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APBIO-U01-L01 Bonds and partial charges

Topic 1.1 · Structure of Water and Hydrogen Bonding · 44 steps

A droplet of water falling into a pool, with blood, sweat on skin and a tall tree beside it
A droplet of water falling into a pool, with blood, sweat on skin and a tall tree beside it

Here is a droplet of water falling into a pool. Beside it: blood, sweat on skin, and a tall tree.

About 60% of your body is water. Your blood is mostly water, carrying oxygen and sugar around your body. When you sweat, evaporating water carries heat away. A tree lifts water to its highest leaves with no pump.

Every one of those behaviors comes from the way one water molecule is built and the way it holds on to its neighbors.

To understand this, we need to look at how the atoms inside that one molecule are bonded together.

Unit 1 · Chemistry of Life

1Two atoms sharing electrons

2

Video: Watch first: water in blood, sweat and a tall tree

A droplet falling into a pool, blood, sweat on skin and a tree lifting water: what one small molecule does.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-T11-intro.mp4

3

Video: Watch: Bonds and partial charges

Two atoms share a pair of electrons; when one atom pulls harder, the bond gets a slightly negative end and a slightly positive end.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L01.mp4

4

Around the outside of every atom are tiny particles called electrons.

5

Here are two hydrogen atoms. One pair of electrons sits between them, and both atoms attract it. The two atoms are joined.

Two hydrogen atoms with one pair of electrons between them
Two hydrogen atoms with one pair of electrons between them
6

Here are an oxygen atom and a hydrogen atom. Again one pair of electrons sits between them, held by both. They are joined.

An oxygen atom and a hydrogen atom with one pair of electrons between them, sitting closer to the oxygen
An oxygen atom and a hydrogen atom with one pair of electrons between them, sitting closer to the oxygen
7

A carbon atom and a hydrogen atom: the same again. One shared pair, two atoms joined.

A carbon atom and a hydrogen atom with one pair of electrons between them
A carbon atom and a hydrogen atom with one pair of electrons between them
8

Now a sodium atom beside a chlorine atom. The chlorine takes one electron from the sodium completely. Nothing is shared.

A sodium atom and a chlorine atom: one electron moves across completely
A sodium atom and a chlorine atom: one electron moves across completely
9

In the first three pairs, a pair of electrons is shared. When a shared pair of electrons holds two atoms together, we call it a .

10

Sodium and chlorine share nothing, so there is no covalent bond between them.

11

What you are expected to know Pick out a covalent bond in a drawing: a pair of electrons sitting between two atoms and held by both.

12
Check q1

Two pairs of atoms are drawn, P and Q.

Two drawn pairs of atoms, labelled P and Q
Two drawn pairs of atoms, labelled P and Q

Which pair is joined by a covalent bond?

  1. A. ✓ P only
  2. B. Q only
    In Q the electron has moved across from K to F completely, so nothing is shared and there is no covalent bond.
  3. C. Both P and Q
    Only one of the two drawings shows a pair of electrons sitting between two atoms and held by both.
  4. D. Neither P nor Q
    One of the two drawings does show a shared pair.

Why: In P a pair of electrons sits between the two atoms and both attract it: a covalent bond.
In Q the electron moved across completely, so nothing is shared.

13An electron moves completely: ions

14

Back to sodium and chlorine. Electrons carry a negative charge, and one electron has moved from the sodium to the chlorine.

15

The sodium has lost one electron, so it is now positive.

16

The chlorine has gained one electron, so it is now negative.

17

Each now carries a whole unit of charge, a . We write the sodium ion Na⁺ and the chloride ion Cl⁻.

After the transfer: a positive sodium ion and a negative chlorine ion, attracting each other
After the transfer: a positive sodium ion and a negative chlorine ion, attracting each other
18

When an atom has lost or gained an electron and carries a full charge like this, we call it an .

19

Opposite charges attract, so the two ions pull toward each other.

20

What you are expected to know Say what happens when one atom takes an electron completely from another: the atom that lost it becomes a positive ion, and the atom that gained it becomes a negative ion.

21
Check q2

A lithium atom hands one electron to a fluorine atom. The electron moves across completely.

What are the two atoms now?

  1. A. Lithium is a negative ion; fluorine is a positive ion.
    Electrons are negative, so the atom that loses one becomes positive and the atom that gains one becomes negative.
  2. B. ✓ Lithium is a positive ion; fluorine is a negative ion.
  3. C. Lithium and fluorine are both uncharged atoms joined by a covalent bond.
    A covalent bond needs a pair of electrons held by both atoms, and here the electron moved across completely.
  4. D. Lithium and fluorine are both positive ions, since both took part in the transfer.
    Electrons are negative, so the atom that loses one becomes positive and the atom that gains one becomes negative.

Why: Electrons are negative.
Lithium lost one, so it is now a positive ion, Li⁺.
Fluorine gained one, so it is now a negative ion, F⁻.

22Who pulls the shared electrons harder

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In a covalent bond, sharing is not always equal.

24

In the H–H bond the two hydrogen atoms pull on the shared pair equally, so the pair sits in the middle.

H–H: both atoms pull equally, so the shared pair sits in the middle
H–H: both atoms pull equally, so the shared pair sits in the middle
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In the O–H bond the oxygen pulls the shared pair harder than the hydrogen does, so the pair sits closer to the oxygen.

O–H: the oxygen pulls harder, so the shared pair sits closer to it
O–H: the oxygen pulls harder, so the shared pair sits closer to it
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How hard an atom pulls on shared electrons is called its : electro because it is about electrons, negativity because electrons carry a negative charge.

27

Of the atoms here, oxygen pulls hardest, then nitrogen. Carbon and hydrogen pull about equally, and least.

Oxygen pulls shared electrons hardest, then nitrogen; carbon and hydrogen pull about equally
Oxygen pulls shared electrons hardest, then nitrogen; carbon and hydrogen pull about equally
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When the two atoms pull about equally, like H–H or C–H, the two ends of the bond are alike. We call it a .

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When one atom pulls harder, like the oxygen in O–H, the two ends of the bond are different, like the two poles of a magnet. We say the bond is : a .

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What you are expected to know Classify a drawn covalent bond as polar or nonpolar from which atom pulls the shared electrons harder.

31
Check q3

Nitrogen pulls shared electrons harder than hydrogen does.

What kind of bond is an N–H bond?

  1. A. A nonpolar covalent bond
    Nitrogen pulls the shared pair harder than hydrogen, so the sharing is uneven.
  2. B. Two ions, with nothing shared
    The pair is still shared, only pulled closer to the nitrogen; neither atom has taken an electron completely, so neither is an ion.
  3. C. ✓ A polar covalent bond
  4. D. No bond: the atoms are not joined
    The pair of electrons still sits between the two atoms and holds them together.

Why: Nitrogen pulls the shared pair harder than hydrogen does.
Uneven sharing makes the bond a polar covalent bond.

32
Check q4

Carbon and hydrogen pull on shared electrons about equally.

What kind of bond is a C–H bond?

  1. A. A polar covalent bond
    Carbon and hydrogen pull on the shared pair about equally, so the pair sits in the middle and the two ends of the bond are alike.
  2. B. Two ions, with nothing shared
    Carbon and hydrogen share the pair; neither has taken an electron completely, so neither is an ion.
  3. C. No bond: the atoms are not joined
    A pair of electrons shared by two atoms is exactly what holds them together.
  4. D. ✓ A nonpolar covalent bond

Why: The two atoms pull about equally, so the shared pair sits in the middle: a nonpolar covalent bond.

33Partial charges

34

In the O–H bond the shared pair sits closer to the oxygen. Electrons are negative, so the oxygen end is slightly negative.

35

The hydrogen end, with the pair pulled away from it, is slightly positive.

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These small charges are called , because each is only part of a full charge. We mark them δ− and δ+: δ− for slightly negative, δ+ for slightly positive.

An O–H bond: the oxygen is slightly negative, the hydrogen slightly positive
An O–H bond: the oxygen is slightly negative, the hydrogen slightly positive
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Compare Na⁺: a full charge, because a whole electron moved. The oxygen in O–H: only a partial charge, because the pair is still shared.

A full charge on an ion beside a partial charge on a polar bond
A full charge on an ion beside a partial charge on a polar bond
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A partial charge is much smaller than a full charge. Neither atom in a polar bond is an ion.

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What you are expected to know Mark δ− on the atom that pulls harder and δ+ on the other, and say that these partial charges are much smaller than the full charge on an ion.

40
Check q5

Oxygen pulls shared electrons harder than carbon does.

Which labels fit a C–O bond?

  1. A. C is δ−, O is δ+
    The atom that pulls harder gathers the shared pair and becomes slightly negative, and here that is the oxygen.
  2. B. ✓ C is δ+, O is δ−
  3. C. C is a positive ion, O is a negative ion
    The pair is still shared, so each atom carries only a small partial charge; neither is an ion.
  4. D. Neither atom carries any charge
    When one atom pulls the shared pair harder, that end becomes slightly negative and the other slightly positive.

Why: Oxygen pulls the shared pair harder, so it is slightly negative, δ−.
The carbon is left slightly positive, δ+.

41
Check q6

A student looks at an O–H bond and says: “Oxygen pulls harder, so the oxygen atom is a negative ion.”

What is wrong with this statement?

  1. A. Nothing: polar means the atoms are ions.
    A polar bond carries partial charges, far smaller than the full charge on an ion; the pair of electrons is still shared.
  2. B. Oxygen should be slightly positive, because the atom that pulls harder gives up its electrons.
    The atom that pulls harder draws the shared pair toward itself and becomes slightly negative, not positive.
  3. C. Oxygen has no charge at all; only the hydrogen carries a charge.
    Drawing the shared pair closer makes the oxygen slightly negative and the hydrogen slightly positive; both carry a partial charge.
  4. D. ✓ Oxygen is only slightly negative; the pair is still shared, so it is not an ion.

Why: The pair of electrons is still shared, only pulled closer to the oxygen.
So the oxygen carries a partial charge, δ−, and is not an ion.

42

A water molecule, H₂O, is one oxygen atom joined to two hydrogen atoms by two O–H bonds.

A water molecule: two O–H covalent bonds
A water molecule: two O–H covalent bonds
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The bonds between oxygen and hydrogen in every water molecule in your blood, your sweat and that tree are polar bonds like these.

Glossary

covalent bond
A pair of electrons shared between two atoms, holding them together.
full charge
A whole unit of charge, positive or negative, carried by an atom that has lost or gained an electron.
ion
An atom that has lost or gained an electron and so carries a full charge; Na⁺ and Cl⁻ are ions.
electronegativity
How hard an atom pulls on the electrons it shares in a covalent bond. Oxygen pulls hardest of the atoms here, then nitrogen; carbon and hydrogen pull about equally.
polar
Having two different ends: a slightly negative end and a slightly positive end, because a shared pair of electrons is pulled more toward one atom. O–H is a polar bond; water is a polar molecule.
nonpolar covalent bond
A covalent bond in which the two atoms pull about equally on the shared pair, such as H–H or C–H.
polar covalent bond
A covalent bond in which one atom pulls the shared pair harder than the other, such as O–H.
partial charge
A small charge, much smaller than the full charge on an ion, on each end of a polar covalent bond. Marked δ− on the atom that pulls the shared electrons harder and δ+ on the other.

APBIO-U01-L02 The hydrogen bond

Topic 1.1 · Structure of Water and Hydrogen Bonding · 42 steps

A kettle boiling, with steam rising from its spout
A kettle boiling, with steam rising from its spout

Here is a kettle boiling. The steam is water molecules that have finally been pulled away from one another.

Something was holding them together.

Unit 1 · Chemistry of Life

1Why a water molecule is polar

2

Video: Watch: The hydrogen bond

A water molecule’s partial charges, the attraction between one molecule and the next, and why steam takes so much heating.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L02.mp4

3
Check q1

Quick recall: in an O–H bond, one of the two atoms pulls the shared electrons harder.

Which atom pulls harder, and so is δ−?

  1. A. ✓ The oxygen
  2. B. The hydrogen
    Oxygen pulls the shared pair harder, so the pair sits closer to the oxygen, and the hydrogen is left δ+.

Why: Oxygen pulls the shared pair harder, so the pair sits closer to it; electrons are negative, so the oxygen is δ− and the hydrogen δ+.

4

A water molecule, H₂O, is one oxygen atom joined to two hydrogen atoms by two O–H bonds.

A water molecule: one oxygen atom joined to two hydrogen atoms by two O–H bonds
A water molecule: one oxygen atom joined to two hydrogen atoms by two O–H bonds
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Both O–H bonds are polar: in each one, the oxygen pulls the shared pair harder than the hydrogen does, because its is higher.

6

So the oxygen end of the molecule is slightly negative, δ−, and each hydrogen is slightly positive, δ+.

A water molecule: the oxygen slightly negative, each hydrogen slightly positive
A water molecule: the oxygen slightly negative, each hydrogen slightly positive
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Of the three atoms in a water molecule, only the oxygen is δ−. Both hydrogens are δ+.

8

When a molecule has a slightly negative end and slightly positive ends like this, we call it a , because its two ends are different. Water is polar.

9

What you are expected to know Explain why a water molecule is polar: oxygen pulls the shared electrons of each O–H bond harder than hydrogen does, so the oxygen is δ− and each hydrogen δ+.

10
Check q2

Why is the oxygen in a water molecule slightly negative?

  1. A. Oxygen has taken an electron completely from each hydrogen.
    Oxygen has not taken any electron completely; the pairs are still shared, so the oxygen carries only a partial charge, not the full charge of an ion.
  2. B. Oxygen has more electrons than hydrogen, and electrons are negative.
    A neutral oxygen atom has as many protons as electrons, so having more electrons than hydrogen gives it no charge; the partial charge comes from where a shared pair sits.
  3. C. ✓ Oxygen pulls the shared electrons in each O–H bond harder than hydrogen.
  4. D. Hydrogen pulls the shared electrons harder and pushes them onto the oxygen.
    It is the oxygen, not the hydrogen, that pulls harder; nothing is pushed.

Why: In each O–H bond the oxygen pulls the shared pair closer to itself.
Electrons are negative, so the oxygen end becomes slightly negative.

11
Check q3

In one water molecule, how many atoms are slightly negative?

  1. A. None
    Each O–H bond is polar, so its atoms do carry partial charges.
  2. B. ✓ One: the oxygen
  3. C. Two: the hydrogens
    The atom that pulls the shared pair harder becomes δ−, and that is the oxygen, not the hydrogens.
  4. D. All three
    A polar bond has one δ− end and one δ+ end, so not every atom can be negative.

Why: The oxygen pulls the shared pair of each O–H bond harder, so it alone is δ−.
Both hydrogens are δ+.

12Mark the partial charges

13

Take a sheet of paper and draw a water molecule: an O in the middle, and two H atoms joined to it by two lines.

14

Now mark the partial charges: δ− beside the oxygen, δ+ beside each hydrogen. Then continue.

15

Check your drawing against this one: δ− on the oxygen, δ+ on both hydrogens, one line for each O–H bond.

The marked water molecule to check a drawing against
The marked water molecule to check a drawing against
16

The same marking works for any O–H bond. Here an –OH group sits on the end of a larger molecule. Its oxygen is δ−, its hydrogen δ+.

An –OH group on the end of a larger molecule: its oxygen δ−, its hydrogen δ+
An –OH group on the end of a larger molecule: its oxygen δ−, its hydrogen δ+
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For any polar bond, put δ− on the atom that pulls the shared electrons harder and δ+ on the other.

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What you are expected to know Label a drawn water molecule with δ− on the oxygen and δ+ on each hydrogen, and mark another drawn polar bond the same way from which atom pulls harder.

19
Check q4

Four students marked the partial charges on a water molecule.

Four drawings of a water molecule, marked W, X, Y and Z
Four drawings of a water molecule, marked W, X, Y and Z

Which drawing is marked correctly?

  1. A. W
    W has δ+ on the oxygen and δ− on the hydrogens, the reverse of the real charges; oxygen pulls the shared pairs harder, so it is the δ− atom.
  2. B. X
    X marks only one hydrogen; both O–H bonds are polar, so both hydrogens are δ+.
  3. C. Y
    Y uses full charges, + and −; the pairs are still shared, so the charges are partial.
  4. D. ✓ Z

Why: Z has δ− on the oxygen and δ+ on each hydrogen: one mark for each atom, all of them partial charges.

20
Check q5

Nitrogen pulls shared electrons harder than hydrogen does. An N–H group sits on the end of a larger molecule, with its atoms numbered 1 (the N) and 2 (the H).

An N–H group on the end of a larger molecule, its two atoms numbered 1 and 2
An N–H group on the end of a larger molecule, its two atoms numbered 1 and 2

Which marks belong at 1 and 2?

  1. A. ✓ 1: δ−, 2: δ+
  2. B. 1: δ+, 2: δ−
    The atom that pulls the shared pair harder becomes δ−, and here that is the nitrogen.
  3. C. 1: −, 2: +
    The pair is still shared, so both charges are partial, not the full charges of ions.
  4. D. 1: δ−, 2: δ−
    A polar bond has one δ− end and one δ+ end, never two δ− ends.

Why: Nitrogen pulls the shared pair harder, so it is δ−.
The hydrogen, with the pair pulled away from it, is δ+.

21
Check q6

Here is a molecule of ethanol, the alcohol in wine. Solid lines are covalent bonds. Carbon and hydrogen pull on shared electrons about equally; oxygen pulls harder than either. Three of the atoms are numbered 1, 2 and 3.

A molecule of ethanol drawn in full, with three of its atoms numbered 1, 2 and 3
A molecule of ethanol drawn in full, with three of its atoms numbered 1, 2 and 3

Which marks belong at 1, 2 and 3?

  1. A. 1: δ−, 2: δ+, 3: δ+
    The hydrogen at 3 is bonded to a carbon, and carbon and hydrogen pull about equally, so that bond is nonpolar and the hydrogen carries no partial charge.
  2. B. ✓ 1: δ−, 2: δ+, 3: no partial charge
  3. C. 1: δ+, 2: δ−, 3: no partial charge
    The atom that pulls the shared pair harder becomes δ−, and in the O–H bond that is the oxygen.
  4. D. 1: −, 2: +, 3: no charge
    The pair in the O–H bond is still shared, so the charges are partial, not the full charges of ions.

Why: Only the O–H bond in ethanol is polar.
Oxygen pulls that shared pair harder, so the oxygen at 1 is δ− and the hydrogen at 2 is δ+.
The hydrogen at 3 is bonded to a carbon; carbon and hydrogen pull about equally, so it carries no partial charge.

22The attraction between molecules: the hydrogen bond

23

Put two water molecules side by side. A δ+ hydrogen of one sits near the δ− oxygen of the other.

Two water molecules side by side: a slightly positive hydrogen of one near the slightly negative oxygen of the other
Two water molecules side by side: a slightly positive hydrogen of one near the slightly negative oxygen of the other
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Opposite charges attract. The δ+ hydrogen is pulled toward the δ− oxygen, and the two water molecules are held together.

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When a δ+ hydrogen is attracted to a δ− oxygen on a neighboring molecule like this, we call the attraction a , because a hydrogen atom is always at one end of it.

Two water molecules: solid lines are covalent bonds inside each molecule, the dashed line between them is a hydrogen bond
Two water molecules: solid lines are covalent bonds inside each molecule, the dashed line between them is a hydrogen bond
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The solid lines inside each molecule are covalent bonds: shared pairs of electrons. The dashed line between the molecules is the hydrogen bond.

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The δ+ hydrogen must be bonded to an oxygen or a nitrogen. What it is attracted to is a δ− oxygen or nitrogen.

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A very large molecule can fold so that two distant parts of it come close. A hydrogen bond can then form within that one molecule.

A long molecule folded back on itself, with a hydrogen bond between two distant parts of it: a hydrogen bonded to a nitrogen on one arm is attracted to an oxygen on the other arm
A long molecule folded back on itself, with a hydrogen bond between two distant parts of it: a hydrogen bonded to a nitrogen on one arm is attracted to an oxygen on the other arm
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What you are expected to know Pick out a hydrogen bond in a drawing: a δ+ hydrogen attracted to a δ− oxygen or nitrogen, on a neighboring molecule or on a distant part of the same large molecule. Tell it apart from the covalent bonds inside a molecule.

30
Check q7

Two water molecules are drawn, with two of the lines marked X and Y.

Two water molecules with two of the lines marked X and Y
Two water molecules with two of the lines marked X and Y

What are X and Y?

  1. A. X and Y are both covalent bonds.
    The dashed line Y runs between two molecules, and no pair of electrons is shared between molecules.
  2. B. X and Y are both hydrogen bonds.
    The solid line X sits inside one molecule, where the oxygen and hydrogen share a pair of electrons: a covalent bond.
  3. C. ✓ X is a covalent bond; Y is a hydrogen bond.
  4. D. X is a hydrogen bond; Y is a covalent bond.
    A solid line inside one molecule is a covalent bond and a dashed line between molecules is a hydrogen bond, not the other way around.

Why: X sits inside one molecule, where the atoms share a pair of electrons: a covalent bond.
Y runs from a δ+ hydrogen to the δ− oxygen of the neighboring molecule: a hydrogen bond.

31
Check q8

A long molecule has folded back on itself. A hydrogen bonded to a nitrogen on one arm sits close to an oxygen on the other arm. The dashed line between them is marked with a question mark.

A long molecule folded back on itself, with a dashed line marked between two of its atoms
A long molecule folded back on itself, with a dashed line marked between two of its atoms

Is the dashed line a hydrogen bond?

  1. A. No: hydrogen bonds form only between separate molecules.
    A hydrogen bond can form between two distant parts of one large molecule once it folds and brings them close.
  2. B. No: it must be a covalent bond, because both atoms sit inside the same molecule.
    A covalent bond is a shared pair of electrons between neighboring atoms, and the dashed line is an attraction between partial charges on two distant parts of the chain.
  3. C. Yes, but only if the molecule is water.
    Hydrogen bonds are not limited to water: any δ+ hydrogen bonded to an oxygen or nitrogen can be attracted to a δ− oxygen or nitrogen.
  4. D. ✓ Yes: a δ+ hydrogen attracted to a δ− oxygen, even within one molecule.

Why: Nitrogen pulls the shared pair harder than hydrogen, so that hydrogen is δ+.
It is attracted to the δ− oxygen on the other arm.
That attraction is a hydrogen bond, here within one molecule.

32Weak one at a time, strong together

33

One hydrogen bond is far weaker than a covalent bond. Pulling two water molecules apart takes far less energy than pulling an O–H bond apart.

34

In liquid water the molecules are always moving. As they slide past one another, hydrogen bonds break and new ones form.

Molecules in liquid water: hydrogen bonds break and new ones form as the molecules move
Molecules in liquid water: hydrogen bonds break and new ones form as the molecules move
35

But even a small glass of water holds an enormous number of hydrogen bonds. Together, they hold the molecules to one another strongly.

36

Boil the water, and the molecules move fast enough to break free of their hydrogen bonds. They leave as steam.

37

The covalent O–H bonds inside each molecule stay intact. The steam is still made of whole water molecules.

Boiling: whole water molecules leave the liquid, their covalent bonds intact
Boiling: whole water molecules leave the liquid, their covalent bonds intact
38

What you are expected to know One hydrogen bond is much weaker than a covalent bond. In liquid water, hydrogen bonds keep breaking and re-forming. Very many of them together hold water molecules to one another strongly.

39
Check q9

In liquid water, nearly every molecule is hydrogen-bonded to neighbors at any instant, yet each hydrogen bond lasts only a tiny fraction of a second.

What does this tell you about the hydrogen bonds?

  1. A. ✓ Hydrogen bonds are weak, so they break as molecules move, and new ones form at once.
  2. B. Hydrogen bonds are as strong as covalent bonds, which is why every molecule has partners.
    A bond that lasts only a fraction of a second is weak, far weaker than a covalent bond.
  3. C. Once one breaks, that molecule stays free of hydrogen bonds for good.
    If broken bonds never re-formed, most molecules would soon have no partners, yet nearly all of them are bonded at every instant.
  4. D. The covalent O–H bonds inside each molecule are breaking and re-forming.
    The O–H covalent bonds inside each molecule stay intact; it is the hydrogen bonds between molecules that break and re-form.

Why: Each hydrogen bond is weak, so it breaks as the molecules move, and a new one forms at once with the next neighbor.
That is why every molecule is bonded at every instant even though no single bond lasts.

40
Check q10

Water boils at 100 °C. Another liquid, whose molecules are about the same size but are nonpolar, boils at −60 °C.

Why does water need so much more heating to boil?

  1. A. Water’s O–H covalent bonds must be broken before the liquid can boil, and they are strong.
    The O–H covalent bonds inside each molecule stay intact when water boils; steam is still whole water molecules.
  2. B. ✓ Hydrogen bonds make water’s molecules attract one another more than the nonpolar liquid’s do.
  3. C. Water’s molecules are lighter than the other liquid’s, so they attract one another more.
    How much molecules attract one another is not set by their weight.
  4. D. Electrons move between water molecules, forming ions that hold the liquid together.
    No electrons move between water molecules and no ions form; the δ+ hydrogens are simply attracted to δ− oxygens.

Why: Boiling means pulling the molecules apart from one another.
In water that means breaking a very large number of hydrogen bonds, which takes far more heating than separating molecules held only by the weaker attractions in a nonpolar liquid.

41

The steam is molecules whose hydrogen bonds finally gave way; the covalent bonds inside each molecule are untouched.

Glossary

electronegativity
How hard an atom pulls on the electrons it shares in a covalent bond. Oxygen pulls harder than hydrogen, so the shared pair of an O–H bond sits closer to the oxygen.
polar
Having two different ends: a slightly negative end and a slightly positive end. An O–H bond is polar because the oxygen pulls the shared pair harder; a water molecule is polar because its oxygen is δ− and its hydrogens δ+.
hydrogen bond
The attraction between a δ+ hydrogen (bonded to an oxygen or nitrogen) and a δ− oxygen or nitrogen on a neighboring molecule, or on a distant part of the same large molecule. Much weaker than a covalent bond.

APBIO-U01-L03 Water sticks to itself and to other things

Topic 1.1 · Structure of Water and Hydrogen Bonding · 47 steps

A water strider standing on a pond, and a tall tree with a thin unbroken thread of water drawn inside its trunk
A water strider standing on a pond, and a tall tree with a thin unbroken thread of water drawn inside its trunk

Here is an insect called a water strider, standing on a pond, and a tree with a thin thread of water climbing inside its trunk.

The water strider’s feet press the surface and do not go through. The tree lifts water from its roots to its highest leaves as one unbroken thread, with no pump.

Unit 1 · Chemistry of Life

1Water holds on to itself: cohesion

2

Video: Watch: Water sticks to itself and to other things

A glass filled past the brim, water climbing a glass tube but not a waxed one, and an insect standing on a pond.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L03.mp4

3
Check q1

Quick recall: water molecules are attracted to one another.

What is the attraction between one water molecule and the next called?

  1. A. ✓ A hydrogen bond
  2. B. A covalent bond
    A covalent bond is a shared pair of electrons inside one molecule; between two water molecules no electrons are shared.
  3. C. An ionic bond
    No electrons have moved between the water molecules, so there are no ions to attract one another.

Why: The δ+ hydrogen of one water molecule is attracted to the δ− oxygen of the next: a hydrogen bond.

4

Fill a glass right to the brim, then add a few more drops. The water bulges above the rim instead of spilling over.

A glass filled past the brim: the water bulges above the rim without spilling
A glass filled past the brim: the water bulges above the rim without spilling
5

The molecules at the top are held by hydrogen bonds to the molecules beside and beneath them. They stay together.

6

When water sticks to water like this, we call it .

7

Pull a thread of water up a narrow tube and it moves as one unbroken column, each molecule held to the next.

A thread of water in a narrow tube: each molecule held to the next by a hydrogen bond from one of its hydrogens to the oxygen of the next molecule
A thread of water in a narrow tube: each molecule held to the next by a hydrogen bond from one of its hydrogens to the oxygen of the next molecule
8

What you are expected to know Explain that water molecules stick to one another because hydrogen bonds form between them, and call this sticking of water to water cohesion.

9
Check q2

A thin thread of water is pulled up a narrow tube. The pull at the top carries all the way down the thread, yet each molecule’s nearest neighbors keep changing.

What holds the thread together?

  1. A. Covalent bonds between neighbors that never break
    Covalent bonds hold the atoms inside one molecule; they do not join one water molecule to the next.
  2. B. ✓ Hydrogen bonds between neighbors that keep swapping partners
  3. C. Hydrogen bonds between neighbors that never break
    Hydrogen bonds in liquid water break and re-form constantly as the molecules move, which is why the neighbors keep changing.
  4. D. Covalent bonds between neighbors that keep swapping partners
    Covalent bonds hold the atoms inside one molecule; they do not join one water molecule to the next.

Why: Neighboring water molecules are held together by hydrogen bonds.
Each hydrogen bond is weak and keeps swapping partners, but together they pass the pull down the whole thread: cohesion.

10
Check q3

A glass is filled past the brim, and the water stands in a bulge above the rim.

Why does the water at the top stay in place?

  1. A. ✓ Hydrogen bonds hold each surface molecule to the molecules around it.
  2. B. The glass pulls the water inward toward its center.
    The bulge stands above the rim, where there is no glass beside it.
  3. C. The water molecules push against the air above them.
    Nothing pushes the water up; the molecules at the top are held by hydrogen bonds to the molecules beside and beneath them.
  4. D. The covalent bonds inside each molecule hold the surface up.
    Covalent bonds hold an oxygen and its two hydrogens together inside one molecule; holding one molecule to the next is done by hydrogen bonds.

Why: Each molecule at the top is held by hydrogen bonds to its neighbors beside and beneath it.
Water sticking to water: cohesion.

11Water holds on to other things: adhesion

12

Water also holds on to surfaces other than water, when that surface carries charges or partial charges.

13

The surface of glass carries partial charges. Water molecules hydrogen-bond to it and hold on: a δ+ hydrogen of each molecule is attracted to a δ− spot on the glass.

Water molecules holding on to a glass surface by hydrogen bonds: the glass surface is slightly negative, each hydrogen facing it slightly positive
Water molecules holding on to a glass surface by hydrogen bonds: the glass surface is slightly negative, each hydrogen facing it slightly positive
14

When water sticks to something other than water, we call it .

15

Stand a narrow glass tube in water. The water climbs up inside it, higher at the glass than in the middle: adhesion pulls the edge of the water up the glass.

Water climbs the inside of a narrow glass tube, higher at the glass than in the middle
Water climbs the inside of a narrow glass tube, higher at the glass than in the middle
16

Coat the inside of a tube with wax. Wax is nonpolar: no charges, no partial charges, nothing for water to hold on to. The water barely rises.

Water climbs high in a glass tube but barely rises in a wax-coated tube
Water climbs high in a glass tube but barely rises in a wax-coated tube
17

Cohesion is water to water. Adhesion is water to another surface that carries charges or partial charges.

18

What you are expected to know Explain that water sticks to a surface carrying charges or partial charges by hydrogen-bonding to it, call this adhesion, and keep it apart from cohesion, which is water to water.

19
Check q4

Two identical narrow tubes stand in a dish of water. One is glass. The inside of the other is coated with wax, which is nonpolar. Water climbs high in the glass tube and barely rises in the waxed one.

Why?

  1. A. Wax weakens the hydrogen bonds between the water molecules.
    The water in both tubes is the same; what differs is the tube wall.
  2. B. The waxed tube holds less water because the wax takes up space.
    A thin coat of wax leaves almost the same space inside the tube.
  3. C. Wax pushes the water back down toward the dish.
    Wax does nothing to the water; it simply offers no partial charges.
  4. D. ✓ Water can hydrogen-bond to glass but has nothing to hold on to on wax.

Why: Climbing a tube needs adhesion to the tube wall.
Glass carries partial charges that water hydrogen-bonds to; wax carries none, so the water cannot hold on and barely rises.

20
Check q5

After a shower, drops of water cling to the glass of the mirror and stay there.

What is the attraction between the water and the glass called?

  1. A. Cohesion
    Cohesion is water sticking to water, and here the water is sticking to glass.
  2. B. A covalent bond
    No electrons are shared between the water and the glass.
  3. C. ✓ Adhesion
  4. D. A full charge
    A full charge is a kind of charge, not an attraction.

Why: Water holding on to something other than water is adhesion: the molecules hydrogen-bond to the partial charges on the glass.

21The surface holds together: surface tension

22

A water molecule deep inside the liquid has neighbors on every side. Hydrogen bonds pull it equally in every direction.

23

A molecule at the surface has neighbors beside it and beneath it, but none above.

A water molecule inside the liquid is pulled from every side, while a molecule at the surface is pulled only sideways and downward
A water molecule inside the liquid is pulled from every side, while a molecule at the surface is pulled only sideways and downward
24

So its hydrogen bonds pull it sideways and inward. The surface molecules are drawn tightly together, and the surface holds together.

25

When the surface of water is pulled tight like this and resists being broken, we call it , because the surface is under tension: pulled tight.

26

An insect called a water strider can stand on water. The water strider’s feet press down on the surface but do not break through. The tightly held surface holds it up.

A water strider on the surface: its feet press the taut surface layer but do not break through
A water strider on the surface: its feet press the taut surface layer but do not break through
27

What you are expected to know Explain why the surface of water holds together and resists being broken (a surface molecule has no neighbors above, so its hydrogen bonds pull it sideways and inward), and call this surface tension.

28
Check q6

Why is a water molecule at the surface pulled inward, toward the rest of the liquid?

  1. A. A surface molecule has more neighbors than a molecule deep inside.
    A surface molecule has fewer neighbors, not more: none above it.
  2. B. A surface molecule’s covalent bonds are stronger than those deep inside.
    The covalent bonds are the same everywhere in the liquid; the difference at the surface is in the hydrogen bonds to neighbors.
  3. C. The air above a surface molecule presses it down into the liquid.
    The inward pull comes from the water’s own hydrogen bonds, not from the air.
  4. D. ✓ A surface molecule has neighbors beside and beneath it, but none above.

Why: With no neighbors above, a surface molecule’s hydrogen bonds pull it only sideways and inward.
That draws the surface molecules tightly together: surface tension.

29Which property is at work?

30

Cohesion, adhesion and surface tension are the same hydrogen bond doing different work.

31

The three properties:
• Cohesion: water holding on to water.
• Adhesion: water holding on to another surface that carries charges or partial charges.
• Surface tension: the surface molecules pulled tightly together, so the surface holds together and resists being broken.

32

Water climbing a paper towel needs both: adhesion to hold on to the fibers, and cohesion to drag the rest of the water up behind.

Water climbing a paper towel: each molecule's hydrogens hydrogen-bond to the fiber and to the oxygen of the molecule below, so it holds on to the fibers and holds on to itself
Water climbing a paper towel: each molecule's hydrogens hydrogen-bond to the fiber and to the oxygen of the molecule below, so it holds on to the fibers and holds on to itself
33

An air bubble that splits the water thread in a narrow tube has broken cohesion: across the gap there is no water to hold on to.

An air bubble splits the water thread in a narrow tube: within each part a hydrogen of one molecule hydrogen-bonds to the oxygen of the next, but across the gap there is no water to hold on to
An air bubble splits the water thread in a narrow tube: within each part a hydrogen of one molecule hydrogen-bonds to the oxygen of the next, but across the gap there is no water to hold on to
34

What you are expected to know Say which of cohesion, adhesion and surface tension a described situation depends on.

35
Check q7

Which of these depends on surface tension?

  1. A. ✓ A water strider standing on a pond without breaking through
  2. B. Water soaking upward through a dry paper towel
    Water climbing a towel is water holding on to the fibers, adhesion, and dragging more water up behind it, cohesion.
  3. C. Drops of water clinging to a bathroom mirror
    Drops clinging to a mirror are water holding on to glass, something other than water: adhesion.
  4. D. A thread of water in a narrow tube moving as one column
    Each molecule in the thread holds the next, water to water: cohesion.

Why: The strider stands on the surface, where molecules with no neighbors above are pulled sideways and inward into a tightly held layer.
That property is surface tension.
The other three are adhesion or cohesion at work.

36
Check q8

The bottom of a dry paper towel is dipped in water. Ten minutes later the water has climbed well above the waterline.

Which properties does the climb depend on?

  1. A. Adhesion only
    Adhesion alone would pull only the leading water along the fibers; the rest of the water follows only because water also holds on to water.
  2. B. Cohesion only
    Water holding on to itself does not climb on its own; it needs adhesion to the fibers to move along them.
  3. C. Surface tension only
    Surface tension is the surface holding together, and climbing a towel is not a surface resisting being broken.
  4. D. ✓ Adhesion and cohesion

Why: Water hydrogen-bonds to the fibers (adhesion) and to the water behind it (cohesion).
Adhesion and cohesion are both needed for the climb.

37
Check q9

In a narrow tube inside a plant stem, water is being pulled up from the top. An air bubble forms and splits the water thread in two. The water beneath the bubble stops rising.

Which property has the bubble broken?

  1. A. Adhesion
    On both sides of the bubble the water still touches and holds the tube wall; adhesion is untouched.
  2. B. ✓ Cohesion
  3. C. Surface tension
    No surface has given way; the thread failed because the water-to-water chain is broken.
  4. D. Adhesion and cohesion together
    Adhesion to the tube wall is untouched on both sides of the bubble; only the water-to-water hold across the gap is gone.

Why: The thread rises as one column because each molecule holds the next: cohesion.
An air gap leaves no water to hold on to, so the pull from above can no longer reach the water beneath the gap, and that water stops rising.

38

The strider stands on surface tension; the tree’s thread climbs by adhesion and holds together by cohesion; all three are the same hydrogen bond doing different work.

39Mixed practice mixed practice

40
Check q10

Two small drops of water on a glass plate touch and merge into one drop.

Which property joins them?

  1. A. ✓ Cohesion
  2. B. Adhesion
    Adhesion is water holding to something other than water; here water joins water.
  3. C. Surface tension
    Surface tension is the surface resisting being broken; here two bodies of water simply join.

Why: Water sticking to water is cohesion.
The molecules of the two drops hydrogen-bond to one another, so the drops become one.

