
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Now consider a cyanobacterium. Cyanobacteria are bacteria that photosynthesize the way plants do, releasing oxygen.
A cyanobacterium photosynthesizes with no chloroplast at all.
Photosynthesis first evolved in prokaryotes like the cyanobacterium. Plants and algae came much later.
Here is a drawing of a chloroplast in section beside a cyanobacterium.
Inside both are the same photosystems, the same electron transport chain and the same ATP synthase.
So eukaryotic photosynthesis was built on the prokaryotic pathways.
The plant did not invent photosynthesis. The plant inherited photosynthesis.
What you are expected to know Say that photosynthesis first evolved in prokaryotes and that eukaryotic photosynthesis was built on those prokaryotic pathways.
In which group did photosynthesis first evolve?
- A. PlantsPlants came much later than the first photosynthetic prokaryotes.
- B. AlgaeAlgae are eukaryotes, and they came much later than the first photosynthetic prokaryotes.
- C. ✓ Prokaryotes
Why: Cyanobacteria are prokaryotes, and they photosynthesize with no chloroplast.
Photosynthesis first evolved in prokaryotes like them.
Plants and algae came much later.
A plant’s chloroplast holds the same photosystems, the same electron transport chain and the same ATP synthase as a cyanobacterium.
Where did the plant’s photosynthesis come from?
- A. The plant built it from scratch, with no prokaryote involvedA pathway built from scratch would not be expected to match a cyanobacterium’s photosystems, chain and ATP synthase.
- B. ✓ The plant inherited pathways that first evolved in prokaryotes
Why: Photosynthesis first evolved in prokaryotes.
The plant’s chloroplast holds the same photosystems, electron transport chain and ATP synthase as a cyanobacterium.
So eukaryotic photosynthesis was built on the prokaryotic pathways.
37Where the chloroplast came from
Video: Watch: Where the chloroplast came from
The chloroplast’s DNA matches a cyanobacterium’s at 18 of 20 bases and its own plant’s nucleus at 6. DNA passes from parent to descendant, so the chloroplast descends from a cyanobacterium taken inside a eukaryotic cell: endosymbiosis.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L26c.mp4
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Biologists compare a 20-base stretch of a chloroplast’s DNA with the same stretch from three sources. A cyanobacterium’s DNA matches at 18 bases. The plant’s own nucleus matches at 6. A gut bacterium matches at 7.
Which source is the chloroplast’s closest relative?
- A. ✓ The cyanobacterium
- B. The plant’s own nucleusDNA with more matching bases came from a closer relative, and the nucleus matches at only 6 of 20 bases.
- C. The gut bacteriumThe gut bacterium matches at 7 of 20 bases, far fewer than the cyanobacterium’s 18.
Why: DNA with more matching bases came from a closer relative.
The cyanobacterium’s DNA matches at 18 of 20 bases, the most of the three.
So the chloroplast’s closest relative is the cyanobacterium.
The chloroplast’s DNA is closer to a cyanobacterium’s than to the DNA in its own plant’s nucleus.
DNA passes from a parent cell to its descendants. So a cell’s DNA stays closest to the DNA of the cells it descends from.
So the chloroplast descends from a cyanobacterium.
Here is the chloroplast beside the cyanobacterium once more. The chloroplast’s photosystems, electron transport chain and ATP synthase match the cyanobacterium’s.
Long ago, a eukaryotic cell took a cyanobacterium inside itself and kept it. Over many generations, the cyanobacterium’s descendants became chloroplasts.
One organism living inside another is called .
What you are expected to know Support, from the DNA comparison and the matching machinery, the claim that the chloroplast descends from a cyanobacterium by endosymbiosis.
A chloroplast’s DNA matches a cyanobacterium’s DNA at 18 of 20 bases, and the DNA in its own plant’s nucleus at 6 of 20.
(a) Support the claim that the chloroplast descends from a cyanobacterium, using the DNA comparison. (1 pt)
Frame A parent cell passes …
So a cell’s DNA stays closest to the DNA of the cells it descends from.
The chloroplast’s DNA matches a cyanobacterium’s at 18 of 20 bases and the nucleus’s at only 6.
So the chloroplast descends from a cyanobacterium.
- Award 1 point for: the evidence (the chloroplast’s DNA matches a cyanobacterium’s at 18 of 20 bases, the nucleus’s at 6) AND the reasoning that links it to the claim: DNA passes from a parent cell to its descendants, so a cell’s DNA stays closest to the cells it descends from, so the chloroplast descends from a cyanobacterium.
- Accept: ‘the chloroplast inherited its DNA from a cyanobacterium’ with the parent-to-descendant link stated. Do not award the point for ‘the DNA matches’ alone, with no link from matching DNA to descent.
48The evidence for the first oxygen
Video: Watch: The first oxygen
Iron rusts only when oxygen reaches it. Red, rusted layers become common in land rocks from about 2.4 billion years ago, and older rocks hold gray iron: oxygen began to build up then, a little at first.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L26d.mp4
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Now consider red sandstone. Its iron rusted red.
When life began, about 3.8 billion years ago, the air and the sea held almost no oxygen gas.
Iron rusts only when oxygen reaches it.
Rusted iron is red. Iron that oxygen has never reached stays gray or black.
Here is a timeline of the evidence in the rocks.
In rocks that formed on land, red layers of rusted iron become common from about 2.4 billion years ago. Older land rocks hold gray iron minerals of the kind that survive only where oxygen is absent.
Fossils generally taken to be cyanobacteria are found in rocks older still. And oxygen-releasing photosynthesis is the only process known to make oxygen gas in such quantity.
So the evidence supports this claim: oxygen-releasing photosynthesis by cyanobacteria began to build up oxygen in the air and sea about 2.4 billion years ago.
The first oxygen did not fill the air to today’s level. Oxygen rose a little at first, and it kept building up for over a billion years.
What you are expected to know Support with evidence the claim that oxygen-releasing photosynthesis by cyanobacteria began to build up oxygen in the air and sea about 2.4 billion years ago.
In rocks that formed on land, red layers of rusted iron become common from about 2.4 billion years ago. Older land rocks hold gray iron minerals of the kind that survive only where oxygen is absent, and iron rusts only when oxygen reaches it.
Which of the following claims does this pattern support?
- A. Iron first formed in Earth’s rocks about 2.4 billion years agoIron was in the rocks all along.
What changed 2.4 billion years ago was that oxygen arrived to rust the iron. - B. The air reached today’s level of oxygen about 2.4 billion years agoThe first oxygen was a little.
Oxygen kept building up for over a billion years before it reached today’s level. - C. Cyanobacteria first appeared about 2.4 billion years agoFossils generally taken to be cyanobacteria are found in older rocks.
The rust marks when the oxygen the cyanobacteria released had built up enough to rust iron on land. - D. ✓ Oxygen began to build up in the air and sea about 2.4 billion years ago
Why: Iron rusts only when oxygen reaches it.
Rusted layers become common in land rocks from about 2.4 billion years ago.
So oxygen began to build up in the air and sea about then.
Older rocks hold fossils generally taken to be cyanobacteria, so the cyanobacteria were there before that.
Red layers of rusted iron become common in land rocks from about 2.4 billion years ago. Older land rocks hold gray iron minerals of the kind that survive only where oxygen is absent.
(a) Explain why this pattern shows that oxygen began to build up in the air about 2.4 billion years ago. (1 pt)
Frame Iron rusts only when …
Older land rocks hold gray iron minerals that survive only where oxygen is absent.
So before 2.4 billion years ago the air held almost no oxygen.
Land rocks from about 2.4 billion years ago hold red, rusted iron.
So oxygen was reaching the iron on land by then.
So oxygen had begun to build up in the air about 2.4 billion years ago.
- Award 1 point for: iron rusts only when oxygen reaches it, so gray iron in the older rocks means almost no oxygen before 2.4 billion years ago, and rusted iron from 2.4 billion years ago means oxygen was present in the air by then.
- Accept: the two halves in either order. Do not award the point for ‘the rocks turned red’ alone, with no link from rust to oxygen.
A student says: ‘Red layers of rusted iron become common in land rocks from about 2.4 billion years ago, so the air reached today’s level of oxygen then.’
Is the student correct?
- A. Yes, the air reached today’s level of oxygen about 2.4 billion years agoThe first oxygen was a little.
Oxygen kept building up for over a billion years before it reached today’s level. - B. ✓ No, oxygen rose a little then and kept building up for over a billion years
Why: The red layers show that oxygen was reaching iron on land by 2.4 billion years ago.
They do not show how much oxygen the air held.
Oxygen rose a little at first and kept building up for over a billion years.
Back to the cyanobacteria, each one a single cell with no chloroplast and no mitochondrion.
Each cyanobacterium makes ATP with the same machine as your mitochondria and a leaf’s chloroplasts: a chain pumps protons across a membrane, and the protons flow back through ATP synthase.
All three inherited that machine from prokaryotes.
A relative of these cyanobacteria, taken inside a eukaryotic cell long ago, became the chloroplast.
Beside them lies a slab of red sandstone. Its iron rusted red because oxygen reached it.
Red rock like this first becomes common about 2.4 billion years ago, when the oxygen released by early cyanobacteria began to build up in the air.
69Mixed practice mixed practice
Consider a mitochondrion, a chloroplast and an aerobic bacterium.
Which of them use a proton gradient across a membrane to make ATP?
- A. ✓ All three: mitochondrion, chloroplast and bacterium
- B. The mitochondrion and the chloroplast onlyThe bacterium has the same chain in its plasma membrane.
Why: All three pump protons across a membrane and let them back through ATP synthase.
It is one machine in three places.
A cyanobacterium has no chloroplast.
Can the cyanobacterium photosynthesize?
- A. ✓ Yes
- B. NoCyanobacteria photosynthesize on membranes folded inside the cell.
Why: Cyanobacteria are bacteria that photosynthesize the way plants do.
They release oxygen, with no chloroplast at all.
A chloroplast’s photosystems, chain and ATP synthase match a cyanobacterium’s, and its DNA is closer to a cyanobacterium’s than to its own plant’s nucleus.
Which of the following claims does this evidence support?