41
Check q11

A steel paper clip laid gently on still water stays resting on the surface.

Which property holds it up?

  1. A. Adhesion
    Adhesion is water holding to another surface; the clip is not being pulled along by the water.
  2. B. Cohesion
    Cohesion is water holding to water; the property at work is the surface itself resisting being broken.
  3. C. ✓ Surface tension

Why: The surface molecules have no neighbors above, so their hydrogen bonds pull them sideways and inward.
The tightly held surface resists being broken and holds the clip up: surface tension.

42
Check q12

A raindrop clings to a window pane and slides down slowly instead of falling.

Which property holds the drop to the glass?

  1. A. Cohesion
    Cohesion is water holding to water; the drop is holding to glass.
  2. B. ✓ Adhesion
  3. C. Surface tension
    Surface tension is the surface resisting being broken; here the drop is held to a surface other than water.

Why: Glass carries partial charges, so the water molecules hydrogen-bond to it.
Water sticking to something other than water is adhesion.

43
Check q13

A sugar cube dipped in tea draws the tea up through itself.

Which properties does the rise depend on?

  1. A. Adhesion only
    Adhesion pulls only the leading water along the sugar; the rest follows because water also holds to water.
  2. B. Cohesion only
    Water holding to itself does not climb on its own; it needs adhesion to the sugar to move along it.
  3. C. ✓ Adhesion and cohesion

Why: The water hydrogen-bonds to the sugar (adhesion) and to the water behind it (cohesion).
Adhesion and cohesion are both needed for the rise.

44
Check q14

Water barely rises in a tube coated inside with wax.

Why?

  1. A. ✓ Wax carries no partial charges, so water cannot hydrogen-bond to it.
  2. B. Wax breaks the hydrogen bonds between the water molecules.
    Wax does nothing to the water’s own hydrogen bonds; it simply offers no partial charges.
  3. C. Wax is heavier than glass, so it pushes the water down.
    The mass of the tube does not act on the water; what matters is whether the surface carries partial charges.

Why: Climbing a tube needs adhesion to the tube wall.
Wax carries no partial charges, so water cannot hydrogen-bond to it, and the water barely rises.

45
Check q15

A water strider’s foot presses on the pond surface, and the surface holds.

Why does the surface hold?

  1. A. Air trapped under the foot holds the foot up, like a cushion of air under a boat.
    No air is trapped; the foot rests on the water’s own tightly held surface.
  2. B. ✓ Surface molecules have no neighbors above, so their hydrogen bonds pull them sideways and inward into a tight layer.
  3. C. The water under the foot is colder and stiffer than the water around it, so it holds the foot.
    The temperature of the water under the foot is the same as the rest of the pond.

Why: A surface molecule has neighbors beside and beneath it but none above.
So its hydrogen bonds pull it sideways and inward, and the surface molecules are drawn tightly together.
That tight surface holds the foot up: surface tension.

46
Practice writing an answer

One drop of water sits on a glass plate and spreads out flat. An identical drop sits on a sheet of wax paper and stays as a rounded bead.

(a) Identify the property of water that spreads the drop across the glass. (1 pt)

Model answer Adhesion.
Rubric
  • Award 1 point for: adhesion (water holding to a surface other than water).
  • Accept: ‘water hydrogen-bonding to the partial charges on the glass’ without the name.
  • Do not award the point for: cohesion or surface tension.

Slip Naming cohesion: the drop spreading onto glass is water holding to something other than water.

(b) Explain why the drop on the wax paper stays as a rounded bead. (1 pt)

Model answer Wax carries no charges and no partial charges.
So the water molecules cannot hydrogen-bond to the wax.
The water molecules still hydrogen-bond to one another.
So the water holds to itself instead of spreading, and the drop stays as a bead.
Rubric
  • Award 1 point for: wax carries no partial charges, so water cannot hydrogen-bond to it, and the water holds to itself (cohesion) instead of spreading.
  • Accept: ‘nothing on the wax attracts the water, so cohesion pulls the drop together’.
  • Do not award the point for: ‘wax repels water’ with no cause, or cohesion named with no mention of the wax.

Slip Saying ‘wax repels water’: wax pulls on nothing; the bead comes from water holding to water.

Glossary

cohesion
Water sticking to water: water molecules hold on to one another by hydrogen bonds.
adhesion
Water sticking to something other than water: water molecules hydrogen-bond to a surface that carries charges or partial charges, such as glass.
surface tension
The surface of water holding together and resisting being broken, because a molecule at the surface has no neighbors above and its hydrogen bonds pull it sideways and inward.

APBIO-U01-L04 Slow to warm

Topic 1.1 · Structure of Water and Hydrogen Bonding · 30 steps

A pond on a hot day with sun-baked rocks beside it, and a lake with a town on its shore
A pond on a hot day with sun-baked rocks beside it, and a lake with a town on its shore

Here is a pond on a hot day with sun-baked rocks beside it, and a lake with a town on its shore.

By afternoon the rocks are too hot to touch and the pond is barely warmer than at dawn. The lake keeps the town beside it mild all year.

Unit 1 · Chemistry of Life

1Water is slow to warm: specific heat capacity

2

Video: Watch: Slow to warm

Water and oil on the same hot plates, where the energy goes in each, and why a pond and a body change temperature slowly.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L04.mp4

3

Put 100 g of water and 100 g of cooking oil on two identical hot plates, and switch both on.

4

After five minutes the oil’s temperature is much higher than the water’s. Both took in the same energy.

100 g of water and 100 g of oil on identical hot plates: after five minutes the oil’s temperature is much higher
100 g of water and 100 g of oil on identical hot plates: after five minutes the oil’s temperature is much higher
5

The energy needed to warm one gram of a substance by one degree is called its : heat capacity because it is how much heat the substance takes in for each degree, specific because it is for one gram of that particular substance.

6

Water’s specific heat capacity is unusually high. Gram for gram, water needs far more energy to warm than oil, rock or sand does.

7

What you are expected to know Say what specific heat capacity means, the energy needed to warm one gram of a substance by one degree, and that water’s is unusually high.

8
Check q1

Equal masses of water and of rubbing alcohol, in identical sealed flasks, sit on identical hot plates for ten minutes, so each takes in the same energy. The alcohol’s temperature ends up much higher.

Which statement about the two liquids is correct?

  1. A. Alcohol has the larger specific heat capacity, because its temperature rose more.
    A large specific heat capacity means a lot of energy is needed for each degree, so the temperature rises less, not more.
  2. B. The two have the same specific heat capacity, because both are liquids.
    Being a liquid does not fix how much energy each degree of warming needs; the two liquids warmed by very different amounts from the same energy.
  3. C. ✓ Water has the larger specific heat capacity; it needs more energy per degree.
  4. D. The water’s temperature rose less because it took in less energy from its hot plate.
    Identical hot plates for the same time deliver the same energy to both flasks.

Why: The same energy raised the alcohol’s temperature a lot and the water’s a little.
Water needs more energy for each degree of temperature: it has the larger specific heat capacity.

9
Check q2

Two beakers hold water: one 50 g, the other 200 g. Each beaker is warmed by exactly one degree.

How do the energies needed compare?

  1. A. ✓ The 200 g needs four times as much; the specific heat capacity is the same for both.
  2. B. The 200 g needs four times as much, so its specific heat capacity is four times greater.
    Specific heat capacity is the energy per gram per degree, a property of water itself, the same for any amount of it.
  3. C. Both beakers need the same energy, because both hold water.
    Specific heat capacity is per gram, so more grams need more energy for the same one degree.
  4. D. The 50 g needs more, because a small sample warms more easily.
    Warming more easily means needing less energy, and the smaller sample has fewer grams to warm.

Why: Specific heat capacity is the energy per gram per degree, the same for any amount of water.
Four times the mass needs four times the energy.

10Where the energy goes

11

Temperature measures how fast, on average, the molecules of a substance are moving.

12

Heat most liquids and the energy goes straight into making the molecules move faster. The temperature climbs quickly.

13

Heat water and it is different: energy added to water partly goes into pulling hydrogen bonds apart rather than only making the molecules move faster.

Energy added to water partly goes into pulling hydrogen bonds apart, so its temperature rises slowly; in a liquid with no hydrogen bonds the energy goes into motion and the temperature rises quickly
Energy added to water partly goes into pulling hydrogen bonds apart, so its temperature rises slowly; in a liquid with no hydrogen bonds the energy goes into motion and the temperature rises quickly
14

Energy that goes into pulling molecules apart does not show up as faster movement. So the temperature climbs slowly.

15

That is why the same energy raises the oil’s temperature a lot and the water’s temperature only a little.

16

What you are expected to know Explain why water warms slowly: energy added to water partly goes into pulling hydrogen bonds apart rather than only making the molecules move faster.

17
Check q3

Two sealed flasks sit on identical hot plates: 100 g of water and 100 g of cooking oil, whose molecules do not hydrogen-bond to one another. Both take in the same energy. After five minutes the oil’s temperature is much higher than the water’s.

Why?

  1. A. Oil molecules are heavier, so each one heats faster.
    What matters is where the energy goes once it is inside the liquid, not the weight of a molecule.
  2. B. ✓ In the water, much of the energy went into pulling hydrogen bonds apart.
  3. C. Water passes heat to the air more quickly than oil does.
    The flasks are sealed and identical, so heat leaving to the air cannot be the difference.
  4. D. Oil molecules always move faster than water molecules at the same temperature.
    The speed of the molecules at a given temperature is not what sets the difference; the oil warmed more because none of its energy went into pulling molecules apart.

Why: In the oil, the energy goes straight into making the molecules move faster.
In the water, part of the energy goes into pulling hydrogen bonds apart, so the molecules speed up less and the temperature climbs slowly.

18
Check q4

A liquid needs only about a quarter as much energy as water to warm one gram by one degree.

What is most likely true of this liquid?

  1. A. Its molecules attract one another far more strongly than water molecules do.
    Stronger attractions would mean more energy going into pulling molecules apart, so more energy per degree, not less.
  2. B. Its molecules have no attraction to one another at all.
    With no attraction at all between its molecules the substance could not hold together as a liquid.
  3. C. It takes in less energy from the same hot plate than water does.
    The same hot plate delivers the same energy; the difference is what the energy does inside the liquid.
  4. D. ✓ Its molecules attract one another far less strongly than water molecules do.

Why: A low specific heat capacity means little of the added energy goes into pulling molecules away from one another, so the attractions between its molecules must be weak.
Water’s hydrogen bonds are what make its value high.

19A steady body temperature: homeostasis

20

Most of an organism’s mass is water. Most of you is water.

21

So when an organism gains or loses a large amount of heat, its temperature changes only slowly.

22

A 70 kg body needs about as much energy to warm by one degree as 70 kg of water does, far more than the same mass of oil would.

23

A pond warms far less over a hot day than the rocks beside it. A lake keeps the coast beside it mild.

The pond and the rocks in the same sun all day: the rocks get hot, the pond barely warms
The pond and the rocks in the same sun all day: the rocks get hot, the pond barely warms
24

When an organism keeps the conditions inside its body steady while the outside changes, we call that , from words meaning staying the same.

25

Water’s slowness to warm helps with that: it slows every change in body temperature. It does not stop the change.

26

What you are expected to know Most of an organism is water, so its temperature changes slowly when it gains or loses heat. That helps it keep its internal conditions steady, which is called homeostasis.

27
Check q5

A grower stands several large barrels of water inside one greenhouse and leaves an identical greenhouse empty. Overnight the outside temperature drops sharply.

What should the grower expect?

  1. A. Both greenhouses cool by the same amount, because the barrels are sealed.
    Heat still flows out of sealed barrels into the cooling air, and the water gives up a great deal of heat for each degree it drops.
  2. B. ✓ The greenhouse with barrels cools less: the water gives up its heat slowly.
  3. C. The greenhouse with barrels cools faster: water pulls heat out of the air.
    The barrels are warmer than the night air, so heat flows from the water into the air, not the other way.
  4. D. The greenhouse with barrels cools less: water blocks heat from escaping through the glass.
    The barrels do not block anything; heat still escapes through the glass.

Why: Water has a high specific heat capacity, so the barrels hold a great deal of heat and give it up slowly as they cool.
The night air in that greenhouse stays warmer, for the same reason a lake keeps a coast mild.

28
Check q6

A person rests in a warm room for an hour. Heat flows into their body from the room, yet their body temperature rises only a fraction of a degree.

Which statement explains this best?

  1. A. The body’s water stops any heat from entering it.
    Heat does enter the body; water simply needs a lot of energy for each degree, so the temperature changes slowly.
  2. B. The body is mostly water, and water warms up quickly, so the heat spreads evenly through the body.
    Water warms slowly, not quickly: part of the energy added to it goes into pulling hydrogen bonds apart, so each degree needs a lot of energy.
  3. C. Body temperature can never change, whatever the surroundings are.
    Body temperature does change; water’s high specific heat capacity slows the change, it does not prevent it.
  4. D. ✓ Most of the body is water, which takes a lot of energy to warm, so its temperature changes slowly.

Why: Most of the body is water, and water needs a lot of energy for each degree.
So the heat that enters changes the body’s temperature only slowly, which helps it hold steady: homeostasis.

29

The pond and the lakeside town are slow to change for the same reason: most of what is warming up is water.

Glossary

specific heat capacity
The energy needed to warm one gram of a substance by one degree. Water’s specific heat capacity is unusually high.
homeostasis
Keeping the conditions inside the body steady while the conditions outside change.

APBIO-U01-L05 Cooling by evaporation

Topic 1.1 · Structure of Water and Hydrogen Bonding · 38 steps

Sweat evaporating from skin, and a dog panting
Sweat evaporating from skin, and a dog panting

Here is sweat evaporating from skin, and a dog panting.

Sweat cools you. A panting dog cools its tongue. Sweating and panting both work because water leaves as vapor.

Unit 1 · Chemistry of Life

1Water is slow to evaporate: heat of vaporization

2

Video: Watch: Cooling by evaporation

Which molecules leave a liquid as vapor, what they take with them, and why sweat that cannot evaporate leaves you hot.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L05.mp4

3
Check q1

Quick recall: in liquid water, each molecule is held to its neighbors by hydrogen bonds.

What must a water molecule do before it can leave the liquid as vapor?

  1. A. Break its O–H covalent bonds
    The O–H covalent bonds stay intact; water vapor is still whole water molecules.
  2. B. Nothing: it leaves as soon as it reaches the surface
    A molecule at the surface is still held by hydrogen bonds to the molecules beside and beneath it.
  3. C. ✓ Break free of its hydrogen bonds

Why: Hydrogen bonds hold each molecule to its neighbors, so a molecule must break them before it can leave.

4

So to turn liquid water into vapor, every molecule that leaves must first break its hydrogen bonds to its neighbors. That takes energy.

5

The energy needed to turn one gram of a liquid into a gas is called its , because turning a liquid into a gas, a vapor, is vaporization.

6

Water’s heat of vaporization is high. Each gram of water that evaporates carries away more energy than a gram of rubbing alcohol does.

Each gram of water that evaporates carries away more energy than a gram of rubbing alcohol does
Each gram of water that evaporates carries away more energy than a gram of rubbing alcohol does
7

Alcohol molecules attract one another far less strongly than water molecules do, so each one breaks free with less energy.

8

What you are expected to know Say what heat of vaporization means, the energy needed to turn one gram of a liquid into a gas, and that water’s is high.

9
Check q2

Rubbing alcohol evaporates from skin faster than water does, yet each gram of alcohol that evaporates carries away less energy than a gram of water.

What explains the smaller energy per gram?

  1. A. Alcohol has a smaller specific heat capacity than water, so it warms up faster.
    Specific heat capacity is the energy to raise a liquid’s temperature, not the energy for its molecules to leave as gas.
  2. B. Alcohol molecules are lighter, so each one carries less energy away.
    What sets the energy each gram carries away is how strongly the molecules attract one another, not their mass.
  3. C. Alcohol molecules attract one another more strongly, so fewer of them escape.
    Stronger attractions would mean more energy per gram and slower evaporation, the opposite of what is seen.
  4. D. ✓ Alcohol molecules attract one another far less strongly than water molecules.

Why: Heat of vaporization is set by how much energy it takes to pull a molecule free of its neighbors.
Alcohol molecules attract one another weakly, so each gram leaves with less energy; water’s hydrogen bonds make each gram need more energy to leave.

10
Check q3

A pan of water sits on a stove. First the water warms from 20 °C to 100 °C. Then it boils away.

Which quantity tells you the energy needed for the second stage, boiling away?

  1. A. Specific heat capacity
    Specific heat capacity is the energy needed to raise the temperature of the liquid, which is the first stage.
  2. B. ✓ Heat of vaporization
  3. C. Cohesion
    Cohesion is a property, water holding on to water, not a quantity of energy.
  4. D. Surface tension
    Surface tension is a property of the surface, not a quantity of energy.

Why: Turning one gram of liquid into gas is what heat of vaporization measures.
Warming the liquid first is a different quantity, specific heat capacity.

11Evaporative cooling

12

The molecules in liquid water move at many different speeds. Some molecules are fast, most are middling, some are slow.

13

Only the fastest have enough energy to break their hydrogen bonds and escape as vapor.

The fastest water molecules break free of the surface and carry their energy away, leaving slower, cooler water behind
The fastest water molecules break free of the surface and carry their energy away, leaving slower, cooler water behind
14

Each escaping molecule takes its energy with it. The molecules left behind are, on average, slower.

15

Slower molecules mean a lower temperature. The water that stays is cooler than it was.

16

When a surface is cooled by water evaporating from it like this, we call it .

17

Sweat evaporating from skin cools the skin. Saliva evaporating from a panting dog’s tongue cools the dog. Sweat and saliva both hold body temperature down.

18

On a humid day the air already holds a great deal of water vapor, so little sweat evaporates. It drips off instead, and you stay hot.

On a humid day the air is already full of water vapor, so sweat drips off instead of evaporating
On a humid day the air is already full of water vapor, so sweat drips off instead of evaporating
19

What you are expected to know Explain why evaporating water cools the surface it leaves: only the fastest molecules break free of their hydrogen bonds, and they carry their energy away. Call this evaporative cooling.

20
Check q4

On a very humid day, sweat runs off your skin in drops instead of evaporating, and you feel much hotter than usual.

Why does this leave you hotter?

  1. A. Liquid sweat traps heat against the skin by hydrogen-bonding to the skin’s surface.
    Liquid sweat does nothing to heat the skin; it simply fails to cool it, because it never leaves as vapor.
  2. B. ✓ Only evaporating sweat carries heat away; a drop that runs off takes almost none.
  3. C. Humid air is warmer than dry air, so it heats your skin more.
    Humid air carries more water vapor, not more heat.
  4. D. Producing sweat releases heat into the skin, and more sweat means more heat.
    Making sweat does not warm the skin; sweat cools only when it evaporates.

Why: Cooling comes from the fastest molecules escaping as vapor and carrying their energy away.
Sweat that runs off as liquid never does that, so little heat leaves your skin.

21
Check q5

After some of the water in a dish evaporates, why is the water left behind cooler?

  1. A. ✓ The fastest molecules escaped, taking their energy with them.
  2. B. Evaporation broke covalent bonds, which used up the heat.
    Molecules leave whole; what they break are the hydrogen bonds to their neighbors.
  3. C. The vapor above the dish pushed heat out of the liquid.
    Nothing pushes heat out; the cooling comes from what left.
  4. D. The slowest molecules escaped, leaving the fast ones behind.
    The slowest molecules do not have the energy to break their hydrogen bonds and leave.

Why: Only the fastest molecules can break their hydrogen bonds and leave.
They carry their energy away, so the molecules left behind are slower on average, and the water is cooler.

22From a polar bond to sweat, strider and tree

23

Every property of water you have seen is one chain of reasons, starting from a single bond.

The chain of reasons: from the polar O–H bond to the job water does
The chain of reasons: from the polar O–H bond to the job water does
24

First: oxygen pulls the shared electrons of each O–H bond harder than hydrogen does, so the oxygen is δ− and each hydrogen δ+.

25

Second: the δ+ hydrogen of one molecule is attracted to the δ− oxygen of a neighbor. That is a hydrogen bond.

26

Third: the hydrogen bonds give water the property: cohesion, adhesion, surface tension, a high specific heat capacity, or evaporative cooling, and the fact that ice is less dense than liquid water.

27

Fourth: that property does the job you saw: holds the strider up, lifts water up the tree, or cools the skin.

28

Try it. On paper, write the chain of reasons, in order, for why a runner in air already full of water vapor overheats. Then continue.

29

Compare with this. Step one: oxygen pulls the shared electrons of each O–H bond harder than hydrogen, so the oxygen is δ− and each hydrogen δ+.

30

Step two: the δ+ hydrogen of one water molecule is attracted to the δ− oxygen of the next: a hydrogen bond.

31

Step three: a molecule can leave as vapor only by breaking its hydrogen bonds, so only the fastest leave, carrying their energy away: evaporative cooling.

32

Step four: in air already full of vapor, little sweat evaporates, so little heat leaves the runner’s skin, and the runner overheats.

33

What you are expected to know Explain, in order, how a named property of water does a described job, such as cooling skin or lifting water up a tree: from the polar O–H bond and its partial charges, through the hydrogen bonds between molecules, to the property and what it does.

34
Check q6

A student explains why water climbs a glass tube and stays low in a wax-coated one. Step 1: Oxygen pulls the shared electrons of each O–H bond harder than hydrogen, so the oxygen is δ− and each hydrogen δ+. Step 2: Water molecules hydrogen-bond to the partial charges on glass, but wax has none. Step 3: This water-to-glass attraction is cohesion. Step 4: With nothing to hold on to on the wax, the water stays low in the waxed tube.

Which step contains an error?

  1. A. Step 1
    Step 1 is correct: oxygen pulls the shared electrons harder, so the oxygen is δ− and each hydrogen δ+.
  2. B. Step 2
    Step 2 is correct: glass carries partial charges that water hydrogen-bonds to, and nonpolar wax carries none.
  3. C. ✓ Step 3
  4. D. Step 4
    Step 4 is correct: with no attraction to the wax, the water cannot cling to the tube wall and climb.

Why: Step 3 names the wrong property.
Water holding on to glass, something other than water, is adhesion; cohesion is water holding on to water.

35
Check q7

Which list puts the chain of reasons for surface tension in order?

  1. A. ✓ polar O–H bond, partial charges, hydrogen bonds, taut surface layer
  2. B. hydrogen bonds, partial charges, polar O–H bond, taut surface layer
    Hydrogen bonds cannot come first: they exist only because the partial charges exist, and the partial charges exist only because the O–H bond is polar.
  3. C. partial charges, polar O–H bond, taut surface layer, hydrogen bonds
    The taut surface layer is the result of hydrogen bonds pulling surface molecules sideways and inward, so it cannot come before them.
  4. D. polar O–H bond, hydrogen bonds, partial charges, taut surface layer
    A hydrogen bond is an attraction between partial charges, so the charges must come before the hydrogen bonds.

Why: The polar O–H bond creates the partial charges; the partial charges attract to make hydrogen bonds; at the surface those bonds pull molecules sideways and inward, making the taut layer.

36
Practice writing an answer

A small pond sits in full sun. Between morning and mid-afternoon the air above it warms by 15 °C, but the pond water warms by only 2 °C.

(a) Describe the property of water that the pond shows. (1 pt)

Frame The property of water responsible is …

Model answer The property of water responsible is its high specific heat capacity.
It takes a large amount of energy to raise the temperature of each gram of water by one degree, so the pond warms only a little.
Rubric
  • Award 1 point for: water’s high specific heat capacity, named and explained as a large amount of energy being needed to raise the temperature of water.
  • Accept: ‘water needs far more energy than air to warm by the same amount’ together with the name.
  • Do not award: heat of vaporization or evaporative cooling; the pond is warming, and the property is about how much energy each degree of warming takes.

Slip Naming evaporative cooling. Little of the pond is evaporating; the point is how much energy the water soaks up for each degree it warms.

(b) Explain why the pond’s temperature rose so little. Start from the O–H bonds inside the water molecules. (1 pt)

Model answer Oxygen pulls the shared electrons of each O–H bond harder than hydrogen does, so the oxygen is δ− and each hydrogen δ+.
The δ+ hydrogen of one molecule is attracted to the δ− oxygen of a neighbor: a hydrogen bond.
Energy added to the water partly goes into pulling those hydrogen bonds apart rather than only making the molecules move faster.
So the temperature climbs slowly.
Rubric
  • Award 1 point for: the polar O–H bond gives the molecules partial charges, the partial charges make hydrogen bonds between molecules, and added energy partly goes into pulling those hydrogen bonds apart rather than only speeding the molecules up.
  • Accept: the same chain in plain words, provided the hydrogen bonds are between molecules and the energy goes into pulling them apart.
  • Do not award: energy going into breaking the covalent O–H bonds, or ‘water holds heat’ with no hydrogen bonds.

Slip Jumping straight to ‘hydrogen bonds absorb the heat’. The point needs where the hydrogen bonds come from: the polar O–H bond and the partial charges it creates.

(c) A second pond, the same size, is filled with cooking oil, a nonpolar liquid. Predict how its temperature change over the same afternoon compares with the water’s, and give the reason. (1 pt)

Model answer The oil warms far more than the water does, closer to the 15 °C change in the air.
Its molecules are nonpolar, so they carry no partial charges and form no hydrogen bonds with one another.
So all of the energy the oil takes in goes into making its molecules move faster, and none goes into pulling hydrogen bonds apart.
Rubric
  • Award 1 point for: the oil warms far more than the water, because its nonpolar molecules form no hydrogen bonds, so all of the added energy goes into making its molecules move faster.
  • Accept: ‘it warms by much more than 2 °C’ with the reason.
  • Do not award: a prediction with no reason, or ‘it stays cooler because it has no hydrogen bonds to hold heat’.

Slip Predicting that the other liquid stays cooler. Hydrogen bonds slow warming by soaking up energy; a liquid with none warms faster, and by more.

37

Blood, sweat, the tree and the strider from the opening lessons all follow the same chain of reasons: polar bond, partial charges, hydrogen bonds, and the properties they give water.

Glossary

heat of vaporization
The energy needed to turn one gram of a liquid into a gas. Water’s heat of vaporization is high, because each molecule must break its hydrogen bonds to leave.
evaporative cooling
Cooling of a surface as water evaporates from it: only the fastest molecules break free, and they carry their energy away.

APBIO-U01-L05B Why ice floats

Topic 1.1 · Structure of Water and Hydrogen Bonding · 24 steps

A pond in winter: a sheet of ice across the top, liquid water and fish beneath it
A pond in winter: a sheet of ice across the top, liquid water and fish beneath it

Here is a pond in winter. A sheet of ice covers the top, and under it the water is still liquid, with fish swimming.

The ice is on top. Most solids sink in their own liquid; ice does not.

Unit 1 · Chemistry of Life

1Ice floats

2

Video: Watch: Why ice floats

Water molecules slow down, settle into four hydrogen bonds each, and end up farther apart than in the liquid.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L05B.mp4

3

Drop an ice cube into a glass of water. It floats, most of it under the surface and a little above.

An ice cube floating in a glass of water, most of it below the surface and a little above
An ice cube floating in a glass of water, most of it below the surface and a little above
4

Most solids sink in their own liquid. Ice is unusual: it floats on liquid water.

5
Check q1

Quick recall: liquid water.

What are the molecules in liquid water doing?

  1. A. ✓ Sliding past one another as hydrogen bonds break and new ones form
  2. B. Sitting still, each held in place by its hydrogen bonds
    In a liquid the molecules keep moving; each hydrogen bond breaks as they move and a new one forms with the next neighbor.

Why: In liquid water the molecules keep moving; a hydrogen bond breaks as they move and a new one forms with the next neighbor.

6

Cool the water toward freezing and the molecules slow down.

7

At 0 °C they no longer move fast enough to break their hydrogen bonds. Each molecule settles into four hydrogen bonds to four neighbors, and stays there.

8

Those four hydrogen bonds hold the molecules in a fixed, open arrangement, farther apart on average than in the liquid. In the drawing each molecule shows three of its four hydrogen bonds; the fourth runs to the layer above or below the page.

Liquid water and ice: in the liquid the molecules sit close together and slide past one another; in ice hydrogen bonds hold every molecule in a fixed, open arrangement, farther apart
Liquid water and ice: in the liquid the molecules sit close together and slide past one another; in ice hydrogen bonds hold every molecule in a fixed, open arrangement, farther apart
9

So the same number of molecules, the same mass, takes up more room as ice than as liquid water.

10

When the same mass takes up more room, we say the substance is . Ice is less dense than liquid water, and anything less dense than water floats on it.

11

The hydrogen bonds in ice are the same kind as in liquid water, no stronger. The difference is that in ice every molecule holds all four of them in place.

12

What you are expected to know Explain why ice is less dense than liquid water: as water cools to freezing, each molecule settles into four hydrogen bonds that hold the molecules in an open arrangement, farther apart than in the liquid, so the same mass takes up more room and the ice floats.

13
Check q2

Two drawings, P and Q, show water molecules.

Two drawings of water molecules, marked P and Q. In P the molecules sit close together, slightly jumbled. In Q they sit at the corners of open six-sided rings, farther apart, with dashed lines between them
Two drawings of water molecules, marked P and Q. In P the molecules sit close together, slightly jumbled. In Q they sit at the corners of open six-sided rings, farther apart, with dashed lines between them

Which drawing shows ice?

  1. A. P: the molecules are closer together, so they must be locked in place
    In ice the molecules are farther apart, not closer; being close together is what liquid water looks like.
  2. B. P: the molecules keep sliding past one another
    Molecules sliding past one another is liquid water, and P shows the liquid.
  3. C. ✓ Q: hydrogen bonds hold the molecules farther apart in a fixed, open arrangement
  4. D. Q: the molecules have no hydrogen bonds between them, so they spread out
    It is the hydrogen bonds, all held in place, that keep the molecules of ice apart; without them the molecules would not hold their open arrangement.

Why: In Q the molecules sit at the corners of open rings, each held in place by hydrogen bonds and farther from its neighbors than in P. That is ice.
In P the molecules are close together, sliding past one another: liquid water.

14
Check q3

A block of ice and some liquid water have exactly the same mass.

Which takes up more room?

  1. A. ✓ The ice, because its molecules are held farther apart
  2. B. The liquid water, because its molecules move about more
    The molecules of liquid water, though moving, sit closer together on average than the molecules of ice.
  3. C. Neither: the same mass always takes up the same room
    How much room a mass takes up depends on how far apart its molecules sit, and that differs between ice and liquid water.
  4. D. The ice, because it has more molecules
    The same mass of water is the same number of molecules, whether ice or liquid.

Why: The same mass is the same number of molecules.
In ice the hydrogen bonds hold them farther apart, so they take up more room: ice is less dense than liquid water.

15A pond in winter

16

In late autumn a pond cools. The water at the surface, touching the cold air, freezes first, and the ice it forms floats there.

A pond in winter, drawn in cross-section: a sheet of ice at the surface, liquid water beneath it, fish swimming in the liquid water
A pond in winter, drawn in cross-section: a sheet of ice at the surface, liquid water beneath it, fish swimming in the liquid water
17

The ice sheet sits on top. Under it, the water stays liquid, a few degrees above freezing; at the bottom of a deep pond it stays near 4 °C.

18

Fish and pond plants live on through the winter in that liquid water under the ice.

19

If ice sank instead, each new layer would fall to the bottom, and the pond could freeze solid from the bottom up, and the fish with it.

20

What you are expected to know Predict what happens to a pond in winter: ice forms at the surface and floats there, because it is less dense than liquid water, and the water beneath stays liquid, so the fish survive.

21
Check q4

A pond freezes over in winter.

Where does the ice form, and why?

  1. A. Throughout the pond at once, because all the water reaches 0 °C together
    The surface water, touching the cold air, reaches freezing first; the rest of the pond is still above 0 °C.
  2. B. ✓ At the surface, and it stays there because ice is less dense than liquid water
  3. C. At the bottom, because the ice that forms sinks through the liquid water
    Ice does not sink through liquid water; it is less dense than the liquid.
  4. D. At the surface, because ice is warmer than the liquid water beneath it
    Ice is not warmer than the liquid water beneath it; it is at 0 °C or colder, while the water below is a few degrees above freezing.

Why: The surface water, touching the cold air, loses heat first and freezes first.
The ice stays at the surface because it is less dense than liquid water.
The pond freezes from the top down, and the water beneath stays liquid.

22
Check q5

A student says: “Ice is solid because the hydrogen bonds in ice are much stronger than the hydrogen bonds in liquid water.”

What is wrong with this statement?

  1. A. Nothing: the bonds in any solid are stronger than the bonds in its liquid
    The hydrogen bonds in ice are the same kind as in liquid water, not stronger.
  2. B. Ice has no hydrogen bonds at all; covalent bonds hold its molecules to one another
    Covalent bonds hold the atoms inside one water molecule; between molecules, in ice as in the liquid, the attraction is the hydrogen bond.
  3. C. The hydrogen bonds in ice are weaker than in the liquid, which is why ice is less dense
    The bonds are not weaker; ice is less dense because the four hydrogen bonds each molecule holds keep the molecules in an open arrangement.
  4. D. ✓ They are the same kind of bond; in ice each molecule just holds four of them in place

Why: The hydrogen bonds in ice are the same kind as in liquid water.
What changes at freezing is that the molecules slow down and each one holds all four of its hydrogen bonds in place, in an open arrangement, instead of breaking and re-forming them.

23

The pond freezes from the top down and the fish swim on beneath the ice, because hydrogen bonds hold the molecules of ice farther apart than the molecules of liquid water.

Glossary

less dense
Having less mass in the same amount of room. Ice is less dense than liquid water because the same mass takes up more room as ice, and anything less dense than water floats on it.

APBIO-SKL-L01 Four options, one answer

Topic skills · How AP Biology asks you questions · 24 steps

A question card: a lake keeps a town cooler in summer and warmer in winter; which property of water is at work? Four answers, none chosen
A question card: a lake keeps a town cooler in summer and warmer in winter; which property of water is at work? Four answers, none chosen

Here is a question with four possible answers.

A lake keeps the town on its shore cooler in summer and warmer in winter. Which property of water is at work? Adhesion. Cohesion. High specific heat capacity. Surface tension.

You have answered questions like it before. Three of these four can be ruled out by a fact you have already seen, and each is ruled out for a different reason.

How AP Biology asks you questions

1Expect an answer, read every option, rule out, then choose

2

Video: Watch first: how AP Biology asks you questions

A printed question, a pencil that circles an option, and the difference between a reason and a hunch.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-SKL-intro.mp4

3

A question that offers four possible answers, exactly one of them correct, is called a .

4

Each of the four possible answers is called an . Every check you have answered so far has had four options.

5

Before you read the options, read the question and decide what answer you expect. The lake warms and cools slowly, so expect the property about warming slowly.

6

Then read all four options. A later option can fit better than the first one that sounds right.

7

Rule out each option that a fact you have already seen makes wrong. Adhesion is water holding to another surface, and the question is not about water holding to anything.

The four options for the lake question: three ruled out, each by a different fact, and high specific heat capacity left standing
The four options for the lake question: three ruled out, each by a different fact, and high specific heat capacity left standing
8

Cohesion is water holding to water. It has nothing to do with temperature. Surface tension is the taut surface layer, and nothing rests on the lake’s surface.

9

Choose only among the options still standing. Here one is left: high specific heat capacity, the property that makes water slow to warm and slow to cool.

10

If the question said ‘the surface of the lake’, ‘surface tension’ would share a word with it. A shared word is not a reason to choose an option; a fact is.

11

What you are expected to know Answer a multiple-choice question by deciding what you expect, reading all four options, ruling out each option that a fact makes wrong, and choosing among what is left.

12
Check q1

Here is a question: ‘Sweat on a runner’s skin dries, and the skin is cooler. Which property of water is at work?’ Its options are adhesion, cohesion, evaporative cooling and surface tension. Before reading the options, a student decides what answer to expect.

What should the student expect the answer to be about?

  1. A. ✓ Water leaving as vapor and carrying energy away
  2. B. Water attracted to the skin, a surface other than water
    Water attracted to a surface is adhesion; nothing in the question is about the sweat sticking to the skin.
  3. C. Water molecules attracting one another in the drops
    Water attracted to water is cohesion; nothing in the question is about the sweat holding together.
  4. D. The taut surface layer on each drop of sweat on the skin
    The taut surface layer is surface tension; nothing in the question rests on the sweat.

Why: The question describes sweat drying and the skin cooling.
Water leaving as vapor carries energy away, so that is the property to expect before the options are read.

13
Check q2

A question reads: ‘On a hot afternoon a pond warms by only 2 °C while the rocks beside it get too hot to touch. Which property of water is at work?’ Surface tension is one of its options.

Which fact rules surface tension out?

  1. A. Surface tension is water holding to water, and the rocks beside the pond are stone.
    Water holding to water is cohesion, not surface tension.
  2. B. ✓ Surface tension is the taut surface layer, and nothing in the question rests on the pond’s surface.
  3. C. Surface tension is water holding to another surface, and the pond touches the rocks only at its edge.
    Water holding to another surface is adhesion, not surface tension.
  4. D. Surface tension is seen only in small drops, and a pond is far too large to have any.
    A pond has a surface layer like any body of water.
    A false fact rules nothing out.

Why: Surface tension is the surface layer pulled tight so it holds together.
Nothing rests on or presses the pond’s surface, and the question is about the pond warming slowly, so that fact rules surface tension out.

14A reason from the biology, or a hunch?

15

Suppose you have chosen cohesion for the lake question, and you are thinking of changing to high specific heat capacity.

16

One student changes because ‘the third option is the longest and sounds most scientific’. That is a hunch. Length is not a reason.

Two reasons for changing an answer: one names how the option looks, the other names a fact from the biology
Two reasons for changing an answer: one names how the option looks, the other names a fact from the biology
17

Another changes because ‘cohesion is water holding to water, and the question is about warming and cooling’. That is a reason: a fact from the biology that rules an option out.

18

Other hunches: ‘that option has not been the answer for a while’, ‘I usually get these wrong’, ‘it just sounds right’.

19

Keep your first answer unless a fact you have already seen rules it out. Change it as soon as one does.

20

What you are expected to know Tell a reason from a hunch. A reason is a fact from the biology that rules an option in or out. The length of an option, how scientific it sounds, or how long since it was last the answer is a hunch.

21
Check q3

A water strider is an insect that stands on the surface of a pond. A student answering ‘Which property of water lets the water strider stand on the pond?’ first picked cohesion, then changed to surface tension. Four students give their reasons for changing.

Which reason for changing to surface tension is a fact from the biology?

  1. A. It had not been the answer to any of the last several questions.
    How long since an option was last the answer has nothing to do with the biology: it is a hunch.
  2. B. It was the longest and the most detailed of the four options.
    The length and detail of an option have nothing to do with the biology: it is a hunch.
  3. C. It sounds more scientific and more exact than cohesion does.
    How scientific an option sounds has nothing to do with the biology: it is a hunch.
  4. D. ✓ It is the taut surface layer, and the strider stands on it.

Why: Surface tension is the surface layer pulled tight so it holds together, and the strider stands on that layer.
That fact rules surface tension in; the other three reasons have nothing to do with the biology.

22
Check q4

Four students each explain why they kept their first answer, adhesion, to ‘Which property of water is at work when a drop clings to a mirror?’

Which student is going on a hunch?

  1. A. Adhesion is water holding to another surface, and the glass is another surface.
    Adhesion is water holding to a surface other than water, and glass is such a surface: that is a fact, not a hunch.
  2. B. Cohesion is water holding to water, but the drop is holding to the glass, so cohesion is out.
    Cohesion is water holding to water, and the drop is holding to glass: that is a fact, not a hunch.
  3. C. ✓ Adhesion has been the answer to every question about glass and mirrors so far.
  4. D. Surface tension is the taut surface layer, and nothing here presses on the drop’s surface.
    Surface tension is the taut surface layer, and nothing presses on the drop’s surface: that is a fact, not a hunch.

Why: ‘Adhesion has been the answer every time so far’ has nothing to do with the biology of the drop and the glass.
It is a hunch.
The other three each name a fact that rules an option in or out.

23

Back to the lake. Adhesion is water holding to another surface. Cohesion is water holding to water. Surface tension is the taut surface layer. None of those is about warming slowly, so high specific heat capacity is left standing, and you can say why.

Glossary

multiple-choice question
A question that offers four possible answers, exactly one of which is correct.
option
One of the four possible answers offered by a multiple-choice question.

APBIO-SKL-L02 What the verb is asking for: Describe, Explain, Predict

Topic skills · How AP Biology asks you questions · 47 steps

The corner of a dry paper towel dipped in a glass of water, with a wet patch creeping up the towel above the water line
The corner of a dry paper towel dipped in a glass of water, with a wet patch creeping up the towel above the water line

Here is the corner of a dry paper towel touching the water in a glass, and the wet patch creeping up it above the water line.

Three questions can be asked about this one towel: what happens, why it happens, and what would happen with a strip of wax paper instead. You answer each with a different kind of sentence, and the first word of the question tells you which.

How AP Biology asks you questions

1A question answered in your own sentences, part by part

2

The next check is a question about the towel with two parts, (a) and (b). In the exam, you will need to answer each part in your own written sentences.

A two-part question about the towel: part (a) opens with Describe, part (b) with a sentence of setup and then Explain why the wax paper does not behave as the towel does
A two-part question about the towel: part (a) opens with Describe, part (b) with a sentence of setup and then Explain why the wax paper does not behave as the towel does
3

A question answered this way, in written sentences, one part at a time, is called a . You wrote one about a pond at the end of the last water lesson.

4

The examiner scores each part on its own. A weak answer to (a) costs you nothing in (b), so write an answer under every letter, even when both parts are about the same towel.

5

Look at the first word of each part’s instruction: Describe. Explain. That verb names the kind of answer that earns credit.

6

The verb that opens a part’s instruction is called its .

7

A part may open with a sentence of setup. In (b), ‘A strip of wax paper is dipped beside the towel’ is setup. The task verb is the verb that starts the instruction after it: Explain.

8

‘Why’, ‘wax paper’ and ‘does not behave as the towel does’ say what the part is about. Only the task verb says what kind of answer it wants.

9

What you are expected to know Pick out, for each lettered part of a free-response question, the task verb that opens its instruction after any setup. Answer each part on its own, under its letter.

10
Check q1

Here is one part of a free-response question: ‘(c) The glass tube is replaced by one coated inside with wax. Predict how high the water climbs in it.’

What is the task verb of this part?

  1. A. Climbs
    ‘Climbs’ is a verb from inside the instruction: it says what the part is about, not what kind of answer it wants.
  2. B. Coated
    ‘Coated’ is a verb from the setup sentence, ‘The glass tube is replaced by one coated inside with wax’.
  3. C. ✓ Predict
  4. D. Replaced
    ‘Replaced’ is the first verb of the part, but the first sentence is setup.

Why: The first sentence is setup.
The instruction that follows opens with Predict, so Predict is the task verb, and it names the kind of answer the part wants.

11
Check q2

Here is one part of a free-response question: ‘(b) Ice floats on a pond in winter. Explain why the water at the bottom of the pond stays liquid.’

What is the task verb of this part?

  1. A. ✓ Explain
  2. B. Floats
    ‘Floats’ is a verb from the setup sentence, ‘Ice floats on a pond in winter’.
  3. C. Stays
    ‘Stays’ is a verb from inside the instruction: it says what the part is about, not what kind of answer it wants.
  4. D. Why
    ‘Why’ is not a verb; it points at what the part is about.

Why: The first sentence is setup.
The instruction that follows opens with Explain, so Explain is the task verb, and it names the kind of answer the part wants.

12
Check q3

Here is one part of a free-response question: ‘(a) Two glasses hold the same volume of water, and one is heated on a stove. Identify the glass in which the water molecules move faster.’

What is the task verb of this part?

  1. A. Heated
    ‘Heated’ is a verb from the setup sentence, ‘one is heated on a stove’.
  2. B. Hold
    ‘Hold’ is the first verb of the part, but the first sentence is setup.
  3. C. Move
    ‘Move’ is a verb from inside the instruction: it says what the part is about, not what kind of answer it wants.
  4. D. ✓ Identify

Why: The first sentence is setup.
The instruction that follows opens with Identify, so Identify is the task verb.

13
Check q4

Here is one part of a free-response question: ‘(c) A sewing needle is laid gently on the surface of a bowl of water and does not sink. Describe what the surface of the water does under the needle.’

What is the task verb of this part?

  1. A. Laid
    ‘Laid’ is the first verb of the part, but ‘A sewing needle is laid gently on the surface’ is setup.
  2. B. ✓ Describe
  3. C. Sink
    ‘Sink’ belongs to the setup sentence, ‘and does not sink’.
  4. D. Does
    ‘Does’ is a verb from inside the instruction: it belongs to what the part asks about.

Why: The first sentence is setup.
The instruction that follows opens with Describe, so Describe is the task verb, and it names the kind of answer the part wants.

14Describe: give the characteristics the part asks for

15

Part (a): Describe what happens when the corner of a dry paper towel touches water.

16

A full-credit answer: ‘The water moves up into the towel above the water level and spreads through the fibers.’ It says what is seen.

The towel in the glass: the wet patch stands above the level of the water in the glass
The towel in the glass: the wet patch stands above the level of the water in the glass
17

‘Adhesion’ alone is a name, not a description. ‘Because water sticks to the fibers’ answers why, which this part did not ask.

18

means: give the relevant characteristics of the thing named.

19

The rest of the part says which characteristics. ‘Describe what happens’ wants what is seen. ‘Describe how’ wants the steps in order. ‘Describe the role of’ wants the job it does.

20

A description that adds the reason still earns the Describe point. The reason earns nothing extra there; a part that asks why awards the point for it.

21

What you are expected to know Answer a Describe part with the relevant characteristics, in the form it asks for: what is seen, the steps in order, or the job. Leave the reason for a part that asks why.

22
Check q5

Part (a): Describe what happens when a narrow glass tube is stood upright in a dish of water. Four students answer.

Which answer describes what happens?

  1. A. ✓ The water inside the tube rises above the level of the water in the dish.
  2. B. Adhesion.
    ‘Adhesion’ is a name, not a description of what is seen.
  3. C. Glass carries partial charges that water molecules hydrogen-bond to.
    Partial charges and hydrogen bonds are the cause, which answers why; this part asked what happens.
  4. D. In a tube lined with wax, the water inside would stand no higher than the water in the dish.
    A tube lined with wax is a different tube, and what would happen in it is a prediction, not a description of this one.

Why: Describe what happens wants what is seen: the water inside the tube stands higher than the water in the dish.
A name, a cause on its own, or a prediction about a changed tube answers a different verb.

23
Check q6

Part (a): Describe how sweat cools the skin. Four students answer.

Which answer describes how it happens?

  1. A. Sweat is mostly water, and water is an unusual liquid with many special properties that help living things stay alive.
    Water in general has many properties, and the sentence never says how sweat cools the skin.
  2. B. Sweat cools the skin because water has a high specific heat capacity and warms only slowly under the sun.
    Sweat cools by evaporating, not by warming slowly.
  3. C. ✓ The fastest molecules leave the sweat as vapor, carrying energy away; the sweat left behind, and the skin, are cooler.
  4. D. Evaporative cooling: sweat is a liquid because its water molecules attract one another by hydrogen bonds.
    A name and a fact about why sweat is a liquid are not the steps by which it cools the skin.

Why: ‘Describe how’ wants the steps in order: the fastest molecules leave the sweat as vapor, they carry energy away with them, and the sweat left behind and the skin under it are cooler.

24Explain: say how or why, naming the cause and reaching the result

25

Part (b): Explain why the water climbs the paper towel.

26

‘The water rises up the towel’ says what happens again. It earns nothing here, because it gives no cause.

27

A full-credit answer names the cause: the paper fibers carry partial charges, so water molecules hydrogen-bond to them (adhesion) and to one another (cohesion).

28

Then it reaches the thing the part named: so the water at the edge is pulled up the fibers, and the column follows.

The explanation as a chain: partial charges on the fibers, water hydrogen-bonds to them and to itself, the edge is pulled up and the column follows, so the water climbs
The explanation as a chain: partial charges on the fibers, water hydrogen-bonds to them and to itself, the edge is pulled up and the column follows, so the water climbs
29

means: say how or why it happens, giving the reasoning. Name the cause, join it to the result with ‘so’ or ‘because’, and reach the thing the part named.

30

‘Water hydrogen-bonds to the fibers’ stops one step short. The sentence has not yet reached the climb.

31

An answer that names the property and its cause together, ‘adhesion, from hydrogen bonds to the fibers’, is sometimes given the point.

32

The cause followed to the climb earns the point every time. The name alone never does.

33

What you are expected to know Answer an Explain part by naming the cause, joining it to the result with ‘so’ or ‘because’, and following it all the way to the thing the part named.

34
Check q7

Part (b): Explain why a drop of water on a waxed car hood stays as a rounded bead. Four students answer.

Which answer explains why?

  1. A. The drop sits on the wax as a rounded bead and stays there, keeping its rounded shape until the hood is wiped dry.
    The bead sitting on the wax is what happens, said in more words; no cause is given.
  2. B. ✓ Water is not attracted to the wax, which carries no partial charges, so its molecules attract one another instead and pull it into a bead.
  3. C. Wax is nonpolar, so its surface carries no charges or partial charges at all to attract water molecules.
    Nothing on the wax to attract water is the cause, but the sentence never reaches the bead: it stops one step short.
  4. D. Cohesion, the attraction of water to water, is one of the many properties that hydrogen bonds give to liquid water.
    A name, cohesion, and a fact about it, with neither joined to the bead.

Why: The cause: wax carries no partial charges, so nothing attracts the water.
The link and the result: the water molecules attract one another instead, so the water pulls into a bead.
The sentence reaches the thing the part named.

35
Check q8

Part (b): Explain why a pond warms far less than the rocks beside it over a hot day. Four students answer.

Which answer explains why?

  1. A. The pond warms far less than the rocks because a pond is made of water, and water is a liquid that is always slow to warm up.
    ‘Water is slow to warm up’ restates what happens and gives no cause.
  2. B. The water molecules in the pond attract one another by hydrogen bonds, and there are a very great many of them.
    Hydrogen bonds are the start of the cause, but the sentence never says where the added energy goes or that the water warms less.
  3. C. Water has a high specific heat capacity, which is one of the several properties that hydrogen bonds give to water.
    High specific heat capacity is the name of the property; the sentence never says where the added energy goes or that the pond warms less.
  4. D. ✓ Energy added to the water partly goes into pulling hydrogen bonds apart, not only speeding molecules up, so it warms less.

Why: The cause: energy added to the water partly goes into pulling hydrogen bonds apart rather than only making the molecules move faster.
The result the part named: so the water warms less.

36Predict: say what will happen when something changes

37

Part (c): A strip of wax paper is dipped beside the towel, its corner touching the water. Predict what happens.

38

A prediction says what will happen, before it is tested: ‘The water barely climbs the wax paper, far less than it climbed the plain towel.’

A paper towel and a strip of wax paper standing in the same glass: the towel is wet high above the water level and the wax paper is dry above it
A paper towel and a strip of wax paper standing in the same glass: the towel is wet high above the water level and the wax paper is dry above it
39

It has a direction: less, far less. ‘Something different happens’ is not a prediction.

40

means: say the effect, or the cause, of a change to one part of the system. Here the change is the towel swapped for wax paper.

41

‘Wax is nonpolar’ on its own is a reason, not a prediction. A part that says only Predict awards its point for the outcome and its direction.

42

A part that says ‘Predict … and give the reason’ wants both, as the pond question’s part (c) did.

43

What you are expected to know Answer a Predict part with the outcome that follows the change, with its direction. Add the reason only when the part asks for it.

44
Check q9

Part (c): A runner sweating in dry air moves into air already full of water vapor. Predict what happens to the cooling of the runner’s skin. Four students answer.

Which answer is a prediction?

  1. A. Water vapor in the air is made of the same molecules as the sweat on the runner’s skin.
    A fact about the air, not a statement of what will happen to the cooling.
  2. B. The cooling of the runner’s skin changes once the air is full of water vapor.
    ‘Changes’ has no direction: it could mean more cooling or less.
  3. C. Sweat cools the skin only when its fastest molecules break free of it as vapor.
    The fastest molecules breaking free is the reason sweat cools, not what will happen to the cooling in humid air.
  4. D. ✓ Far less sweat evaporates, so the skin is cooled far less than it was in dry air.

Why: A prediction says what will happen to the thing named, with its direction: far less sweat evaporates, so the skin is cooled far less.

45
Check q10

Part (c) says only: ‘The water in the kettle is heated until it boils. Predict what happens to the hydrogen bonds between its molecules.’ A student writes: ‘One hydrogen bond is far weaker than a covalent bond.’

What does the answer still need to earn the point?

  1. A. ✓ The outcome and its direction: the hydrogen bonds break and the molecules leave as steam.
  2. B. The name of the kind of bond that holds the atoms together inside each water molecule.
    Another name is not a prediction.
  3. C. A second fact: that hydrogen bonds keep breaking and re-forming all the time in liquid water.
    Two facts about hydrogen bonds are still no prediction.
  4. D. The same fact in more exact words, giving the energy needed to break one hydrogen bond.
    A more exact reason is still a reason, not a prediction.

Why: The student gave a fact, not a prediction.
A part that says only Predict awards its point for the outcome and its direction: the hydrogen bonds break and the molecules leave as steam.

46

The towel: the water climbs it (Describe). It climbs because water hydrogen-bonds to the partial charges on the fibers and to itself, so the edge is pulled up and the column follows (Explain). Water would barely climb a strip of wax paper (Predict).

Glossary

free-response question
A question you answer in your own written sentences, one lettered part at a time; the examiner scores each part on its own.
task verb
The verb that opens a part’s instruction, after any sentence of setup, and names the kind of answer that earns credit: Describe, Explain, Predict and others.
Describe
Give the relevant characteristics of the thing named, in the form the part asks for: what is seen, the steps in order, or the job it does.
Explain
Say how or why it happens, giving the reasoning: name the cause, join it to the result with ‘so’ or ‘because’, and reach the thing the part named.
Predict
Say the effect, or the cause, of a change to one part of the system: the outcome and its direction, before it is tested.

APBIO-SKL-L03 What the verb is asking for: Justify, Identify, Represent

Topic skills · How AP Biology asks you questions · 43 steps

A plain paper towel and a strip of wax paper standing side by side in one glass of water: the towel is wet 4 cm above the water line, the wax paper is dry above the line
A plain paper towel and a strip of wax paper standing side by side in one glass of water: the towel is wet 4 cm above the water line, the wax paper is dry above the line

Here is the strip of wax paper, dipped beside the plain paper towel.

After a minute the plain towel is wet 4 cm above the water line; the wax paper is dry above the line. The prediction was right. Now one question asks you to support it, another asks only for a name, and a third asks you to put your answer on a drawing.

How AP Biology asks you questions

1Justify: support the claim with a fact, then say how the fact supports it

2

Part (d): Justify your prediction that the water would barely climb the wax paper.

3

The prediction, ‘the water will barely climb the wax paper’, was put forward as true before it was tested. A statement put forward as true is called a .

4

Saying it again more firmly, ‘the water really will not climb the wax paper’, earns nothing.

5

First sentence, the fact: wax is nonpolar, so its surface carries no partial charges.

6

Second sentence, how the fact supports the claim: with nothing for water molecules to hydrogen-bond to there is no adhesion, so nothing pulls the edge of the water up, and it barely climbs.

A justification in two sentences: the fact, then how the fact supports the claim, which the prediction made
A justification in two sentences: the fact, then how the fact supports the claim, which the prediction made
7

means: give evidence, a fact that supports the claim, and give the reasoning, how that fact supports it.

8

Explain starts from something that happens and gives its cause. Justify starts from a claim and gives what supports it.

9

What you are expected to know Answer a Justify part in two sentences: the fact that supports the claim, then how that fact makes the claim true.

10
Check q1

Part (d): A student claims that water will stand higher inside a narrow glass tube than in the dish around it. Justify this claim. Four students answer.

Which answer justifies the claim?

  1. A. Water always stands higher inside a narrow glass tube than in the dish around it; anyone who has tried it has seen this.
    Repeating the claim more firmly adds nothing that supports it.
  2. B. Water is polar: its oxygen pulls the shared electrons harder, so the oxygen is δ− and each hydrogen is δ+ in every molecule.
    ‘Water is polar’ is a true fact, but nothing says how it makes the water stand higher in the tube.
  3. C. ✓ Glass carries partial charges, so water hydrogen-bonds to it; the pull draws the edge of the water up, so it stands higher.
  4. D. Glass is smooth and hard and does not soak up water, so the water in the tube has a firm, solid wall to stand against.
    Smoothness and hardness pull nothing, so the fact does not support the claim.

Why: The fact: glass carries partial charges, so water hydrogen-bonds to it.
How it supports the claim: that pull draws the edge of the water up the glass, so the water stands higher inside.

11
Check q2

Part (d): Justify your prediction that in a tube lined with wax the water will stand no higher inside than outside. A student writes: ‘The water will stay exactly level in the waxed tube, just as I said, and I am sure of it.’

What does this answer need to earn the point?

  1. A. ✓ The fact that wax carries no partial charges, and how that leaves nothing to pull the water up.
  2. B. The prediction stated once more, in clearer and more confident words, so the scorer sees it.
    Repeating the claim, however confidently, is what the student has already done.
  3. C. A measurement of exactly how high the water stands inside the clean glass tube, in millimeters.
    A measurement of the clean glass tube does not test the waxed tube the claim is about.
  4. D. The name of the property at work in the clean glass tube, adhesion, added to the end of the sentence.
    ‘Adhesion’ on its own supports nothing about the waxed tube.

Why: The student has only repeated the claim.
A justification gives the fact, wax carries no partial charges, and says how it supports the claim: nothing for water to hydrogen-bond to, so nothing pulls the water up.

12Identify: name it, and stop

13

Part (e): Identify the property of water that let the water climb the plain towel.

14

The answer: adhesion. One word. A paragraph about partial charges and fibers earns no more.

15

means: indicate the thing asked for, without elaboration: name it, and add nothing. The thing may be a name, an atom, a group, or a value read off a figure.

16

‘Describe the attraction between the water and the fibers’ would want its characteristics. ‘Identify the attraction’ wants its name: a hydrogen bond.

17

What you are expected to know Answer an Identify part with the name, value or thing asked for, and stop.

18
Check q3

Part (e): Identify the kind of attraction drawn as the dashed line between molecule 1 and molecule 2.

Two water molecules, 1 and 2, with a dashed line running from a hydrogen of molecule 1 to the oxygen of molecule 2
Two water molecules, 1 and 2, with a dashed line running from a hydrogen of molecule 1 to the oxygen of molecule 2

Which answer earns the point?

  1. A. A covalent bond
    A covalent bond is a bond inside a molecule, drawn as a solid line; the dashed line runs between two molecules.
  2. B. ✓ A hydrogen bond
  3. C. A partial charge
    A partial charge is a kind of charge, not an attraction; the partial charges are what attract.
  4. D. A polar covalent bond
    A polar covalent bond is the O–H bond inside each molecule.

Why: The dashed line runs from a δ+ hydrogen of molecule 1 to the δ− oxygen of molecule 2.
That attraction between molecules is a hydrogen bond.
Identify wants exactly that name.

19
Check q4

Part (e) is worth 1 point: Identify the property that let the water climb the plain towel. Student P writes ‘Adhesion.’ Student Q writes a paragraph that names adhesion and then explains how water hydrogen-bonds to the fibers.

How many points does each student earn?

  1. A. P 0, Q 0
    Both students name adhesion, which is exactly what Identify asks for.
  2. B. P 0, Q 1
    One word is enough: ‘Adhesion.’ earns the point on its own.
  3. C. ✓ P 1, Q 1
  4. D. P 1, Q 2
    The part is worth one point, for the name; the paragraph’s explanation earns no more.

Why: Identify awards its point for the name and nothing more.
P gave it in one word and Q gave it inside a paragraph; each earns the one point, and Q’s extra sentences earn no more.

20Represent: put the answer in the form the part names

21

Part (f): Here are two water molecules, 1 and 2. Represent the attraction between them on the drawing.

Two water molecules, 1 and 2, drawn side by side with nothing marked between them
Two water molecules, 1 and 2, drawn side by side with nothing marked between them
22

The answer is a mark on the drawing: a dashed line from a hydrogen of molecule 1 to the oxygen of molecule 2, with δ+ and δ− at its ends.

The same two molecules with a dashed line drawn from a hydrogen of molecule 1 to the oxygen of molecule 2, δ+ at the hydrogen end and δ− at the oxygen end
The same two molecules with a dashed line drawn from a hydrogen of molecule 1 to the oxygen of molecule 2, δ+ at the hydrogen end and δ− at the oxygen end
23

In words, the same answer: ‘a dashed line from a hydrogen of molecule 1 to the oxygen of molecule 2’. Words count when they say exactly where the mark goes.

24

‘The two molecules attract each other’ names no atoms and earns nothing. A line from oxygen to oxygen joins two δ− atoms, which do not attract, and is wrong.

25

means: use graphs, symbols, words, illustrations or tables of values to describe the thing or the relationship, in the form the part names.

26

Now picture two more water molecules, 3 and 4, side by side like 1 and 2. Before reading on, say in words exactly where the mark that represents their attraction goes: which atom of which molecule to which atom of the other, and which end is δ+ and which is δ−.

27

Check your words against the drawing: the dashed line runs from a hydrogen of one molecule to the oxygen of the other, δ+ at the hydrogen end and δ− at the oxygen end.

Two water molecules, 3 and 4: a dashed line from a hydrogen of molecule 3 to the oxygen of molecule 4, δ+ at the hydrogen end and δ− at the oxygen end
Two water molecules, 3 and 4: a dashed line from a hydrogen of molecule 3 to the oxygen of molecule 4, δ+ at the hydrogen end and δ− at the oxygen end
28

What you are expected to know Answer a Represent part in the form it names: a mark placed between the right parts of the drawing, or a statement of exactly which label or line goes where.

29
Check q5

Part (f): Represent the attraction between molecule 5 and molecule 6. Four students mark the drawing.

Four drawings, W, X, Y and Z, of water molecules 5 and 6 with a different line marked between them in each
Four drawings, W, X, Y and Z, of water molecules 5 and 6 with a different line marked between them in each

Which drawing represents it correctly?

  1. A. W
    W joins the two oxygens, both δ−, and two δ− atoms do not attract each other.
  2. B. X
    X joins two hydrogens, both δ+, and two δ+ atoms do not attract each other.
  3. C. ✓ Y
  4. D. Z
    Z uses a solid line, the mark for a covalent bond, not for an attraction between molecules.

Why: In Y the dashed line runs from a hydrogen of molecule 5 to the oxygen of molecule 6.
That line is the attraction, drawn between the right two atoms.
Adding δ+ at the hydrogen end and δ− at the oxygen end completes it.

30
Check q6

Part (f): Represent the partial charges on the two atoms of an O–H bond by stating which label belongs on each atom.

Which statement answers the part?

  1. A. ✓ δ− on the oxygen, δ+ on the hydrogen
  2. B. δ+ on the oxygen, δ− on the hydrogen
    Oxygen pulls the shared electrons harder, so the oxygen is δ−, not δ+.
  3. C. − on the oxygen, + on the hydrogen
    The pair of electrons is still shared, so the charges are partial, not full.
  4. D. The two atoms carry opposite partial charges, one each
    Opposite partial charges, one each, never says which atom gets which label.

Why: The part asks for the placement in words.
Oxygen pulls the shared electrons harder, so δ− goes on the oxygen and δ+ on the hydrogen, and the statement says which is which.

31

Two more verbs. Construct or Draw asks for the diagram or graph itself, drawn by you. Calculate asks for a number worked out step by step, with its unit.

32Which verb does this answer satisfy?

33

Here is a narrow glass tube standing in water, with the water inside higher than outside. Four short answers about it, each satisfying a different verb.

A narrow glass tube standing in a dish of water, with the water inside the tube higher than the water in the dish
A narrow glass tube standing in a dish of water, with the water inside the tube higher than the water in the dish
34

‘The water inside the tube stands higher than the water outside.’ That describes: it says what is seen.

35

‘Adhesion.’ That identifies: a name and nothing more.

36

‘The glass carries partial charges, so water hydrogen-bonds to it and is pulled up.’ That explains: cause, link, result.

37

‘In a tube lined with wax the water will stand no higher inside than outside.’ That predicts: the outcome of a change, with its direction.

38

An answer can satisfy the wrong verb. If the part said ‘Describe what happens’ and the answer gives only the cause, it has answered Explain instead, and has described nothing.

39

What you are expected to know Match a short answer to the task verb it satisfies, and spot an answer that satisfies a different verb from the one its part asked for.

40
Check q7

An insect called a water strider stands on the surface of a pond. Here is a student’s answer to one part: ‘A molecule at the surface has neighbors beside and beneath it but nothing above it, so its hydrogen bonds pull it sideways and inward, and the surface holds together like a taut skin that holds the strider up.’

Which task verb does this answer satisfy?

  1. A. Describe
    The answer does not say what is seen; it gives the cause and follows it to the result.
  2. B. ✓ Explain
  3. C. Identify
    The answer names nothing: it never says ‘surface tension’.
  4. D. Predict
    The student changes nothing and gives no outcome under a change.

Why: The answer names the cause, a surface molecule pulled only sideways and inward, joins it with ‘so’, and reaches the result, the strider held up.
That is what Explain asks for.

41
Check q8

Part (a) says: ‘Describe what happens when sweat on the skin dries.’ A student writes: ‘If the air is already full of water vapor, far less of the sweat will evaporate.’

Which task verb has the student answered?

  1. A. Describe
    The answer never says what is seen when sweat dries; it says what would happen in humid air.
  2. B. Explain
    The answer gives no cause.
  3. C. Identify
    The answer names nothing.
  4. D. ✓ Predict

Why: The student changed the situation to humid air and said what would follow, with a direction: far less evaporation.
That answers Predict.
The part asked Describe, so what is seen when sweat dries is still missing.

42

The dry wax paper: wax is nonpolar, so nothing on its surface holds water (Justify). The property that let the water climb the plain towel is adhesion (Identify). A dashed line from a hydrogen on one molecule to the oxygen on the next shows the attraction (Represent).

Glossary

claim
A statement put forward as true, often your own prediction.
Justify
Give evidence, a fact that supports a claim, and give the reasoning: how that fact makes the claim true.
Identify
Indicate the thing asked for, a name, an atom, a group or a value, without elaboration: name it and add nothing.
Represent
Use graphs, symbols, words, illustrations or tables of values to describe the thing or the relationship, in the form the part names: a mark between the right parts of a drawing, or a statement of exactly where each label goes.

APBIO-SKL-L04 How a point is earned

Topic skills · How AP Biology asks you questions · 46 steps

Three answer cards to the same part, one sentence, five sentences and one word, marked 1, 0 and 0
Three answer cards to the same part, one sentence, five sentences and one word, marked 1, 0 and 0

Here are three answers to the same part: Explain why the water climbs the paper towel.

One student wrote a single sentence. One wrote five. One wrote one word. The person scoring them, holding a two-line list of what the answer had to contain, gave them 1, 0 and 0, in that order.

How AP Biology asks you questions

1What a scoring guide says a point is for

2

Here is the two-line list the scorer held. First line: ‘Award 1 point for: water molecules hydrogen-bond to the partial charges on the paper fibers, so the water is pulled up the towel.’

3

Second line: ‘Accept: adhesion to the fibers pulls the water up.’

4

The first line says what earns the point: the attraction between water and the fibers, and what it does, pulling the water up.

5

The Accept line is another wording of the same idea. It is not a second point.

6

A list like this, of what earns each point of a question, is a , also called a rubric.

7

One unit of credit, awarded for one idea, is called a .

8

The guide’s own words need not appear in the answer. The idea must, in any words that carry it.

9

What you are expected to know Read from a scoring guide the idea an answer must contain to earn the point, and the other wordings the Accept line allows.

10
Check q1

A scoring guide for one part reads: ‘Award 1 point for: only the fastest water molecules break free of their hydrogen bonds and leave as vapor, carrying their energy away, so the water left behind is cooler. Accept: the escaping molecules take heat with them, cooling what remains.’

How many points can an answer to this part earn?

  1. A. ✓ 1 point
  2. B. 2 points
    The Accept line is not a second point.
  3. C. 3 points
    Two lines cannot make three points, and the Accept line adds none.
  4. D. Half a point for each line
    Both lines describe the same one idea, so there is nothing to split; either wording earns the whole point.

Why: The Award line names one idea worth one point.
The Accept line is another wording of that same idea, so the most an answer can earn is 1 point.

11
Check q2

The scoring guide again, in full: ‘Award 1 point for: only the fastest water molecules break free of their hydrogen bonds and leave as vapor, carrying their energy away, so the water left behind is cooler. Accept: the escaping molecules take heat with them, cooling what remains.’

What must an answer contain to earn the point?

  1. A. The guide’s own words, ‘hydrogen bonds’ and ‘carrying their energy away’, used somewhere in the answer.
    The guide’s own phrases are not required; the idea is.
  2. B. The full first line of the guide, copied out word for word, with nothing at all changed.
    The guide is a list of ideas, not a line to be copied.
  3. C. Any true statement about sweat, or about water evaporating from the surface of the skin.
    The point is for one particular idea, not for any true statement about sweat.
  4. D. ✓ The idea that the fastest molecules leave as vapor with their energy, so what is left is cooler.

Why: The point is for the idea the Award line names: the fastest molecules leave as vapor with their energy, so the water left behind is cooler.
Any wording that carries that idea earns it.

12Score an answer against the guide

13

The single sentence: ‘The paper fibers carry partial charges, so water molecules are attracted to them and the water is pulled up the towel.’

14

It names the attraction, water to the charged fibers, and what it does, pulls the water up: the Award idea in other words. It earns the point.

15

The five sentences: ‘Water is essential to all living things. It has many special properties that other liquids do not have. When the towel touches the water, the water starts to move. It travels up the towel and spreads out through the fibers. Soon the wet patch is well above the water level.’

16

Five true sentences, and no cause. Nothing says what pulls the water, so the Award idea is absent, and the Accept idea too. 0.

17

The one word: ‘Adhesion.’ It names the property the Accept line names. But the Accept line awards the point for ‘adhesion to the fibers pulls the water up’.

18

The name alone says neither what water sticks to nor what that does. 0.

The three answers scored against the guide: only the single sentence names what attracts the water and what that does, so it alone earns the point
The three answers scored against the guide: only the single sentence names what attracts the water and what that does, so it alone earns the point
19

So the question to ask of any answer is: does it contain the idea the guide names, the thing and what it does, in any words, at any length?

20

Answers to Describe, Explain, Predict and Justify parts are written in full sentences. An Identify answer may be a word.

21

What you are expected to know Decide whether an answer earns a one-point part by checking whether it contains the idea the guide names, the thing and what it does, in any wording and at any length.

22
Check q3

Part: Explain why the water climbs the paper towel. Guide: ‘Award 1 point for: water molecules hydrogen-bond to the partial charges on the paper fibers, so the water is pulled up the towel. Accept: adhesion to the fibers pulls the water up.’ Four more students answer.

Which answer earns the point?

  1. A. ✓ Water is attracted to the fibers because both carry partial charges, so the water is pulled up.
  2. B. Hydrogen bonds. Partial charges. Adhesion.
    Three names on their own say neither what attracts the water nor what that does.
  3. C. Water is very important to life, has many special properties, and moves up the towel and through it.
    True sentences with no cause: nothing says what pulls the water up.
  4. D. The towel is made of fibers, and water moves up between the fibers, filling the gaps between them.
    Water moving up between the fibers is the observation, not the attraction that pulls it up.

Why: The answer names the thing, water attracted to the charged fibers, and what it does, pulls the water up.
That is the Award idea in the student’s own words, so it earns the point.

23
Check q4

Part: Explain why a drop of water on a waxed leaf stays as a rounded bead. Guide: ‘Award 1 point for: wax carries no charges or partial charges, so water is not attracted to it and its molecules attract one another instead, drawing the drop into a bead. Accept: no adhesion to the wax, so cohesion pulls the drop together.’ Four students answer.

Which answer earns the point?

  1. A. Cohesion and surface tension, two of the properties that hydrogen bonds give to water and to the drop.
    Two right names say neither what attracts the water, or fails to, nor what that does to the drop.
  2. B. The drop stays a bead because wax is waterproof, so the water cannot soak into the leaf beneath it.
    ‘Waterproof’ only restates that the water stays out; it gives no cause for the bead.
  3. C. ✓ Nothing on the wax attracts the water, so its molecules attract one another and pull the drop into a bead.
  4. D. The water molecules attract one another by hydrogen bonds, which are weak one at a time but strong together.
    Hydrogen bonds between the molecules are part of the idea, but nothing mentions the wax or reaches the bead.

Why: The answer says what does not attract the water, the wax, what attracts it instead, other water molecules, and what that does, pulls the drop into a bead.
That is the Award idea in other words.

24More words do not mean more points

25

A part awards a point for each idea in its guide once. A second correct sentence saying the same idea adds nothing.

26

A longer sentence adds nothing. Restating the question adds nothing.

27

Here is a two-point part: Explain why the water climbs the towel. ‘Award 1 point for: the attraction, water hydrogen-bonding to the fibers. Award 1 point for: what it does, pulling the water up the towel.’

28

One sentence naming the hydrogen bonding to the fibers and the pull upward earns 2.

29

Four sentences that each say only that the water climbs earn 0. A paragraph naming the attraction but never what it does earns 1.

Three answers of different lengths to a two-point part: fourteen words earn two points, sixty words earn none, forty-five words earn one
Three answers of different lengths to a two-point part: fourteen words earn two points, sixty words earn none, forty-five words earn one
30

So write the whole idea, the thing and what it does, then stop.

31

What you are expected to know A part awards a point for each idea in its guide once, so extra sentences, longer sentences and restatements of the question add nothing. From answers of different lengths, pick the one that earns the most.

32
Check q5

A two-point part: Explain why water climbs a narrow glass tube. ‘Award 1 point for: water hydrogen-bonds to the partial charges on the glass. Award 1 point for: that attraction pulls the edge of the water up the glass.’ Four answers of different lengths.

Which answer earns the most points?

  1. A. Water climbs glass tubes. It rises inside them. The level inside is higher than outside. Narrow tubes show this best.
    All four sentences say only that the water climbs; none names the attraction or what it does: 0 points.
  2. B. Glass is a smooth solid, and water is a liquid that flows, so the water flows up into the tube.
    Smoothness and flowing are no attraction: 0 points.
  3. C. Water molecules hydrogen-bond to the partial charges on the surface of glass. This is adhesion. Adhesion is water sticking to something other than water. Glass carries partial charges, and so does paper.
    The paragraph names the attraction, which earns 1, but never says what the attraction does to the water.
  4. D. ✓ Water is attracted to the partial charges on the glass, and that attraction draws the edge of the water upward.

Why: One sentence carries both ideas: the attraction, water drawn to the charged glass, and what it does, pulling the edge of the water up.
It earns 2; the long paragraph earns 1 and the other two earn 0.

33
Check q6

A one-point part: Explain why sweat cools the skin. ‘Award 1 point for: the fastest molecules leave as vapor carrying energy away, so the water left behind is cooler.’ A student’s answer earns the point in one sentence, then adds a second sentence saying the same thing in other words.

How many points does the answer earn?

  1. A. 0 points
    A second correct sentence saying the same thing costs nothing.
  2. B. ✓ 1 point
  3. C. 2 points
    One idea said twice earns its point once.
  4. D. 3 points
    The part is worth one point, for one idea.

Why: The part awards its one point once.
The first sentence earned the point; the second sentence, the same idea in other words, adds nothing, so the answer earns 1 point.

34A wrong extra can lose the point: the Do not award line

35

Some guides carry a third line: ‘Do not award the point for …’. It names the common wrong answer for that part.

36

For the towel: ‘Do not award the point for: hydrogen bonds described as the covalent bonds inside a water molecule.’