- A. Cyanobacteria descend from chloroplasts that escaped from plant cellsThe chloroplast descends from a cyanobacterium, not the reverse.
Photosynthesis evolved in prokaryotes first.
Then a eukaryotic cell took a cyanobacterium inside itself. - B. Photosynthesis evolved separately in bacteria and in plantsSeparate origins would not be expected to produce matching photosystems, a matching chain, a matching ATP synthase and matching DNA.
- C. ✓ The chloroplast descends from a cyanobacterium taken inside a eukaryotic cell
- D. Plants invented photosynthesis and later passed it to bacteriaProkaryotes photosynthesized long before plants existed.
Why: The chloroplast’s photosystems, chain and ATP synthase match a cyanobacterium’s.
The chloroplast’s DNA is closer to a cyanobacterium’s than to the plant’s own nucleus.
Descent explains both matches: a eukaryotic cell took a cyanobacterium inside itself, and its descendants became the chloroplast.
That is endosymbiosis.
Rusted red iron layers become common in land rocks from about 2.4 billion years ago.
What does this show?
- A. Iron first formed about thenIron was in the rocks all along; oxygen arrived to rust it.
- B. ✓ Oxygen began to build up about then
Why: Iron rusts only when oxygen reaches it.
So oxygen began to build up in the air and sea about 2.4 billion years ago.
Oxygen first appeared in the air through photosynthesis.
Which group released it?
- A. PlantsPlants appeared long after the first oxygen.
- B. ✓ Cyanobacteria
Why: Photosynthesis began in prokaryotes.
Fossils taken to be cyanobacteria are older than the first rusted layers.
So cyanobacteria released the first oxygen.
A soil bacterium makes ATP with an electron transport chain set in its plasma membrane.
Where does its chain pump the protons?
- A. ✓ Out of the cell
- B. Into the thylakoid spaceThe thylakoid space is inside a chloroplast, and a bacterium has no chloroplast.
- C. Into the intermembrane spaceThe intermembrane space lies between a mitochondrion’s two membranes, and a bacterium has no mitochondria.
Why: The bacterium’s chain sits in its plasma membrane.
The chain pumps protons out across that membrane, so they pile up outside the cell.
A chloroplast’s DNA is closer to a cyanobacterium’s than to its own plant’s nucleus.
What does this support?
- A. ✓ The chloroplast descends from a cyanobacterium
- B. The plant built the chloroplast from scratchA part built from scratch would carry the nucleus’s DNA pattern.
Why: DNA passes from a parent cell to its descendants.
So the chloroplast descends from a cyanobacterium taken inside a eukaryotic cell: endosymbiosis.
A cyanobacterium is a single cell with no mitochondrion and no chloroplast. It makes ATP with ATP synthase set in a membrane folded inside the cell.
(a) Explain how the cyanobacterium builds a proton gradient across that membrane. (1 pt)
Electrons pass down the chain.
The chain uses the energy the electrons release to pump protons across the membrane.
So protons pile up on one side: a proton gradient.
- Award 1 point for: an electron transport chain in the membrane pumps protons across it, using the energy the electrons release, so protons pile up on one side.
(b) Explain how the cyanobacterium uses the proton gradient to make ATP. (1 pt)
As they flow through, ATP synthase joins ADP and Pi into ATP.
- Award 1 point for: protons flow back through ATP synthase down the proton gradient, and ATP synthase joins ADP and Pi into ATP.
Slip Saying the cyanobacterium needs a mitochondrion or a chloroplast to make ATP. The machine is a chain and an ATP synthase in a membrane; the cyanobacterium has both in its own membrane.
Glossary
- endosymbiosis
- One organism living inside another. A eukaryotic cell took a cyanobacterium inside itself and kept it, and the cyanobacterium’s descendants became chloroplasts.
APBIO-U03-L26B Shared pathways, shared ancestry
Photo: David McClenaghan, CSIRO, via Wikimedia Commons, CC BY 3.0 (resized).
Here is a scientist holding up a petri dish. Bacteria are growing on it, each dot a colony of millions of cells.
The bacteria on the dish split glucose by a ten-step glycolysis. So does the scientist holding the dish. The ten steps are the same, in the same order.
A bacterium and a human are about as different as two living cells get. Why do they share exactly the same pathway?
Unit 3 · Cellular Energetics
1The three domains
Video: Watch: The three domains
Every living thing belongs to one of three domains: Bacteria, Archaea and Eukarya. A nucleus puts a cell in Eukarya; the two prokaryote domains have none.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L26Ba.mp4
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What does a shared pathway tell you about ancestry?
Biologists sort every living thing into one of three groups, the largest groups of all: the bacteria, the archaea and the eukaryotes.
Glycolysis and oxidative phosphorylation are found in bacteria, in archaea and in eukaryotes.
A pathway of ten enzyme-driven steps in a fixed order is too complex to have been invented three times over in the same form.
So bacteria, archaea and eukaryotes most likely inherited the pathway from one shared ancestor.
This is the biochemical evidence for common ancestry, alongside the evidence from DNA.
Start with the bacteria, the archaea and the eukaryotes.
Which of the following describes a prokaryotic cell?
- A. ✓ A cell with no nucleus
- B. A cell with a nucleusA cell with a nucleus is a eukaryotic cell.
Why: A prokaryotic cell has no nucleus.
Its DNA lies in the cytosol with no membrane around it.
Living things fall into three groups, the largest groups of all. Each of these three groups is called a .
Here is a table comparing the three domains: the kind of cell each has, and some of its members.
| Bacteria | Archaea | Eukarya | |
|---|---|---|---|
| kind of cell | prokaryotic: no nucleus | prokaryotic: no nucleus | eukaryotic: a nucleus |
| examples | gut bacteria, cyanobacteria | the prokaryotes of hot springs and salt lakes | yeast, ferns, oak trees, you |
the three domains: the three largest groups of living things
Bacteria and Archaea are the two domains of prokaryotes. Biologists tell them apart by the chemistry of their cell walls and membranes.
Eukarya is every organism whose cells have a nucleus.
For example, take an oak tree: its cells have a nucleus. So the oak tree belongs to Eukarya.
Take a yeast: its cells have a nucleus. So the yeast belongs to Eukarya.
But take the bacterium that turns milk sour: its cell has no nucleus, and it is a bacterium. So it belongs to Bacteria.
Take an archaean from a salt lake: its cell has no nucleus, and it is not a bacterium. So it belongs to Archaea.
But take a pond alga that photosynthesizes like a plant: its cells have a nucleus. So the alga belongs to Eukarya.
So a nucleus puts an organism in Eukarya. No nucleus puts it in Bacteria or in Archaea, the two prokaryote domains.
What you are expected to know Classify an organism into one of the three domains: Bacteria, Archaea or Eukarya.
A bacterium lives in your gut.
Which domain does the gut bacterium belong to?
- A. ✓ Bacteria
- B. ArchaeaArchaea are the other prokaryotes, many of them from hot springs and salt lakes.
A gut bacterium is a bacterium. - C. EukaryaEukarya have cells with a nucleus, and a bacterium has none.
Why: A gut bacterium is a prokaryote of the kind called bacteria.
So it belongs to the domain Bacteria.
Which two of the three domains are made up of prokaryotes?
- A. Bacteria and EukaryaEvery organism in Eukarya has cells with a nucleus, so Eukarya are not prokaryotes.
- B. ✓ Bacteria and Archaea
- C. Archaea and EukaryaEvery organism in Eukarya has cells with a nucleus, so Eukarya are not prokaryotes.
Why: A prokaryote is a cell with no nucleus.
Bacteria are prokaryotes.
Archaea are the other prokaryotes, a domain of their own.
Every organism in Eukarya has cells with a nucleus.
So the two prokaryote domains are Bacteria and Archaea.
A fern grows on a forest floor.
Which domain does the fern belong to?
- A. BacteriaA fern’s cells have a nucleus, and bacteria have none.
- B. ArchaeaA fern’s cells have a nucleus, and archaea have none.
- C. ✓ Eukarya
Why: A fern is a plant.
A plant’s cells have a nucleus.
Every organism whose cells have a nucleus belongs to Eukarya.
So the fern belongs to the domain Eukarya.
A cyanobacterium floats in a pond.
Which domain does the cyanobacterium belong to?
- A. ✓ Bacteria
- B. ArchaeaA cyanobacterium is a bacterium, not an archaean.
- C. EukaryaA cyanobacterium is a prokaryote with no nucleus, even though it photosynthesizes like a plant.
Why: A cyanobacterium is a bacterium that photosynthesizes.
Photosynthesis does not make it a plant.
Its cell has no nucleus.
So the cyanobacterium belongs to the domain Bacteria.
An archaean lives in a hot spring.
Which domain does the archaean belong to?
- A. BacteriaAn archaean is a prokaryote, but not a bacterium.
- B. ✓ Archaea
- C. EukaryaAn archaean’s cell has no nucleus, and every organism in Eukarya has cells with a nucleus.
Why: An archaean is a prokaryote that is not a bacterium.
The prokaryotes that are not bacteria make up the domain Archaea.
So the archaean belongs to Archaea.
A muscle cell contracts in your arm.
Which domain does the muscle cell belong to?
- A. BacteriaA muscle cell has a nucleus, and bacteria have none.
- B. ArchaeaA muscle cell has a nucleus, and archaea have none.
- C. ✓ Eukarya
Why: A human muscle cell has a nucleus.
Every organism whose cells have a nucleus belongs to Eukarya.
So the muscle cell belongs to Eukarya.
28Quick quiz: domain mixed practice
What is a domain?
- A. ✓ One of the three largest groups of living things
- B. A group of cells with the same jobA group of cells with the same job is a tissue; a domain is a group of whole organisms.
- C. One of the organelles of a eukaryotic cellA domain is a group of organisms, not a part of a cell.
Why: Living things fall into three groups, the largest groups of all.
Each of these three groups is called a domain.
Biologists sort every living thing into a domain.
(a) State what a domain is. (1 pt)
- Award 1 point for: one of the three largest groups of living things.
(b) Name the three domains. (1 pt)
- Award 1 point for: Bacteria, Archaea and Eukarya, all three named.