37

A student writes: ‘Water is pulled up because it hydrogen-bonds to the fibers. Hydrogen bonds are the strong covalent bonds inside a water molecule.’

38

The first sentence earns the point. The second calls a hydrogen bond a covalent bond, which contradicts it and matches the Do not award line. The point is lost: 0.

Two answers: the same first sentence followed by a contradicting second sentence scores 0; the first sentence alone scores 1
Two answers: the same first sentence followed by a contradicting second sentence scores 0; the first sentence alone scores 1
39

Whoever scores the answer cannot tell which statement you mean, so a contradiction cancels the point.

40

An extra that is correct, or not about the question but not wrong, costs nothing. It only earns nothing.

41

The same first sentence alone earns 1.

42

What you are expected to know Use the Do not award line to decide whether an answer loses the point it earned by adding a statement that contradicts the earning idea. A correct or unrelated extra costs nothing.

43
Check q7

Part: Explain why an insect called a water strider can stand on the surface of a pond. Guide: ‘Award 1 point for: a molecule at the surface has no neighbors above, so its hydrogen bonds pull it sideways and inward, and the surface layer holds together like a taut skin that supports the strider. Do not award the point for: hydrogen bonds described as bonds inside a water molecule.’ A four-sentence answer scored 0. (1) Water striders live on ponds and slow streams. (2) A surface molecule has neighbors beside and beneath it but none above, so its hydrogen bonds pull it sideways and inward, and the surface holds together like a taut skin under the strider’s feet. (3) These hydrogen bonds are the covalent bonds that join the oxygen to its two hydrogens. (4) The strider’s legs are long and spread its weight.

Which sentence lost the point?

  1. A. Sentence 1
    Sentence 1, where striders live, is neither the earning idea nor a contradiction of it: it earns nothing and costs nothing.
  2. B. Sentence 2
    Sentence 2 carries the whole Award idea: it is the sentence that earned the point.
  3. C. ✓ Sentence 3
  4. D. Sentence 4
    Sentence 4, long legs spreading the weight, is true and not about the question: it earns nothing and costs nothing.

Why: Sentence 2 earned the point.
Sentence 3 calls the hydrogen bonds covalent bonds inside a molecule, which contradicts it and matches the Do not award line, so the point is lost.
Sentences 1 and 4 are not about the question and cost nothing.

44
Check q8

Part: Explain why a drop of water clings to a glass mirror. Guide: ‘Award 1 point for: water molecules hydrogen-bond to the partial charges on the glass, so the drop is held to it. Do not award the point for: water sharing electrons with the glass.’ A student writes four sentences. (1) Drops often cling to a mirror after a shower. (2) The glass carries partial charges, so the water molecules hydrogen-bond to it and the drop is held to the glass. (3) This is adhesion, water attracted to something other than water. (4) Cohesion, water attracted to water, is a different property.

How many points does the answer earn?

  1. A. 0 points
    None of sentences 1, 3 and 4 contradicts the hydrogen bonding or matches the Do not award line, so none costs anything.
  2. B. ✓ 1 point
  3. C. 2 points
    Naming adhesion in sentence 3 is correct but earns nothing more: the part awards one point for one idea.
  4. D. 3 points
    The part is worth one point, not one per correct sentence.

Why: Sentence 2 earned the point.
Sentences 1, 3 and 4 are correct or not about the question, and none of them contradicts the hydrogen bonding or matches the Do not award line, so the answer keeps its 1 point.

45

The single sentence named the attraction and what it did, and earned the point. The five sentences never gave a cause. The one word named a property that Explain had not asked to be named.

Glossary

scoring guide
The list of what earns each point of a question: an Award line for each point, an Accept line for other wordings, and sometimes a Do not award line naming the common wrong answer.
point
One unit of credit, awarded for one idea: the thing and what it does, in any words.

APBIO-SKL-L05 A free-response question, step by step

Topic skills · How AP Biology asks you questions · 22 steps

Two identical dark metal cans under one lamp, one of water and one of dry sand, each with a thermometer: the water reads 30 °C and the sand 47 °C
Two identical dark metal cans under one lamp, one of water and one of dry sand, each with a thermometer: the water reads 30 °C and the sand 47 °C

Here are two identical dark metal cans under one lamp. One holds 200 g of water, the other 200 g of dry sand, and each has a thermometer.

At the end of the last water lesson you wrote an answer about a pond that barely warmed, then compared it with a full-credit answer. Below is a task of the same kind. Both thermometers read 22 °C at the start. Thirty minutes later the sand reads 47 °C and the water 30 °C.

How AP Biology asks you questions

1Two parts, one verb at a time, with a start written for you

2

Here are the two thermometers after thirty minutes. The sand has warmed by 25 °C, the water by 8 °C.

The two thermometers after thirty minutes under the same lamp: the water at 30 °C, the sand at 47 °C, both from 22 °C
The two thermometers after thirty minutes under the same lamp: the water at 30 °C, the sand at 47 °C, both from 22 °C
3

Take the parts one at a time. Part (a) opens with Describe. It wants what was seen, the comparison of the two temperature changes, and not why.

4

The start of the sentence is written for you. Finish it with the comparison: which warmed more, and by how much.

5

Part (b) opens with Explain. Name the cause, where the added energy goes, and follow it to the result: the water warmed less. Write short, simple sentences, one causal step each, one per line.

6

Then the full-credit answer appears, with the scoring guide. Check a box only for a line whose idea your sentences actually contain.

7

A sentence that reads well has not earned the point until it carries the idea. Check it against the idea, not against how it sounds.

8

What you are expected to know Write the answer to each part in the kind of sentence its verb asks for, then score yourself line by line against the guide, checking only the boxes your sentences have earned.

9
Practice writing an answer

Two identical dark metal cans stand under one lamp. One holds 200 g of water, the other 200 g of dry sand, and each has a thermometer. Both thermometers read 22 °C at the start. After 30 minutes the sand reads 47 °C and the water reads 30 °C, as the two thermometers below show.

The two thermometers after thirty minutes under the same lamp: the water at 30 °C, the sand at 47 °C, both from 22 °C
The two thermometers after thirty minutes under the same lamp: the water at 30 °C, the sand at 47 °C, both from 22 °C

(a) Describe how the water’s temperature change compared with the sand’s. (1 pt)

Frame After 30 minutes under the same lamp, the sand had warmed by 25 °C, while the water

Model answer After 30 minutes under the same lamp, the sand had warmed by 25 °C, while the water had warmed by only 8 °C, far less than the sand.
Rubric
  • Award 1 point for: the water’s temperature rose much less than the sand’s (by 8 °C against 25 °C) although both cans received the same lamp’s energy for the same time.
  • Accept: ‘the water warmed less’ or ‘the water warmed more slowly than the sand’, with or without the numbers.
  • Do not award the point for describing only one can, or for saying the water did not warm at all.

Slip Giving the reason (hydrogen bonds) instead of the comparison; the reason is part (b)’s point and earns nothing here.

(b) Explain why the two temperatures changed by different amounts. (1 pt)

Model answer Energy added to water partly goes into pulling hydrogen bonds apart, rather than only making the molecules move faster.
So the lamp’s energy warmed the water by much less than the sand.
Rubric
  • Award 1 point for: energy added to water partly goes into pulling hydrogen bonds apart rather than only making the molecules move faster; that is why the lamp’s energy warmed the water by so much less than the sand (water’s high specific heat capacity).
  • Accept: ‘much of the lamp’s energy goes into breaking the hydrogen bonds that hold water molecules to their neighbors instead of into making them move faster’, with or without the name specific heat capacity.
  • Do not award the point when specific heat capacity is named but nothing says where the added energy goes, when the answer is ‘water reflects the light’, or when the answer has the molecules’ own O–H bonds breaking instead of the attractions between molecules.

Slip ‘Water has a high specific heat capacity’ on its own restates the observation with a name; the point is for where the added energy goes.

10

The full-credit answer you compared yours with is called a : an answer that earns every point, written in words you have already seen.

11

Compare line by line. Did your (a) say the water warmed less, with or without the numbers? Did your (b) say where the added energy went, and that the water therefore warmed less?

12
Check q1

Two identical dark cans, one of water and one of dry sand, stood under one lamp for 30 minutes; the sand warmed by 25 °C and the water by 8 °C. Four students each wrote one sentence for part (b), Explain why the two temperatures changed by different amounts, and each student thinks the sentence earns the point.

Which sentence earns the point for part (b)?

  1. A. Water has a high specific heat capacity, so it warms slowly under the lamp; that is why the water in the can warmed less than the sand did.
    Naming the property never says where the added energy goes.
  2. B. ✓ Much of the lamp’s energy went into pulling apart hydrogen bonds between water molecules, not into speeding them up, so it warmed less.
  3. C. The water reflects some of the lamp’s light back upward, so it takes in less energy than the dark sand does and warms less.
    Both cans are dark and take in the lamp’s light; the water reflects no more of it than the sand does.
  4. D. The lamp’s energy breaks the O–H bonds inside each molecule, so less of the energy is left over to warm the water in the can.
    The O–H bonds inside each molecule stay whole; the energy goes into pulling apart the hydrogen bonds between molecules.

Why: The sentence says where the added energy goes: into pulling apart the hydrogen bonds between water molecules.
It follows that to the result: the water warmed less.
That is the Award idea in the student’s own words.

13
Check q2

Part (a) of the question about the two cans, Describe how the water’s temperature change compared with the sand’s: the sand went from 22 °C to 47 °C, the water from 22 °C to 30 °C. Each of four students finished the sentence ‘After 30 minutes under the same lamp, the sand had warmed by 25 °C, while the water …’ in a different way.

Which ending earns the point for part (a)?

  1. A. … was held back from warming by the hydrogen bonds between its molecules.
    A reason is part (b)’s point; part (a) asks for the comparison.
  2. B. … had not warmed at all by the end of the 30 minutes.
    The water did warm, from 22 °C to 30 °C, so ‘not at all’ is false.
  3. C. ✓ … had warmed by only 8 °C, far less than the sand.

Why: Part (a) awards its point for the comparison: the water warmed by 8 °C, from 22 °C to 30 °C, against the sand’s 25 °C, far less.
The ending states it, with the numbers, so it earns the point.

14Three parts, no start given

15

Here is a glass dropper held tip down, with a drop of water hanging from its glass tip. The question is about this drop, with no start written for you, and a third part: Predict.

A glass dropper held tip down, with a drop of water hanging from its glass tip
A glass dropper held tip down, with a drop of water hanging from its glass tip
16

Read each verb before you write.

The three verbs and the sentence each asks for: Describe, the characteristics asked for; Explain, cause, link, result; Predict, the outcome and its direction
The three verbs and the sentence each asks for: Describe, the characteristics asked for; Explain, cause, link, result; Predict, the outcome and its direction
17

Describe what happens: what is seen, in order. Explain why: cause, link, result. Predict: the outcome and its direction. Write short, simple sentences, one causal step each, one per line.

18

After you reveal the guide, check a box only for a line whose idea your sentences contain.

19

What you are expected to know Answer a three-part free-response question part by part in the sentences the verbs ask for, then score it line by line against the guide and total the points.

20
Practice writing an answer

A glass dropper is held tip down and squeezed very gently, so that water is pushed slowly out of its glass tip. A drop forms at the tip and hangs there, as shown below. The glass tip is polar, and the drop hangs from it because water is attracted to the glass.

A glass dropper held tip down, with a drop of water hanging from its glass tip
A glass dropper held tip down, with a drop of water hanging from its glass tip

(a) Describe what happens to the hanging drop as more water is pushed out, up to the moment it falls. (1 pt)

Model answer The drop grows as more water is pushed out.
It then stretches, and a narrow neck forms above its widest part.
It breaks away and falls as a single drop.
Rubric
  • Award 1 point for: the drop grows as water is added, then stretches into a narrow neck just above its widest part and breaks away, falling as one whole drop.
  • Accept: any account that has the drop growing while it hangs and then falling whole; the neck may be left out.
  • Do not award the point for an account in which the water runs off as a stream or dribbles away as it is pushed out, or for a reason in place of what happens.

Slip Writing why the drop hangs (hydrogen bonds) instead of what happens to it in order; the why is part (b)’s point.

(b) Explain why the water in the drop stays together as one body while it hangs. (1 pt)

Model answer The water molecules attract one another by hydrogen bonds; this attraction is cohesion.
So the water stays together as one body while it hangs.
Rubric
  • Award 1 point for: the water molecules attract one another by hydrogen bonds (cohesion), so the water stays together as one body and comes away as a single drop.
  • Accept: ‘cohesion: neighboring water molecules attract one another, so they hold together’, with or without the name cohesion, provided an attraction that holds water molecules to one another is named.
  • Do not award the point when the molecules are said to be joined by covalent bonds, when the answer is ‘the water is thick or sticky’ with no attraction named, or when the answer gives only the water’s hold on the glass (that keeps the drop on the tip; it does not keep the drop whole).

Slip Naming cohesion without saying what holds the molecules to one another; or giving the attraction to the glass, which explains why the drop hangs, not why it stays whole.

(c) The glass tip of the dropper is now coated in wax, which is nonpolar, and the same gentle squeeze is repeated. Predict how big the drop is at the moment it falls, compared with the drop from the clean glass tip. (1 pt)

Model answer The drop from the waxed tip falls while it is still smaller than the drop from the clean glass tip.
Rubric
  • Award 1 point for: the drop from the waxed tip falls while it is still smaller than the drop from the clean glass tip (it breaks away sooner, at a smaller size).
  • Accept: ‘smaller drops’ or ‘it falls before it has grown as large’, with or without the reason (nothing on the wax holds the water, so less holds the drop to the tip and it breaks away sooner).
  • Do not award the point when the drop is said to be the same size or larger, or when only a reason is given (the wax has no partial charges) with no size stated.

Slip Writing the reason (nothing on the wax attracts water) and stopping there: the examiner credits a Predict part for the outcome and its direction, here ‘smaller’.

21

The sand warmed by 25 °C and the water by only 8 °C, because energy added to water partly goes into pulling hydrogen bonds apart rather than only making the molecules move faster. Two sentences, two points, and this time the two verbs told you, before the guide appeared, what each sentence had to contain.

Glossary

model answer
The full-credit answer shown after your attempt: an answer that earns every point.

APBIO-SKL-L06 What the verb is asking for: Make a claim, Support a claim, Evaluate, Determine

Topic skills · How AP Biology asks you questions · 105 steps

A question card reading Support the student's claim, and below it a one-line answer marked 0
A question card reading Support the student's claim, and below it a one-line answer marked 0

Here is a part from a real exam paper, about the reaction that makes a firefly glow: “A student claims that, as temperature increases, there will be an increase in the amount of light given off by the reaction in the first three seconds. Support the student’s claim.”

One student wrote: “The student is right, because warmer means more light.” It earned nothing. Four exam verbs sit around a claim like this one, and each asks for a different sentence.

How AP Biology asks you questions

1Make a claim: state what you assert is true

2

Video: Watch: Make a claim

One sentence that asserts one specific thing about the thing named, with its direction; the reason belongs to a task that asks for it.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-SKL-L06.mp4

3

Here is a task from the 2018 exam: ‘Make a claim about how cleaving inactive caspase-1 results in activation of caspase-1.’

4

Caspase-1 is a protein that helps a cell fight bacteria.

5

The cell makes caspase-1 in an inactive form, and later cuts a piece off it; the exam’s word for cutting a piece off a protein is cleaving.

6
Check q1

Hemoglobin is a protein in blood that binds oxygen.

What lets hemoglobin do that job?

  1. A. ✓ Its shape
  2. B. Its color
    Color is what hemoglobin looks like; color does not decide what the molecule can bind.
  3. C. How many copies the blood holds
    More copies bind more oxygen in total.
    Each copy binds because of its shape.

Why: A protein’s shape lets it do its job: hemoglobin’s shape lets it bind oxygen.

7

When a task says , it asks you to state, in one sentence, what you assert is true about the thing named.

8

A full-credit claim, one causal link per line: ‘Cutting the piece off changes the protein’s shape.
So the protein can now do its job: it is active.’

9

The scorer gave the point for the assertion alone: that cutting changes the shape, or that cutting removes a part that was blocking the protein.

10

‘Cleaving inactive caspase-1 activates it’ earns nothing: the sentence repeats the task and asserts nothing about how.

11

‘Cleaving might change the protein in some way’ earns nothing either: a claim commits to one specific thing.

12

A claim needs no reason beside it; a separate task, Support a claim or Justify, asks for the reason when the exam wants it.

13

What you are expected to know Answer a Make a claim task with one sentence that states one specific thing about the thing named, with its direction, and gives no reason.

14
Check q2

The task: ‘Make a claim about how coating the inside of a glass tube with wax affects how high water climbs in it.’ A student writes: ‘Wax changes how high the water climbs.’

Does the sentence earn the claim point?

  1. A. Yes
    The sentence gives no direction.
    Higher or lower is the assertion the task wants.
  2. B. ✓ No

Why: A claim asserts one specific thing.
‘Changes’ commits to neither higher nor lower, so the sentence asserts nothing the task did not already say.

15
Check q3

The task: ‘Make a claim about how coating the inside of a glass tube with wax affects how high water climbs in it.’ A student writes: ‘Water climbs less high in the waxed tube than in the clean tube.’

Does the sentence earn the claim point?

  1. A. ✓ Yes
  2. B. No
    The sentence asserts one specific thing with a direction: less high in the waxed tube.

Why: The task asks how wax affects the height.
‘Less high in the waxed tube’ is one specific assertion about that, so it earns the point.

16
Check q4

The task: ‘Make a claim about how coating the inside of a glass tube with wax affects how high water climbs in it.’ A student writes: ‘Water climbs the clean tube because glass carries partial charges.’

Does the sentence earn the claim point?

  1. A. Yes
    The sentence is about the clean tube.
    It asserts nothing about the wax.
  2. B. ✓ No

Why: The task names the wax.
A sentence about the clean glass makes no claim about the effect of wax, so it earns nothing.

17
Check q5

The task: ‘Make a claim about how coating the inside of a glass tube with wax affects how high water climbs in it.’ A student writes: ‘In the waxed tube the water stands no higher inside than outside.’

Does the sentence earn the claim point?

  1. A. ✓ Yes
  2. B. No
    The sentence commits to one outcome for the waxed tube: no climb at all.

Why: ‘Stands no higher inside than outside’ commits to one outcome for the waxed tube.
That is a claim about the effect of the wax, so it earns the point.

18
Check q6

The task: ‘Make a claim about how coating the inside of a glass tube with wax affects how high water climbs in it.’ Three students each write one sentence.

Which sentence makes a claim about the effect of the wax?

  1. A. Glass and wax are both solids, and both can be shaped into a tube.
    Both being solids does not tell you how high the water climbs.
  2. B. The water may behave differently in the waxed tube than in the clean one.
    ‘May behave differently’ commits to nothing.
  3. C. ✓ Water climbs higher in the clean tube than in the waxed tube.

Why: A claim asserts one specific thing about the thing named.
Only ‘higher in the clean tube than in the waxed tube’ does that.

19
Practice writing an answer

A narrow glass tube and a wide glass tube stand upright in the same dish of water. In the narrow tube the water stands 24 mm above the water in the dish. In the wide tube the water stands 5 mm above it.

(a) Make a claim about how the width of a glass tube affects how high water climbs in it. (1 pt)

Model answer The narrower the glass tube, the higher the water climbs in it.
Rubric
  • Award 1 point for: a claim that water climbs higher in a narrower tube (or less high in a wider tube): one assertion, with its direction.
  • Accept: ‘water climbs higher in the narrow tube than in the wide one’, with or without the two heights.
  • Do not award the point for: ‘the width affects the height’ with no direction, for the two measurements repeated with no claim, or for a reason (partial charges on the glass) with no claim.

Slip Explaining why water climbs glass instead of asserting what the width does to the height; no task here asks for the reason.

20Support a claim: the fact, then how it makes the claim true

21

Video: Watch: Support a claim

The fact, then the link from the fact to the thing the claim names; the claim repeated or the fact alone earns nothing.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-SKL-L06B.mp4

22

Back to the firefly task from the opening: ‘A student claims that, as temperature increases, there will be an increase in the amount of light given off by the reaction in the first three seconds. Support the student’s claim.’

23

Fireflies glow because a protein in them, luciferase, speeds up a reaction between molecules that gives off light.

24
Check q7

Water in a pan is warmed on a stove.

What happens to the water molecules?

  1. A. ✓ They move faster
  2. B. They move more slowly
    Added energy makes molecules move faster, not more slowly.
  3. C. They stop moving
    Molecules in liquid water never stop moving.
    Warming speeds them up.

Why: Energy added to water makes its molecules move faster.

25

When a task says , it asks you to give the fact, then the link from the fact to the thing the claim names.

26

First line, the fact: ‘Warmer molecules move faster.’

27

Second line, the link: ‘So the molecules collide more often.’

28

Third line, the claim reached: ‘So the reaction happens more often in the three seconds, and more light is given off.’

29

The scorer’s line said the same: a higher temperature makes the molecules collide more often, so the reaction is faster; the point needs the fact and the link that reaches the light.

30

‘Warmer molecules move faster’ on its own earns nothing: the fact never reaches the light.

31

‘The student is right: warmer means more light’ earns nothing: the sentence repeats the claim and gives no fact.

32

Support a claim and Justify earn their point the same way: a fact, then how the fact makes the claim true.

33

What you are expected to know Answer a Support a claim task with the fact, then the link from the fact to the claim, reaching the thing the claim names; the claim repeated, or the fact alone, earns nothing.

34
Check q8

The task: ‘A student claims that a drop of water on a waxed leaf stays as a rounded bead. Support the student’s claim.’ Three sentences are offered.

Which sentence is the fact the support starts from?

  1. A. The drop stays as a rounded bead.
    That is the claim itself, not a fact that supports it.
  2. B. ✓ Wax carries no partial charges.
  3. C. Water is a liquid.
    Water is a liquid on wax and on glass alike; the sentence separates nothing.

Why: The support starts from a fact about the wax.
Wax carries no partial charges, so nothing on the wax attracts water.
The bead rests on that fact.

35
Check q9

The task: ‘A student claims that a drop of water on a waxed leaf stays as a rounded bead. Support the student’s claim.’ A student has written the fact: ‘Nothing on the surface of wax carries a partial charge.’

Which sentence links that fact to the bead?

  1. A. So the wax is nonpolar, which is another way of saying that the surface of the wax carries no partial charges at all.
    ‘Nonpolar’ restates the fact in another word.
    The sentence reaches no bead.
  2. B. So the drop is round, and a round drop sitting on a leaf is exactly what a bead of water on a leaf looks like.
    ‘So the drop is round’ jumps to the claim with no link from the fact.
  3. C. ✓ So nothing on the wax attracts the water; the water molecules attract one another instead and pull the drop into a bead.

Why: The link runs from the fact to the claim.
Nothing on the wax attracts the water.
So the water molecules attract one another instead, and that pull makes the bead.

36
Check q10

The task: ‘A student claims that sweat cools the skin more slowly in humid air than in dry air. Support the student’s claim.’

Which answer earns the point?

  1. A. Humid air already holds a lot of water vapor, and the sweat on the skin is made of the same kind of molecule as that vapor.
    The fact stops one step short.
    Nothing reaches the cooling.
  2. B. ✓ Humid air already holds a lot of water vapor, so fewer sweat molecules leave as vapor, so less energy leaves the skin.
  3. C. The student is right: humid days feel sticky, and sticky skin shows that the sweat is not doing its job well.
    ‘Feels sticky’ repeats the claim in other words and gives no fact.

Why: The fact: humid air already holds much water vapor.
The link: fewer sweat molecules leave as vapor, so less energy leaves the skin.
The sentence reaches the claim: slower cooling.

37
Check q11

The task: ‘A student claims that ice floats on liquid water. Support the student’s claim.’

Which answer earns the point?

  1. A. Ice is cold, and cold things float, so the coldest water in a pond rises to the top and freezes into a layer there.
    Cold on its own floats nothing; a cold stone sinks.
  2. B. Ice is a solid, and a solid holds its shape, so the ice holds itself up on top of the pond instead of mixing into it.
    A solid usually sinks in its own liquid.
    Holding a shape does not reach floating.
  3. C. ✓ In ice, hydrogen bonds hold the molecules farther apart than in liquid water, so ice is less dense, so it floats.

Why: The fact: hydrogen bonds hold the molecules in ice farther apart.
So ice is less dense than liquid water.
So ice floats: the fact reaches the claim.

38
Practice writing an answer

On a hot afternoon a pond warms by 2 °C while the rocks beside it get too hot to touch. A student claims that water warms less than rock when both take in the same energy from the sun.

(a) Support the student’s claim. (1 pt)

Model answer Energy added to water partly goes into pulling hydrogen bonds apart.
So less of the added energy goes into making the water molecules move faster.
So the water’s temperature rises less than the rock’s for the same energy taken in.
Rubric
  • Award 1 point for: the fact (energy added to water partly goes into pulling hydrogen bonds apart) AND the reasoning that links it to the smaller temperature rise.
  • Accept: ‘much of the sun’s energy breaks hydrogen bonds between water molecules instead of speeding them up, so the water warms less’, with or without the name specific heat capacity.
  • Do not award the point for: ‘water has a high specific heat capacity’ alone, for the claim repeated, or for the fact about hydrogen bonds that never reaches the temperature.

Slip Naming the property and stopping; the point needs the link from where the energy goes to the smaller temperature rise.

39Evaluate: judge the claim, and give the ground for the judgement

40

Video: Watch: Evaluate

Judge the claim against the data, and give the ground for the judgement.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-SKL-L06C.mp4

41

Here is a task from the 2022 exam, with two rows of its data table.

Two rows of the 2022 exam table: mRNA with the normal cap lasted 16.1 hours and made 1.0 units of protein; mRNA with modified cap I lasted 15.5 hours and made 4.8 units
Two rows of the 2022 exam table: mRNA with the normal cap lasted 16.1 hours and made 1.0 units of protein; mRNA with modified cap I lasted 15.5 hours and made 4.8 units
42

A cell reads a copy of a gene’s instructions, an mRNA molecule, to make a protein.

43

Researchers put two kinds of mRNA into cells: mRNA with its normal end cap, and mRNA with a modified cap.

44

They measured how long each kind of mRNA lasted in the cells and how much protein the cells made from it.

45

The researchers’ claim: each mRNA with the modified cap was read more often than each mRNA with the normal cap.

46

The task: ‘Evaluate their hypothesis by comparing the data in Table 1’; the exam’s word for a researcher’s claim here is hypothesis.

47

When a task says , it asks you to judge whether the claim is supported, and to give the ground for your judgement from the data or from a principle.

48

A full-credit answer, the judgement first: ‘The hypothesis is supported.’

49

Then the ground: ‘The normal-cap mRNA and the modified-cap mRNA lasted about the same time, 16.1 hours and 15.5 hours.’

50

‘Yet the cells made more than four times as much protein from the modified-cap mRNA.’

51

‘So each modified-cap mRNA must have been read more often.’

52

‘The hypothesis is supported’ on its own earns nothing: a judgement without its ground.

53

‘The modified-cap mRNA made 4.8 times as much protein’ on its own earns nothing either: a ground without the judgement it supports.

54

The judgement can go either way: an Evaluate answer can end ‘the claim is not supported’, and the ground is then the datum that contradicts the claim.

55

What you are expected to know Answer an Evaluate task with the judgement (supported or not supported) and the ground for it from the data or a principle; either half alone earns nothing.

56
Check q12

A student claims that a wet arm dries faster in a breeze than in still air. In still air the arm took 6 minutes to dry; in a breeze, 2 minutes.

Is the claim supported by the two times?

  1. A. ✓ Yes
  2. B. No
    2 minutes in the breeze against 6 minutes in still air is faster drying in the breeze.

Why: The arm dried in 2 minutes in the breeze and 6 minutes in still air.
Faster in the breeze is what the claim says, so the two times support it.

57
Check q13

A student claims that a wet arm dries faster in a breeze than in still air. In still air the arm took 6 minutes to dry; in a breeze, 2 minutes. The claim is judged supported.

Which sentence is the ground for that judgement?

  1. A. Skin has a large surface, and a large surface gives the water many places to sit.
    The skin was the same in both trials; its size separates nothing.
  2. B. ✓ The arm dried in 2 minutes in the breeze and 6 minutes in still air.
  3. C. Moving air feels cool on wet skin, and a cool feeling is what the student noticed.
    How the air feels is not a measurement from the two trials.

Why: The ground is the datum that decides the judgement.
Only the two drying times compare the breeze with still air.

58
Check q14

Two identical dark cans, one of water and one of dry sand, stand under one lamp for 30 minutes. The sand warms by 23 °C and the water by 8 °C. A student claims that the two warm by the same amount.

Which answer earns the Evaluate point?

  1. A. The sand warmed by 23 °C and the water by 8 °C, so the sand ended up much warmer than the water did.
    The two temperature changes are the ground, but no judgement of the claim is made.
  2. B. The claim is not supported, because the student did not measure the two cans carefully enough to be sure.
    The judgement stands on a guess about the measuring, not on the data.
  3. C. ✓ The claim is not supported: the sand warmed by 23 °C and the water by only 8 °C under the same lamp.

Why: Evaluate needs the judgement and its ground.
‘Not supported’ is the judgement.
23 °C against 8 °C is the ground.

59
Check q15

A student claims that a drop of water spreads wider on glass than on wax paper. On glass a drop spread to 14 mm across; on wax paper, to 6 mm.

Which answer earns the Evaluate point?

  1. A. ✓ Supported: the drop spread to 14 mm on glass and only 6 mm on wax paper.
  2. B. Supported: glass is smooth, and a smooth surface lets the drop slide outward.
    ‘Glass is smooth’ is not a datum from the two measurements.
    It compares nothing.
  3. C. The drop spread to 14 mm on glass and 6 mm on wax paper, a difference of 8 mm.
    The two widths are the ground, but the claim is never judged.

Why: The judgement: supported.
The ground: 14 mm on glass against 6 mm on wax paper.

60
Practice writing an answer

Two identical dark metal cans stand at the same distance under one lamp for 30 minutes. One holds 200 g of water, the other 200 g of dry sand. Both cans start at 20 °C. After 30 minutes the sand reads 44 °C and the water 27 °C. A student claims that the sand warmed more because it received more light from the lamp.

(a) Evaluate the student’s claim. (1 pt)

Model answer The claim is not supported.
Both cans stood at the same distance under the same lamp for the same 30 minutes, so both received the same light.
With the same light, the sand warmed by 24 °C and the water by only 7 °C.
So the difference comes from the water and the sand, not from the light.
Rubric
  • Award 1 point for: the judgement (the claim is not supported) AND its ground (both cans received the same light from the same lamp for the same time, yet warmed by different amounts).
  • Accept: ‘not supported, because the two cans were under one lamp for the same time’, with or without the two temperature changes.
  • Do not award the point for: ‘not supported’ alone, for the temperature changes alone with no judgement, or for an explanation of why water warms slowly with no judgement of the claim about the light.

Slip Explaining why water warms less instead of judging the claim about the light; Evaluate asks for the judgement and its ground.

61Determine: decide, and show what the decision rests on

62

Video: Watch: Determine

Decide from the data, and show what the decision rests on: two rates differ when their ranges do not overlap.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-SKL-L06D.mp4

63

Here is a task from the 2024 exam, with its data table.

The 2024 exam table: the rate at which toad liver cells used oxygen at 20, 25 and 30 degrees, each with its ± range and the range written out
The 2024 exam table: the rate at which toad liver cells used oxygen at 20, 25 and 30 degrees, each with its ± range and the range written out
64

Researchers kept liver cells from toads at three temperatures and measured how fast the cells used oxygen.

65

Each rate comes with a range after the ± sign, and the true rate could sit anywhere in that range.

66

Two rates are different when their ranges do not overlap.

67

The task: ‘Based on the data provided, determine the temperature in °C at which the rate of oxygen consumption is different from the rate of oxygen consumption at 25 °C.’

68

When a task says , it asks you to reach a decision from the data or from a calculation, and to show what the decision rests on.

69

A full-credit answer, one step per line: ‘At 25 °C the range is 14.5 to 18.5.’

70

‘At 20 °C the range is 10.6 to 15.0, which overlaps 14.5 to 18.5.’

71

‘At 30 °C the range is 21.4 to 22.8, which does not overlap 14.5 to 18.5.’

72

‘So the rate is different at 30 °C.’

73

‘Both 20 °C and 30 °C, because 12.8 and 22.1 both differ from 16.5’ earns nothing: the decision rests on the middle numbers alone and never on the ranges.

74

The ranges are how you reach the right temperature, so write the decision and the line it rests on; the scorer then sees that you did not guess.

75

What you are expected to know Answer a Determine task with the decision and what it rests on: the ranges compared, or the calculation done; a decision made from the middle numbers alone earns nothing.

76
Check q16

Students timed how long a drop of water took to dry at three temperatures (table). At 12 °C the range is 38 to 46 minutes; at 22 °C it is 34 to 44 minutes.

Drying times of a drop of water at 12, 22 and 32 degrees: 42 ± 4, 39 ± 5 and 21 ± 3 minutes
Drying times of a drop of water at 12, 22 and 32 degrees: 42 ± 4, 39 ± 5 and 21 ± 3 minutes

Do the ranges at 12 °C and 22 °C overlap?

  1. A. ✓ Yes
  2. B. No
    38 to 46 and 34 to 44 share every value from 38 to 44.

Why: Two ranges overlap when they share values.
38 to 46 and 34 to 44 both contain 38 to 44, so they overlap.

77
Check q17

Students timed how long a drop of water took to dry. At 22 °C the range is 34 to 44 minutes; at 32 °C it is 18 to 24 minutes.

Do the ranges at 22 °C and 32 °C overlap?

  1. A. Yes
    18 to 24 ends before 34 to 44 begins.
    The two ranges share no value.
  2. B. ✓ No

Why: 18 to 24 and 34 to 44 share no value, so they do not overlap.

78
Check q18

Drying times for a drop of water: 12 °C, 38 to 46 minutes; 22 °C, 34 to 44 minutes; 32 °C, 18 to 24 minutes. Two times are different when their ranges do not overlap.

At which temperature is the drying time different from the time at 22 °C?

  1. A. 12 °C
    38 to 46 overlaps 34 to 44, so the 12 °C time is not different.
  2. B. Both 12 °C and 32 °C
    Only the 32 °C range, 18 to 24, does not overlap 34 to 44.
  3. C. ✓ 32 °C

Why: The 12 °C range overlaps the 22 °C range, so those two times are not different.
The 32 °C range does not overlap, so that time is different.

79
Check q19

Water climbed three brands of paper towel in 60 seconds: brand A 40 ± 4 mm (36 to 44), brand B 43 ± 3 mm (40 to 46), brand C 30 ± 2 mm (28 to 32). Two heights are different when their ranges do not overlap.

Which brand gives a height different from brand A’s?

  1. A. Brand B
    Brand B’s range, 40 to 46 mm, overlaps brand A’s 36 to 44 mm.
  2. B. ✓ Brand C
  3. C. Brands B and C
    Brand B’s range overlaps brand A’s.
    Only brand C’s range does not overlap it.

Why: Brand B’s range overlaps brand A’s, so those two heights are not different.
Brand C’s range does not overlap brand A’s, so that height is different.

80
Check q20

Water climbed three brands of paper towel in 60 seconds: brand A 40 ± 4 mm (36 to 44), brand B 43 ± 3 mm (40 to 46), brand C 30 ± 2 mm (28 to 32). A student decides that only brand C gives a height different from brand A’s.

Which line does that decision rest on?

  1. A. Brand C’s average, 30 mm, is the furthest from brand A’s average of 40 mm.
    Averages alone decide nothing.
    Brand B’s average also differs from brand A’s, yet the two ranges overlap.
  2. B. Brand C is the cheapest of the three brands of paper towel.
    Price is not in the data and decides nothing about height.
  3. C. ✓ Brand C’s range, 28 to 32 mm, does not overlap brand A’s range of 36 to 44 mm.

Why: A Determine decision rests on the ranges.
Brand C’s range shares no value with brand A’s, so only brand C’s height is different.

81
Practice writing an answer

Students stand identical strips of paper towel in water at 5 °C, 20 °C and 35 °C and measure how high the water climbs in 60 seconds. The table shows each height as an average with its ± range, and the range written out. Two heights are different when their ranges do not overlap.

Height water climbed a paper towel in 60 seconds at 5, 20 and 35 degrees: 29 ± 3, 36 ± 3 and 45 ± 2 millimeters
Height water climbed a paper towel in 60 seconds at 5, 20 and 35 degrees: 29 ± 3, 36 ± 3 and 45 ± 2 millimeters

(a) Determine which temperatures give a height different from the height at 20 °C. (1 pt)

Model answer At 20 °C the range is 33 to 39 mm.
Two ranges overlap only when they share at least one value.
At 5 °C the range is 26 to 32 mm; 32 is below 33, so 26 to 32 shares no value with 33 to 39.
At 35 °C the range is 43 to 47 mm; 43 is above 39, so 43 to 47 shares no value with 33 to 39 either.
So the height is different at both 5 °C and 35 °C.
Rubric
  • Award 1 point for: the decision (5 °C and 35 °C) AND what it rests on (neither range overlaps the 20 °C range of 33 to 39 mm).
  • Accept: ‘both 5 °C and 35 °C, because their ranges lie clear of 33 to 39’, with the ranges written or named.
  • Do not award the point for: one temperature only, for a decision made from the averages alone with no ranges, or for the ranges listed with no decision.

Slip Deciding from the averages (29, 36, 45) alone; the decision rests on whether the ranges overlap.

82State the null hypothesis

83

Video: Watch: State the null hypothesis

One sentence naming the thing changed, the thing measured, and no effect of one on the other.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-SKL-L06E.mp4

84

Back to the firefly experiment: the scientists changed the temperature and measured the light given off in the first three seconds.

85

Its part (c) reads: ‘State the null hypothesis for the experiment.’

86

A claim about what an experiment will find is called a .

87

The hypothesis that the thing changed has no effect on the thing measured is called the .

88

The full-credit answer: ‘Temperature has no effect on the amount of light given off.’

89

The scorer looks for the thing changed and the thing measured, each by name, and the words no effect.

90

The opposite claim, that the thing changed does have an effect on the thing measured, is called the .

91

‘Warmer temperatures give more light’ earns nothing as a null hypothesis: the sentence claims an effect with a direction, so it is one alternative hypothesis.

92

‘The protein has no effect’ earns nothing either: the sentence names neither the thing changed nor the thing measured.

93

State means write the sentence and stop, as Identify does: no reason, no prediction.

94

What you are expected to know Answer a State the null hypothesis task with one sentence that names the thing changed and the thing measured and claims no effect.

95
Check q21

Students stand strips of paper towel in water at 10 °C, 20 °C and 30 °C and measure how high the water climbs in 60 seconds. A student writes: ‘Water temperature has no effect on how high the water climbs in 60 seconds.’

Is the sentence the null hypothesis for the experiment?

  1. A. ✓ Yes
  2. B. No
    The sentence names the thing changed, the thing measured, and no effect.

Why: The null hypothesis says the thing changed (water temperature) has no effect on the thing measured (the height climbed).
This sentence says exactly that.

96
Check q22

Students stand strips of paper towel in water at 10 °C, 20 °C and 30 °C and measure how high the water climbs in 60 seconds. A student writes: ‘Warmer water climbs higher.’

Is the sentence the null hypothesis for the experiment?

  1. A. Yes
    The sentence claims an effect with a direction.
    That is an alternative hypothesis.
  2. B. ✓ No

Why: The null hypothesis claims no effect.
‘Warmer water climbs higher’ claims an effect, so it is an alternative hypothesis.

97
Check q23

Students stand strips of paper towel in water at 10 °C, 20 °C and 30 °C and measure how high the water climbs in 60 seconds. A student writes: ‘The temperature of the water has no effect on the height the water reaches in 60 seconds.’

Is the sentence the null hypothesis for the experiment?

  1. A. ✓ Yes
  2. B. No
    Different words, same claim: the thing changed has no effect on the thing measured.

Why: The sentence names the water temperature, the height reached, and no effect, so it is the null hypothesis in other words.

98
Check q24

Students stand strips of paper towel in water at 10 °C, 20 °C and 30 °C and measure how high the water climbs in 60 seconds. A student writes: ‘Water temperature has an effect on how high the water climbs.’

Which hypothesis is the sentence?

  1. A. ✓ The alternative hypothesis
  2. B. The null hypothesis
    The null hypothesis says no effect.
    This sentence says there is an effect.

Why: A claim that the thing changed does have an effect on the thing measured is the alternative hypothesis.

99
Check q25

Students time how long sweat takes to dry on skin in still air and in moving air from a fan.

Which sentence states the null hypothesis?

  1. A. Moving air makes sweat dry faster than still air does.
    The sentence claims an effect with a direction: an alternative hypothesis.
  2. B. ✓ Moving air has no effect on how long sweat takes to dry.
  3. C. Sweat dries on skin whether the air is moving or still.
    The sentence names the thing changed but claims nothing about the drying time.

Why: The null hypothesis: the thing changed (moving or still air) has no effect on the thing measured (the drying time).

100
Practice writing an answer

Students place identical drops of water on a glass plate and on a sheet of wax paper and measure how wide each drop spreads.

(a) State the null hypothesis for the experiment. (1 pt)

Model answer The surface under the drop, glass or wax paper, has no effect on how wide the drop spreads.
Rubric
  • Award 1 point for: a null hypothesis that names the thing changed (the surface: glass or wax paper) and the thing measured (how wide the drop spreads) and says no effect.
  • Accept: ‘there is no difference in the width of the drop on glass and on wax paper’.
  • Do not award the point for: a claim of an effect (‘the drop spreads wider on glass’), for ‘the surface has no effect’ with the thing measured missing, or for a reason (partial charges) in place of the hypothesis.

Slip Writing the prediction with its direction (wider on glass) instead of the no-effect statement; that is an alternative hypothesis.

101

Video: Watch: how AP Biology asks questions, on one towel

Every task verb from Describe to Determine and the null hypothesis, asked once about the paper towel and the wax paper.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-SKL-summary.mp4

102

Video: Watch: four options and a scoring guide, on the lake card

Expect the answer first, rule each option out with a fact, and score one sentence against the guide’s three lines.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-SKL-summary2.mp4

103

The firefly part gave the claim, so Support a claim asked for the fact and the link: warmer molecules move faster, so they collide more often, so more light is given off.

104

‘The student is right’ was neither the fact nor the link, so it earned nothing.

Glossary

Make a claim
State, in one sentence, what you assert is true about the thing named, with its direction; the reason belongs to a task that asks for it.
Support a claim
Give the fact, then the link from the fact to the thing the claim names.
Evaluate
Judge whether a claim is supported, and give the ground for the judgement from the data or from a principle.
Determine
Reach a decision from the data or a calculation, and show what the decision rests on.
hypothesis
A claim about what an experiment will find.
null hypothesis
The hypothesis that the thing changed in an experiment has no effect on the thing measured.
alternative hypothesis
The hypothesis that the thing changed in an experiment does have an effect on the thing measured.

APBIO-U01-P11 Practice questions: Topic 1.1

Topic 1.1 · Structure of Water and Hydrogen Bonding · 10 MCQ · 2 FRQ · for APBIO-U01-T11

Answer every question. For each multiple-choice question choose one answer 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. Use a hint if you are stuck, then open the full-credit answer and score your own work against it.

Video: Watch first: water and hydrogen bonding

One molecule, its partial charges, the hydrogen bond, and the properties that follow: cohesion, adhesion, slow warming, cooling by evaporation.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-T11-summary.mp4

Q1 P11-q01

A potassium atom hands one electron completely to an iodine atom. The electron is now held by the iodine alone.

What are the two atoms now, and why do they stay close together?

  1. A. ✓ Two ions, a potassium ion (K⁺) and an iodide ion (I⁻), each with a full charge; opposite charges attract
  2. B. Two atoms joined by a covalent bond; the moved electron is now the pair that the two atoms share
    The electron has moved across completely, so nothing is shared and each atom carries a full charge.
  3. C. Two atoms carrying partial charges, δ+ on the potassium and δ− on the iodine, from uneven sharing of the electron
    The electron has moved across completely, so nothing is shared and each atom carries a full charge.
  4. D. Two atoms held by a hydrogen bond between the potassium and the iodine, as between two water molecules
    A hydrogen bond needs a δ+ hydrogen and a δ− oxygen or nitrogen, and neither atom here is a hydrogen.

Why: Electrons are negative.
Potassium lost one, so it is now K⁺; iodine gained one, so it is now I⁻.
Each atom now carries a full charge and is an ion, and opposite charges attract.

Q2 P11-q02

Chlorine pulls shared electrons harder than hydrogen does. Chlorine gas, Cl₂, is two chlorine atoms sharing one pair of electrons. Hydrogen chloride, HCl, is a hydrogen atom and a chlorine atom sharing one pair.

Which of these bonds is polar?

  1. A. The Cl–Cl bond only, because chlorine pulls shared electrons hard
    The two chlorine atoms are identical and pull equally, so the pair sits in the middle and Cl–Cl is nonpolar.
  2. B. ✓ The H–Cl bond only, because chlorine pulls the pair harder than hydrogen
  3. C. Both bonds, because every bond that contains chlorine is polar
    Cl–Cl contains chlorine and is nonpolar, because two identical atoms pull equally; a bond is polar only when the two atoms pull differently.
  4. D. Neither bond, because a shared pair always sits in the middle
    The pair sits in the middle only when both atoms pull equally, and chlorine pulls harder than hydrogen, so in H–Cl it does not.

Why: A polar bond is uneven sharing.
In H–Cl the chlorine pulls the shared pair harder than the hydrogen does, so the bond is polar.
In Cl–Cl the two atoms are the same and pull equally, so the bond is nonpolar.

Q3 P11-q03

Nitrogen pulls shared electrons harder than carbon does. A molecule contains a C–N covalent bond.

Which labels belong on the two atoms of this bond?

  1. A. C δ− and N δ+
    Nitrogen pulls the shared pair harder, so nitrogen is the δ− end and carbon the δ+ end.
  2. B. C a full + and N a full −
    The pair is still shared, only pulled closer to the nitrogen, so neither atom is an ion and the charges are partial.
  3. C. ✓ C δ+ and N δ−
  4. D. No label on either; the electrons are shared
    The atom that pulls the shared pair harder becomes the slightly negative end, and a polar bond has one δ− end and one δ+ end, both partial.

Why: Nitrogen pulls the shared pair closer to itself, so it is slightly negative, δ−.
The carbon, with the pair pulled away from it, is slightly positive, δ+.
These are partial charges, far smaller than the full charge on an ion.

Q4 P11-q04

The drawing shows a molecule of hydrogen peroxide, H₂O₂, with its atoms numbered 1 to 4. Oxygen pulls shared electrons harder than hydrogen does, and the two oxygen atoms pull equally on the pair they share.

A molecule of hydrogen peroxide, H₂O₂. Its atoms are numbered 1 to 4; the solid lines are covalent bonds.
A molecule of hydrogen peroxide, H₂O₂. Its atoms are numbered 1 to 4; the solid lines are covalent bonds.

Which atoms carry the label δ−?

  1. A. Atom 2 only
    In each O–H bond the oxygen pulls the pair harder, so both oxygens are δ− and their hydrogens δ+.
  2. B. Atoms 1 and 4
    In each O–H bond the oxygen pulls the pair harder, so both oxygens are δ− and their hydrogens δ+.
  3. C. ✓ Atoms 2 and 3
  4. D. Atoms 1, 2, 3 and 4
    In each O–H bond the oxygen pulls the pair harder, so both oxygens are δ− and their hydrogens δ+.

Why: Each O–H bond is polar: the oxygen pulls the shared pair harder, so atoms 2 and 3 are δ− and the hydrogens at 1 and 4 are δ+.
The O–O bond between 2 and 3 is nonpolar and adds no partial charge.

Q5 P11-q05

The drawing shows a methanol molecule, CH₃OH, beside a water molecule. Solid lines are covalent bonds. Dashed line 1 runs from the hydrogen of methanol’s O–H group to the water’s oxygen. Dashed line 2 runs from one of the hydrogens bonded to methanol’s carbon to the water’s oxygen.

A methanol molecule (left) beside a water molecule (right). Solid lines are covalent bonds. A student has drawn two dashed lines, 1 and 2, as possible attractions between the molecules.
A methanol molecule (left) beside a water molecule (right). Solid lines are covalent bonds. A student has drawn two dashed lines, 1 and 2, as possible attractions between the molecules.

Which dashed line shows a hydrogen bond?

  1. A. ✓ Line 1 only
  2. B. Line 2 only
    Line 2 starts from a hydrogen bonded to carbon; that C–H bond is nonpolar, so the hydrogen carries no partial charge and forms no hydrogen bond.
  3. C. Both line 1 and line 2
    Line 1 is a hydrogen bond, but line 2 starts from a hydrogen bonded to carbon, which carries no partial charge and forms no hydrogen bond.
  4. D. Neither line
    Line 1 runs from the δ+ hydrogen of methanol’s O–H group to the water’s δ− oxygen, which is exactly a hydrogen bond.

Why: A hydrogen bond runs from a δ+ hydrogen bonded to an oxygen or nitrogen to a δ− oxygen or nitrogen on another molecule.
Line 1 starts from such a hydrogen, on methanol’s O–H group.
Line 2 starts from a hydrogen in a nonpolar C–H bond, which carries no partial charge.

Q6 P11-q06

A hospital sterilizer heats water until it turns to steam. A student writes: “The heat splits the water into hydrogen gas and oxygen gas, and that mixture is the steam.”

Which statement corrects the student?

  1. A. ✓ The steam is whole water molecules; the heat broke the hydrogen bonds between molecules, and the covalent bonds inside each molecule held
  2. B. The steam is hydrogen atoms and oxygen atoms; the heat broke the covalent O–H bonds, which are the weakest bonds in water
    Water leaves as whole H₂O molecules; the covalent bonds inside each molecule stay intact, and it is the hydrogen bonds between molecules that break.
  3. C. The steam is whole molecules of water; the heat broke the covalent bonds that had joined each molecule to its neighbors
    Covalent bonds hold the atoms inside one molecule; between molecules the attraction is the hydrogen bond, and that is what boiling breaks.
  4. D. The steam is single oxygen atoms; the hydrogen atoms stayed behind in the liquid, so the liquid became rich in hydrogen
    Water leaves as whole H₂O molecules; the covalent bonds inside each molecule stay intact, and it is the hydrogen bonds between molecules that break.

Why: Boiling pulls water molecules away from one another.
That means breaking the many hydrogen bonds between molecules, which is why it takes so much heating.
The O–H covalent bonds inside each molecule are far stronger and stay intact, so the steam is whole water molecules.

Q7 P11-q07

Three observations. I: after rain, blades of grass, which are a polar surface, stay coated in a clinging film of water. II: water poured slowly from a jug falls as one unbroken stream. III: a drop of water placed on a clean glass plate spreads out into a thin film.

Which of these observations depends on cohesion?

  1. A. I only
    Water clinging to grass and water spreading over glass are both water holding on to a polar surface other than water, which is adhesion.
  2. B. ✓ II only
  3. C. III only
    Water clinging to grass and water spreading over glass are both water holding on to a polar surface other than water, which is adhesion.
  4. D. I and III
    Water clinging to grass and water spreading over glass are both water holding on to a polar surface other than water, which is adhesion.

Why: Cohesion is water holding on to water.
The poured stream stays in one piece because each molecule is held to the next by hydrogen bonds.
The film coating the grass and the film spreading over the glass are both water holding on to a polar surface other than water: adhesion.

Q8 P11-q08

A sugar cube is stood in a shallow dish of colored water. Sugar molecules carry many –OH groups, which are polar. Within a minute the color has climbed to the top of the cube, well above the water in the dish.

Which attraction pulls the water onto the surfaces of the sugar?

  1. A. Cohesion: the water molecules hydrogen-bond to one another and climb the cube as a group
    What pulls water onto the sugar itself is its attraction to another surface, and that surface pulls water because its –OH groups are polar and carry partial charges.
  2. B. Surface tension: the taut surface layer of the water in the dish pushes water up the cube
    Surface tension is the surface holding together; it does not push water up a cube.
  3. C. ✓ Adhesion: the water molecules hydrogen-bond to the partial charges on the sugar’s –OH groups
  4. D. Adhesion: the sugar’s –OH groups pull water because they are nonpolar
    A nonpolar surface, like wax, offers water nothing to hold on to; the –OH groups pull water because they are polar.

Why: Adhesion is water holding on to a surface that carries charges or partial charges.
Each –OH group on the sugar is polar, so water molecules hydrogen-bond to it and hold on, climbing the cube.
Cohesion then drags more water up behind them.

Q9 P11-q09

Three liquids, 100 g of each, sit in identical sealed flasks on identical hot plates that deliver the same energy every minute. The temperature of each liquid at the start and after 3 min is in the table.

Temperature of each liquid at the start and after 3 minutes on identical hot plates
Temperature of each liquid at the start and after 3 minutes on identical hot plates

Which liquid has the highest specific heat capacity, and why did its temperature rise so little?

  1. A. Liquid Y; it warmed the most, so it took in the most energy from its hot plate
    All three flasks took in the same energy, and the liquid that warmed most needed the least energy per degree, so its specific heat capacity is lowest, not highest.
  2. B. ✓ Water; part of the energy added to it goes into pulling hydrogen bonds apart, so less goes into faster motion
  3. C. Liquid X; it warmed by a middling amount, so its value lies highest of the three
    From the same energy, liquid X warmed 15 °C and water 6 °C, so X needed less energy per degree; the highest value belongs to the liquid that warmed least.
  4. D. Water; its molecules are the heaviest of the three, so the same energy speeds them up the least
    What matters is where the energy goes, not the weight of the molecules.

Why: All three took in the same energy.
Water warmed only 6 °C, so it needed the most energy for each degree: it has the highest specific heat capacity.
Energy added to water partly goes into pulling hydrogen bonds apart rather than only making the molecules move faster.

Q10 P11-q10

A student lays a dry steel needle flat on the still surface of a bowl of water. The needle rests on the surface instead of sinking, even though steel is far denser than water.

Why does the surface of the water hold the needle up?

  1. A. The water molecules at the surface hydrogen-bond to the steel of the needle, and this adhesion between water and steel holds the needle up
    The needle rests on a layer that holds together, and that layer is made by hydrogen bonds between water molecules pulling the surface molecules sideways and inward.
  2. B. The water molecules at the surface form covalent bonds with one another, making a solid layer that the needle can rest on
    Covalent bonds hold the atoms inside one molecule; the surface layer is held by hydrogen bonds between molecules.
  3. C. The water molecules at the surface move faster than the ones below them, and their constant motion pushes the needle upward
    The needle rests on a layer that holds together, and that layer is made by hydrogen bonds between water molecules pulling the surface molecules sideways and inward.
  4. D. ✓ The water molecules at the surface have neighbors beside and below but none above, so hydrogen bonds pull them sideways and inward

Why: A molecule at the surface has neighbors beside and beneath it but none above, so its hydrogen bonds pull it sideways and inward.
The surface holds together and resists being broken, which is surface tension, and the needle presses the surface down without breaking through.

FRQ 1 P11-frq1 · Conceptual Analysis scaffolded

On hot days, worker honeybees carry water into the hive, spread it in thin films over the wax comb, and fan the films with their wings. The inside of the hive stays near 35 °C even when the air outside reaches 45 °C. Some hot days are also humid, with far more water vapor in the air, and the bees fan the same water films on those days too.

(a) Identify the property of water that the bees are using to cool the hive. (1 pt)

Frame The bees are using …, which cools the comb as the water …

Hint The films are thin, spread wide and fanned: what is that arrangement for?

Model answer The bees are using evaporative cooling, which cools the comb as the water in the films evaporates into the air.
Rubric
  • Award 1 point for: evaporative cooling, named and tied to the water films evaporating.
  • Accept: ‘the water evaporates and cools the comb’, or ‘water’s high heat of vaporization’, provided the answer says that the water leaving as vapor carries energy away (or cools the comb).
  • Do not award: ‘evaporation’ alone, with no statement that the leaving water carries energy away or cools the comb. Do not award specific heat capacity or surface tension.

Slip Naming specific heat capacity because water is being used to keep a temperature steady. The films are thin and fanned so that they evaporate; the cooling comes from the water that leaves.

(b) Describe which water molecules leave a film as vapor, and what they take with them. (1 pt)

Frame Only the … molecules leave the film, and they carry … with them, so the water left behind is …

Hint The molecules in liquid water move at many different speeds.

Model answer Only the fastest molecules leave the film, because only they have enough energy to break their hydrogen bonds to their neighbors.
They carry their energy away with them, so the water left behind is, on average, slower and therefore cooler.
Rubric
  • Award 1 point for: only the fastest molecules leave, and they carry their energy away, leaving the remaining water cooler.
  • Accept: ‘the molecules with the most energy escape, so the average energy of the rest falls’.
  • Do not award: ‘the water absorbs heat and evaporates’ with no mention of which molecules leave or what they carry.

Slip Writing that evaporation ‘uses up heat’ with no molecules in the sentence. The point is that the fastest molecules are the ones that escape, and their energy goes with them.

(c) Explain why a water molecule needs so much energy to leave the liquid. Start from the O–H bonds inside the molecules. (1 pt)

Frame Oxygen pulls …, so the oxygen is … and each hydrogen is …; the δ+ hydrogen of one molecule is attracted to …, which is a …; a molecule can leave only by …

Hint What must a molecule at the surface break free from before it can leave the liquid?

Model answer Oxygen pulls the shared electrons of each O–H bond harder than hydrogen does, so the oxygen is δ− and each hydrogen is δ+.
The δ+ hydrogen of one molecule is attracted to the δ− oxygen of a neighbor, which is a hydrogen bond.
A molecule can leave as vapor only by breaking every hydrogen bond to its neighbors, and that takes a great deal of energy, which is why water’s heat of vaporization is high.
Rubric
  • Award 1 point for: the polar O–H bond gives partial charges, the partial charges make hydrogen bonds between molecules, and a molecule must break those hydrogen bonds to leave.
  • Accept: the same chain in plain words, provided the hydrogen bonds are between molecules and are what the leaving molecule breaks.
  • Do not award: energy going into breaking the covalent O–H bonds, or ‘hydrogen bonds’ with no source in the polar bond.

Slip Starting at ‘hydrogen bonds hold the molecules together’. The point needs where the hydrogen bonds come from: oxygen pulling the shared electrons harder, and the partial charges that creates.

(d) Make a claim about whether the hive gets hotter on a hot day that is also humid than on a hot dry day. (1 pt)

Frame On a humid day the hive …

Hint How does wet laundry dry on a humid day compared with a dry day?

Model answer On a humid day the hive gets hotter than on a dry day, even though the bees spread and fan the same amount of water.
Rubric
  • Award 1 point for the claim: the hive gets hotter (its temperature rises higher) on the humid day than on the dry day. The point is for the assertion; the reasoning is scored in (e).
  • Accept: ‘the cooling works less well, so the hive is hotter’.
  • Do not award: the hive stays at 35 °C, or the hive is cooler on the humid day.

Slip Claiming that the hive stays at 35 °C because the bees are doing the same work. The bees spread the same water, but less of it leaves as vapor.

(e) Support your claim in (d) with evidence from what happens to the water films in humid air. (1 pt)

Frame In humid air, the air already holds …, so … of the water in the films evaporates, so …

Hint Compare how easily a molecule can leave the film on the two kinds of day.

Model answer In humid air, the air already holds a great deal of water vapor.
So far less of the water in the films evaporates.
So fewer fast molecules leave and carry their energy away.
So less heat leaves the comb, and the hive warms.
Rubric
  • Award 1 point for the evidence AND the reasoning that links it to the claim: humid air already holds much water vapor (the evidence), so less water evaporates from the films and less energy is carried away from the comb, so the hive warms (the reasoning).
  • Accept: ‘the water stays liquid on the comb instead of leaving as vapor, so it takes almost no heat away’.
  • Do not award: the evidence alone with no link to the temperature, ‘humid air is hotter’, or ‘the water films trap heat’.

Slip Naming the humid air without the link. The point needs the evidence (the air already holds much vapor) and the reasoning (so less evaporates, so less heat leaves the comb).

FRQ 2 P11-frq2 · Analyze Data

A student leaves 500 g of cooking oil and 500 g of water in identical open trays in the sun for 30 minutes, then moves both trays into the shade for 30 minutes, reading the temperature of each every half hour. The table below shows the readings. The oil’s molecules do not form hydrogen bonds with one another. Most of the mass of a person is water.

Temperature of 500 g of cooking oil and 500 g of water, read at the start, after 30 minutes in the sun, and after 30 more minutes in the shade.
Temperature of 500 g of cooking oil and 500 g of water, read at the start, after 30 minutes in the sun, and after 30 more minutes in the shade.

(a) Describe how the temperature of each sample changed over the hour. (1 pt)

Frame In the sun the oil warmed by … °C and the water by … °C; in the shade the oil … and the water …

Model answer In the sun the oil warmed by 13 °C and the water by only 6 °C; in the shade the oil cooled by 6 °C while the water cooled by only 1 °C.
The oil’s temperature changed far more than the water’s in both directions.
Rubric
  • Award 1 point for: the oil warmed far more in the sun (13 °C against 6 °C) and cooled far more in the shade (6 °C against 1 °C), with values from the table.
  • Accept: ‘the water’s temperature changed much less than the oil’s, both warming and cooling’ with at least one pair of values.
  • Do not award: a description of only the warming half, or values with no units.

Slip Describing only the warming and stopping. The cooling readings are the second half of the pattern: the water gave up its heat slowly as well as taking it in slowly.

(b) Explain the difference between the two liquids’ temperature changes. Start from the attractions between water molecules. (1 pt)

Model answer Water molecules are held to one another by hydrogen bonds.
Energy added to water partly goes into pulling hydrogen bonds apart rather than only making the molecules move faster, so each degree of warming needs far more energy in water than in the oil, whose molecules form no hydrogen bonds: water has a high specific heat capacity.
When the water cools, the same large amount of energy has to leave for each degree it drops, so it cools slowly too.
Rubric
  • Award 1 point for: energy added to water partly goes into pulling hydrogen bonds apart rather than only speeding the molecules up, so water needs more energy per degree (a high specific heat capacity) and its temperature changes slowly, while the oil, with no hydrogen bonds, warms and cools by more.
  • Accept: ‘water has a high specific heat capacity’ provided the hydrogen bonds are given as the reason.
  • Accept as an addition: water evaporating from the open tray also carries energy away, so the water warms less in the sun. This contributes, and does not lose the point, but it does not earn the point on its own, because it cannot explain why the water also cooled less in the shade.
  • Do not award: ‘water holds heat’ or ‘water reflects sunlight’ with no hydrogen bonds.

Slip Naming specific heat capacity and stopping. The point needs the mechanism: part of the energy goes into pulling hydrogen bonds apart instead of into faster motion.

(c) A person rests in the same sun for 30 minutes. Predict how the change in their body temperature compares with the change in the oil’s temperature. (1 pt)

Model answer The person’s body temperature rises far less than the oil’s did, by a fraction of a degree rather than by 13 °C.
Rubric
  • Award 1 point for: the person’s body temperature changes much less than the oil’s (a small rise, well under the oil’s 13 °C).
  • Accept: ‘it barely changes’ or ‘it rises only slightly’.
  • Do not award: a rise as large as the oil’s, or ‘it stays exactly the same’.

Slip Predicting that body temperature does not change at all. Water slows the change; it does not stop it.

(d) Justify your prediction in (c), using the property of water you explained in (b). (1 pt)

Model answer Most of a person’s mass is water, so warming the body by one degree takes about as much energy as warming the same mass of water, far more than the same mass of oil needs.
The heat taken in over 30 minutes therefore changes the body’s temperature only slowly.
Keeping internal conditions steady like this is homeostasis, and water’s high specific heat capacity helps with it.
Rubric
  • Award 1 point for: most of the body is water, which needs a large amount of energy per degree, so its temperature changes slowly; this helps keep internal conditions steady (homeostasis).
  • Accept: ‘the body behaves like the tray of water, not the tray of oil’, with or without the name homeostasis.
  • Accept: sweating or homeostasis mentioned in addition, provided the reason from water’s high specific heat capacity (most of the body is water, which needs a great deal of energy per degree) is given.
  • Do not award: homeostasis named with no link to water, or ‘the body sweats’ as the only reason.

Slip Answering with sweating alone. Sweating is a different property at work; the question is about how slowly the body warms because it is mostly water.

APBIO-U01-T11 End-of-topic test: Structure of Water and Hydrogen Bonding

Topic 1.1 · Structure of Water and Hydrogen Bonding · 18 MCQ · 2 FRQ

Answer every question. For each multiple-choice question choose one answer 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.

Q1 T11-q01

The drawing below shows part of a molecule.

Part of a molecule, drawn with dots for electrons.
Part of a molecule, drawn with dots for electrons.

What does the drawing show?

  1. A. ✓ A covalent bond
  2. B. A hydrogen bond
    A hydrogen bond is an attraction between a δ+ hydrogen of one molecule and a δ− oxygen or nitrogen of another, not a pair of electrons shared inside a molecule.
  3. C. An attraction between two ions
    Ions form only when one atom takes an electron completely, and here the pair is shared by both atoms.
  4. D. A partial charge
    A partial charge is something an atom may carry; it is not the shared pair of electrons itself.

Why: A pair of electrons shared between two atoms is a covalent bond.
That is true whether the sharing is even, as in C–H, or uneven, as in O–H.

Q2 T11-q02

A lithium atom hands one electron completely to a fluorine atom.

What charge does each atom carry afterward?

  1. A. Lithium slightly positive (δ+) and fluorine slightly negative (δ−)
    A partial charge comes from uneven sharing, and here nothing is shared: the electron moved across completely.
  2. B. ✓ Lithium a full positive charge and fluorine a full negative charge
  3. C. Lithium a full negative charge and fluorine a full positive charge
    The electron moved across completely, so each atom carries a full charge: the atom that lost the electron is positive and the atom that gained it is negative.
  4. D. Neither carries a charge, because the pair of atoms stays neutral overall
    The pair is neutral as a whole only because the +1 charge and the −1 charge are equal and opposite, not because there are none.

Why: Lithium lost an electron and became a positive ion, Li⁺; fluorine gained it and became a negative ion, F⁻.
Each ion carries a full charge, and the two ions attract each other.

Q3 T11-q03

Oxygen pulls shared electrons harder than nitrogen does; nitrogen pulls harder than carbon; carbon and hydrogen pull about equally. A molecule of ammonia has three N–H bonds. A molecule of methane has four C–H bonds.

Which of these bonds are polar?

  1. A. The C–H bonds only, because carbon pulls the shared electrons much harder than hydrogen
    Carbon and hydrogen pull about equally, so the C–H bond is shared evenly and is not polar.
  2. B. Both kinds, because any covalent bond that contains a hydrogen atom is polar
    A hydrogen atom does not make a bond polar by itself: in a C–H bond carbon and hydrogen pull about equally, so that bond is not polar.
  3. C. ✓ The N–H bonds only, because nitrogen pulls the shared electrons harder than hydrogen
  4. D. Neither kind, because both are covalent bonds and covalent bonds share evenly
    Sharing is even only when the two atoms pull about equally; nitrogen pulls harder than hydrogen, so the N–H bond is polar.

Why: A covalent bond is polar when one atom pulls the shared electrons harder than the other, so the sharing is uneven.
Nitrogen pulls harder than hydrogen, so N–H is polar; carbon and hydrogen pull about equally, so C–H is nonpolar.

Q4 T11-q04

In a molecule of hydrogen fluoride, H–F, the fluorine atom pulls the shared pair of electrons much harder than the hydrogen atom does.

Which describes the charges on the two atoms?

  1. A. ✓ Fluorine slightly negative (δ−), hydrogen slightly positive (δ+)
  2. B. Fluorine a full negative charge and hydrogen a full positive charge, as ions
    Full charges belong to ions, which form only when an electron moves across completely; here the pair is still shared.
  3. C. Fluorine slightly positive (δ+), hydrogen slightly negative (δ−)
    Fluorine pulls the shared pair toward itself, so it becomes slightly negative and the hydrogen slightly positive.
  4. D. No charge on either atom, because the electrons are shared
    Fluorine pulls the shared pair toward itself, so it becomes slightly negative and the hydrogen slightly positive.

Why: Fluorine pulls the shared electrons toward itself, so it is slightly negative (δ−) and the hydrogen is slightly positive (δ+).
Because the electrons are still shared, these are partial charges, far smaller than the full charge on an ion.

Q5 T11-q05

A water molecule, H₂O, is one oxygen atom covalently bonded to two hydrogen atoms.

Why is the oxygen end of the molecule slightly negative?

  1. A. Oxygen has taken one electron completely from each of the two hydrogens
    The electrons in each O–H bond are shared, not handed over, and a water molecule carries no overall charge.
  2. B. Oxygen carries more protons than each hydrogen does, and protons are negative
    Protons are positive, not negative, and the number of protons is not what sets a partial charge.
  3. C. Water is an ion, so the whole molecule carries a negative charge
    The electrons in each O–H bond are shared, not handed over, and a water molecule carries no overall charge.
  4. D. ✓ Oxygen pulls the shared electrons of each O–H bond harder than hydrogen does

Why: Each O–H bond is polar: oxygen pulls the shared electrons harder than hydrogen does, so the electrons spend more time near the oxygen, leaving it δ− and leaving each hydrogen δ+.

Q6 T11-q06

The drawing shows part of a larger molecule, with three of its atoms numbered 1, 2 and 3. Oxygen pulls shared electrons harder than either carbon or hydrogen does.

Part of a larger molecule. Positions 1, 2 and 3 mark a carbon atom, an oxygen atom and a hydrogen atom; the solid lines are covalent bonds.
Part of a larger molecule. Positions 1, 2 and 3 mark a carbon atom, an oxygen atom and a hydrogen atom; the solid lines are covalent bonds.

Which partial-charge labels belong at positions 2 and 3?

  1. A. Position 2 δ+, position 3 δ−
    The atom that pulls the shared electrons harder becomes slightly negative, and a polar bond has one δ− end and one δ+ end, both partial.
  2. B. ✓ Position 2 δ−, position 3 δ+
  3. C. Position 2 a full −, position 3 a full +
    The electrons in an O–H bond are shared, not handed over, so the charges are partial, not full.
  4. D. Position 2 δ−, position 3 δ−
    The atom that pulls the shared electrons harder becomes slightly negative, and a polar bond has one δ− end and one δ+ end, both partial.

Why: The O–H bond is polar.
Oxygen pulls the shared electrons harder, so the oxygen at position 2 is δ− and the hydrogen at position 3 is δ+, exactly as in a water molecule.

Q7 T11-q07

The drawing shows three water molecules. The solid lines are covalent O–H bonds. A student has drawn three dashed lines, numbered 1, 2 and 3, to show attractions between the molecules.

Three water molecules. Solid lines are covalent bonds; the dashed lines 1, 2 and 3 are attractions a student has drawn.
Three water molecules. Solid lines are covalent bonds; the dashed lines 1, 2 and 3 are attractions a student has drawn.

Which dashed line shows a hydrogen bond?

  1. A. Line 2 only
    A hydrogen bond runs from a δ+ hydrogen of one molecule to a δ− oxygen of another, and like charges do not attract.
  2. B. Line 3 only
    A hydrogen bond runs from a δ+ hydrogen of one molecule to a δ− oxygen of another, and like charges do not attract.
  3. C. ✓ Line 1 only
  4. D. Lines 1, 2 and 3
    A hydrogen bond runs from a δ+ hydrogen of one molecule to a δ− oxygen of another, and like charges do not attract.

Why: A hydrogen bond is the attraction between the slightly positive hydrogen of one molecule and the slightly negative oxygen of a neighboring molecule.
Only line 1 runs from an H of one molecule to the O of another.

Q8 T11-q08

Water boils at 100 °C. Hydrogen sulfide, H₂S, is a molecule of about the same size and shape, but its molecules do not form hydrogen bonds with one another. It boils at −60 °C.

Why is water's boiling point so much higher?

  1. A. Boiling water has to break the O–H covalent bonds inside each molecule
    The O–H covalent bonds inside each molecule stay intact when water boils; steam is still whole H₂O molecules.
  2. B. Water molecules are lighter, so the attractions between them are stronger
    Mass does not set the attraction between molecules: an H₂S molecule is heavier than a water molecule yet boils 160 °C lower, because it has no hydrogen bonds.
  3. C. Electrons move between water molecules, making ions that attract one another
    No electrons move between water molecules and no ions form; the attraction between water molecules is the hydrogen bond, between partial charges.
  4. D. ✓ Many hydrogen bonds together hold water's molecules to one another

Why: To boil, molecules must be pulled apart from one another.
One hydrogen bond is weak, but the very many hydrogen bonds in water together hold its molecules to one another strongly.
So far more energy, and so a higher temperature, is needed than for H₂S.

Q9 T11-q09

A drop of water placed on a waxed car hood, a nonpolar surface, pulls itself into a rounded bead instead of spreading out.

What holds the water molecules of the bead together?

  1. A. ✓ Hydrogen bonds between the water molecules, which is cohesion
  2. B. Hydrogen bonds between the water and the wax, which is adhesion
    Hydrogen bonds between the water molecules pull the drop in on itself, and nonpolar wax gives the water almost nothing to be attracted to.
  3. C. Covalent bonds that form between neighboring water molecules
    Neighboring water molecules are not covalently bonded to one another; covalent bonds are inside each molecule.
  4. D. The high specific heat capacity of water, which keeps the drop cool
    Specific heat capacity is about how much energy is needed to warm water; it does not tell you what holds a drop together.

Why: Water molecules stick to one another because hydrogen bonds form between them; this sticking of water to water is cohesion.
With no polar surface to hold on to, the drop pulls in on itself.

Q10 T11-q10

A drop of water placed on a clean glass plate spreads out into a thin film instead of pulling into a bead.

What does this show about the glass, and why does the water spread?

  1. A. The glass is warm, so the molecules move faster and slide apart
    Spreading needs an attraction to the glass, and water is attracted only to charges or partial charges; warmth supplies none.
  2. B. The glass is nonpolar, so the water is pushed flat against it
    A nonpolar surface gives water nothing to be attracted to, so a drop on it beads up instead of spreading.
  3. C. ✓ The glass carries partial charges, and the water hydrogen-bonds to them
  4. D. The glass carries partial charges, which break the hydrogen bonds in the drop
    The partial charges on the glass do not break the water’s own hydrogen bonds; the molecules still hold on to one another, and the glass adds a second attraction.

Why: Water sticks to a surface that carries charges or partial charges, because its molecules hydrogen-bond to that surface.
Spreading over the glass shows that the glass carries partial charges.
Water sticking to something other than water is adhesion.

Q11 T11-q11

A water strider stands on a pond without breaking through the surface. Someone adds a drop of soap to the water near it, and the strider sinks.

Which property of the water did the soap reduce?

  1. A. Adhesion
    Adhesion is water sticking to another polar surface, such as glass, and the strider was standing on water.
  2. B. ✓ Surface tension
  3. C. Specific heat capacity
    Specific heat capacity is the energy needed to warm the water, and soap did not change that; the strider stood on the surface, which holds together by hydrogen bonds.
  4. D. Heat of vaporization
    Heat of vaporization is the energy needed to turn water into vapor; the strider stood on the surface, which holds together by hydrogen bonds.

Why: A water molecule at the surface has neighbors beside and below it but none above, so its hydrogen bonds pull it sideways and inward, and the surface holds together and resists being broken: this is surface tension.
Soap weakens that hold, and the strider falls through.

Q12 T11-q12

One end of a dry cotton string hangs into a cup of water. Cotton is a polar material. An hour later, water has traveled up the string well above the level of the water in the cup.

Which properties are at work, and what does each do?