31Shared pathways, shared ancestry
Video: Watch: Shared pathways, shared ancestry
Glycolysis and oxidative phosphorylation are found in all three domains. Ten ordered steps are too complex to be invented three times in the same form, so all three inherited them from one shared ancestor.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-L26Bb.mp4
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Every living thing uses the same genetic code and the same ATP.
What does a feature shared by all living things show?
- A. Separate invention by each groupSeparate inventions would not be expected to match; a shared feature was inherited from a shared ancestor.
- B. ✓ Common ancestry, a shared ancestor
Why: Separate inventions would not be expected to match.
Every living thing uses the same code and the same ATP.
So every living thing inherited them from one shared ancestor.
In which part of a cell does glycolysis happen?
- A. The mitochondrionGlycolysis happens before anything enters a mitochondrion; a bacterium with no mitochondria splits glucose too.
- B. ✓ The cytosol
Why: Glycolysis splits glucose in the cytosol.
A few of respiration’s steps happen in the cytosol, outside the mitochondrion, and glycolysis is those steps.
Now consider the bacteria on the petri dish and the scientist holding it once more. The bacteria and the scientist split glucose by the same ten-step glycolysis, with the steps in the same order.
ATP synthase in a bacterium, in a plant and in an animal is built the same way and works the same way.
Here is a table showing which domains have glycolysis and which have oxidative phosphorylation.
Glycolysis and oxidative phosphorylation are found in all three domains.
Could each domain have invented glycolysis on its own?
Glycolysis has ten enzyme-driven steps in a fixed order. Three separate inventions would not be expected to arrive at the same ten steps in the same order.
So a complex pathway shared by every group is most simply explained as inherited from a shared ancestor that already had it.
The same goes for the machine of oxidative phosphorylation.
Electrons pass down a chain. The chain pumps protons across a membrane.
ATP synthase uses the proton gradient to make ATP.
That one machine is in mitochondria, chloroplasts and bacteria alike. The machine arose in prokaryotes, and every living thing inherited it from a shared ancestor.
This is the biochemical evidence for common ancestry, alongside the evidence from DNA.
What you are expected to know Explain how the finding that glycolysis and oxidative phosphorylation occur in all three domains of life supports common ancestry: a complex pathway shared by every group is most simply explained as inherited from a shared ancestor that already had it.
In which domains are glycolysis and oxidative phosphorylation found?
- A. Bacteria onlyArchaea and Eukarya split glucose by glycolysis and make ATP with ATP synthase too.
- B. Bacteria and Eukarya onlyArchaea split glucose by glycolysis and make ATP with ATP synthase too.
- C. ✓ Bacteria, Archaea and Eukarya
Why: Glycolysis and oxidative phosphorylation are found in Bacteria, in Archaea and in Eukarya.
So both pathways are found in all three domains.
A student says: ‘Glycolysis is so simple that each of the three domains invented it on its own, in the same form.’
Is the student correct?
- A. Yes, a pathway that simple would be invented the same way each timeGlycolysis has ten enzyme-driven steps in a fixed order, and separate inventions would not be expected to match step for step.
- B. ✓ No, ten ordered steps are too complex to be invented three times in the same form
Why: Glycolysis has ten enzyme-driven steps in a fixed order.
Three separate inventions would not be expected to arrive at the same ten steps in the same order.
So the three domains most likely inherited glycolysis from one shared ancestor.
A yeast, a cyanobacterium and a hot-spring archaean all make ATP with an ATP synthase built to the same plan.
(a) Explain why this supports the claim that the three organisms share a common ancestor. (1 pt)
Frame ATP synthase is a complex machine, so …
The yeast is in Eukarya, the cyanobacterium is in Bacteria and the archaean is in Archaea, one organism from each domain.
All three build ATP synthase to the same plan.
So the simplest explanation is that all three inherited ATP synthase from a shared ancestor that already had it.
So the three organisms share a common ancestor.
- Award 1 point for: a complex machine shared by organisms from all three domains is most simply explained as inherited from a shared ancestor that already had it, because separate inventions would be unlikely to match.
- Accept: ‘shared by all three domains, so inherited from a common ancestor’ with the complexity or the unlikeliness of separate invention stated. Do not award the point for ‘all cells need ATP’ as the reason.
Back to the scientist holding up the petri dish of bacteria. The bacteria on the dish and the scientist split glucose by the same ten-step glycolysis, in the same order.
The bacteria belong to the domain Bacteria. The scientist belongs to Eukarya.
Ten ordered steps are too complex to have been invented twice in the same form.
So the bacteria and the scientist both inherited glycolysis from one shared ancestor, far back.
55Mixed practice mixed practice
Yeast, a gut bacterium and a human muscle cell all split glucose by the same ten-step glycolysis.
What does the match support?
- A. ✓ Common ancestry
- B. Separate invention by each groupSeparate inventions would not match step for step.
Why: A complex shared pathway is most simply explained as inherited from a shared ancestor that already had it.
A yeast cell, a gut bacterium and a human muscle cell all split glucose by the same ten-step glycolysis, the steps in the same order.
Why does this support the claim that they share a common ancestor?
- A. All living things need energy, so any organism would have to use this same pathwayNeeding energy does not fix which ten steps an organism uses, or in which order.
- B. Glycolysis is so simple that each group would have invented it on its own, in the same formTen ordered steps are not simple.
Separate inventions would not be expected to match step for step. - C. ✓ Such a complex shared pathway is most simply explained as inherited from one ancestor
- D. Bacteria passed the pathway to yeast and to humans by living inside their cellsGlycolysis happens in the cytosol of every cell, including bacteria that never lived inside anything.
So endosymbiosis does not explain glycolysis.
Why: Glycolysis has ten steps in the same order in every group.
Separate inventions would not be expected to match step for step.
So the shared pathway is most simply explained as inherited from a shared ancestor that already had glycolysis.
So a shared complex pathway is evidence of common ancestry.
An archaean lives in a salt lake.
Which domain does the archaean belong to?
- A. BacteriaAn archaean is a prokaryote, but not a bacterium.
- B. ✓ Archaea
- C. EukaryaAn archaean’s cell has no nucleus.
Why: An archaean is a prokaryote that is not a bacterium.
So it belongs to the domain Archaea.
A frog sits on a lily pad.
Which domain does the frog belong to?
- A. BacteriaA frog’s cells have a nucleus, and bacteria have none.
- B. ArchaeaA frog’s cells have a nucleus, and archaea have none.
- C. ✓ Eukarya
Why: A frog is an animal.
An animal’s cells have a nucleus.
Every organism whose cells have a nucleus belongs to Eukarya.
A feature is found in Bacteria, in Archaea and in Eukarya.
Which of the following is the simplest explanation?
- A. Each domain invented the feature on its ownThree separate inventions would not be expected to match.
- B. ✓ The three domains inherited the feature from one shared ancestor
Why: Separate inventions would not be expected to match.
So a feature shared by all three domains was most simply inherited from one shared ancestor that already had it.
How many domains do biologists sort living things into?
- A. TwoProkaryotes make up two domains, Bacteria and Archaea, and Eukarya is the third.
- B. ✓ Three
- C. FourThere are three: Bacteria, Archaea and Eukarya.
Why: The three domains are Bacteria, Archaea and Eukarya.
Every living thing uses ATP as its energy carrier and the same set of amino acids to build its proteins.
(a) Support the claim that all living things share a common ancestor, using this evidence. (1 pt)
Separate origins would not be expected to arrive at the same molecules.
So the simplest explanation is inheritance from one shared ancestor that already used them.
Therefore all living things share a common ancestor.
- Award 1 point for: the evidence (the same complex molecules in every living thing) AND the reasoning that links it to the claim (separate origins would not match, so they were inherited from a shared ancestor).
Slip Restating the claim without the link. Support a claim needs the evidence and the reasoning: shared complex features were inherited from one ancestor.
Glossary
- domain
- One of the three largest groups of living things: Bacteria, Archaea and Eukarya (the eukaryotes: every organism whose cells have a nucleus).
APBIO-U03-P34 Practice questions: Topic 3.4
Answer every question. For each multiple-choice question, pick one option and press Check; the feedback gives the reasoning. For the free-response questions, write one short sentence per step of your reasoning, in order, and show any calculation. In the exam, write the steps as a paragraph: a bulleted list is not scored. The first free-response question walks you through the reasoning one part at a time, and you can open a hint for each part; the second is at the level of the test. When you finish a question, open the scoring guide and mark your own work against it. Error bars in these questions are ±2SE.
Video: Watch first: Topic 3.4 summary: photosynthesis
Light energy is captured in the thylakoid membranes; sugar is built in the stroma from carbon dioxide and water; the oxygen given off comes from the water.
File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U03-T34-summary.mp4
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A grower seals a greenhouse full of pepper plants and fits it with a carbon dioxide sensor. From dusk to dawn the greenhouse is dark.
Which of the following happens to the sensor's carbon dioxide reading between dusk and dawn, and why?
- A. ✓ It rises, because in the dark the plants respire and do not photosynthesize
- B. It falls, because in the dark the plants keep taking in carbon dioxide for the Calvin cycleThe Calvin cycle uses ATP and NADPH from the light reactions.
In the dark those are used up within seconds, so the plants take in no carbon dioxide. - C. It stays level, because the plants stop respiring in the darkEvery living cell respires all the time, in light and in dark.
Respiring cells give off carbon dioxide, so the reading cannot stay level. - D. It stays level, because in the dark photosynthesis and respiration match each otherPhotosynthesis needs light, so in the dark there is no photosynthesis to match respiration.
Respiration alone gives off carbon dioxide, so the reading rises.
Why: Photosynthesis takes in carbon dioxide, and it needs light.
Respiration gives off carbon dioxide, and it goes on all the time.
In the dark only respiration continues.
So the plants give off carbon dioxide and take none in.
So the carbon dioxide in the greenhouse rises through the night.
A pale yellow fungus and a green film grow side by side on a lit log. A student seals a sample of each in its own lit flask with a carbon dioxide sensor. The green film's flask loses carbon dioxide in the light. The fungus's flask gains carbon dioxide in the light and in the dark alike.
Which of the two organisms photosynthesizes?
- A. ✓ The green film
- B. The fungusThe fungus's flask gained carbon dioxide, in the light and in the dark alike.
Releasing carbon dioxide is respiration, and every living thing respires. - C. Both of themThe fungus grows in the light but does not use the light.
Only cells with chlorophyll capture light energy, and a fungus has none. - D. Neither of themOnly the fungus's flask changed in the dark as well as in the light.
The green film's flask lost carbon dioxide when it was lit.
Why: In the light a photosynthesizer takes carbon dioxide out of the air to build sugar.
The green film's flask lost carbon dioxide in the light, so the green film photosynthesizes.
The fungus has no chlorophyll, so it only respires and its flask gained carbon dioxide in light and dark.
Under a lamp that gives out only light of 530 nm, a red tulip's petals look almost black.
Why do the petals look almost black?
- A. The pigment absorbs red light, and the lamp gives out no red light for it to absorbIn white light the tulip looks red, so its pigment reflects red light rather than absorbing it.
An object looks the color it reflects. - B. Light of 530 nm carries too little energy to light up the petalsLight of 530 nm is green light, and it lights other objects well.
The petals look black because they reflect none of it. - C. ✓ The pigment absorbs green light and reflects only red, and the lamp gives out no red light
- D. Green light destroys the pigment, so the petals lose their colorMove the tulip back into white light and it looks red again.
The pigment is intact; it simply has no red light to reflect under the lamp.
Why: An object looks the color of the light it reflects.
The tulip's pigment reflects red light and absorbs the rest.
The pigment absorbs the lamp's green light (530 nm), and there is no red light to reflect.
So almost no light leaves the petals, and they look black.
A potato tuber grows underground in the dark, yet its cells are packed with starch grains that stain blue-black with iodine.
Where did the sugar that built this starch come from?
- A. The tuber's own cells made it, capturing the faint light that reaches down through the soilPhotosynthesis needs chlorophyll and light, and a tuber has neither.
A tuber is white inside and lies in the dark. - B. ✓ The leaves made it by photosynthesis, and the plant moved it to the tuber to store as starch
- C. The roots absorbed it from the soil, where starch from dead leaves had broken down into sugarRoots take up water and minerals, not sugar or starch.
- D. The tuber's cells built it from minerals taken up from the soil, using energy from respirationMinerals are a small share of a plant's mass and are not the source of its sugar.
Respiration releases energy rather than building sugar.
Why: The leaves make the plant's sugar by photosynthesis, in the cells that hold chloroplasts.
The plant uses some of that sugar at once, in respiration and as building material.
The plant moves the rest to the tuber and stores it as starch.
Iodine turns that starch blue-black.
The graph shows the percentage of light absorbed at each wavelength by the main pigment of a diatom, a single-celled golden-brown alga.
Light of which wavelength will drive this diatom's photosynthesis fastest?
- A. ✓ 450 nm
- B. 550 nmAt 550 nm the graph reads about 35% absorbed.
Most of that light is reflected or passes through, which is part of why the diatom looks golden-brown. - C. 650 nmAt 650 nm this pigment absorbs only about 12%.
Chlorophyll in a green leaf absorbs red light strongly, but this is a different pigment, and the graph is the evidence. - D. 700 nmAt 700 nm the curve is at its lowest, under 10% absorbed.
Why: Only absorbed light can drive photosynthesis.
The curve is highest near 450 nm, at about 85% absorbed.
So blue light drives this diatom's photosynthesis fastest.
At 550 nm and beyond the pigment absorbs 35% or less.
A researcher lights thylakoid membranes from spinach chloroplasts in a solution with ADP and Pi, and they make ATP. The researcher then adds a fungal toxin that plugs the channel of ATP synthase. Electrons keep passing along the electron transport chain, ATP production stops, and the thylakoid space becomes more acidic than before.
What does this result show about how the chloroplast makes ATP?
- A. Light powers ATP synthase directly, and the toxin blocks the light from reaching itATP synthase is not powered by light.
The membranes were lit throughout, and the toxin blocks a channel, not the light. - B. The electron transport chain makes the ATP as the electrons pass along itElectrons kept passing along the electron transport chain, yet ATP production stopped.
So the electron transport chain does not make the ATP. - C. ATP synthase pumps the protons into the thylakoid space, so plugging its channel stops the pumpingThe thylakoid space became more acidic, so protons were still being pumped in.
The electron transport chain pumps the protons; ATP synthase only lets them back out. - D. ✓ ATP is made only as protons flow out of the thylakoid space through ATP synthase, down their proton gradient
Why: The electron transport chain pumps protons into the thylakoid space, building a proton gradient.
Protons flow back into the stroma only through ATP synthase, and that flow makes the ATP.
With the channel plugged, protons pile up inside.
No protons flow through ATP synthase, so no ATP is made.
A student places a bean plant in bright light in a chamber of air with all the carbon dioxide removed. Within minutes its sugar output falls, although its chlorophyll goes on absorbing light.
What happens to the ATP and NADPH in the chloroplasts' stroma, and why?
- A. The ATP and NADPH stop being made, because the light reactions get their electrons from carbon dioxideThe light reactions get their electrons from water, split at photosystem II, and never from carbon dioxide.
So the light reactions continued. - B. ✓ The ATP and NADPH pile up unused, because the Calvin cycle that uses them has nothing to fix
- C. The ATP and NADPH are used up faster, because the Calvin cycle builds sugar from oxygen insteadThe Calvin cycle builds sugar from carbon dioxide, never from oxygen.
With the carbon dioxide gone, the Calvin cycle uses less ATP and NADPH, not more. - D. The concentration of ATP and NADPH in the stroma falls, because they leave the chloroplast to power the rest of the cellThe ATP and NADPH the light reactions make stay in the chloroplast for the Calvin cycle.
The rest of the cell uses ATP from its mitochondria.
Why: The light reactions make ATP and NADPH; the Calvin cycle uses them to fix carbon dioxide into sugar.
With no carbon dioxide, the Calvin cycle has nothing to fix and cannot use them.
The light reactions keep making them, so they pile up.
Sugar output falls at the same time.
The electron transport chain of the inner mitochondrial membrane and the electron transport chain of the thylakoid membrane are alike in this: in both, electrons pass down a series of proteins, the energy released pumps protons across the membrane, and ATP synthase makes ATP as the protons flow back.
Which of the following differs between the two chains?
- A. The mitochondrion uses ATP synthase, while the chloroplast makes its ATP directly from light energyBoth membranes use ATP synthase, and neither makes ATP directly from light.
- B. The mitochondrion's chain takes its electrons from oxygen, while the chloroplast's chain takes them from carbon dioxideNeither oxygen nor carbon dioxide supplies electrons to an electron transport chain.
Oxygen is where the mitochondrion's electrons end.
The Calvin cycle uses the carbon dioxide instead. - C. The mitochondrion's chain pumps protons into the matrix, while the chloroplast's chain pumps them into the stromaBoth chains pump protons out of the fluid where ATP is made into an enclosed space: matrix to intermembrane space, stroma to thylakoid space.
- D. ✓ Where the electrons come from (food's NADH, or light-boosted chlorophyll) and where they end (oxygen, or NADP⁺)
Why: It is one machine in two places.
In the mitochondrion the electrons come from food and end on oxygen.
In the chloroplast they come from chlorophyll, replaced from water, and end on NADP⁺.
Both chains pump protons into an enclosed space and let them back through ATP synthase.
Fossil cyanobacteria are found in rocks 2.7 billion years old. The oldest fossils of algae are about 1 billion years old, and the oldest fossils of land plants about 0.5 billion years old. A chloroplast's photosystems, electron transport chain and ATP synthase are built to the same plan as a cyanobacterium's.
Which claim does this evidence best support?
- A. Photosynthesis first evolved in land plants, which passed it to algae and then to cyanobacteriaCyanobacteria were photosynthesizing 2.7 billion years ago, over 2 billion years before the first land plants.
The order of the fossils rules the plants out as the source. - B. Photosynthesis evolved separately in cyanobacteria, algae and plants, arriving each time at the same machineryThree separate inventions would not be expected to arrive at the same photosystems, electron transport chain and ATP synthase.
Matching machinery is inherited from a shared ancestor. - C. ✓ Photosynthesis first evolved in prokaryotes, and the photosynthesis of algae and plants was built on the prokaryotic pathways
- D. Algae evolved photosynthesis first, and cyanobacteria descend from algae that lost their nucleusCyanobacteria appear in the fossil record 1.7 billion years before algae, so cyanobacteria cannot descend from algae.
A cyanobacterium is a prokaryote: its cells never had a nucleus.
Why: Cyanobacteria, which are prokaryotes, were photosynthesizing 2.7 billion years ago.
Algae and land plants appear only later.
So photosynthesis first evolved in prokaryotes.
A chloroplast's machinery is built to the cyanobacterial plan.
So the photosynthesis of algae and plants was built on the prokaryotic pathways.
A researcher collects four organisms: an archaean from the mud of a rice paddy, a cyanobacterium from a lake, a diatom (a single-celled alga) and a mushroom.
Which of the four organisms belong to the domain Eukarya?
- A. The diatom onlyA mushroom is a fungus, and a fungus's cells have a nucleus.
So the mushroom belongs to Eukarya too. - B. ✓ The diatom and the mushroom
- C. The diatom, the mushroom and the cyanobacteriumA cyanobacterium is a prokaryote: its cell has no nucleus.
It belongs to the domain Bacteria. - D. The diatom, the mushroom, the cyanobacterium and the archaeanThe cyanobacterium and the archaean are prokaryotes, with no nucleus.
The cyanobacterium belongs to Bacteria and the archaean to Archaea.
Why: Eukarya is every organism whose cells have a nucleus.
A diatom is an alga, and an alga's cell has a nucleus.
A mushroom's cells have a nucleus.
So the diatom and the mushroom belong to Eukarya.
The cyanobacterium and the archaean are prokaryotes with no nucleus, in Bacteria and Archaea.