  1. A. Adhesion alone: every water molecule sticks to the cotton and climbs by itself
    The climb needs two attractions: the molecules touching the cotton are attracted to it, and the rest of the column follows only because water is also attracted to water.
  2. B. Surface tension pulls the water up; adhesion holds it at the top
    Surface tension is the surface holding together; it does not lift a column up a string.
  3. C. Cohesion pulls water to the cotton; adhesion drags the column behind
    The climb needs two attractions: the molecules touching the cotton are attracted to it, and the rest of the column follows only because water is also attracted to water.
  4. D. ✓ Adhesion pulls water to the cotton; cohesion drags the column behind

Why: Water molecules hydrogen-bond to the polar cotton, which is adhesion, and move along it; because water molecules also hydrogen-bond to one another, which is cohesion, the column behind is dragged up with them.

Q13 T11-q13

Two identical hot plates each deliver the same energy every minute. One heats 100 g of water; the other heats 100 g of cooking oil. The table below shows the temperature readings.

Temperature readings for 100 g of water and 100 g of cooking oil on identical hot plates.
Temperature readings for 100 g of water and 100 g of cooking oil on identical hot plates.

What do the readings show about the two liquids?

  1. A. ✓ Water has the higher specific heat capacity: it needs more energy to warm by one degree
  2. B. Oil has the higher specific heat capacity: it warmed more in the same time
    Both plates delivered the same energy every minute, so both liquids received the same energy, and the water warmed only half as much.
  3. C. The oil took in more energy from its hot plate than the water did from its plate
    Both plates delivered the same energy every minute, so both liquids received the same energy, and the water warmed only half as much.
  4. D. The two liquids have the same specific heat capacity, because both received the same energy
    Both plates delivered the same energy every minute, so both liquids received the same energy, and the water warmed only half as much.

Why: Specific heat capacity is the energy needed to raise the temperature of a given mass of a substance by one degree.
Both samples received the same energy, and the water warmed only half as much.
So water needs more energy per degree: its specific heat capacity is higher.

Q14 T11-q14

100 g of water and 100 g of cooking oil sit on identical hot plates that deliver the same energy every minute. The oil's molecules do not form hydrogen bonds with one another. After four minutes the oil has warmed twice as many degrees as the water.

Why did the water's temperature rise more slowly than the oil's?

  1. A. Water reflects most of the heat coming from the hot plate, so much less energy gets into the water than into the oil
    Both liquids received the same energy, and what differs is what the energy does once it is inside.
  2. B. ✓ Energy added to water partly goes into pulling hydrogen bonds apart rather than only making the molecules move faster
  3. C. Energy added to water goes into breaking the O–H covalent bonds inside each of its molecules instead of making them move
    The O–H covalent bonds inside each water molecule stay intact when water is warmed; it is the hydrogen bonds between molecules that the energy pulls apart.
  4. D. Water molecules are heavier than oil molecules, so the same energy makes them move more slowly and warm less
    A water molecule is far smaller and lighter than an oil molecule, and the weight of a molecule is not what sets the difference.

Why: Temperature rises when molecules move faster.
In water, energy added partly goes into pulling hydrogen bonds apart rather than only making the molecules move faster, so the same energy raises water's temperature less than it raises the oil's.

Q15 T11-q15

A grower stands several large barrels of water inside one greenhouse and leaves an identical greenhouse empty. Overnight the outside temperature drops sharply.

What should the grower expect by morning?

  1. A. Both greenhouses cool by the same amount, because the barrels are sealed
    The barrels are a store of heat: water’s high specific heat capacity means the water gives up a great deal of heat for each degree it drops.
  2. B. The greenhouse with barrels cools less, because water blocks heat from leaving through the glass
    The barrels cover none of the greenhouse’s glass, so they block nothing; they keep the air warmer by giving up the heat they stored during the day.
  3. C. The greenhouse with barrels cools more, because water pulls heat out of the air
    Tonight the air is cooling below the water’s temperature, so heat flows from the water into the air, not the other way.
  4. D. ✓ The greenhouse with barrels cools less, because the water gives up its heat slowly

Why: Water’s specific heat capacity is high, so the barrels lose a great deal of heat while their temperature falls only a little, warming the air all night.
A living body, which is mostly water, changes temperature only slowly for the same reason.
That helps it keep its internal conditions steady: homeostasis.

Q16 T11-q16

A nurse wipes one patient's arm with one gram of water and another patient's arm with one gram of rubbing alcohol. The alcohol has evaporated completely within a minute; the water takes several minutes.

Which arm lost more energy to the evaporating liquid, and which quantity tells you so?

  1. A. The alcohol arm; the alcohol evaporated faster, so it took more with it
    How fast a liquid evaporates is not how much energy each gram carries away.
  2. B. Both the same; the same mass evaporated from each arm
    The same mass of two different liquids carries away different amounts of energy, because each liquid has its own heat of vaporization, and water’s is far higher than alcohol’s.
  3. C. ✓ The water arm; water has the higher heat of vaporization
  4. D. The water arm; water has the higher specific heat capacity
    Specific heat capacity is the energy needed to warm a liquid by one degree, not to turn it into gas.

Why: Heat of vaporization is the energy needed to turn a given mass of a liquid into a gas.
Water’s heat of vaporization is high: each gram of water that evaporates carries away more energy than a gram of alcohol does.
Specific heat capacity is about warming a liquid, not vaporizing it.

Q17 T11-q17

On a warm, breezy day a hiker wraps one water bottle in a wet cloth and an identical bottle in a dry cloth. An hour later, the water in the wet-wrapped bottle is cooler than the water in the other bottle.

Why is the wet-wrapped bottle cooler?

  1. A. ✓ The fastest water molecules leave the wet cloth as vapor and carry their energy away
  2. B. The wet cloth blocks the warm air from reaching the bottle, so no energy can get in
    Only evaporation can leave the bottle cooler than the air around it; blocking or soaking up heat can at best bring the bottle to the same temperature as its surroundings.
  3. C. The water in the cloth has a high specific heat capacity, so it soaks up the bottle's heat
    Only evaporation can leave the bottle cooler than the air around it; blocking or soaking up heat can at best bring the bottle to the same temperature as its surroundings.
  4. D. Evaporating water breaks the O–H covalent bonds, and breaking them takes in energy
    Evaporation does not break the O–H covalent bonds; the molecules leave whole, breaking only their hydrogen bonds to their neighbors.

Why: A water molecule can escape as vapor only by breaking its hydrogen bonds to its neighbors, so only the fastest molecules leave, and they take their energy with them.
The liquid left behind, and the bottle it touches, are cooler: this is evaporative cooling.

Q18 T11-q18

The drawing shows one large molecule: a long chain folded back on itself. On the upper part of the chain an oxygen atom carries a hydrogen; on the lower part of the same chain there is another oxygen atom. A dashed line runs from that hydrogen to the second oxygen.

One large molecule drawn as a long chain folded back on itself, with a dashed line between two of its atoms.
One large molecule drawn as a long chain folded back on itself, with a dashed line between two of its atoms.

What does the dashed line represent?

  1. A. A covalent bond, because both atoms belong to the same molecule
    A covalent bond is a shared pair of electrons between atoms that sit next to each other along the chain; the dashed line joins atoms far apart.
  2. B. ✓ A hydrogen bond, which can form within one large molecule
  3. C. A repulsion, because the hydrogen and the oxygen both carry partial charges
    The hydrogen is δ+ and the oxygen is δ−, and opposite partial charges attract, they do not repel.
  4. D. An attraction between two ions, one on each part of the chain
    No electrons have been handed over, so there are no ions; the charges are partial.

Why: A hydrogen bond is the attraction between a δ+ hydrogen bonded to O or N and a δ− oxygen or nitrogen, whether that oxygen is on a neighboring molecule or, as here, on a distant part of the same large molecule.

FRQ 1 T11-frq1 · Analyze Model or Visual Representation

The model shows three water molecules near the surface of a pond. Molecule 1 has its partial charges marked; molecules 2 and 3 do not. One dashed line is labeled X and one solid line is labeled Y.

Three water molecules. Molecule 1 carries partial-charge labels; X marks one dashed line and Y marks one solid line.
Three water molecules. Molecule 1 carries partial-charge labels; X marks one dashed line and Y marks one solid line.

(a) Identify what X represents and what Y represents. (1 pt)

Model answer X is a hydrogen bond: the attraction between a δ+ hydrogen of one water molecule and the δ− oxygen of a neighboring molecule.
Y is a covalent O–H bond inside one molecule: a shared pair of electrons.
Rubric
  • Award 1 point for: X is a hydrogen bond (the attraction between a hydrogen of one water molecule and the oxygen of a neighboring molecule) AND Y is a covalent O–H bond inside one molecule.
  • Accept: X described as an attraction between a slightly positive hydrogen and a slightly negative oxygen on the next molecule; Y described as a shared pair of electrons.
  • Do not award the point if only one of the two is identified, or if X is called a covalent bond.

Slip Calling X a covalent bond because it is drawn between atoms. A dashed line between molecules is an attraction, not a shared pair of electrons.

(b) Explain why X exists. Start from the O–H bonds inside the molecules. (1 pt)

Model answer Oxygen pulls the shared electrons of each O–H bond harder than hydrogen does, so the oxygen is slightly negative (δ−) and each hydrogen slightly positive (δ+).
The δ+ hydrogen of one molecule and the δ− oxygen of the next carry opposite partial charges, and opposite charges attract: that attraction is X.
Rubric
  • Award 1 point for: oxygen pulls the shared electrons of each O–H bond harder than hydrogen does, so the oxygen is slightly negative (δ−) and each hydrogen slightly positive (δ+); the δ+ hydrogen of one molecule and the δ− oxygen of the other carry opposite partial charges, which attract.
  • Accept: 'the O–H bonds are polar, so opposite partial charges on neighboring molecules attract', provided both the uneven pull (or polarity) and the opposite partial charges are named.
  • Do not award the point for 'opposite charges attract' alone, without saying where the partial charges come from.

Slip Writing ‘opposite charges attract’ and stopping. The point needs where the partial charges come from: oxygen pulling the shared electrons harder than hydrogen.

(c) Molecule 2 has no partial charges marked. The drawing below shows molecule 2 beside a fourth water molecule, 4, from elsewhere in the pond. State the partial charge, δ+ or δ−, on each of the three atoms of molecule 2, and name the two atoms, one on each molecule, that would be attracted to each other. (1 pt)

Model answer Molecule 2 carries δ− on its oxygen and δ+ on each of its two hydrogens.
The attraction is between a δ+ hydrogen of one molecule and the δ− oxygen of the other: a hydrogen of molecule 2 to the oxygen of molecule 4, or a hydrogen of 4 to the oxygen of 2.
The drawing below shows it.
Rubric
  • Award 1 point for: δ− on the oxygen of molecule 2 and δ+ on each of its two hydrogens (all three atoms labeled correctly), and the attraction named between a hydrogen of one molecule and the oxygen of the other.
  • Accept: a hydrogen of molecule 2 with the oxygen of molecule 4, or a hydrogen of molecule 4 with the oxygen of molecule 2.
  • Do not award the point for full charges (+ and −), for δ+ on the oxygen, for a label on only one of the two hydrogens, or for a dashed line joining two hydrogens or two oxygens.

Slip Writing full + and − signs, labeling only one hydrogen, or joining the two oxygens with the dashed line. The charges are partial, both hydrogens carry δ+, and the attraction runs from a δ+ hydrogen to a δ− oxygen.

(d) A water strider stands on the surface of the pond without breaking through. Explain how the attractions shown in the model produce the property of the surface that holds the strider up. (1 pt)

Model answer A water molecule at the surface has neighbors beside and below it but none above, so its hydrogen bonds pull it sideways and inward.
The surface molecules are held tightly together, so the surface holds together and resists being broken, which is surface tension, and the strider’s weight is not enough to break through it.
Rubric
  • Award 1 point for: a water molecule at the surface has neighbors beside and below it but none above, so its hydrogen bonds pull it sideways and inward; the surface holds together and resists being broken, which is surface tension, and the strider's weight is not enough to break through it.
  • Accept: 'many hydrogen bonds together hold the surface molecules to one another strongly, so the surface resists being broken (surface tension)', provided hydrogen bonds between water molecules are named as the cause.
  • Do not award the point for naming surface tension without linking it to hydrogen bonds between water molecules, or for saying the strider floats because it is less dense than water.

Slip Naming surface tension without saying what makes it. The point is earned by linking the tightly held surface to hydrogen bonds pulling the surface molecules sideways and inward.

FRQ 2 T11-frq2 · Conceptual Analysis

On a hot, dry afternoon a runner's skin is covered in sweat, which is mostly water. As the sweat evaporates, the runner's skin temperature stays close to normal even though the working body is producing a great deal of heat. Later the runner enters a valley where the air is already full of water vapor. Sweat now forms drops that run off the skin instead of evaporating.

(a) Describe how evaporating sweat cools the runner's skin. (1 pt)

Model answer Evaporating sweat cools the skin because only the fastest water molecules break free of their hydrogen bonds and leave as vapor, and each one carries its energy away with it.
The liquid left behind is slower on average, so it and the skin it touches are cooler: evaporative cooling.
Rubric
  • Award 1 point for: water molecules leaving the skin as vapor carry energy away with them, so the liquid left behind, and the skin it touches, are cooler (evaporative cooling).
  • Accept: 'only the fastest molecules escape, and they take their energy with them, leaving the rest cooler'.
  • Do not award the point for 'sweat is cold' or 'liquid sweat absorbs heat' with no molecule leaving as vapor.

Slip Saying sweat cools because it is wet or cold. Liquid sweat sitting on the skin does nothing; the cooling happens only when molecules leave as vapor.

(b) Rubbing alcohol evaporating from skin cools it less, gram for gram, than evaporating sweat does. Explain why. Start from the attractions between the molecules of each liquid. (1 pt)

Model answer Water molecules are held to their neighbors by hydrogen bonds: the δ+ hydrogen of one molecule is attracted to the δ− oxygen of another.
A water molecule can leave as vapor only by breaking those hydrogen bonds.
So each gram of sweat that evaporates takes a large amount of energy from the skin: water’s heat of vaporization is high.
Alcohol molecules attract one another far less strongly, so each gram of alcohol leaves with less energy and cools the skin less.
Rubric
  • Award 1 point for: water molecules must break their hydrogen bonds to their neighbors to leave as vapor, so each gram of sweat that evaporates carries away a large amount of energy (water's high heat of vaporization), while alcohol molecules hold on to one another less strongly, so each gram of alcohol carries away less.
  • Accept: the comparison with or without the name heat of vaporization, provided hydrogen bonds between water molecules are named as what each leaving water molecule must break.
  • Do not award the point for breaking the O–H covalent bonds inside water molecules, for 'alcohol evaporates faster so it cools more', or for a comparison with no attractions between molecules in it.

Slip Reasoning from speed: alcohol dries faster, so it must cool more. How fast a liquid leaves is not how much energy each gram takes with it; that is set by the attractions each molecule must break to leave.

(c) Make a claim about what happens to the runner's body temperature in the valley, where sweat runs off instead of evaporating. (1 pt)

Model answer The runner's body temperature rises.
Rubric
  • Award 1 point for the claim: the runner's body temperature rises (the runner overheats). The point is for the assertion; the reasoning is scored in (d).
  • Accept: 'the skin gets hotter' or 'the runner cannot cool down'.
  • Do not award: 'it stays the same because the runner still sweats', or 'it falls because the skin is wet'.

Slip Claiming no change because the runner is still sweating. Sweat that runs off as liquid has done no cooling.

(d) Support your claim by comparing what happens to the energy of the skin when sweat evaporates with what happens when sweat runs off as liquid. (1 pt)

Model answer Sweat that evaporates leaves as vapor and carries energy away from the skin.
Sweat that runs off as liquid has not broken free of its neighbors to become vapor, so it carries almost no energy away.
In the valley little sweat evaporates, so little energy leaves the skin.
The body keeps producing heat, so body temperature climbs.
Rubric
  • Award 1 point for the evidence AND the reasoning that links it to the claim: evaporating sweat carries energy away from the skin as its molecules leave as vapor, whereas sweat that runs off as liquid carries almost no energy away (the evidence); so with little evaporation little energy leaves the skin while the body keeps producing heat, so body temperature climbs (the reasoning).
  • Accept: the mechanism given through hydrogen bonds (the liquid sweat has not broken its hydrogen bonds to become vapor) or through the humid air slowing evaporation, provided the link between evaporation and energy removed is stated.
  • Do not award: 'humid air is hotter' or 'the sweat holds heat against the skin' as the reason, or the claim restated with no comparison of the energy.

Slip Blaming the humid air for being hotter, or the wet sweat for holding heat in. The reason is what the sweat no longer does: leave as vapor and carry energy away.

APBIO-U01-L06 Chains: build and break

Topic 1.3 · Introduction to Biological Macromolecules · 37 steps

A slice of bread, a pat of butter and a boiled egg
A slice of bread, a pat of butter and a boiled egg

Here are a slice of bread, a pat of butter and a boiled egg.

Each food is mostly one kind of large molecule. The bread’s is a chain of hundreds of small sugar units joined end to end. When you eat the bread, your gut cuts those chains back into single units, and your cells then join units into chains of their own. Two reactions do all of that joining and cutting. One releases a water molecule; the other takes one in.

Unit 1 · Chemistry of Life

1One sugar unit, and a chain of them

2

Video: Watch first: what happened to the bread

A plate, a chain of sugar units, and single units in your blood hours later: the puzzle this topic answers.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-T13-intro.mp4

3

Most of the dry weight of a slice of bread is one kind of molecule: a long chain of sugar units joined end to end. Here is part of one chain, with one unit outlined.

Part of the chain of sugar units in bread, with one unit outlined
Part of the chain of sugar units in bread, with one unit outlined
4

The sugar unit in this chain is , the same sugar your blood carries to every cell in your body.

5

One unit on its own, the small piece a chain is built from, is called a : mono for one.

6

The whole chain of many joined units is called a : poly for many.

One sugar unit is a monomer; a chain of them is a polymer
One sugar unit is a monomer; a chain of them is a polymer
7

A chain like this can be hundreds or thousands of units long. A very large biological molecule of that size is called a .

8

Butter is mostly fat. A fat molecule is also a macromolecule, but it is not a chain of repeating units, so it is not a polymer.

9

What you are expected to know Pick out one unit in a drawn chain and call it a monomer, call the whole chain a polymer, and call a very large biological molecule a macromolecule.

10
Check q1

A molecule from a plant is a single chain of about 1,200 identical units of glucose, a sugar, joined one after another.

Which description fits?

  1. A. ✓ One glucose unit is a monomer; the whole chain is a polymer.
  2. B. One glucose unit is a polymer; the whole chain is a monomer.
    The single unit is the monomer, and the chain of many units is the polymer.
  3. C. Both one glucose unit and the whole chain are monomers.
    A chain of many joined units is not a single unit.
  4. D. Neither is a polymer; a polymer needs more than one kind of unit.
    A polymer does not need different kinds of unit; many copies of one unit make a polymer.

Why: The small repeating unit, one glucose, is the monomer, and the chain of 1,200 of them is the polymer.
A polymer can be built from identical units.

11
Check q2

Which of these is a macromolecule but not a polymer?

  1. A. a chain of 500 sugar units
    A chain of 500 joined sugar units is a polymer as well as a macromolecule.
  2. B. a single glucose unit
    A single glucose unit is small: it is a monomer, not a macromolecule.
  3. C. ✓ a fat molecule
  4. D. a water molecule
    A water molecule has only three atoms and is far too small to be a macromolecule.

Why: A fat molecule is large enough to count as a macromolecule, but it is not a chain of repeating units, so it is not a polymer.

12Joining two units

13

Video: Watch: two pieces off, one water out

Two glucose units from a model kit: the pieces come off, click into one water molecule, and go back in.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L06.mp4

14

Here are two glucose units side by side, not yet joined. Where they face each other, one carries an oxygen bonded to a hydrogen, –OH, and the other carries an –OH too. It is that second group’s hydrogen that will leave, so its oxygen stays and becomes the bridge between the units.

Two glucose units side by side: where they face each other, each carries an oxygen bonded to a hydrogen, an OH group
Two glucose units side by side: where they face each other, each carries an oxygen bonded to a hydrogen, an OH group
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An oxygen bonded to a hydrogen, –OH, sitting as part of a larger molecule, is called a .

16

To join the two units, the whole –OH is removed from one of them, and only the hydrogen is removed from the other’s –OH.

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Count the atoms that come off: one O and one H from the whole –OH, and one more H. That is H₂O. The two pieces leave together as one water molecule.

Dehydration synthesis: one unit gives up its whole OH and the other gives up only the H of its OH; the OH and the H leave as one water molecule, and the oxygen left behind bonds to the carbon that lost the OH, so the two units join by a covalent bond through that oxygen. The drawing shows how the atoms line up, not how the cell does it
Dehydration synthesis: one unit gives up its whole OH and the other gives up only the H of its OH; the OH and the H leave as one water molecule, and the oxygen left behind bonds to the carbon that lost the OH, so the two units join by a covalent bond through that oxygen. The drawing shows how the atoms line up, not how the cell does it
18

The oxygen that stayed now bonds to the carbon that lost its –OH. So the two units are joined through that oxygen by a covalent bond, a shared pair of electrons.

19

The drawing is a count of atoms. It shows how the atoms line up, not how the cell does it.

20

Joining two molecules by removing the pieces of a water molecule from them is called : dehydration because water leaves, synthesis because something larger is built.

21

What you are expected to know Describe how two monomers join. A whole –OH leaves one monomer and an H leaves the other. Together they leave as one water molecule. A covalent bond forms between the monomers through the oxygen that stayed.

22
Check q3

Two sugar units are joined by dehydration synthesis. The pieces removed from them join as one water molecule.

Which pieces are removed?

  1. A. An –OH from each of the two units
    Two –OH groups hold two oxygens; a water molecule has only one.
  2. B. An H from each of the two units
    Two hydrogens contain no oxygen and cannot make a water molecule.
  3. C. ✓ An –OH from one unit and an H from the other
  4. D. An –OH and an H, both from the same unit
    One piece comes off each unit, and the new bond forms between the two places the pieces came off.

Why: One unit loses its whole –OH and the other loses the H of its –OH.
Together those two pieces leave as exactly one water molecule, and the units bond where the pieces came off.

23
Check q4

Monomers P and Q are joined by dehydration synthesis. P loses only the H of its –OH.

What happened to Q?

  1. A. ✓ Q lost its whole hydroxyl group, –OH
  2. B. Q also lost only an H
    Two hydrogens cannot make a water molecule.
  3. C. Q lost nothing; P supplied the whole water molecule
    One monomer cannot supply both pieces of the water; one piece comes off each.
  4. D. Q gained a hydroxyl group
    Gaining a group happens in the breaking reaction, not in the joining one.

Why: The released water is one H from one monomer joined to one –OH from the other.
P gave the H, so Q gave the –OH.

24Breaking the bond with water

25

Now reverse the reaction: break a bond instead of making one. Here are two units joined by a covalent bond, and a water molecule next to the bond.

Two joined units, with a water molecule next to the covalent bond between them
Two joined units, with a water molecule next to the covalent bond between them
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The water molecule splits in two: into an H and an –OH. The –OH goes to the unit whose carbon gives up the bridging oxygen; the H goes to that oxygen, which stays with the other unit.

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The covalent bond between the units breaks, and they come apart. The unit that kept the bridging oxygen took the H, and the other unit took the –OH, so each unit ends in an –OH again.

Hydrolysis: the water split into an H and an OH and the bond has broken; the unit that kept the oxygen took the H, remaking an OH, and the other unit took the OH; both units end in an OH
Hydrolysis: the water split into an H and an OH and the bond has broken; the unit that kept the oxygen took the H, remaking an OH, and the other unit took the OH; both units end in an OH
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Breaking a molecule apart by adding water to a bond is called : hydro for water, lysis for splitting.

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Digestion in your gut is hydrolysis. It cuts the chains in bread back into single glucose units, small enough for your blood to carry.

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Hydrolysis frees the glucose, but it does not immediately give your cells any usable energy. To get energy, a cell has to break the glucose down further, in other reactions.

31

What you are expected to know Describe how hydrolysis breaks the bond between two monomers: a water molecule joins the bond and splits into an H and an –OH, the –OH goes to one monomer and the H to the other, and the covalent bond breaks.

32
Check q5

A water molecule joins the bond between monomers M and N, and the bond breaks. Afterwards, N carries an extra hydroxyl group.

What does M carry?

  1. A. A whole extra water molecule
    The water molecule splits, so M gets only one of its two pieces.
  2. B. ✓ The water’s H, joined to the oxygen M kept, so M now ends in –OH too
  3. C. The water’s whole –OH as well, so M gains the same piece as N
    One water molecule splits into only one –OH and one H; N took the –OH, so M can only get the H.
  4. D. Nothing extra; N took the whole water molecule
    The water splits between the two monomers rather than going whole to one of them.

Why: In hydrolysis the water molecule splits into an H and an –OH, and each piece goes to a different monomer.
N took the –OH, so M took the H, which joined the oxygen M kept: both monomers end in –OH, but M got only the H from the water.

33
Check q6

Which statement describes hydrolysis?

  1. A. Water is released and a covalent bond forms.
    Water released and a bond forming describes dehydration synthesis, the joining reaction.
  2. B. Water is added and a covalent bond forms.
    Adding water breaks a bond; it does not form one.
  3. C. Water is released and a covalent bond breaks.
    Breaking a bond takes a water molecule in; it does not release one.
  4. D. ✓ Water is added and a covalent bond breaks.

Why: Hydrolysis adds a water molecule to the bond between two monomers, and that bond breaks.

34
Check q7

You eat a slice of bread. Hours later, free glucose from it is in your blood.

What did hydrolysis in your gut do?

  1. A. Released the energy your cells use by breaking the bonds
    Hydrolysis frees the units but does not, on its own, give your cells usable energy; a cell gets that by breaking glucose down further in later reactions.
  2. B. Joined the sugar units into chains your cells can use
    Joining units into chains is dehydration synthesis, not hydrolysis.
  3. C. Removed water from the bread so it could be absorbed
    Hydrolysis adds water at every bond it breaks rather than removing it.
  4. D. ✓ Freed single glucose units small enough for your blood to carry

Why: Hydrolysis adds water to the bonds between the sugar units and breaks them, freeing single glucose units that your blood can carry to your cells.

35

Two reactions build and break every chain: dehydration synthesis joins monomers and releases water; hydrolysis adds water and breaks the bond.

36

The bread was chains of sugar units. Your gut broke those chains apart by hydrolysis. Your cells join the pieces by dehydration synthesis to build their own chains.

Glossary

glucose
A sugar: the unit that makes up the chains in bread, and the sugar your blood carries to your cells.
monomer
One small unit that can be joined to others like it to build a chain.
polymer
A chain of many monomers joined to one another by covalent bonds.
macromolecule
A very large biological molecule, such as a chain of hundreds of sugar units. Polymers are macromolecules, and so are fats.
hydroxyl group
An oxygen bonded to a hydrogen, written –OH, as part of a larger molecule.
dehydration synthesis
The reaction that joins two monomers with a covalent bond by removing a whole –OH from one and an H from the other; the two leave together as one water molecule.
hydrolysis
The reaction that breaks the bond between two monomers by adding a water molecule: the water splits into an H and an –OH, the –OH goes to one monomer and the H to the other.

APBIO-U01-L07 Counting the water

Topic 1.3 · Introduction to Biological Macromolecules · 60 steps

A bowl of pasta, and a drop of blood with glucose units drawn large inside it
A bowl of pasta, and a drop of blood with glucose units drawn large inside it

Here is a bowl of pasta, and beside it a drop of blood with the glucose in it drawn large.

Hours after the meal, the pasta’s chains of sugar units are free glucose in your blood. Weigh that glucose, and it comes to more than the chains it came from. Where did the extra mass come from?

Unit 1 · Chemistry of Life

1Count the water

2

Video: Watch: count the gaps

Six glucose units drawn live: count the joins, then the water molecules, then weigh the pile.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L07.mp4

3
Check q1

Quick recall: two units join into one molecule by dehydration synthesis.

How many water molecules are released?

  1. A. Two
    One –OH leaves one unit and one –H leaves the other; together they make just one water molecule.
  2. B. ✓ One
  3. C. None
    Joining does release water: an –OH from one unit and an –H from the other leave as one water molecule.

Why: An –OH leaves one unit and an –H leaves the other, and they join as one water molecule; breaking the bond again takes one water molecule back in.

4

Here are six units joined into one chain. Count the joins between them: five.

Six units joined into one chain: five joins, and one water molecule released at each
Six units joined into one chain: five joins, and one water molecule released at each
5

Joining the six units released five water molecules: one for each join, not one for each unit.

6

Taking the same chain fully apart breaks those five joins, so it takes in five water molecules.

7

Line up any number of units and count the gaps between them. There is always one gap fewer than there are units.

8

So a chain has one join fewer than it has units, and one water molecule moves for every join, in either direction.

9
Worked example

Eight units are joined into one chain. How many water molecules are released?

Write down the values in the question:
units = 8
Write down the equation:
water molecules released = units − 1
Substitute in the values, and calculate:
water molecules released = 8 − 1
water molecules released = 7
10

What you are expected to know Work out how many water molecules are released when a number of monomers are joined into one chain, or taken in when a chain is fully broken apart: one fewer than the number of monomers.

11
Check q2 numeric entry

A cell takes a chain of twelve units fully apart.

Calculate the number of water molecules taken in.

Answer: 11  (tolerance ±0)

Working
Write down the values in the question:
units = 12
Write down the equation:
water molecules taken in = units − 1
Substitute in the values, and calculate:
water molecules taken in = 12 − 1
water molecules taken in = 11
12
Check q3 numeric entry

A cell joins thirty units, one at a time, into a single chain.

Calculate the number of water molecules released.

Answer: 29  (tolerance ±0)

Working
Write down the values in the question:
units = 30
Write down the equation:
water molecules released = units − 1
Substitute in the values, and calculate:
water molecules released = 30 − 1
water molecules released = 29

13Where the mass goes

14

Weigh two units before they join, then weigh the one molecule they make. The one molecule they make weighs less, by exactly one water molecule.

Before joining, two separate units, each carrying an OH group where they face; after joining, one molecule with the units bridged by an oxygen, plus one water molecule made from the whole OH one unit gave up and the H the other gave up
Before joining, two separate units, each carrying an OH group where they face; after joining, one molecule with the units bridged by an oxygen, plus one water molecule made from the whole OH one unit gave up and the H the other gave up
15

No atom was destroyed. The atoms that left the two units are now in the water molecule, and that is where the missing mass is.

16

Now reverse the reaction: fully break a chain apart. The pile of single units weighs more than the chain did.

17

The extra mass is water: one water molecule joined at every join that broke, and its atoms are now part of the units.

18

In a reaction, atoms are rearranged, never created or destroyed. Here, every bit of mass gained or lost is the mass of water molecules.

19

Now, a quick example. Two monomers are joined into one molecule, and the product weighs slightly less than the two monomers did together. Where did the missing mass go? Write one short sentence per step of your reasoning.

20

A model answer: the pieces of one water molecule, a whole –OH from one monomer and an H from the other, left together as water as the monomers bonded. The missing mass is the mass of that water molecule. No atom was destroyed.

21

What you are expected to know Explain where the mass goes when monomers join or a polymer is broken apart: into, or out of, water molecules, because atoms are rearranged and never created or destroyed.

22
Check q4

A polymer is fully broken apart into its monomers.

Compared with the polymer, the pile of monomers weighs…

  1. A. less, because bonds were broken
    Nothing leaves when a bond is broken by hydrolysis; a water molecule is added.
  2. B. the same, because atoms are never created or destroyed
    Although atoms are never created or destroyed, water molecules have joined the pile, so the monomers weigh more than the polymer alone.
  3. C. ✓ more, by the water added at every broken bond
  4. D. more, by one water molecule in total
    One water molecule is added at every bond that breaks, not one in total.

Why: Each broken bond takes in one water molecule, and that water’s atoms end up in the monomers, so the pile weighs more than the polymer by all the water added.

23
Check q5

A cell joins 100 monomers into one chain.

Which statement about mass is correct?

  1. A. The chain weighs the same as the 100 monomers did.
    Every join released one water molecule, and that mass left the chain.
  2. B. ✓ The chain weighs less than the 100 monomers did, by 99 water molecules.
  3. C. The chain weighs more than the 100 monomers did, because bonds add mass.
    A bond is a shared pair of electrons and adds no mass; forming it releases water, so the chain gets lighter.
  4. D. The chain weighs less than the 100 monomers did, by 100 water molecules.
    100 monomers in a row make 99 joins, not 100.

Why: 100 monomers in a row are held by 99 joins, and each join released one water molecule, so the chain weighs less than the monomers by 99 water molecules.

24Polymerization, and its reverse

25

A cell builds a chain one unit at a time. Each new unit joins the end of the chain by dehydration synthesis, and one water molecule leaves.

26

Building a polymer by repeating dehydration synthesis, unit after unit, is called .

27

Hydrolysis reverses it. Each bond broken takes one water molecule back in, and the chain gets shorter.

Dehydration synthesis releases a water molecule; hydrolysis takes one in
Dehydration synthesis releases a water molecule; hydrolysis takes one in
28

So water moves in opposite directions in the two reactions: out when units join, in when they separate.

29

That is true whatever kind of unit is being joined. Every chain a cell builds is built by dehydration synthesis and taken apart by hydrolysis.

30

What you are expected to know Joining many monomers by repeated dehydration synthesis is polymerization; hydrolysis reverses it, whichever kind of monomer is being joined.

31
Check q6

Inside one cell, one chain is being extended while an identical chain nearby is being taken apart.

Which way does water move in each?

  1. A. ✓ Water is released where the chain is being extended and taken in where it is being taken apart.
  2. B. Water is taken in where the chain is being extended and released where it is being taken apart.
    Joining a unit releases water, and breaking a chain takes water in: the water goes the opposite way in each reaction.
  3. C. Water is released by both, because water always leaves when bonds change.
    Only the joining reaction releases water; the breaking reaction takes it in.
  4. D. Water is taken in by both, because both reactions need water to work.
    Only the breaking reaction takes water in; the joining reaction releases it.

Why: Extending the chain is dehydration synthesis, which releases one water molecule at every new bond.
Taking the chain apart is hydrolysis, which takes one water molecule in at every bond it breaks.

32
Check q7

A cell builds a long chain from units that are not sugars. As the cell adds each unit, one water molecule leaves.

What does this show about the reaction building the chain?

  1. A. It is hydrolysis, because water takes part in the reaction.
    Hydrolysis takes water in and shortens a chain; this chain is growing and giving water off.
  2. B. It is a different reaction, because the unit is not a sugar.
    The same reaction joins every kind of unit into a chain; only the unit changes.
  3. C. The units are joined by hydrogen bonds, not covalent bonds.
    Dehydration synthesis joins units with covalent bonds, whatever the unit.
  4. D. ✓ It is dehydration synthesis, the same reaction that joins sugar units.

Why: Every chain a cell builds is built by dehydration synthesis: one water molecule leaves at each new covalent bond, whatever the unit.
Hydrolysis would take water in and shorten the chain.

33Read a build-or-break model

34

Here is a model of two monomers joining. The –OH and the H that leave are outlined; the oxygen they leave behind becomes the bridge. The model shows how the atoms line up, not how the cell does it.

Panel one: two monomers join; the whole OH one gives up and the H the other gives up are outlined and leave as one water molecule that appears on the right; the oxygen that stays bridges the two monomers. The drawing shows how the atoms line up, not how the cell does it
Panel one: two monomers join; the whole OH one gives up and the H the other gives up are outlined and leave as one water molecule that appears on the right; the oxygen that stays bridges the two monomers. The drawing shows how the atoms line up, not how the cell does it
35

The molecules you start with are drawn on the left; what they make, the products, on the right. Here the water is on the right, the product side.

36

To read any model like this, follow the water. Water on the product side means dehydration synthesis; water on the starting side means hydrolysis.

37

Here is a second model: a four-unit polymer, with a water molecule approaching the bond between units 2 and 3. Water on the starting side, so this is hydrolysis.

A model: a four-unit polymer, a water molecule approaching the bond between units 2 and 3, which it will split into an H and an OH to break, and the break marked between the oxygen and unit 3
A model: a four-unit polymer, a water molecule approaching the bond between units 2 and 3, which it will split into an H and an OH to break, and the break marked between the oxygen and unit 3
38

In a chain, each bond runs through an oxygen: unit–O–unit. The dashed mark shows where the break happens: between the oxygen and unit 3, so unit 2 keeps the oxygen.

39

The water splits into an H and an –OH. The side that keeps the oxygen gains the H; that oxygen and hydrogen together are an –OH. The other side gains the water’s –OH.

40

On paper, draw the two products of breaking the marked bond. Label which piece gains the H and which gains the –OH.

41

Check your drawing against this one: two pieces of two units each. Units 1 and 2 kept the oxygen and gained the H, ending in –OH. Units 3 and 4 gained the –OH from the water. No water is left over.

The two products: units 1 and 2 ending in their oxygen and the water's H, and the water's OH joined to units 3 and 4
The two products: units 1 and 2 ending in their oxygen and the water's H, and the water's OH joined to units 3 and 4
42

What you are expected to know You can now read a drawn model: where the water is says whether it shows dehydration synthesis or hydrolysis, and you can draw the products of breaking a marked bond, labeling which piece gains the H and which the –OH.

43
Check q8

Look at the model.

A model: three joined units, a water molecule beside the bond between units 1 and 2, and a dashed mark across that bond between the oxygen and unit 2
A model: three joined units, a water molecule beside the bond between units 1 and 2, and a dashed mark across that bond between the oxygen and unit 2

Which reaction does it show, and what are the products?

  1. A. ✓ Hydrolysis; a single unit and a two-unit piece
  2. B. Hydrolysis; three single units
    Only one water molecule is drawn, beside one bond, so only that bond breaks.
  3. C. Dehydration synthesis; a four-unit chain
    The water is on the starting side, being added, not on the product side, being released.
  4. D. Dehydration synthesis; a single unit and a two-unit piece
    Water beside a bond on the starting side means hydrolysis, not dehydration synthesis.