A single-celled green alga has a strain in which photosystem I is weakened: it holds normal chlorophyll, and its photosystem II and electron transport chain work normally, but its photosystem I passes electrons to NADP⁺ at 20% of the normal rate. Students grew the normal strain and the weakened strain side by side for five days in bright light with plenty of carbon dioxide, six flasks of each, and measured the dry mass of algae in each flask. The normal strain's mean was 42.0 mg (standard error 1.5 mg); the weakened strain's was 18.0 mg (SE 1.2 mg). The graph shows the two means with error bars of ±2SE.
(a) Identify the membranes in which the weakened strain's light reactions take place and the fluid in which its Calvin cycle builds sugar. (1 pt)
Frame The light reactions take place in the …, and the Calvin cycle takes place in the …
Hint Which part of a chloroplast holds the chlorophyll, and what is the fluid around that part called?
The thylakoids are flattened sacs stacked as grana, and they hold the chlorophyll.
The Calvin cycle takes place in the stroma.
The stroma is the fluid inside the inner membrane, in which the thylakoids sit.
- Award 1 point for: the light reactions take place in the thylakoid membranes (stacked as grana) and the Calvin cycle takes place in the stroma.
- Accept "grana" for the membranes. Do not award the point for the two swapped, or for "the chloroplast" alone.
Slip Swapping the two rooms, or naming 'the chloroplast' for both. The light reactions are in the membranes. The sugar-building is in the fluid around them.
(b) Describe what happens to an electron in chlorophyll when one of the alga's photosystems absorbs light. (1 pt)
Frame When light is absorbed, an electron in chlorophyll …, and it is then …
Hint What does the light's energy do to the electron's energy level, and where does the electron go next?
The energized electron leaves the chlorophyll.
From photosystem II the electron enters the electron transport chain.
From photosystem I the electron goes on toward NADP⁺.
- Award 1 point for: the absorbed light energy boosts the electron to a higher energy level, and the energized electron is passed to a neighboring molecule (the first carrier of the electron transport chain from photosystem II, or toward NADP⁺ from photosystem I).
- Accept "excited" for boosted. Do not award the point for "chlorophyll absorbs light" with nothing about the electron, or for the electron being created by the light.
Slip Stopping at 'the chlorophyll absorbs light'. The point is what happens to the electron: it is boosted, and it leaves.
(c) Calculate the ends of the ±2SE error bar on each strain's mean. (1 pt)
Frame The normal strain's bar runs from … mg to … mg, and the weakened strain's from … mg to … mg.
Hint Which formula gives the ends of a ±2SE bar from a mean and its standard error?
Two standard errors is 3.0 mg, and the bar reaches 3.0 mg either side of the mean of 42.0 mg.
The weakened strain's bar runs from 15.6 mg to 20.4 mg: 2.4 mg either side of 18.0 mg.
The two bars do not overlap.
There is a wide gap between them.
- Award 1 point for: normal strain 39.0–45.0 mg and weakened strain 15.6–20.4 mg (each mean minus and plus 2 × its own SE).
- Accept 39–45 mg and 15.6–20.4 mg with the working shown. Do not award the point for ±1SE bars (40.5–43.5 mg and 16.8–19.2 mg), for one strain only, or for "42.0 ± 1.5 mg" written as the bar.
Slip Using ±1SE, or working out one strain's bar and stopping. Each bar is two standard errors either side of its own mean, and both strains are asked for.
(d) Explain why the weakened strain makes less sugar than the normal strain, although its chlorophyll absorbs light normally. (1 pt)
Frame Photosystem I normally hands its electrons to …, making …; in the weakened strain …, so the Calvin cycle …
Hint Follow the electrons after photosystem I: where do they go, and which part of photosynthesis is waiting for what they make?
NADPH carries electrons into the stroma.
The Calvin cycle needs NADPH, with ATP, to build carbon dioxide into sugar.
With far less NADPH, the Calvin cycle fixes less carbon dioxide.
So the alga builds less sugar and less new mass.
Its chlorophyll absorbs light normally, but the shortfall comes after the absorption.
- Award 1 point for: photosystem I reduces NADP⁺ to NADPH, which carries electrons and energy into the stroma for the Calvin cycle; with photosystem I slow, less NADPH is made, so the Calvin cycle fixes less carbon dioxide into sugar and the alga builds less new material.
- Accept a note that ATP output also falls as the electron transport chain backs up. Do not award the point for "less light is absorbed" (it is absorbed normally), or for "less sugar" with no link through NADPH.
Slip Saying the weakened strain 'absorbs less light'. It absorbs light normally. The shortfall is downstream, in the NADPH that photosystem I fails to make.
(e) Predict what happens to the weakened strain's dry mass if the students double the carbon dioxide supplied, and justify your prediction. (1 pt)
Frame Doubling the carbon dioxide would …, because the Calvin cycle in the weakened strain is limited by …
Hint Which input is limiting the weakened strain's Calvin cycle? Compare it with the input the students are doubling.
The Calvin cycle in the weakened strain is limited by its supply of NADPH, not by carbon dioxide.
Photosystem I is slow, so little NADPH reaches the stroma.
Carbon dioxide was already plentiful, so more of it cannot speed the Calvin cycle up.
So the dry mass stays near 18 mg.
- Award 1 point for: little or no change, because the weakened strain's Calvin cycle is limited by its supply of NADPH from photosystem I, not by carbon dioxide, which was already plentiful; more carbon dioxide cannot be fixed faster than NADPH arrives.
- Accept "dry mass stays about 18 mg". Do not award the point for a large rise, or for "no change" with no reference to NADPH (or the light reactions) as the limit.
Slip Predicting a big rise because 'more carbon dioxide means more sugar'. That holds only when carbon dioxide is the input in short supply. Here NADPH is.
A researcher seals a mat of cyanobacteria from a hot spring in a clear bottle of spring water fitted with a dissolved-oxygen sensor. In one hour of darkness the dissolved oxygen falls by 0.4 mg/L. In one hour of bright light it rises by 1.8 mg/L. The mat respires at the same rate in light and in dark. When a researcher gives the bottle carbon dioxide made with the heavy carbon ¹³C, the cells' sugar becomes rich in ¹³C within minutes. A herbicide that blocks electron transfer between the two photosystems stops the rise in oxygen and stops the appearance of ¹³C in sugar together. The photosystems, electron transport chain and ATP synthase of the cyanobacteria match those of a spinach chloroplast, although the cells have no chloroplast.
(a) Support the claim that the mat is photosynthesizing with two pieces of evidence from the data. (1 pt)
Photosynthesis releases oxygen only while light is captured, so this pattern is what photosynthesis predicts.
Carbon from the supplied carbon dioxide, ¹³C, turns up in the cells' sugar within minutes.
So the cells are building sugar from carbon dioxide, which is what photosynthesis does.
Therefore the mat is photosynthesizing.
- Award 1 point for: two of (oxygen rises in the light and falls in the dark; ¹³C from the supplied carbon dioxide appears in the cells' sugar; blocking electron transfer between the photosystems stops both at once) AND the reasoning that links each to the claim (photosynthesis captures light energy to build sugar from carbon dioxide, releasing oxygen).
- Support a claim needs the evidence and the reasoning that links it to the claim. Accept the light-versus-dark oxygen contrast as one piece. Do not award the point for one piece of evidence, for evidence with no link, or for "it is green".
Slip Giving one piece of evidence, or two pieces with no link to what photosynthesis does. Each observation supports the claim only when it is tied to it.
(b) Calculate the rate at which photosynthesis produces oxygen in the hour of light. (1 pt)
In the light the mat respires just as fast.
So the rise of 1.8 mg/L is what photosynthesis made minus the 0.4 mg/L that respiration used.
So photosynthesis produced 1.8 + 0.4 = 2.2 mg/L of oxygen in the hour.
- Award 1 point for: 1.8 + 0.4 = 2.2 mg/L per hour, because the mat respires in the light too, using 0.4 mg/L per hour, so the measured rise is photosynthesis minus respiration and the respiration must be added back.
- Accept 2.2 mg/L per hour with the reasoning in words. An uncorrected 1.8 mg/L per hour (the net change) earns nothing, and neither does 1.4 mg/L per hour (respiration subtracted): the point is that the oxygen photosynthesis made equals the net rise plus the oxygen respiration used. Do not award the point for 2.2 mg/L per hour with no explanation of why the dark reading is added.
Slip Reporting 1.8, the net change, or subtracting to get 1.4. Respiration continues in the light and hides 0.4 mg/L of photosynthesis every hour. Add it back.
(c) Explain why the herbicide stops carbon fixation as well as oxygen release. (1 pt)
The herbicide blocks transfer between them.
So photosystem II can no longer pass electrons on.
So photosystem II stops splitting water for replacement electrons, and oxygen release stops.
No electrons reach photosystem I, so NADP⁺ is no longer reduced to NADPH.
No electrons flow, so no protons are pumped, and ATP production falls too.
The Calvin cycle uses that ATP and NADPH.
So carbon fixation stops with them.
- Award 1 point for: with electron transfer between the photosystems blocked, electrons no longer flow from photosystem II (so water is no longer split for replacements and oxygen release stops) and no longer reach photosystem I and NADP⁺, and proton pumping stops, so ATP and NADPH production falls and the Calvin cycle, which needs them, stops fixing carbon dioxide.
- Accept "no ATP and NADPH for the Calvin cycle" with the electron block as the cause. Do not award the point for "the herbicide poisons the cells", or for the Calvin cycle needing light directly.
Slip Saying the herbicide 'stops photosynthesis' or 'poisons the cells'. The point follows the block through the electron transport chain to ATP and NADPH, and from there to the Calvin cycle.
(d) Explain how the match between the cyanobacteria's machinery and a chloroplast's supports the claim that chloroplasts descend from cyanobacteria. (1 pt)
The machine is built the same way in a free-living cyanobacterium and inside a plant's chloroplast.
Inheritance explains that match more simply than two separate inventions.
So the chloroplast descends from a cyanobacterium.
A eukaryotic cell took that cyanobacterium in and kept it: endosymbiosis.
So photosynthesis first evolved in prokaryotes, and eukaryotic photosynthesis was built on those prokaryotic pathways.
- Award 1 point for: the same photosystems, chain and ATP synthase in a free-living prokaryote and in a chloroplast is most simply explained by inheritance: the chloroplast descends from a cyanobacterium taken into a eukaryotic cell (endosymbiosis), so photosynthesis first evolved in prokaryotes and eukaryotic photosynthesis was built on it.
- Accept "endosymbiosis" with the shared machinery as the evidence. Do not award the point for "they look alike" with no inheritance reasoning, or for chloroplasts giving rise to cyanobacteria.
Slip Saying only that the two 'are similar'. The point needs the inference: shared complex machinery was inherited from a shared origin, so the chloroplast is a descendant of a cyanobacterium.
APBIO-U03-T34 End-of-topic test: Photosynthesis
Answer every question. For each multiple-choice question, pick one option and press Check; the feedback gives the reasoning. For the two free-response questions, write one short sentence per step of your reasoning, in order, and show any calculation. In the exam, write the steps as a paragraph: a bulleted list is not scored. Then open the scoring guide and mark your own work against it.
Photosynthesis is the reaction carbon dioxide + water → glucose + oxygen, driven by light energy. Its balanced equation is 6CO₂ + 6H₂O → C₆H₁₂O₆ + 6O₂, with light energy written above the arrow.
What does light contribute to the reaction?
- A. ✓ Energy only; it supplies no atoms to the products
- B. The oxygen atoms that end up in the O₂ given offEvery oxygen atom in the O₂ given off came from a water molecule, not from light.
- C. The hydrogen atoms that end up in the sugarThe hydrogen atoms in the sugar came from water.
Light is energy, not matter. - D. Energy and the carbon atoms that build the sugarLight cannot turn into carbon.
The six carbons of the sugar are the six carbons of the six CO₂ molecules.
Why: Light is the energy source of photosynthesis, not a reactant.
Light has no atoms to give.
Every atom in the sugar and in the oxygen came from the carbon dioxide and the water on the left of the arrow.
Light supplied the energy that rearranged those atoms.
A student examines four samples: a beech leaf cell packed with chloroplasts, a cell from deep inside a turnip root, a cyanobacterium from a lake bloom, and a cell from a bread mold.
Which samples photosynthesize?
- A. The beech leaf cell onlyCyanobacteria photosynthesize too, with no chloroplast.
Photosynthesis is not only for plants. - B. The beech leaf cell and the turnip root cellBeing part of a plant is not enough.
A turnip root cell grows underground with no chloroplasts, so it makes no sugar from light. - C. ✓ The beech leaf cell and the cyanobacterium
- D. The beech leaf cell, the turnip root cell and the cyanobacteriumThe turnip root cell has no chloroplasts.
It lives on sugar the leaves send down.
Why: An organism photosynthesizes if it captures light energy to make sugar.
The beech leaf cell does this with its chloroplasts.
The cyanobacterium does it in its own membranes, with no chloroplast.
The turnip root cell has no chloroplasts.
The bread mold is a fungus, and no fungus photosynthesizes.
A gardener grew a young oak for six years in a tub of dried soil and gave it only water and light. At the start, the sapling's dry mass was 1.2 kg and the dried soil's mass was 60.00 kg. At the end, the tree's dry mass was 28.7 kg and the dried soil's mass was 59.95 kg.
Where did most of the tree's 27.5 kg of new dry mass come from?
- A. Minerals drawn from the soil by the rootsThe soil lost only 50 g in six years while the tree gained 27.5 kg of dry mass.
So the soil cannot be the source. - B. ✓ Carbon dioxide from the air, together with water
- C. Light, which the leaves turned into matterLight supplies energy, not atoms.
Light cannot turn into wood. - D. Water alone, since wood holds a great deal of waterDry mass excludes the wood's water, driven off first, so water is not in the 27.5 kg.
Water supplied only the sugar's hydrogen; its carbon came from carbon dioxide.
Why: Dry mass is the material the tree built, with its water driven off.
The soil lost only 50 g, so the new mass did not come from the soil.
Light supplies energy, not atoms.
The tree built sugar, then wood, from carbon dioxide and water, using light's energy.
A researcher grows a single-celled green alga in three lit flasks. Flask 1: water with heavy oxygen atoms (¹⁸O) and ordinary CO₂; the O₂ released is 91% ¹⁸O. Flask 2: ordinary water and CO₂ with ¹⁸O; the O₂ released is 0.4% ¹⁸O. Flask 3: nothing labeled; the O₂ released is 0.2% ¹⁸O.
Where does the released oxygen come from?
- A. ✓ From water
- B. From carbon dioxideWhen the label was on the carbon dioxide (flask 2) almost none of it appeared in the O₂: 0.4%, barely above the control.
- C. Equally from water and carbon dioxideThe two labeled flasks gave very different results, 91% against 0.4%, not equal shares.
- D. From light energy, turned into oxygenOxygen is not created, and light has no atoms to give.
Why: The O₂ carried the heavy oxygen only when the water was labeled: 91%.
With labeled carbon dioxide the O₂ carried almost none: 0.4%, close to the unlabeled control's 0.2%.
So the oxygen gas photosynthesis releases comes from water, split in the light reactions.
A student picks two leaves from the same plant on a sunny day: one at dawn, one at dusk. The student removes the chlorophyll from both and adds iodine. Iodine turns blue-black where starch is present. Only the dusk leaf turns blue-black.
What does the blue-black in the dusk leaf show?
- A. Chlorophyll, which builds up in a leaf through the dayThe student removed the chlorophyll before adding the iodine, and iodine does not stain chlorophyll.
- B. Sugar, which iodine turns blue-black as soon as it formsIodine does not react with sugar.
Iodine reacts with starch, the form in which a plant stores the sugar it makes. - C. ✓ Starch, stored from the sugar photosynthesis made during the day
- D. Damage from the day's bright light, which darkened the leaf tissueIodine is a test for starch, not a record of damage.
Why: A leaf stores some of its sugar as starch; iodine turns blue-black where starch is present.
The dusk leaf had photosynthesized all day, so it held starch.
The dawn leaf had made no sugar overnight and had used or moved its starch.
So only the dusk leaf turns blue-black.
A researcher gives a lit culture of a green alga a 5-second pulse of carbon dioxide made with labeled carbon, then measures where the labeled carbon is at three times. The table shows the results.
Which of the following does the timing of the labeled carbon show?
- A. Carbon dioxide is built straight into sugar, and the alga then breaks the sugar down into three-carbon moleculesThe label reaches the three-carbon molecules at 4 s and the sugars only at 3 min.
So the three-carbon molecules form first, not the sugars. - B. The light reactions attach the carbon dioxide to sugar in the thylakoid membranes before the Calvin cycle beginsThe light reactions make ATP and NADPH; they attach no carbon dioxide.
Carbon dioxide is attached to a molecule in the stroma, by the Calvin cycle. - C. The three-carbon molecules and the sugars are built at the same time, each from its own carbon dioxideIf both were built at the same time, the label would reach the sugars as early as the three-carbon molecules.
The sugars carry the label only at 3 min. - D. ✓ Carbon dioxide is built into a three-carbon molecule first, and sugar is built from that molecule afterwards
Why: The label marks the carbon that came in as carbon dioxide.
At 4 s the label is in three-carbon molecules, so carbon dioxide is built into a three-carbon molecule first.
At 3 min the label is in sugars, so the Calvin cycle builds sugar from that molecule afterwards.
The figure shows a chloroplast in cross-section, inside a leaf cell. Four structures are numbered.
Which number marks a single thylakoid?
- A. 1Number 1 marks the chloroplast's two membranes, its outer boundary.
- B. 2Number 2 sits in the stroma, the fluid inside the inner membrane in which the thylakoids lie.
- C. 3Number 3 marks a stack of thylakoids, a granum, not one sac on its own.
- D. ✓ 4
Why: A thylakoid is a flattened membrane sac, and number 4 marks one sac on its own.
Thylakoids stacked like coins form a granum (number 3).
The fluid around them, inside the inner membrane, is the stroma (number 2).
The two membranes at the edge (number 1) enclose the whole chloroplast.
A researcher breaks isolated chloroplasts open and separates their parts.
In which part does the Calvin cycle build sugar from carbon dioxide?
- A. ✓ The stroma fluid
- B. The thylakoid membranesThe thylakoid membranes hold the chlorophyll and the light reactions.
The Calvin cycle's enzymes are in the fluid around them. - C. The space inside the thylakoid sacsThe electron transport chain pumps protons into the space inside the thylakoid sacs.
That space holds no enzymes of the Calvin cycle. - D. The two membranes at the chloroplast's edgeThe two membranes at the chloroplast's edge enclose the chloroplast and hold neither photosystems nor the Calvin cycle's enzymes.
Why: The Calvin cycle builds sugar from carbon dioxide in the stroma.
Chlorophyll sits in the thylakoid membranes, so the light reactions take place there and make the ATP and NADPH the Calvin cycle uses.
The thylakoid space holds pumped protons.
The two outer membranes enclose the chloroplast.
A student lights three flasks of a green alga with red, blue or green light of equal brightness. In ten minutes the flasks release 26, 23 and 6 bubbles of oxygen.
Why does green light give so few bubbles?
- A. Green light carries too little energy to boost any electron in chlorophyllGreen light does carry enough energy to boost an electron: the few bubbles show it drives chlorophyll a little.
The shortfall is that most green light is reflected, not absorbed. - B. ✓ Chlorophyll reflects most green light and absorbs red and blue light strongly
- C. Chlorophyll absorbs green light most strongly, but that energy is lost as heatIf chlorophyll absorbed green light most strongly, leaves would not look green.
Leaves look green because green is the light reflected back. - D. Green light is absorbed in the stroma, far from the photosystemsPigments absorb light, and the stroma has no pigments.
The pigments are in the thylakoid membranes.
Why: Only absorbed light can boost electrons in chlorophyll.
Chlorophyll absorbs red and blue light strongly and reflects most green light.
So little green light is absorbed.
So few electrons are boosted, little water is split, and few oxygen bubbles form.
This is also why leaves look green.
The graph shows the percentage of light chlorophyll absorbs at each wavelength.
Light of which wavelength will drive photosynthesis fastest?