Why: The water is on the starting side, approaching the bond between units 1 and 2, so this is hydrolysis.
Breaking that one bond leaves unit 1 on its own and units 2 and 3 still joined.

44
Check q9

The model shows two units joined through an oxygen. The break is marked between the oxygen and unit 2.

A model: three joined units, a water molecule beside the bond between units 1 and 2, and a dashed mark across that bond between the oxygen and unit 2
A model: three joined units, a water molecule beside the bond between units 1 and 2, and a dashed mark across that bond between the oxygen and unit 2

Which piece gains the –OH from the water?

  1. A. unit 1, which keeps the oxygen
    The side that keeps the oxygen already has an oxygen there; it gains only the water’s H, which completes an –OH.
  2. B. ✓ the two-unit piece, units 2 and 3
  3. C. both pieces gain an –OH from the water
    One water molecule splits into only one –OH; its other piece is an H.
  4. D. neither; the water stays whole
    In hydrolysis the water splits, and its two pieces go to different sides of the broken bond.

Why: The break is between the oxygen and unit 2, so unit 1 keeps the oxygen and gains the water’s H.
The other piece, units 2 and 3, gains the water’s –OH.

45
Practice writing an answer

The model below shows a chain of seven units, numbered 1 to 7, each joined to the next through an oxygen: unit–O–unit. A water molecule is drawn beside the bond between units 5 and 6, and a dashed mark crosses that bond between the oxygen and unit 6.

A model: seven units numbered 1 to 7 joined through bridging oxygens, a water molecule beside the bond between units 5 and 6, and a dashed mark across that bond between the oxygen and unit 6
A model: seven units numbered 1 to 7 joined through bridging oxygens, a water molecule beside the bond between units 5 and 6, and a dashed mark across that bond between the oxygen and unit 6

(a) Identify the reaction the model shows, and justify your answer from the position of the water. (1 pt)

Frame The model shows …, because the water is drawn …

Model answer The model shows hydrolysis.
The water is drawn on the starting side, approaching a bond: it is being added to the chain, and one bond will break.
Rubric
  • Award 1 point for: hydrolysis, identified from the water being on the starting side, so that it is added and a bond breaks.
  • Accept: ‘water is a starting material, so water is being added and the chain is being broken’.
  • Do not award: dehydration synthesis, or hydrolysis named with no reason from where the water is.

Slip Seeing a water molecule and calling it dehydration synthesis because ‘water is involved’. Both reactions involve water; the side it is drawn on tells them apart.

(b) Describe the two products, stating how many units each contains and what group each piece gains from the water molecule. (1 pt)

Model answer The break gives two pieces.
Units 1 to 5 keep the oxygen and gain the water’s H, so that end becomes an –OH.
Units 6 and 7 gain the water’s –OH.
Rubric
  • Award 1 point only when both pieces are right: a five-unit piece (units 1 to 5) that keeps the oxygen and gains the H, and a two-unit piece (units 6 and 7) that gains the –OH. Either piece alone, or the pieces right but the groups swapped: 0 points.
  • Accept: any notation that shows the two pieces with the H on the oxygen-keeping side and the –OH on unit 6.
  • Do not award: seven single units, or both pieces gaining an –OH from the water.

Slip Giving both pieces an –OH. One water molecule splits into one –OH and one H; the side that kept the oxygen needs only the H to finish its own –OH.

(c) Predict how the total mass of the two products compares with the mass of the seven-unit chain, and say where any difference comes from. (1 pt)

Model answer The two products together weigh more than the chain did, by exactly one water molecule.
The water’s atoms are now part of the two pieces.
Rubric
  • Award 1 point for: the products weigh more than the chain by one water molecule, because that water’s atoms are now in the pieces.
  • Accept: ‘more, by the water added at the broken bond’.
  • Do not award: the same mass because atoms are conserved, or less because a bond was broken.

Slip Answering ‘the same, because atoms are never created or destroyed’. Atoms are conserved, and a whole water molecule has joined the pieces, so the pieces weigh more than the chain alone.

46

Whatever chain a model shows, follow the water. Which way it moves tells you the reaction. One water molecule per bond tells you how many, and the water’s mass is the mass that moves.

47

What you are expected to know Read any build-or-break model: say which reaction it shows, work out how many water molecules move, and say where the mass goes.

48

For the chains in pasta, the water added at every broken bond makes the glucose about 11% heavier than the chain it came from.

49

The extra mass in the blood glucose is the water your gut added at every broken bond.

50Mixed practice mixed practice

51
Check q10

A cell is adding units, one at a time, to the end of a growing chain.

Which way does water move as each new unit joins?

  1. A. Two water molecules leave at each join, one for the H and one for the –OH
    The H and the –OH that leave make one water molecule between them, not two.
  2. B. One water molecule is taken in at each join
    Joining units releases water; water is taken in only when a chain is broken apart.
  3. C. ✓ One water molecule leaves at each join
  4. D. One water molecule leaves for each unit, including the first
    The first unit placed makes no join, so no water leaves until the second unit joins it.

Why: Each new unit joins the chain by dehydration synthesis, and the pieces of one water molecule leave at each join.

52
Check q11 numeric entry

A chain of fourteen sugar units is fully broken apart into single units.

Calculate the number of water molecules taken in.

Answer: 13  (tolerance ±0)

Working
Write down the values in the question:
units = 14
Write down the equation:
water molecules taken in = units − 1
Substitute in the values, and calculate:
water molecules taken in = 14 − 1
water molecules taken in = 13
53
Check q12

Two monomers join into one molecule, and the product weighs less than the two monomers did together.

Where is the missing mass?

  1. A. In the new covalent bond between the two monomers
    A bond is a shared pair of electrons and has no mass of its own.
  2. B. Nowhere; it was destroyed when the bond formed
    Atoms are rearranged in a reaction, never destroyed.
  3. C. In the –H and –OH groups still on the product
    The –H and –OH did not stay on the product; they left together as one water molecule.
  4. D. ✓ In the water molecule that left as the monomers joined

Why: A whole –OH from one monomer and an H from the other left as the monomers joined, and made one water molecule.
The missing mass is the mass of that water molecule.

54
Check q13 numeric entry

A cell builds a chain of 250 glucose units.

Calculate the number of water molecules released.

Answer: 249  (tolerance ±0)

Working
Write down the values in the question:
units = 250
Write down the equation:
water molecules released = units − 1
Substitute in the values, and calculate:
water molecules released = 250 − 1
water molecules released = 249
55
Check q14

Look at the model.

A model: two monomers on the left, each carrying an OH group where they face, an arrow, and on the right the two monomers joined through an oxygen, then a plus sign and a water molecule
A model: two monomers on the left, each carrying an OH group where they face, an arrow, and on the right the two monomers joined through an oxygen, then a plus sign and a water molecule

Which reaction does it show?

  1. A. Hydrolysis, because the water is on the product side
    Water on the product side means the water was made as the monomers joined, which is dehydration synthesis, not hydrolysis.
  2. B. ✓ Dehydration synthesis, because the water is on the product side
  3. C. Hydrolysis, because a water molecule is drawn in the model
    Both reactions involve water, so a water molecule being drawn does not by itself say which reaction it is; the side it is on does.
  4. D. Dehydration synthesis, because a water molecule is drawn in the model
    The reaction is right but the reason is not: a water molecule appears in models of both reactions, and only its side tells them apart.

Why: The water is drawn on the right, the product side, so it left as the two monomers joined: dehydration synthesis.

56
Check q15 numeric entry

A cell takes two chains, one of fifteen units and one of eight units, fully apart.

Calculate the total number of water molecules taken in.

Part 1. How many water molecules does the fifteen-unit chain take in?

Answer: 14  (tolerance ±0)

Working
Subtract one from the number of units in the fifteen-unit chain:
water molecules taken in = 15 − 1 = 14

Part 2. How many water molecules does the eight-unit chain take in?

Answer: 7  (tolerance ±0)

Working
Subtract one from the number of units in the eight-unit chain:
water molecules taken in = 8 − 1 = 7

Answer: 21  (tolerance ±0)

Working
Write down the values in the question:
units in the first chain = 15
units in the second chain = 8
Write down the equation:
water molecules taken in = (units in the first chain − 1) + (units in the second chain − 1)
Substitute in the values, and calculate:
water molecules taken in = (15 − 1) + (8 − 1)
water molecules taken in = 14 + 7
water molecules taken in = 21
57
Check q16 numeric entry

A chain of forty units is fully broken apart. The pile of single units weighs more than the chain did.

Calculate the number of water molecules that make up the extra mass.

Answer: 39  (tolerance ±0)

Working
Write down the values in the question:
units = 40
Write down the equation:
water molecules added = units − 1
Substitute in the values, and calculate:
water molecules added = 40 − 1
water molecules added = 39
58
Check q17

In the model, the break is marked between the oxygen and unit 3.

A model: a four-unit polymer, a water molecule approaching the bond between units 2 and 3, which it will split into an H and an OH to break, and the break marked between the oxygen and unit 3
A model: a four-unit polymer, a water molecule approaching the bond between units 2 and 3, which it will split into an H and an OH to break, and the break marked between the oxygen and unit 3

Which piece gains the water’s H?

  1. A. ✓ The piece with units 1 and 2, which keeps the oxygen
  2. B. The piece with units 3 and 4, which did not keep the oxygen
    The side that lost the oxygen gains the water’s –OH, not just an H.
  3. C. Both pieces gain an H from the water
    The water splits into one H and one –OH, and they go to different sides.
  4. D. Neither piece; the water stays whole
    In hydrolysis the water splits, and its two pieces go to the two sides of the broken bond.

Why: The break is between the oxygen and unit 3, so units 1 and 2 keep the oxygen.
That side gains the water’s H, finishing an –OH; units 3 and 4 gain the water’s –OH.

59
Practice writing an answer

The model below shows a chain of ten units, numbered 1 to 10, each joined to the next through an oxygen. A cell takes the chain fully apart.

A model: ten units numbered 1 to 10, each joined to the next through a bridging oxygen
A model: ten units numbered 1 to 10, each joined to the next through a bridging oxygen

(a) Calculate the number of water molecules taken in, and justify the number from the joins in the chain. (1 pt)

Frame The chain takes in … water molecules, because …

Model answer Ten units in a row are held by nine joins.
One water molecule is taken in at each join.
So the chain takes in nine water molecules.
Working
Write down the values in the question:
units = 10
Write down the equation:
water molecules taken in = units − 1
Substitute in the values, and calculate:
water molecules taken in = 10 − 1
water molecules taken in = 9
Rubric
  • Award 1 point for: nine water molecules, justified by ten units having nine joins with one water molecule taken in at each.
  • Accept: ‘one fewer than the number of units, so nine’.
  • Do not award: ten, or nine with no reason from the joins.

Slip Counting one water molecule per unit. The two end units each have only one join, so ten units make nine joins.

(b) Predict how the total mass of the ten single units compares with the mass of the chain, and explain where the difference comes from. (1 pt)

Model answer The ten units together weigh more than the chain did, by nine water molecules.
The atoms of each water molecule taken in are now part of the units.
Rubric
  • Award 1 point for: the units weigh more than the chain by nine water molecules, because the water’s atoms are now in the units.
  • Accept: ‘more, by the water added at every broken join’.
  • Do not award: the same mass because atoms are conserved, or less because bonds were broken.

Slip Saying the mass is the same because atoms are never created or destroyed. Atoms are conserved, and nine water molecules have joined the units, so the units weigh more.

Glossary

polymerization
Building a polymer by joining monomer after monomer with repeated dehydration synthesis.

APBIO-U01-P13 Practice questions: Topic 1.3

Topic 1.3 · Introduction to Biological Macromolecules · 9 MCQ · 2 FRQ · for APBIO-U01-T13

Answer every question. For each multiple-choice question choose one answer 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. Use a hint if you are stuck, then open the full-credit answer and score your own work against it.

Video: Watch first: follow the water

One seven-unit chain, built, broken, counted and weighed, then the reading rule for any drawn model.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-T13-summary.mp4

Q1 P13-q01

The shell of a shrimp is built mostly from one kind of molecule: a chain of about 3,000 identical sugar units joined one after another.

Which words apply to one sugar unit and to the whole chain?

  1. A. One unit is a polymer; the whole chain is a monomer
    The small repeating unit is the monomer and the chain built from it is the polymer.
  2. B. One unit is a monomer; the whole chain is a polymer but not a macromolecule
    A chain of 3,000 sugar units is a very large biological molecule, which is exactly what a macromolecule is.
  3. C. ✓ One unit is a monomer; the whole chain is a polymer and a macromolecule
  4. D. One unit is a monomer; the whole chain is a macromolecule but not a polymer
    A chain of repeating units is exactly what a polymer is; a fat is the kind of macromolecule that is not one.

Why: One sugar unit is the monomer, the small piece the chain is built from.
The chain of 3,000 units is a polymer, and because it is a very large biological molecule it is also a macromolecule.

Q2 P13-q02

The model shows two units, A and B. A carries an –OH group and B carries an –H where the two units face each other. The two units are joined by dehydration synthesis.

Unit A and unit B, facing each other. A carries an –OH group and B an –H on the sides that face.
Unit A and unit B, facing each other. A carries an –OH group and B an –H on the sides that face.

Which atoms leave as the water molecule, and what holds A to B afterward?

  1. A. ✓ The –OH from A and the H from B leave as one water molecule; a covalent bond holds A to B
  2. B. The –OH from A and the H from B leave as one water molecule; a hydrogen bond holds A to B
    Where the pieces came off, the two units share a pair of electrons, which is a covalent bond, not a hydrogen bond.
  3. C. An –OH from each unit leaves as two water molecules; a covalent bond holds A to B
    Two –OH groups do not make water; one water molecule is one –OH and one H, one piece from each unit.
  4. D. An –OH from each unit leaves as two water molecules; a hydrogen bond holds A to B
    Two –OH groups do not make water, and the bond that forms is covalent, not a hydrogen bond.

Why: In dehydration synthesis the –OH from one unit and the H from the other leave together as one water molecule, and a covalent bond, a shared pair of electrons, forms between the two units where the pieces came off.

Q3 P13-q03

During digestion, starch chains from a meal are broken into free sugar units. A student writes: “Each bond broke and released a water molecule.”

Which statement corrects the student?

  1. A. Each bond broke and released two water molecules, one from each of the two units it had joined
    Breaking a bond takes one water molecule in; it releases none.
  2. B. Each bond broke when the two units pulled apart on their own as the water warmed; water itself played no part
    Water is not a bystander; the bond breaks because a water molecule is added to it and splits between the two units.
  3. C. Each bond broke by dehydration synthesis, the reaction that releases a water molecule at every bond
    Dehydration synthesis forms a bond and releases water; breaking a bond by adding water is hydrolysis.
  4. D. ✓ Each bond broke when a water molecule was added to it, its H going to one unit and its –OH to the other

Why: Breaking the bond between two units is hydrolysis: a water molecule is added to the bond, its H goes to one unit and its –OH to the other, and the covalent bond between them breaks.
Water is taken in, one molecule for every bond that breaks.

Q4 P13-q04

A cell joins 25 identical monomers, one after another, into a single chain.

How many water molecules are released?

  1. A. 25
    The first monomer placed makes no join, so 25 monomers in a row have 24 joins, not 25.
  2. B. ✓ 24
  3. C. 26
    A chain has one join fewer than it has monomers, not one more.
  4. D. 12
    Every join releases one water molecule, not every pair of monomers.

Why: One water molecule leaves at each join.
A chain has one join fewer than it has monomers.
So 25 monomers give 24 water molecules, as the working shows.

Q5 P13-q05

A chain of 30 monomers is cut by hydrolysis into three pieces of 10 monomers each.

How many water molecules were consumed?

  1. A. ✓ 2
  2. B. 3
    Water is used per cut, not per piece; cutting a chain into three pieces takes two cuts.
  3. C. 29
    Only two joins were broken; the pieces of 10 are still chains.
  4. D. 27
    The number of water molecules is the number of joins broken, and two cuts make three pieces.

Why: One water molecule is added at every join that breaks.
Three pieces need two cuts, so two joins broke and two water molecules were consumed.

Q6 P13-q06

Monomers are joined into one long chain. The water released has a mass of 0.9 g in total, and the finished chain has a mass of 9.1 g.

What was the mass of the monomers before they were joined?

  1. A. 9.1 g
    The chain has less mass than the monomers did, by the mass of the water that left.
  2. B. 8.2 g
    The water came out of the monomers, so it is added to the chain’s mass, not subtracted.
  3. C. ✓ 10.0 g
  4. D. 9.5 g
    Every water molecule released came from the monomers, so all 0.9 g counts, not half.

Why: Atoms are rearranged, never created or destroyed.
Every atom that left the monomers is in the collected water.
So the monomers had the mass of the chain plus the mass of the water: 10.0 g, as the working shows.

Q7 P13-q07

A polymer is made in a factory from a monomer that no living thing produces. Each join releases one water molecule. Later the cell takes the polymer apart again into its monomers.

Which reaction takes the polymer apart, and what happens to water?

  1. A. Dehydration synthesis; a water molecule is released at each bond that breaks
    Dehydration synthesis builds the chain and releases water; taking the chain apart is its reverse.
  2. B. ✓ Hydrolysis; a water molecule is consumed at each bond that breaks
  3. C. Hydrolysis; no water is involved, because an artificial monomer follows rules of its own
    Hydrolysis always adds one water molecule to each bond it breaks, whatever the monomer.
  4. D. Hydrolysis; a water molecule is released at each bond that breaks
    Hydrolysis adds a water molecule to each bond; it does not release one.

Why: Hydrolysis reverses dehydration synthesis whatever the monomer: a water molecule is added to each bond and the bond breaks.
Water leaves when monomers join and is consumed when they separate.

Q8 P13-q08

The model is a student’s drawing of the bond between units 1 and 2 of a chain being broken. The starting molecule is on the left of the arrow; the products are on the right: units 1 and 2, each now ending in an –OH group, and a water molecule.

A student’s model of the bond between units 1 and 2 of a chain being broken. The starting molecule is on the left of the arrow. On the right are the products: units 1 and 2, each now ending in an –OH group, and a water molecule.
A student’s model of the bond between units 1 and 2 of a chain being broken. The starting molecule is on the left of the arrow. On the right are the products: units 1 and 2, each now ending in an –OH group, and a water molecule.

What is wrong with the model?

  1. A. Nothing is wrong; breaking a bond releases a water molecule, so the water belongs with the products
    Water is a product when units join; when a bond breaks, water is added, so it belongs on the starting side.
  2. B. The two products should be drawn joined by a hydrogen bond, since the bond only weakened
    In hydrolysis the covalent bond breaks and the units come apart; no hydrogen bond replaces it.
  3. C. There should be two water molecules on the right, one released by each of the two units
    Breaking one bond takes in one water molecule, and it is taken in rather than released.
  4. D. ✓ The water is on the wrong side: breaking a bond takes water in, so the water belongs with the starting molecule

Why: To read a model, follow the water.
Water on the product side means dehydration synthesis; water on the starting side means hydrolysis.
A bond breaking is hydrolysis, so the water should be drawn on the left, being added to the bond.

Q9 P13-q09

The model shows a chain of three units, each joined to the next through an oxygen atom. The oxygen between units 2 and 3 belongs to unit 3. A water molecule approaches bond X, which is the bond between unit 2 and that oxygen.

A chain of three units, each joined to the next through an oxygen atom. The oxygen between units 2 and 3 is drawn close to unit 3, the unit it belongs to. A water molecule approaches the bond marked X.
A chain of three units, each joined to the next through an oxygen atom. The oxygen between units 2 and 3 is drawn close to unit 3, the unit it belongs to. A water molecule approaches the bond marked X.

When bond X breaks, which piece gains the –H from the water and which gains the whole –OH?

  1. A. ✓ Unit 3 gains the –H, because it keeps the oxygen; the piece with units 1 and 2 gains the –OH
  2. B. Unit 3 gains the –OH; the piece with units 1 and 2 gains the –H, because it is the larger piece
    The side that keeps the bridging oxygen needs only the H to finish an –OH.
    Unit 3 keeps the oxygen, so unit 3 gains the H.
  3. C. Both pieces gain an –OH; the oxygen between them leaves with the water
    The water has one –OH and one H, and the bridging oxygen stays on unit 3.
  4. D. Unit 3 gains the –H; the piece with units 1 and 2 gains nothing, because it already has an oxygen
    Both pieces of the water go somewhere: the H to the side that kept the oxygen, the –OH to the other side.

Why: The side that keeps the bridging oxygen gains the water’s H, and that oxygen and H together make an –OH.
Here the oxygen belongs to unit 3, so unit 3 gains the H; the other piece, units 1 and 2, gains the water’s whole –OH.

FRQ 1 P13-frq1 · Conceptual Analysis scaffolded

A spider builds the threads of its web from silk. Inside the spider’s silk gland, small identical units are joined one after another into long chains, and each thread is made of many such chains. In one chain, 800 units are joined. When the spider takes its web down, it eats the old silk, and its gut breaks the chains back into single units, which the spider uses again.

(a) Identify the reaction that joins one unit to the next in the silk gland, and name the kind of bond it forms between the two units. (1 pt)

Frame The units are joined by …, which forms a … bond between them.

Hint Which of the two reactions of this topic builds a chain rather than breaking one?

Model answer The units are joined by dehydration synthesis, which forms a covalent bond between them.
Rubric
  • Award 1 point for: dehydration synthesis, forming a covalent bond between the units.
  • Accept: ‘a shared pair of electrons’ for the covalent bond.
  • Do not award: hydrolysis, or a hydrogen bond between the units.

Slip Naming hydrolysis because water is involved. Both reactions involve water; the one that builds a chain is dehydration synthesis, and the bond it makes is covalent.

(b) Describe what happens to the –OH group on one unit and the H on the next as the join forms. (1 pt)

Frame The –OH from one unit and the H from the next …, and where they came off, the two units …

Hint Where do the two pieces go, and what happens where they came off?

Model answer The –OH from one unit and the H from the next leave together as one water molecule, and where they came off, the two units bond to each other.
Rubric
  • Award 1 point for: the –OH and the H leave together as one water molecule, and the units bond where the pieces came off.
  • Accept: ‘the –OH and the H come off and make one water molecule’, or ‘one water molecule is removed’.
  • Do not award: both pieces taken from one unit, or water taken in rather than released.

Slip Taking both pieces from one unit, or having the water come in. One piece comes from each unit, and together they leave as one water molecule.

(c) Calculate the number of water molecules released when the 800 units are joined into one chain. (1 pt)

Frame 800 units in a row have … joins, so … water molecules are released.

Hint Picture a chain of only four units: how many joins hold them together, and how does that compare with the number of units?

Model answer 800 units in a row have 799 joins, so 799 water molecules are released.
Working
Write down the values in the question:
units = 800
Write down the equation:
water molecules released = units − 1
Substitute in the values, and calculate:
water molecules released = 800 − 1
water molecules released = 799
Rubric
  • Award 1 point for: 799 water molecules, from 800 units having 799 joins.
  • Accept: ‘one fewer than the number of units, so 799’.
  • Do not award: 800, or 799 with no reason from the joins.

Slip Counting one water molecule per unit, which gives 800. The first unit placed makes no join, so 800 units make 799 joins.

(d) Predict how the mass of the finished 800-unit chain compares with the mass of the 800 separate units it was built from, and state where the difference is. (1 pt)

Frame The chain’s mass is … than the 800 units’ mass, by …, because …

Hint Where did the atoms that left the units end up?

Model answer The chain’s mass is less than the 800 units’ mass, by the mass of 799 water molecules, because the atoms that left the units at each join are now in those water molecules.
No atom was created or destroyed.
Rubric
  • Award 1 point for: the chain’s mass is less, by the mass of the 799 water molecules released, whose atoms came from the units.
  • Accept: ‘lighter by the water that left’.
  • Do not award: the same mass because atoms are conserved, or heavier because bonds were added.

Slip Answering ‘the same, because atoms are never created or destroyed’. Atoms are conserved, and 799 water molecules’ worth of them left the chain, so the chain alone has less mass.

(e) The spider eats its old web and its gut breaks the chains into single units. Identify the reaction in the gut, and justify the statement that it is the reverse of the reaction in the silk gland. (1 pt)

Frame The gut uses …, which is the reverse because …

Hint Compare which way water moves in the two reactions.

Model answer The gut uses hydrolysis, which is the reverse because a water molecule is added to each bond and the bond breaks, whereas in the gland a water molecule leaves as each bond forms.
Water moves out when the units join and in when they separate, whatever the unit.
Rubric
  • Award 1 point for: hydrolysis, and the reverse relationship stated through water: released when units join, consumed when the bond breaks.
  • Accept: ‘hydrolysis puts back the water that dehydration synthesis removed’.
  • Do not award: hydrolysis named with no comparison, or water released in both reactions.

Slip Saying water is released in both directions. Water leaves when units join and is taken in when they separate; so the two reactions are reverses of each other.

FRQ 2 P13-frq2 · Conceptual Analysis

Milk sugar is a molecule of two sugar units joined by one covalent bond. The wall of the gut absorbs single sugar units only. In most young mammals the gut breaks milk sugar into its two units, which are absorbed and carried in the blood. Cells later join such units into a storage chain. Starch, the storage chain in plant food, is also made of sugar units joined by covalent bonds. A student claims that the gut must use a different reaction to break milk sugar from the one it uses to break starch, because the two are different molecules.

(a) Describe how the bond between the two units of milk sugar is broken in the gut. (1 pt)

Frame A water molecule is …; its … goes to one unit and its … to the other, and the covalent bond …

Model answer A water molecule is added to the bond; its H goes to one unit and its –OH to the other, and the covalent bond between the units breaks.
This is hydrolysis.
Rubric
  • Award 1 point for: water is added, splitting into H for one unit and –OH for the other, and the covalent bond breaks.
  • Accept: hydrolysis named with the water added and split between the two units.
  • Do not award: water released as the bond breaks, or the bond breaking on its own.

Slip Writing that the bond ‘breaks and releases water’. Breaking a bond takes a water molecule in; releasing water is what joining does.

(b) Explain why the two free sugar units together weigh more than the milk sugar molecule they came from. (1 pt)

Model answer One water molecule was added to the bond when it broke, and its atoms are now part of the two units: the H on one and the –OH on the other.
Atoms are rearranged, never created or destroyed, so the two units weigh more than the milk sugar by exactly one water molecule.
Rubric
  • Award 1 point for: the added water molecule’s atoms are now in the two units, so together they weigh more by one water molecule.
  • Accept: ‘the extra mass is the water added at the broken bond’.
  • Do not award: the same mass because atoms are conserved, or more mass because breaking a bond adds mass on its own.

Slip Saying the mass is the same because atoms are conserved. Atoms are conserved, and a whole water molecule has joined the two units, so the units weigh more than the milk sugar alone.

(c) Evaluate the student’s claim that the gut must use a different reaction to break milk sugar from the one it uses to break starch. (1 pt)

Model answer The claim is not supported.
Every chain of units is broken the same way: a water molecule is added at the bond.
Its H goes to one unit and its –OH to the other, so the covalent bond breaks.
That reaction, hydrolysis, breaks the bond in milk sugar just as it breaks the bonds of starch.
Rubric
  • Award 1 point for the judgement AND the ground for it: the claim is not supported, because the same reaction, hydrolysis (water added at the bond), breaks the bond between units in any chain, whatever the monomer.
  • Accept: ‘one pair of reactions builds and breaks every kind of chain; only the units differ’.
  • Accept: ‘the same reaction, hydrolysis, even if a different protein in the gut carries it out for each kind of chain’.
  • Do not award: the judgement alone with no ground, or the claim accepted.

Slip Accepting the claim because the molecules are different, or rejecting it with no ground. The units differ, but the bond between them is broken the same way, by adding water: hydrolysis serves every class of monomer.

(d) Cells later join 200 absorbed sugar units into one storage chain. Calculate the number of water molecules released, and predict how the mass of the chain compares with the mass of the 200 units. (1 pt)

Model answer 199 water molecules are released, because 200 units in a row have 199 joins and one water molecule leaves at each.
The chain’s mass is less than the 200 units’ mass, by the mass of those 199 water molecules.
Working
Write down the values in the question:
units = 200
Write down the equation:
water molecules released = units − 1
Substitute in the values, and calculate:
water molecules released = 200 − 1
water molecules released = 199
Rubric
  • Award 1 point for: 199 water molecules, and the chain lighter than the 200 units by the mass of that water.
  • Accept: ‘one fewer than 200, so 199; the chain is lighter by the water that left’.
  • Do not award: 200 water molecules, or a chain whose mass is the same as the units’ mass.

Slip Counting 200 water molecules, one per unit. Water leaves once per join, and 200 units have 199 joins.

APBIO-U01-T13 End-of-topic test: Introduction to Biological Macromolecules

Topic 1.3 · Introduction to Biological Macromolecules · 18 MCQ · 2 FRQ

Answer every question. For each multiple-choice question, pick one answer and press Check; the feedback gives the reasoning. For each free-response question, 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. Write the steps in the box, then open the scoring guide and mark your own work against it.

Q1 T13-q01

A molecule taken from a plant is a single chain of about 1,200 identical glucose units, linked one after another.

Which description fits?

  1. A. One glucose unit is a polymer; the whole chain is a monomer.
    The single unit is the monomer, and the chain of many units is the polymer.
  2. B. ✓ One glucose unit is a monomer; the whole chain is a polymer.
  3. C. Both a single glucose unit and the whole chain are monomers.
    A chain of many joined units is not a single unit.
  4. D. The chain is not a polymer, because all of its units are identical.
    A polymer can be built from identical units; what makes it a polymer is that many units are joined in a chain.

Why: The small repeating unit, one glucose, is the monomer, and the long chain built from 1,200 of them is the polymer.
A polymer does not need different kinds of unit; a chain of identical units is still a polymer.

Q2 T13-q02

A molecule found in a cell is hundreds of times larger than a glucose molecule, and it is built as one large structure rather than as a chain of repeating units.

Which pair of words applies to it?

  1. A. A polymer but not a macromolecule
    A very large biological molecule is a macromolecule whether or not it is a chain.
  2. B. Both a polymer and a macromolecule
    A polymer must be a chain of repeating units, and this molecule is not one.
  3. C. Neither a polymer nor a macromolecule
    Any very large biological molecule is a macromolecule.
  4. D. ✓ A macromolecule but not a polymer

Why: A macromolecule is any very large biological molecule.
A polymer is the narrower word: a chain built from repeating monomers.
A very large molecule with no repeating chain is a macromolecule but not a polymer.

Q3 T13-q03

Monomers P and Q are joined by dehydration synthesis. P loses a hydrogen ion.

What happened to Q?

  1. A. ✓ Q lost a hydroxyl group, and the two pieces left as one water molecule.
  2. B. Q also lost a hydrogen ion, so two water molecules were released.
    Two hydrogen ions do not make a water molecule.
  3. C. Q lost nothing, because P supplied the whole water molecule by itself.
    A hydrogen ion alone is not a water molecule; the other piece had to come off Q.
  4. D. Q gained a hydroxyl group from the water around the monomers.
    A monomer gaining a group is what happens in hydrolysis; in dehydration synthesis each monomer loses a piece.

Why: The released water is assembled from one piece taken off each monomer: a hydrogen ion from one and a hydroxyl group from the other.
Since P lost the hydrogen ion, Q lost the hydroxyl group, and a covalent bond formed between them.

Q4 T13-q04

Two monomers have just been joined by dehydration synthesis.

What now holds the two monomers together?

  1. A. A hydrogen bond between the two monomers
    A hydrogen bond is a weak attraction between molecules, not the link made by dehydration synthesis.
  2. B. The water molecule that was released
    The water molecule leaves; it is not part of the joined molecule.
  3. C. ✓ A covalent bond between the two monomers
  4. D. The attraction between their partial charges
    Partial charges give weak attractions between molecules, and the two monomers are now one molecule.

Why: Dehydration synthesis removes a hydrogen ion from one monomer and a hydroxyl group from the other, and a covalent bond forms between the two monomers where those pieces were.
The water leaves.

Q5 T13-q05

Two glucose units are joined by dehydration synthesis.

What are the products?

  1. A. One two-unit molecule only
    The pieces removed from the two units leave as a water molecule, so water is a product too.
  2. B. One two-unit molecule and two water molecules
    One bond forms and one water molecule leaves per bond.
  3. C. Two separate glucose units and one water molecule
    If the units stayed separate, no bond would have formed and no water would have been released.
  4. D. ✓ One two-unit molecule and one water molecule

Why: Dehydration synthesis makes one covalent bond between the two glucose units, giving one two-unit molecule, and the hydrogen ion and hydroxyl group removed leave as one water molecule.

Q6 T13-q06

A water molecule joins the bond between monomers M and N, and the bond breaks. Afterward, N carries an extra hydroxyl group.

What does M carry, and why?

  1. A. An extra hydroxyl group too; water gives an –OH to both monomers.
    One water molecule gives only one –OH; its other piece is an H.
  2. B. ✓ An extra hydrogen atom, H; the water split into H and –OH, one to each monomer.
  3. C. Nothing extra, because N took in the whole water molecule.
    N gained only the hydroxyl group, not the whole water molecule.
  4. D. A whole water molecule of its own, attached to M in one piece.
    The water molecule does not stay whole; it splits, one piece to each monomer.

Why: In hydrolysis one water molecule is added to the bond and splits: its hydroxyl group goes to one monomer and its hydrogen ion to the other.
Since N took the hydroxyl group, M took the hydrogen ion.

Q7 T13-q07

You eat a slice of bread. Most of its dry weight is long chains of glucose units. Hours later, free glucose from that bread is in your blood.

Which reaction freed the glucose, and what happened to water?

  1. A. ✓ Hydrolysis; a water molecule was added at each bond that broke.
  2. B. Hydrolysis; a water molecule was released at each bond that broke.
    Hydrolysis adds a water molecule to each bond; releasing water is what the joining reaction does.
  3. C. Dehydration synthesis; water was released as the units came apart.
    Dehydration synthesis joins units and releases water; it does not take a chain apart.
  4. D. Polymerization; the glucose units were joined to one another.
    Polymerization builds chains; here the chain was taken apart.

Why: The chains were broken into free glucose units, which is hydrolysis.
In hydrolysis a water molecule is added to each bond: its hydrogen ion goes to one unit and its hydroxyl group to the other, and the bond breaks.

Q8 T13-q08

A chain of eight monomers is completely broken apart by hydrolysis until eight separate monomers are free.

How many water molecules were consumed?

  1. A. One; a single water molecule breaks each bond in turn.
    A water molecule is used up when it breaks a bond, its pieces becoming part of the monomers, so each bond needs its own.
  2. B. ✓ Seven, one for each bond between the eight monomers.
  3. C. Eight, one for each of the eight monomers that ended up free.
    Water is consumed once per bond, not once per monomer.
  4. D. Sixteen, a hydrogen ion and a hydroxyl group for each monomer.
    Each broken bond uses one water molecule, whose two pieces go to the two monomers on either side; that is one per bond, not two per monomer.

Why: Water is consumed once per bond.
Eight monomers in a row are joined by seven bonds, so seven water molecules are used.
Counting one per monomer gives eight, which is one too many.

Q9 T13-q09

A cell joins 12 glucose units, one after another, into a single chain.

How many water molecules are released?

  1. A. 12
    Water leaves once per bond, not once per unit, and 12 units in a row have 11 bonds.
  2. B. ✓ 11
  3. C. 6
    Water leaves once per bond between neighbors, and 12 units in a row have 11 such bonds, not 6.
  4. D. 13
    A chain has fewer bonds than units, not more.

Why: One water molecule is released at each bond formed, and 12 units in a row are joined by 11 bonds.
The count is always one fewer than the number of units.

Q10 T13-q10

Two monomers are joined into one molecule. The product weighs less than the two monomers did together, by the mass of exactly one water molecule.

What explains the missing mass?

  1. A. ✓ The equivalent of one water molecule left the two monomers as they joined.
  2. B. Some atoms were destroyed when the new covalent bond between them formed.
    Atoms are rearranged in a reaction, never destroyed.
  3. C. A water molecule was added to the bond, which should have made it heavier.
    Adding water is hydrolysis, the opposite reaction, and it would make the product heavier.
  4. D. Each of the two monomers lost a whole water molecule of its own.
    Only one water molecule was released, built from a piece of each monomer.

Why: The hydrogen ion taken from one monomer and the hydroxyl group taken from the other leave as one water molecule, and that is exactly the mass missing from the product.
Atoms are neither created nor destroyed; they moved into the water.

Q11 T13-q11

A sample of a chain of glucose units has a mass of 1.00 g. It is completely broken into free glucose by hydrolysis, and all the glucose is collected and weighed.

What is the total mass of the glucose?

  1. A. Less than 1.00 g, because water was released as the bonds broke.
    Hydrolysis adds water to each bond; it does not release water.
  2. B. Exactly 1.00 g, because atoms are never created or destroyed.
    Although atoms are conserved, the added water brought new atoms into the products, so the glucose weighs more than the chain did.
  3. C. Less than 1.00 g, because breaking bonds uses up part of the chain.
    Breaking a bond does not use up matter; water is added and its atoms become part of the glucose.
  4. D. ✓ More than 1.00 g, by the mass of the water added at the broken bonds.

Why: At every bond broken, a water molecule is added and its atoms end up in the glucose units.
So the free glucose weighs more than the chain did, by exactly the mass of the water added, one molecule per bond.

Q12 T13-q12

Inside one cell, a chain of monomers is being lengthened at the same moment that an identical chain nearby is being taken apart.

What happens to water in each process?

  1. A. Water released by both processes, because water leaves whenever a bond changes.
    Water is on opposite sides in the two reactions: it leaves when a bond forms and is used up when a bond breaks.
  2. B. Water consumed by both processes, because both need water to work.
    Only hydrolysis consumes water; dehydration synthesis releases it.
  3. C. ✓ Water released where the chain is lengthened, and consumed where it is taken apart.
  4. D. Water consumed where the chain is lengthened, and released where it is taken apart.
    Dehydration synthesis releases water and hydrolysis consumes it, not the other way round.

Why: Lengthening the chain is dehydration synthesis, which loses one water molecule at every new bond.
Taking a chain apart is hydrolysis, which adds one water molecule at every bond it breaks.
The two reactions are reverses of each other.