- A. ✓ 430 nm
- B. 490 nmAt 490 nm the curve reads about 20%.
Most of that light is reflected or passes through. - C. 550 nm550 nm is green light, at the bottom of the curve, under 10% absorbed.
- D. 620 nmAt 620 nm the curve is still under 10% absorbed.
The red peak lies further along, near 660 nm.
Why: Only absorbed light can drive photosynthesis, so the wavelength absorbed most drives it fastest.
The curve reads about 90% at 430 nm, its peak and the highest of the four.
It reads about 20% at 490 nm, and under 10% at 550 nm (green) and at 620 nm.
A researcher splits isolated chloroplasts between two tubes containing a yellow iron compound that turns colorless when it gains electrons. The researcher lights one tube and keeps the other dark. Only the compound in the lit tube turns colorless.
Why does the compound lose its color only in the light?
- A. Light splits the compound directly into colorless pieces, chloroplasts or no chloroplastsLight on its own has no electrons to give, and the compound turns colorless only by gaining electrons.
- B. Light powers the Calvin cycle in the stroma, and the sugar it makes reduces the compoundThe Calvin cycle builds sugar and hands out no electrons, and sugar does not bleach the compound.
- C. ✓ Light boosts electrons in chlorophyll, which leave the photosystems and reduce the compound
- D. Chlorophyll takes up the yellow color from the compound when it is lit, leaving it colorlessChlorophyll absorbs light, not color.
The compound lost its color by gaining electrons.
Why: The compound turns colorless by gaining electrons.
Absorbed light boosts an electron in chlorophyll, and the boosted electron leaves the photosystem.
Here the boosted electrons went onto the compound, which was reduced and lost its color.
In the dark no electrons are boosted, so the compound stays yellow.
A herbicide blocks the transfer of electrons out of photosystem II. Within a minute of spraying, a treated leaf stops releasing oxygen, although its chlorophyll still absorbs light.
Why does oxygen release stop?
- A. The herbicide keeps carbon dioxide out of the leaf, so there is no CO₂ to make oxygen fromThe oxygen a leaf releases comes from water, not from carbon dioxide.
- B. ✓ Water is split only to replace electrons photosystem II loses, so with none leaving, no O₂ forms
- C. Oxygen is released by photosystem I, which the block starves of electronsOxygen is released where water is split, at photosystem II, not at photosystem I.
- D. The herbicide denatures the chlorophyll, so no light energy is capturedThe chlorophyll still absorbs light, so it is intact.
The block is downstream of light absorption.
Why: Water is split at photosystem II to replace the electrons the photosystem loses, and the oxygen from the split water leaves as O₂.
The herbicide stops electrons leaving photosystem II, so the photosystem loses no electrons.
So no water is split, and no O₂ forms.
A researcher puts isolated thylakoid membranes in a solution at pH 7.0 and shines light on them. Within a minute the solution’s pH rises to 7.8.
What produces this rise in the solution’s pH?
- A. ATP synthase pumped protons from the solution into the thylakoid spaceATP synthase does not pump.
Protons flow through ATP synthase down their proton gradient, out of the thylakoid space. - B. The electron transport chain pumped protons out of the thylakoid space into the solutionThe solution’s pH rose, so the solution lost protons.
Protons went into the thylakoid space, not out of it. - C. ATP synthase pumped protons out of the thylakoid space into the solutionProtons are not pumped through ATP synthase.
They flow through it down their proton gradient.
The rising pH shows protons leaving the solution, not entering it. - D. ✓ The electron transport chain pumped protons from the solution into the thylakoid space
Why: A higher pH means fewer hydrogen ions.
So the solution, on the stroma side, lost protons.
In the light, electrons pass along the electron transport chain.
Their energy pumps protons into the thylakoid space.
So the solution loses protons, and its pH rises.
A researcher gives isolated chloroplasts in the light NADP⁺, ADP and Pi.
What is NADP⁺'s job in the light reactions?
- A. It supplies photosystem II with electrons in place of waterPhotosystem II's replacement electrons come from water, which is split.
NADP⁺ sits at the other end of the path. - B. ✓ It accepts the electrons at photosystem I, becoming NADPH
- C. It carries protons across the thylakoid membrane to ATP synthaseThe electron transport chain pumps protons.
The protons flow back through ATP synthase on their own; no carrier moves them. - D. It is the chlorophyll that absorbs the light in the two photosystemsThe pigment that absorbs light is chlorophyll.
NADP⁺ is not a pigment.
Why: At photosystem I, light re-energizes the electrons, and they are then transferred to NADP⁺, which becomes NADPH.
So NADP⁺ is the final acceptor of the light reactions' electrons.
With no NADP⁺ available, the electrons have nowhere to go, so the flow slows.
In the stroma of a lit chloroplast, the Calvin cycle attaches carbon dioxide to a molecule and builds a three-carbon sugar from it.
Which of the following supplies the energy and the electrons the Calvin cycle uses to build that sugar?
- A. Light absorbed by chlorophyll in the stromaThe stroma holds no chlorophyll, so no light is absorbed there.
The Calvin cycle uses no light directly. - B. Carbon dioxide, as it is attached to a molecule in the stromaCarbon dioxide supplies the sugar's carbon atoms, not its energy.
Attaching carbon dioxide needs energy rather than releasing it. - C. ✓ ATP and NADPH from the light reactions
- D. Oxygen released when water is splitOxygen is a product of photosynthesis, released when water is split at photosystem II.
The Calvin cycle uses no oxygen.
Why: The Calvin cycle attaches carbon dioxide to a molecule in the stroma: carbon fixation.
Building that carbon into a three-carbon sugar needs energy and electrons.
The light reactions make ATP and NADPH.
ATP supplies the energy and NADPH the electrons.
The Calvin cycle uses no light directly.
A researcher gives illuminated chloroplasts isolated from pea leaves a herbicide that blocks the transfer of electrons along the electron transport chain in the thylakoid membrane. The herbicide does not affect ATP synthase or the enzymes of the Calvin cycle. Two minutes later, carbon fixation is 8% of its rate before the herbicide.
Which of the following best explains why carbon fixation fell?
- A. The blocked electron transport chain released no oxygen, and the Calvin cycle needs oxygen to fix carbonOxygen is a waste product of photosynthesis, released when water is split at photosystem II.
The Calvin cycle uses no oxygen. - B. The Calvin cycle builds the proton gradient itself, so when fixation slowed, ATP synthase made less ATPElectrons passing along the electron transport chain pump the protons that build the proton gradient.
The Calvin cycle uses ATP; it does not make it. - C. ATP synthase kept working at full speed and used up the stroma's ATP faster than the Calvin cycle could take it upATP synthase makes ATP only while protons flow through it.
With the electron transport chain blocked, no protons are pumped, so ATP is made more slowly, not used faster. - D. ✓ Without electron flow no proton gradient built up and no NADPH formed, so the Calvin cycle had too little ATP and NADPH
Why: The Calvin cycle uses ATP and NADPH from the light reactions.
The herbicide blocks electron flow along the electron transport chain.
No protons are pumped, so no proton gradient builds up and little ATP is made.
No electrons reach NADP⁺, so little NADPH is made.
So carbon fixation falls.
Researchers compare the genes in a moss's chloroplast with genes from many organisms. Their closest matches are in free-living cyanobacteria, not in the moss's own nucleus. The chloroplast's light reactions also use photosystems, an electron transport chain and an ATP synthase built to the cyanobacterial plan.
Which claim does this evidence best support?
- A. ✓ The chloroplast descends from a cyanobacterium taken in by an ancestral eukaryotic cell
- B. Cyanobacteria descend from chloroplasts that escaped from moss cells long agoCyanobacteria were photosynthesizing long before mosses or any other plant existed, and a free-living cyanobacterium is a whole cell of its own.
Chloroplasts descend from cyanobacteria, not cyanobacteria from chloroplasts. - C. Mosses and cyanobacteria evolved photosynthesis separately and arrived at the same machineryTwo separate inventions would not be expected to match part for part, and the chloroplast's genes would not be expected to find their closest matches in cyanobacteria.
- D. The moss's nucleus copied its photosynthesis genes into the chloroplastIf the nucleus were the source, the chloroplast's genes would match the nucleus's genes most closely.
They match a cyanobacterium's instead.
Why: A descendant inherits its ancestor's genes and machinery, so matching genes and matching machinery are evidence of descent.
An ancestral eukaryotic cell took in a cyanobacterium and kept it: endosymbiosis.
The chloroplast is that cyanobacterium's descendant, so its genes and machinery match a cyanobacterium's, not the moss's nucleus.
Geologists take a drill core through river-laid rocks. The layers younger than about 2.4 billion years are stained red by rusted iron. The older layers beneath them are gray and hold iron minerals of a kind that survive only where oxygen is absent. Fossils generally taken to be cyanobacteria occur in rocks 2.7 billion years old, and oxygen-releasing photosynthesis is the only process known to make oxygen gas in such quantity.
Which claim do these findings best support?
- A. Oxygen reached today's level about 2.4 billion years ago, when the layers turned redThe red layers show oxygen beginning to reach the iron, not filling the air; oxygen rose a little at first and kept building for over a billion years.
- B. ✓ Oxygen from cyanobacterial photosynthesis began to build up about 2.4 billion years ago
- C. Rusting iron released the first oxygen about 2.4 billion years ago, which cyanobacteria then usedIron rusts when oxygen is already present.
Rusting uses oxygen rather than making it. - D. Respiration by the first animals produced the oxygen about 2.4 billion years agoRespiration uses oxygen rather than making it, and animals appeared far later than 2.4 billion years ago.
Why: Iron rusts only where oxygen is present.
The gray oxygen-free minerals lie below the red layers, so rocks older than 2.4 billion years formed without oxygen.
So oxygen began building up about then.
Cyanobacteria, there by 2.7 billion years ago, released that oxygen.
An archaean from deep-sea mud, a bacterium from yogurt and a maize plant all split glucose by the same ten-step glycolysis, the steps in the same order, and all three make ATP with an ATP synthase built to the same plan.
Which claim does this pattern best support?
- A. Each group evolved the same pathway on its own, because it is the only possible way to split glucoseMany different sequences of reactions could take glucose apart.
There is no reason three separate inventions would land on the same ten steps in the same order. - B. ✓ All three inherited these pathways from a shared ancestor that already had them
- C. The maize plant acquired the pathways from the bacteria at its roots, and the archaean from bacteria in the mudGlycolysis happens in every cell of the maize plant and in archaea that no bacterium touches.
Each organism's own DNA encodes the pathway, so it was inherited, not picked up. - D. The three groups arrived at the same pathway by chanceA ten-step sequence matched exactly in all three domains is not what chance produces.
Why: The three are one organism from each of the three domains.
A complex pathway identical across all three is most simply explained by inheritance from a shared ancestor that already had it.
So their sameness across the domains is evidence for the common ancestry of all living things.
The model shows a section of thylakoid membrane in a chloroplast in the light. The stroma is above the membrane and the thylakoid space below it. X and Y are the two photosystems and Z is ATP synthase. Dashed arrows show the path of electrons; solid arrows show light and the movement of protons. One dashed arrow enters X from the thylakoid space, and one dashed arrow leaves Y into the stroma.
(a) Identify photosystem X, and explain why water is split at X rather than at Y. (1 pt)
Light absorbed by the chlorophyll in X boosts an electron.
The boosted electron leaves X and passes to the electron transport chain, so X must replace it.
Water is the source: water is split, its electrons go to X, its oxygen leaves as O₂, and its hydrogen ions go into the thylakoid space.
Y also loses its boosted electrons, toward NADP⁺, but Y's replacement electrons arrive from the electron transport chain, so Y needs no water.
- Award 1 point for: X is photosystem II, AND light absorbed by X boosts electrons in its chlorophyll and those electrons leave down the electron transport chain, so X must replace them and water is the source (releasing O₂ and H⁺); Y also loses boosted electrons, but Y's replacements arrive from the electron transport chain, so Y needs no water.
- Both halves are required for the point: "X is photosystem II" alone scores 0, and the explanation with no identification scores 0. Accept "X loses electrons to the electron transport chain and refills from water; Y refills from the electron transport chain". Do not award the point for oxygen coming from carbon dioxide.
Slip Naming X and stopping, or saying "X absorbs light". The point needs the reason for the water: X loses electrons to the electron transport chain and refills from water, while Y refills from the electron transport chain.
(b) Explain how the movement of electrons from X to Y leads to ATP being made at Z. (1 pt)
The energy they release pumps protons from the stroma into the thylakoid space.
So protons pile up inside the thylakoid space: a proton gradient across the membrane.
The protons can return to the stroma only through ATP synthase, Z.
Protons flowing down their proton gradient through Z drive the formation of ATP from ADP and inorganic phosphate.
- Award 1 point for: as electrons pass along the electron transport chain from X to Y, the energy they release pumps protons from the stroma into the thylakoid space, building a proton gradient; protons then flow back down the proton gradient into the stroma through ATP synthase (Z), and that flow drives the formation of ATP from ADP and inorganic phosphate (photophosphorylation).
- Accept "chemiosmosis" for the proton flow through Z. Do not award the point for electrons passing through ATP synthase, or for the electron transport chain making ATP directly.
Slip Sending the electrons through ATP synthase, or having the electron transport chain make ATP. Electrons go to Y. Protons pass through Z, and their flow makes the ATP.
(c) Identify the region of the chloroplast where carbon dioxide is fixed into sugar, and explain why carbon fixation stops within seconds when the light is switched off. (1 pt)
The Calvin cycle uses no light itself.
But the Calvin cycle uses the ATP and NADPH that the light reactions supply.
In the dark no electrons are boosted.
So ATP and NADPH stop being made.
The stroma's small supply is used up within seconds.
So carbon fixation stops.
- Award 1 point for: the stroma, AND carbon fixation (the Calvin cycle) uses the ATP and NADPH that the light reactions make; in the dark electrons stop flowing, so ATP and NADPH are no longer made and the small supply is used up within seconds, so carbon fixation stops even though the Calvin cycle uses no light directly.
- Both halves are required for the point: "the stroma" alone scores 0, and the explanation with a location other than the stroma scores 0. Accept "the Calvin cycle needs the products of the light reactions" for the explanation. Do not award the point for "the Calvin cycle needs light" with no mention of ATP or NADPH.
Slip Writing 'the Calvin cycle needs light'. The cycle needs what light makes: ATP and NADPH from the thylakoid membranes. Name them.
(d) A herbicide stops electrons leaving Y. Predict what happens to the amount of oxygen the membrane releases, and justify your prediction using the model. (1 pt)
Electrons leave Y only into the stroma.
With that exit blocked, Y fills with electrons and takes no more from the electron transport chain.
So the electron transport chain fills too, and takes no more electrons from X.
So X loses no electrons.
Water is split only to replace electrons X has lost.
So no water is split, and no oxygen is released.
- Award 1 point for: oxygen release falls (to almost nothing) AND the reasoning: with electrons unable to leave Y, Y and then the electron transport chain fill with electrons, so X can pass none on and loses none; water is split only to replace electrons X has lost, so no water is split and no oxygen is released.
- Both halves are required for the point: the prediction alone scores 0, and the reasoning with no prediction scores 0. Accept any wording of: the electrons back up along the chain, so photosystem II no longer needs electrons from water, so water is not split; for example "the electron's path is one connected chain, so a block at Y stops the flow all the way back to the water". Accept "oxygen release continues briefly, then stops" as the prediction. Do not award the point for "Y releases the oxygen", or for a fall in oxygen with no reasoning through the electron transport chain.
Slip Predicting that oxygen release continues because water is split at X, not at Y. X splits water only to replace electrons it has passed on; with the path blocked at Y, X passes none on.
A sunflower grows in a sealed, clear chamber.
A sensor in the chamber reads the carbon dioxide in the air in parts per million (ppm).
The plant's roots stand in water with dissolved minerals. The chamber air is the plant's only source of carbon.
The researcher supplies the chamber with carbon dioxide made with labeled carbon, ¹³C. After an hour, the plant's new sugar carries the label.
The table shows how the carbon dioxide reading changes in one hour of darkness and in one hour of bright light. The plant respires at the same rate in light and in dark.
The researcher then shuts off the water for three days: a drought. After the three days, the plant's stomata are almost closed.
(a) Calculate the rate at which photosynthesis removes carbon dioxide from the chamber in the hour of light, and explain your working. (1 pt)
In the light the plant respires just as fast.
So the fall of 11 ppm is what photosynthesis removed minus the 5 ppm that respiration put back.
So photosynthesis removed 11 + 5 = 16 ppm of carbon dioxide in the hour.
- Award 1 point for: 11 + 5 = 16 ppm of carbon dioxide per hour, because the plant respires in the light too, releasing 5 ppm per hour, so the measured fall of 11 ppm is photosynthesis minus respiration and the respiration must be added back.
- Accept 16 ppm per hour with the reasoning stated in words. Do not award the point for 11 (the net change) or 6 (respiration subtracted), or for 16 with no explanation of why the dark reading is added.
Slip Reporting 11, the net change, or subtracting to get 6. Respiration continues in the light and hides 5 ppm of photosynthesis every hour. Add it back.
(b) Explain how the labeled carbon demonstrates that the carbon in the plant's new sugar comes from the carbon dioxide in the chamber air. (1 pt)
The plant's enzymes treat ¹³C like ordinary carbon.
So the labeled carbon follows the path every carbon atom from carbon dioxide takes.
The label appeared in the new sugar.
So the carbon in the sugar came from the carbon dioxide.
- Award 1 point for: the label was supplied only in the carbon dioxide AND it appeared in the plant's new sugar, so the sugar's carbon came from the carbon dioxide (enzymes treat labeled carbon like ordinary carbon, so the label traces the path of all the carbon from carbon dioxide).
- Accept "the labeled carbon could only have come from the carbon dioxide". Do not award the point for restating that plants use carbon dioxide with no use of the label, or for the carbon coming from the minerals or the water.
Slip Writing that plants take in carbon dioxide, with no use of the label. The point is the evidence: the label was only in the carbon dioxide, and it turned up in the sugar.
(c) Make a claim about the effect of the drought on the plant's sugar production. (1 pt)
- Award 1 point for: a correct, specific claim: sugar production falls (or nearly stops) during the drought.
- Make a claim earns the point for the assertion; the reasoning is scored in part (d). Accept "carbon fixation slows". Do not award the point for a claim with no direction word, or for sugar production rising or staying the same because the light is bright.
Slip Claiming that sugar output holds up because the plant is still in bright light. Light is only half of what photosynthesis needs; the carbon has to come in through the stomata.
(d) The light is as bright as before, and the leaves' chlorophyll absorbs it normally. Support your claim: identify which of the Calvin cycle's needs the almost-closed stomata change, and explain how that change alters the plant's sugar production. (1 pt)
Carbon dioxide enters the leaf only through the stomata.
With the stomata almost closed, little carbon dioxide reaches the stroma.
Light and water still reach the leaf, so the light reactions still make ATP and NADPH.
So carbon dioxide is the one need the stomata change.
The Calvin cycle fixes little carbon, so it builds less sugar.
- Award 1 point for: identifying carbon dioxide as the need the stomata change (carbon dioxide enters the leaf only through the stomata, so with the stomata almost closed little carbon dioxide reaches the stroma) AND the explanation that links it to the claim: the Calvin cycle fixes little carbon, so it builds less sugar, however much ATP and NADPH the light reactions supply.
- Both halves are required for the point: naming carbon dioxide alone scores 0, and an explanation that never reaches sugar production scores 0. Accept a note that ATP and NADPH pile up unused, or that the stomata close to save water. Water for the light reactions reaches the leaf from the roots, not through the stomata, so an answer naming water alone as what the stomata cut off earns no point; water may be mentioned alongside carbon dioxide. Do not award the point for blaming the light reactions or the chlorophyll, which the task says are working.
Slip Naming water as what the stomata cut off. Water reaches the leaf from the roots. Carbon dioxide comes in through the stomata, so that is the need the drought cuts, and the Calvin cycle is the process that slows.
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