Q13 T13-q13

A bacterium builds a long chain from a unit that is not a sugar. As the cell adds each unit, one water molecule leaves.

Which reaction is building the chain?

  1. A. Hydrolysis, because water takes part in the reaction.
    Hydrolysis consumes water and shortens a chain, while here water is released and the chain grows.
  2. B. ✓ Dehydration synthesis, the same reaction that joins sugar units.
  3. C. A different reaction, because the unit is not a sugar.
    The same pair of reactions builds and breaks every kind of chain; only the unit changes.
  4. D. Neither reaction; units that are not sugars are held together by hydrogen bonds.
    The bond that dehydration synthesis makes between units is covalent; hydrogen bonds are weak attractions, not the links in a chain.

Why: A chain that grows while releasing one water molecule per unit added is being built by dehydration synthesis, and repeating it is polymerization.
The same reaction joins every kind of unit into a chain; only the unit changes.

Q14 T13-q14

A student is comparing polymerization, the joining of monomers by dehydration synthesis repeated at every join, with hydrolysis.

Which statement about the two is correct?

  1. A. ✓ Hydrolysis undoes what polymerization builds, whatever the monomer.
  2. B. Hydrolysis and dehydration synthesis both release water.
    Only dehydration synthesis releases water; hydrolysis consumes it.
  3. C. Each kind of monomer is joined and broken by its own pair of reactions.
    The same two reactions build and break every kind of chain; only the monomer changes.
  4. D. Dehydration synthesis breaks chains, and hydrolysis builds them.
    Dehydration synthesis builds chains by removing water at each new bond, and hydrolysis breaks them by adding water at each bond.

Why: Polymerization is joining many monomers by repeated dehydration synthesis, and hydrolysis reverses it by adding water back at each bond.
The same pair of reactions serves whichever class of monomer is involved.

Q15 T13-q15

The model shows a six-unit chain being made from a five-unit chain and one more unit.

A chain of five units, a sixth unit joining at the right-hand end, and a water molecule leaving.
A chain of five units, a sixth unit joining at the right-hand end, and a water molecule leaving.

Which reaction does the model show, and how many water molecules in total have moved in building the whole six-unit chain from single units?

  1. A. Hydrolysis; 5 water molecules consumed.
    The water in the model is drawn leaving the chain, on the product side, which marks dehydration synthesis.
  2. B. Dehydration synthesis; 6 water molecules released in total.
    Six units in a row are joined by five bonds, not six.
  3. C. Hydrolysis; 6 water molecules consumed.
    The water is leaving, not being added, and six units have only five bonds between them.
  4. D. ✓ Dehydration synthesis; 5 water molecules released in total.

Why: A unit joining the chain while a water molecule leaves is dehydration synthesis.
Six units in a row are held by five bonds, and one water molecule is released per bond, so five in total.

Q16 T13-q16

The model shows two units before and after a reaction. Before, unit 1 carries an –OH group and unit 2 carries an –H at the positions shown.

Two units before the reaction (left) and after it (right).
Two units before the reaction (left) and after it (right).

Which reaction is shown, and where does the water molecule come from?

  1. A. Hydrolysis; the water is added to break the bond between the units.
    The units start separate and end joined, so a bond is being made, not broken.
  2. B. Dehydration synthesis; the water is taken in from the surroundings.
    The water is on the right of the arrow, a product made from the pieces removed from the units, not taken in from the surroundings.
  3. C. ✓ Dehydration synthesis; the –OH of one unit and the –H of the other leave as water.
  4. D. Hydrolysis; the water shown is released as the units separate.
    The units end up joined, not separated, and hydrolysis consumes water rather than releasing it.

Why: Two separate units become one joined molecule, and a water molecule appears as a product: dehydration synthesis.
The –OH from unit 1 and the –H from unit 2 leave together as that water molecule, and a covalent bond forms through the remaining oxygen.

Q17 T13-q17

In the model, units 1 and 2 are joined through a bridging oxygen that belongs to unit 1. A water molecule approaches, and the bond between the oxygen and unit 2 breaks.

Units 1 and 2 joined through an oxygen that belongs to unit 1. The marked bond, between the oxygen and unit 2, is the one that breaks.
Units 1 and 2 joined through an oxygen that belongs to unit 1. The marked bond, between the oxygen and unit 2, is the one that breaks.

Which product receives the –H from the water molecule, and which receives the whole –OH?

  1. A. ✓ Unit 1 receives only the –H from the water; unit 2 receives the whole –OH
  2. B. Unit 1 receives the whole –OH from the water; unit 2 receives only the –H
    Unit 1 already has the bridging oxygen; taking the whole –OH as well would give it two oxygens at that spot.
  3. C. Both units receive an –OH from the water; the bridging oxygen stays put
    One water molecule splits into one –H and one –OH, so it cannot give both units an –OH.
  4. D. Both units receive an –H from the water; the bridging oxygen leaves with it
    The bridging oxygen stays with unit 1, and the water’s own oxygen goes to unit 2 as part of an –OH group.

Why: The water splits into –H and –OH.
Unit 1 keeps the bridging oxygen, so it needs only the –H to complete a new –OH group on that oxygen.
Unit 2 has lost its link to the oxygen, so it receives the water’s whole –OH.

Q18 T13-q18

A chain of 20 monomers is cut once by hydrolysis into two chains of 10.

How many water molecules were consumed?

  1. A. 2
    Chains do not consume water; bonds do, and only one bond was broken.
  2. B. ✓ 1
  3. C. 19
    Nineteen is what breaking the chain completely into 20 free monomers would take.
  4. D. 10
    Ten is the number of units in one of the new chains, and water is consumed per bond broken, not per unit.

Why: Water is consumed once per bond broken.
Cutting a chain in one place breaks one bond, so one water molecule is used, however long the pieces are.

FRQ 1 T13-frq1 · Analyze Model or Visual Representation

The model shows two reactions using generic units drawn as numbered shapes. Panel 1 shows units 1 and 2 before and after a reaction; the groups they carry where they face each other are labeled. Panel 2 shows four units joined into one chain through bridging oxygen atoms, with a water molecule beside the bond marked X, which is the bond between the bridging oxygen and unit 3.

Panel 1: two units before and after a reaction. Panel 2: a four-unit chain with a water molecule beside bond X, between the bridging oxygen and unit 3.
Panel 1: two units before and after a reaction. Panel 2: a four-unit chain with a water molecule beside bond X, between the bridging oxygen and unit 3.

(a) Describe what happens to the –OH group of unit 1 and the –H of unit 2 in panel 1, and what holds the two units together afterward. (1 pt)

Model answer The –OH from unit 1 and the –H from unit 2 leave together as one water molecule, and the two units are then held together by a covalent bond: dehydration synthesis.
Rubric
  • Award 1 point for: the –OH from unit 1 and the –H from unit 2 leave together as one water molecule, and a covalent bond forms between the two units (dehydration synthesis).
  • Accept: 'a hydroxyl group and a hydrogen ion are removed and leave as H₂O; the units are joined by a covalent bond'. Naming the reaction is not required.

Slip Saying the units are held together by a hydrogen bond, or that the water is added. In this panel the water leaves and a covalent bond forms.

(b) Describe the two products formed when bond X breaks: name the group at the end of each product where the bond was, and state where the atoms of that group came from. (1 pt)

Model answer Bond X breaks into two products: units 1 and 2, and units 3 and 4.
Units 1 and 2 keep the bridging oxygen and gain only the –H from the water.
So that piece ends in an –OH group: O from the chain, H from the water.
Units 3 and 4 gain the water’s whole –OH group.
So unit 3 ends in an –OH group whose O and H both came from the water.
Rubric
  • Award 1 point for: two products of two units each (units 1 and 2; units 3 and 4), each ending in an –OH group where bond X was; the piece made of units 1 and 2 keeps the bridging oxygen and gains only the –H from the water, and the piece made of units 3 and 4 gains the water’s whole –OH.
  • Accept: any notation (for example 1–O–2–OH and HO–3–O–4) that shows two two-unit pieces with the –H added to the oxygen-keeping side and the whole –OH added to unit 3.
  • Do not award: four free units, both pieces receiving a whole –OH, or two –OH groups with no statement of where their atoms came from.

Slip Giving both pieces a whole –OH, or breaking every bond. One water molecule breaks one bond; its –H goes to the side that kept the bridging oxygen, and its –OH goes to the other side.

(c) Explain how the reaction in panel 2 is the reverse of the reaction in panel 1. (1 pt)

Model answer In panel 2 a water molecule is added to the bond and split: its hydrogen ion goes to one unit and its hydroxyl group to the other, and the covalent bond between the units breaks (hydrolysis).
Panel 1 releases water and makes a bond; panel 2 uses water and breaks a bond.
Rubric
  • Award 1 point for: in panel 2 a water molecule is added to the bond and split, its hydrogen ion going to one unit and its hydroxyl group to the other, and the covalent bond between the units breaks (hydrolysis); this is the opposite of water leaving and a bond forming in panel 1.
  • Accept: 'water is consumed instead of released, and a bond is broken instead of made', provided both the water direction and the bond change are stated.

Slip Saying only that both reactions ‘involve water’. The point needs the direction: water in and a bond broken, the opposite of water out and a bond made.

(d) Explain how the two reactions in the model relate to what happens when you eat bread and then build new molecules of your own. (1 pt)

Model answer Digestion breaks the bread’s chains of sugar units into free units by hydrolysis, water added at each bond; your cells then join units into chains of their own by dehydration synthesis, water released at each bond.
The same pair of reactions builds and breaks every kind of chain.
Rubric
  • Award 1 point for: digestion breaks the bread's chains of sugar units into free units by hydrolysis (water added at each bond), and your cells then join units into chains of their own by dehydration synthesis (water released at each bond); the same pair of reactions builds and breaks every kind of chain.
  • Accept: 'digestion is hydrolysis; building is dehydration synthesis', provided the direction water moves is stated for at least one of the two.

Slip Naming the two reactions with no direction for the water. Say which way the water moves in at least one of them.

FRQ 2 T13-frq2 · Conceptual Analysis

A seed stores its food as long chains of sugar units. When the seed is planted and begins to grow, the stored chains are broken into free sugar units, and the seedling uses those units to build its new cells.

(a) Describe how the bond between two sugar units in a stored chain is broken. (1 pt)

Model answer The bond is broken when a water molecule is added and splits: its hydrogen ion goes to one sugar unit and its hydroxyl group to the other, and the covalent bond between them breaks.
This is hydrolysis.
Rubric
  • Award 1 point for: a water molecule is added to the bond and splits; its hydrogen ion goes to one unit and its hydroxyl group to the other, and the covalent bond between them breaks (hydrolysis).
  • Accept: 'water is added across the bond, giving –H to one unit and –OH to the other'. Naming the reaction alone, without the water, does not earn the point.

Slip Naming hydrolysis and stopping. The point is for what the water does: it splits, and its two pieces go to the two units.

(b) The seedling’s growing cells join the free sugar units into new chains. Describe how the reaction that joins the units in the growing cells differs from the reaction that breaks the stored chains. (1 pt)

Model answer Joining the units is dehydration synthesis: an –OH from one unit and an H from the next leave as one water molecule, and a covalent bond forms between the units.
Breaking the stored chains is hydrolysis: a water molecule is added to a bond and the bond breaks.
The two reactions are reverses of each other: water leaves in one and is taken in by the other.
Rubric
  • Award 1 point for: joining is dehydration synthesis and releases a water molecule at each bond; breaking is hydrolysis and takes a water molecule in at each bond; the two are reverses of each other.
  • Accept: 'water out when units join, water in when they separate', with both reactions named or described.
  • Do not award: both reactions releasing water, or the two reactions named with no statement of how water moves in each.

Slip Saying water is released in both reactions. Water leaves when units join and is taken in when the bond breaks; so the two reactions are reverses of each other.

(c) Make a claim about how the total mass of the free sugar units compares with the mass of the stored chains they came from. (1 pt)

Model answer The free sugar units together weigh more than the stored chains did.
Rubric
  • Award 1 point for the claim: the free units together weigh more than the chains did. The point is for the assertion; the reasoning is scored in (d).
  • Accept: 'more, by the mass of the water added'.
  • Do not award: 'the same, because atoms are conserved', or 'less'.

Slip Claiming ‘the same, because atoms are conserved’. Atoms are conserved, and the water’s atoms have been added to the units.

(d) A stored chain of 100 sugar units is broken completely into free units. Determine the number of water molecules involved, and use that number to support your claim in (c). (1 pt)

Model answer A chain of 100 units has 99 bonds.
Each break takes in one water molecule, so 99 water molecules are involved.
Every atom of those 99 water molecules ends up in the free units: an –H on one unit and an –OH on its neighbor at each break.
So the free units together weigh more than the chain by the mass of 99 water molecules.
Working
Write down the values in the question:
units = 100
Write down the equation:
water molecules = units − 1
Substitute in the values, and calculate:
water molecules = 100 − 1
water molecules = 99
Rubric
  • Award 1 point for the decision AND what it rests on: 99 water molecules (one per bond, one fewer than the number of units) AND their atoms end up in the free units, so the units weigh more than the chain by the mass of that water.
  • Accept: 'n − 1 water molecules for n units' stated with n = 100, together with the water's mass ending up in the products.
  • Do not award the point for 100 water molecules, or for a number with no statement of where the water's mass goes.

Slip Saying one water molecule per unit (100) instead of one per bond (99), or saying the mass 'stays the same because atoms are conserved' while forgetting the water that joined in.

APBIO-U01-L08 One sugar, many chains

Topic 1.4 · Carbohydrates · 40 steps

A bowl of pasta, a piece of candy, a small round pressed candy from a roll, and a lettuce leaf
A bowl of pasta, a piece of candy, a small round pressed candy from a roll, and a lettuce leaf

Here are a bowl of pasta, a piece of candy and a lettuce leaf.

The pasta, the lettuce and the glucose your blood is carrying to your brain right now are built from the same small sugar unit. The candy is glucose too: this kind of candy is made of glucose pressed together, loose units, not a chain. In the pasta and in the lettuce the same units are strung into chains, in two different ways. What changes from one food to the next is how the units are strung together.

Unit 1 · Chemistry of Life

1Glucose is a monosaccharide

2

Video: Watch first: pasta, a piece of candy and a lettuce leaf

Three foods built from the same small unit, strung three different ways.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-T14-intro.mp4

3

Glucose, the sugar your blood carries, is the unit in the chains of bread and pasta.

One glucose unit on its own
One glucose unit on its own
4

Glucose is one sugar unit. Split it into smaller pieces, and none of the pieces is a sugar any more.

5

A single sugar unit that cannot be split into a smaller sugar is called a : mono for one, saccharide for sugar.

6

Sugars, and the larger molecules built from sugar units, together make up one class of biological molecule: the .

7

A piece of candy and a slice of bread are both carbohydrate. Monosaccharides are the monomers that carbohydrates are built from.

8

What you are expected to know Say what a monosaccharide is, name glucose as one, and say that monosaccharides are the monomers of carbohydrates.

9
Check q1

Every bond in a carbohydrate is broken. What is left is many small, identical molecules, each a single sugar unit.

What are those small molecules?

  1. A. Polymers, because each came out of one large molecule
    A polymer is a chain of joined units, and these are single units.
  2. B. Water molecules, released as the bonds broke
    Breaking bonds takes water in rather than releasing it, and the molecules left over are sugar units, not water.
  3. C. ✓ Monosaccharides, the monomers the carbohydrate was built from
  4. D. Glucose, because every carbohydrate is built from glucose
    Glucose is only one of the monosaccharides, and nothing here says which sugar this carbohydrate was built from.

Why: Break a carbohydrate all the way down and you are left with its monomers, and the monomers of carbohydrates are single sugar units: monosaccharides.

10
Check q2

Which of these is a monosaccharide?

  1. A. half of a glucose unit
    Half of a glucose unit is not a sugar at all.
  2. B. ✓ one glucose unit
  3. C. two glucose units joined together
    Two joined sugar units are no longer a single sugar unit.
  4. D. a chain of many glucose units
    A chain of many units is a polysaccharide, not a single unit.

Why: A monosaccharide is a single sugar unit that cannot be split into a smaller sugar, and one glucose unit is exactly that.

11Sugars joined into a chain

12
Check q3

Quick recall: two sugar units join into one molecule by dehydration synthesis.

What leaves the two units as they join?

  1. A. ✓ One water molecule: a whole –OH from one unit and an H from the other
  2. B. One oxygen atom: the oxygen between the two units is lost as the bond forms
    The oxygen that stays is not lost: it becomes the bridge between the two units.
    What leaves is one water molecule.
  3. C. Nothing: the two units bond to each other, and every atom of both stays in the product
    Not every atom stays: an –OH and an H leave, together as one water molecule, and only then does the bond form.

Why: A whole –OH leaves one unit and an H leaves the other, the two leave together as one water molecule, and a covalent bond forms through the oxygen that stayed.

13

Two glucose units join in exactly that way, by dehydration synthesis: a whole –OH leaves one unit, an H leaves the other, and the two leave together as one water molecule. The drawing shows how the atoms line up, not how the cell does it.

Two glucose units join by dehydration synthesis: one gives up its whole OH and the other the H of its OH, which leave as one water molecule; the oxygen left behind bonds to the carbon that lost the OH, making the covalent bond. The drawing shows how the atoms line up, not how the cell does it
Two glucose units join by dehydration synthesis: one gives up its whole OH and the other the H of its OH, which leave as one water molecule; the oxygen left behind bonds to the carbon that lost the OH, making the covalent bond. The drawing shows how the atoms line up, not how the cell does it
14

A cell repeats the join, adding one sugar unit at a time, until hundreds or thousands of units are joined in one molecule.

Many glucose units joined in one chain
Many glucose units joined in one chain
15

Many monosaccharides joined to one another by covalent bonds form a : poly for many. Another name for the same thing is complex carbohydrate.

16

A chain of hundreds of glucose units is one polysaccharide. A single glucose unit is not.

17

What you are expected to know Say that many monosaccharides joined by covalent bonds, each made by dehydration synthesis, form a polysaccharide.

18
Check q4

A plant cell joins 500 glucose units end to end into one molecule.

What does the cell make, and how much water comes off?

  1. A. One polysaccharide, and no water
    Every join is a dehydration synthesis, and each one releases a water molecule.
  2. B. 500 separate monosaccharides, and 499 water molecules
    The units do not stay separate; the covalent bonds between them make one molecule.
  3. C. One monosaccharide, and 500 water molecules
    Many joined units make a polysaccharide, not a monosaccharide, and 500 units have 499 joins, not 500.
  4. D. ✓ One polysaccharide, and 499 water molecules

Why: Every join is a dehydration synthesis that releases one water molecule, and 500 units in a row have 499 joins.
The 499 covalent bonds make the units one large molecule: a polysaccharide.

19
Check q5

Which of these is a polysaccharide?

  1. A. one glucose unit
    One unit is a monosaccharide.
  2. B. two glucose units joined together
    Two joined units are not many.
  3. C. 300 glucose units dissolved in water, not joined
    Units dissolved separately in water are not joined into one molecule.
  4. D. ✓ a chain of 300 glucose units joined together

Why: A polysaccharide is many monosaccharides joined to one another by covalent bonds into one molecule, and a chain of 300 joined glucose units is exactly that.

20Linear or branched

21

Here are two polysaccharides drawn as chains of sugar units. The first runs from one end to the other with nothing coming off its sides. The second has short chains coming off along its length.

Two polysaccharides drawn as chains of sugar units: the first has nothing coming off its sides, the second has side chains
Two polysaccharides drawn as chains of sugar units: the first has nothing coming off its sides, the second has side chains
22

A polysaccharide that runs from one end to the other with nothing coming off its sides is a .

23

A polysaccharide with side chains coming off along its length is a .

24

Linear does not mean straight. A linear chain can bend and coil; what makes it linear is that nothing comes off its sides.

25

What you are expected to know Say whether a drawn polysaccharide is linear or branched.

26
Check q6

Look at the two polysaccharides, X and Y.

Two polysaccharides, X and Y, drawn as chains of sugar units
Two polysaccharides, X and Y, drawn as chains of sugar units

Which statement is correct?

  1. A. ✓ X is linear and Y is branched.
  2. B. X is branched and Y is linear.
    X bends but nothing comes off its sides, while Y has two side chains.
  3. C. Both X and Y are linear.
    Two short chains come off Y along its length, so Y is branched.
  4. D. Both X and Y are branched.
    X’s bends are not branches; nothing comes off X’s sides.

Why: X bends but has nothing coming off its sides, so it is linear.
Y has two side chains coming off along its length, so it is branched.

27Many ends, quick release

28

Video: Watch: pull from the ends

Two chains of twenty beads, one linear and one branched: units come off only at the ends.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L08.mp4

29

When a cell needs glucose, it takes sugar units off a polysaccharide at the ends of its chains, one unit at a time.

30

A chain has two ends, but they are not alike. Units come off at only one of them. We call that end the working end; the other end is not used.

31

So a linear chain gives up units in only one place at a time.

32

Every branch adds another working end. A polysaccharide with many branches has many working ends.

A linear chain has one working end, where sugar units can be taken off; its other end is not used. A branched chain of the same size has many working ends
A linear chain has one working end, where sugar units can be taken off; its other end is not used. A branched chain of the same size has many working ends
33

So a cell can take units off a branched polysaccharide in many places at once, and the store gives up its glucose quickly.

34

Your liver holds a branched store of glucose. Between meals it takes units off many working ends at once and releases glucose into your blood.

35

What you are expected to know Explain why a branched polysaccharide can give up many sugar units at once: units come off the working ends of chains, and a branched chain has many working ends.

36
Check q7

Two glucose stores hold the same number of glucose units. Store A is one linear chain. Store B is heavily branched.

From which store can the cell take more glucose units at the same time?

  1. A. Store A
    Units come off the working ends of chains only, and a linear chain has just one.
  2. B. ✓ Store B
  3. C. Both the same
    The total held sets how much glucose there is, not how many working ends it can come off at once.
  4. D. Neither; every store gives up one unit at a time
    Units can come off every working end of a store at the same time, not one unit at a time for the whole store.

Why: Units come off the working ends of chains.
Store B’s branches give it many working ends, so many units can be taken off at once; the linear store A has only one.

37
Check q8

Two glucose stores hold the same number of glucose units. When a cell starts taking units off them, forty come off store P at once but only one comes off store Q.

Which store is more likely branched, and why?

  1. A. ✓ P, because it has many working ends for units to come off at once
  2. B. Q, because branches slow the release of units
    Every branch adds a working end where a unit can be taken off, so branches speed release rather than slowing it.
  3. C. P, because a branched store holds more glucose
    Both stores hold the same number of units; branching changes how many places a unit can come off at once, not how much is held.
  4. D. Neither can be told; both hold the same number of units
    The number of units coming off at once does tell the stores apart, even though they hold the same total.

Why: Units come off the working ends of chains.
Forty units at once means forty working ends, and only a branched store has that many; one at a time is a linear chain with its single working end.

38

A branched polysaccharide has many working ends, so a cell can take many sugar units off it at once.

39

Your liver’s sugar store is branched for exactly that reason.

Glossary

monosaccharide
A single sugar unit, such as glucose, that cannot be split into a smaller sugar; the monomer of carbohydrates.
carbohydrate
The class of biological molecule made up of sugars and the larger molecules built from sugar units.
polysaccharide
Many monosaccharides joined to one another by covalent bonds into one molecule; also called a complex carbohydrate.
linear polysaccharide
A polysaccharide that runs from one end to the other with nothing coming off its sides.
branched polysaccharide
A polysaccharide with side chains coming off along its length.

APBIO-U01-L09 Starch, glycogen and cellulose

Topic 1.4 · Carbohydrates · 30 steps

A potato, a slice of liver and a cotton thread
A potato, a slice of liver and a cotton thread

Here are a potato, a slice of liver and a cotton thread.

A hummingbird has to power flight within a second of waking. A tree has to hold itself upright for a century. Both jobs are done with chains of glucose. The potato, the slice of liver and the thread are built from chains of glucose too.

Unit 1 · Chemistry of Life

1Three polysaccharides of glucose

2

A potato is packed with the plant’s store of glucose, kept as a polysaccharide.

3

That polysaccharide is : chains of glucose, most of them branched, with some unbranched chains mixed in.

4

Animals store glucose too, in the liver and in muscle. Their store is : chains of glucose branched even more heavily than starch.

5

Liver glycogen releases glucose into the blood between meals. Muscle glycogen is used inside the muscle itself.

6

The cotton thread is almost pure : unbranched chains of glucose.

7

Cellulose chains lie straight, side by side, and pack into fibers. Those fibers give plant cell walls their strength.

Starch, glycogen and cellulose compared: a branched chain, a more heavily branched one, and unbranched chains packed side by side
Starch, glycogen and cellulose compared: a branched chain, a more heavily branched one, and unbranched chains packed side by side
8

The three, side by side:
• Starch: a plant’s glucose store; chains of glucose, most of them branched.
• Glycogen: an animal’s glucose store, in liver and muscle; branched even more heavily.
• Cellulose: unbranched chains of glucose packed side by side into fibers; gives plant cell walls their strength.

9

Your gut can take starch and glycogen apart into glucose, but it cannot take cellulose apart, so the cellulose in lettuce passes through you as fiber.

10

The reason is the join between the glucose units. In cellulose, each glucose unit is joined to the next the other way round from the units in starch. The enzymes in your gut, the proteins that cut starch apart, fit the starch join and do not fit the cellulose join.

11

What you are expected to know Match starch, glycogen and cellulose to the organism that makes each, its job and its shape: a branched glucose store in plants, a more heavily branched glucose store in animals, and unbranched fibers in plant cell walls.

12
Check q1

A hummingbird has to power flight within a second of waking, using glucose from a store in its liver and muscles.

Which polysaccharide is that store?

  1. A. starch
    Starch is the glucose store a plant makes, in a potato for example, and a hummingbird is an animal.
  2. B. ✓ glycogen
  3. C. cellulose
    Cellulose is the fiber of plant cell walls, not a store, and animals do not make it.
  4. D. glucose
    Glucose is the single sugar the store is built from and releases; the store itself is a polysaccharide, many glucose units joined.

Why: Animals store glucose in liver and muscle as glycogen, a heavily branched polysaccharide of glucose.
Starch is the store a plant makes, and cellulose is a plant’s fiber, not a store.

13
Check q2

A potato, a slice of liver and a cotton thread.

Which list names the main polysaccharide in each, in that order?

  1. A. ✓ starch, glycogen, cellulose
  2. B. glycogen, starch, cellulose
    Plants store glucose as starch, and animals store it as glycogen.
  3. C. cellulose, glycogen, starch
    A potato holds starch, not cellulose, and cotton is cellulose, not starch.
  4. D. starch, cellulose, glycogen
    Liver holds glycogen, not cellulose, and cotton is cellulose, not glycogen.

Why: A potato holds a plant’s glucose store, starch; liver holds an animal’s glucose store, glycogen; a cotton thread is cellulose fiber.

14
Check q3

Which of the three polysaccharides has no branched chains at all?

  1. A. starch
    Most of the chains in starch are branched, with only some unbranched ones mixed in.
  2. B. glycogen
    Glycogen is the most heavily branched of the three.
  3. C. ✓ cellulose
  4. D. both starch and cellulose
    Starch does have branched chains; only cellulose has none.

Why: Cellulose is unbranched chains of glucose, lying straight and packed side by side.
Starch is mostly branched, and glycogen is branched even more heavily.

15Same monomer, different arrangement, different job

16

Video: Watch: a thread and a spoonful of cornstarch

A cotton thread holds a mug; cornstarch stirs into a paste. Same monomer, different arrangement.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L09.mp4

17

A cotton thread holds a hanging mug. A spoonful of cornstarch stirs into a paste and is digested within the hour.

18

The thread and the cornstarch are both almost pure polymer of glucose: the thread is cellulose, the cornstarch is starch. The same monomer builds a strong fiber and a soft, quick store.

The same glucose monomer builds a branched store on one side and a packed fiber on the other
The same glucose monomer builds a branched store on one side and a packed fiber on the other
19

So the monomer is not what decides the job. The arrangement of the units is.

20
Check q4

Quick recall: a branched chain of glucose units, like the chains in starch.

Why does a branched store come apart quickly?

  1. A. Its bonds are weaker than the bonds in an unbranched chain
    The covalent bonds are the same in both chains; the difference is how many ends there are to work at.
  2. B. ✓ It has many ends, and units come off only at the ends

Why: Units come off only at the ends of a chain, and a branched chain has many ends, so many units can come off at once.

21

Unbranched chains, like those in cellulose, can lie straight against one another along their whole length, so they pack into strong fibers.

22

Now, an example. The thread and the cornstarch are both built only from glucose, yet they behave very differently. Explain why, step by step. Write one short sentence per step of your reasoning.

23

A model answer: both are polymers of the same monomer, glucose. The thread is cellulose, unbranched chains packed side by side into fibers, which makes it strong. The cornstarch is starch, branched chains with many ends, built to be taken apart quickly. The arrangement of the units, not the sugar, decides the job.

24

What you are expected to know Explain that starch, glycogen and cellulose do different jobs because their glucose units are linked and branched differently, not because they are built from different sugars.

25
Check q5

Two large molecules from different organisms are broken all the way down. Both molecules give nothing but glucose, and the same amount of it. One molecule was linear; the other was branched.

What can you fairly conclude?

  1. A. The two molecules are one and the same, since they broke down into the same units.
    Linear and branched are different arrangements, so these are different molecules even though both are built from glucose.
  2. B. The two molecules probably do the same job, because they are made of the same monomer.
    Sharing a monomer does not make two polymers behave alike; the arrangement of the units sets the job.
  3. C. ✓ The two molecules share a monomer but differ in arrangement, so they may do different jobs.
  4. D. The branched one must have been built from a different sugar.
    Both gave nothing but glucose, so the monomer is the same in both.

Why: Identical breakdown products mean the monomer is the same.
Linear and branched are different arrangements of that monomer, and arrangement is what sets the job.

26
Check q6

A student writes: “Cellulose is strong and starch is weak, so cellulose must be made from a different, stronger sugar.”

What is wrong with this?

  1. A. Nothing; cellulose is built from a different sugar
    Cellulose and starch are both polymers of glucose; there is no second sugar.
  2. B. ✓ Both polymers are glucose; only the arrangement of the units differs
  3. C. Cellulose is stronger because it is more branched than starch
    Cellulose is the unbranched one; its strength comes from straight chains packing side by side, not from branching.
  4. D. Starch is not a polymer, so it cannot be strong
    Starch is a polymer of glucose; it is built as a store rather than a fiber.

Why: Cellulose and starch are both polymers of glucose.
Cellulose is strong because its unbranched chains pack side by side into fibers; starch is branched and built to come apart.

27
Practice writing an answer

A sheet of paper and a bowl of cooked rice are both built mostly from polysaccharides. Left in water, the rice softens into a paste. The paper stays a sheet of fibers and can still be lifted out in one piece.

(a) Identify the polysaccharide in the paper and the polysaccharide in the rice, and describe how the arrangement of units differs between them. (1 pt)

Frame The paper is mostly …, in which the units form …; the rice is mostly …, in which the chains are …

Model answer The paper is mostly cellulose, in which the glucose units form unbranched chains.
The rice is mostly starch, in which most of the chains are branched.
Rubric
  • Award 1 point for: cellulose in the paper with unbranched chains, and starch in the rice with branched chains.
  • Accept: ‘linear’ for unbranched; ‘chains with side branches’ for branched.
  • Do not award: glycogen for either (plants make neither), or the two polysaccharides swapped.

Slip Calling the rice’s store glycogen. Glycogen is the animal store; a plant stores glucose as starch.

(b) Explain how the arrangement of units in the paper’s polysaccharide makes the paper strong. (1 pt)

Model answer Cellulose chains are unbranched, so they lie straight against one another along their whole length.
So they pack side by side into fibers.
The packed fibers hold together and resist being pulled apart.
Rubric
  • Award 1 point for: unbranched chains lie straight against one another and pack side by side into fibers, and the packed fibers are strong.
  • Accept: ‘straight chains pack tightly into fibers’ as the packing step.
  • Do not award: stronger covalent bonds in cellulose, or strength from branching.

Slip Saying cellulose has stronger bonds. The covalent bonds between glucose units are the same kind in both; the strength comes from straight chains packing side by side.

(c) Both polysaccharides are broken all the way down into single units. Determine what unit each gives, and state the reasoning your decision rests on. (1 pt)

Model answer Starch and cellulose both give nothing but glucose.
Starch and cellulose are polymers of the same monomer.
The two differ only in how the glucose units are linked and branched, not in the sugar they are built from.
Rubric
  • Award 1 point for the decision AND the reasoning it rests on: both give only glucose, because the two are polymers of the same monomer and differ only in arrangement.
  • Accept: ‘the same sugar from both, glucose’ with the reason that the arrangement, not the monomer, differs.
  • Do not award: a different sugar for one of them, or a stronger sugar in cellulose.

Slip Expecting the stronger material to be built from a stronger or different sugar. Both polymers are made of glucose; the arrangement of the units decides the job.

28

Same monomer, different arrangement, different job: branched chains for a quick store, straight packed chains for strength.

29

The hummingbird’s glycogen and the tree’s cellulose are both glucose; the arrangement of the units, not the sugar, decides the job.

Glossary

starch
A plant’s store of glucose: a polysaccharide of glucose chains, most of them branched, with some unbranched chains mixed in.
glycogen
An animal’s store of glucose, held in the liver and in muscle: a polysaccharide of glucose branched even more heavily than starch.
cellulose
Unbranched chains of glucose packed side by side into fibers; it gives plant cell walls their strength.

APBIO-U01-P14 Practice questions: Topic 1.4

Topic 1.4 · Carbohydrates · 9 MCQ · 2 FRQ · for APBIO-U01-T14

Answer every question. For each multiple-choice question choose one answer 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. Use a hint if you are stuck, then open the full-credit answer and score your own work against it.

Video: Watch first: one sugar, three arrangements

Glucose as one bead; starch, glycogen and cellulose as three arrangements; linear or branched; why the arrangement decides the job.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-T14-summary.mp4

Q1 P14-q01

Fruit juice is sweet because it contains fructose. Fructose is a single sugar unit.

How should fructose be classified?

  1. A. Fructose is a polysaccharide, and so a carbohydrate
    A polysaccharide is many sugar units joined, and fructose is one unit on its own.
  2. B. ✓ Fructose is a monosaccharide, and so a carbohydrate
  3. C. Fructose is a monosaccharide, and so a lipid
    Sugars belong to the carbohydrates, not the lipids.
  4. D. Fructose is a monosaccharide, and so a polymer of glucose
    A polymer is many units joined, and a monosaccharide is one unit on its own.

Why: A single sugar unit that cannot be split into a smaller sugar is a monosaccharide.
Sugars and the larger molecules built from them make up the carbohydrates, so fructose is a monosaccharide and a carbohydrate.

Q2 P14-q02

Freshly picked sweet corn tastes sweet. A few days later the same kernels taste bland, and a test shows that most of their free glucose has become long chains of glucose.

What happened to the glucose in the kernels?

  1. A. ✓ Monosaccharides were joined by covalent bonds into polysaccharides, and water was released at each join
  2. B. Polysaccharides were broken into monosaccharides, and water was added at each bond
    The kernels started with free glucose and ended with chains, so units were joined, and joining releases water.
  3. C. Monosaccharides were linked by hydrogen bonds to make the chains, with no water involved
    The units of a polysaccharide are held by covalent bonds rather than hydrogen bonds, and each join releases a water molecule.
  4. D. Each glucose unit was split into smaller sugars that taste less sweet
    Glucose is a monosaccharide, a single sugar unit that cannot be split into smaller sugars; here the units were joined into chains instead.

Why: Many monosaccharides joined by covalent bonds form a polysaccharide.
Each join is a dehydration synthesis, which forms a covalent bond and releases one water molecule; the free glucose became chains, so the kernels lost their sweetness.

Q3 P14-q03

The drawing shows three polysaccharides, K, L and M. Each bead is one sugar unit and each line is a covalent bond.

Three polysaccharides, K, L and M. Each bead is one sugar unit and each line between two beads is a covalent bond.
Three polysaccharides, K, L and M. Each bead is one sugar unit and each line between two beads is a covalent bond.

Which of the three are linear?

  1. A. L only
    L is the branched one; linear means nothing comes off the sides.
  2. B. M only
    K curves but nothing comes off its sides, so K is linear too.
  3. C. K and L
    L has two side chains coming off along its length, so it is branched, and M is linear.
  4. D. ✓ K and M

Why: Linear means the chain runs from one end to the other with nothing coming off its sides; linear is not the same as straight.
K bends but has no side chains, and M is straight with none, so both are linear.
L has two side chains, so it is branched.

Q4 P14-q04

A polysaccharide is described this way: a chain of about 120 sugar units that coils into a spiral, with nothing coming off its sides at any point.

How should it be classified?

  1. A. ✓ Linear, because nothing comes off its sides
  2. B. Branched, because a coil has many turns
    A branch is a side chain coming off the main chain, and a coil is one chain bending.
  3. C. Branched, because a chain of 120 units is too long to stay linear
    A chain of any length is linear if nothing comes off its sides.
  4. D. Straight, because a linear chain never bends
    Linear is different from straight; a linear chain can coil and bend.

Why: A linear polysaccharide runs from one end to the other with nothing coming off its sides.
A chain can coil and bend and still be linear; only side chains make it branched.

Q5 P14-q05

Two glucose stores hold the same number of glucose units. One is a single chain; the other is a heavily branched cluster. A student explains: “The branched store releases glucose faster because the bonds between its units are weaker.”

Which statement corrects the student?

  1. A. The branched store releases glucose faster because it holds more glucose
    Both stores hold the same number of units; what differs is how many places a unit can come off at once.
  2. B. ✓ The branched store releases glucose faster because it has many ends, and a cell takes units off the ends of chains
  3. C. The branched store releases glucose faster because its chains are shorter and easier to work along
    Units come off the ends only, so what matters is how many ends there are, not how easy a chain is to work along.
  4. D. The student is right: branching weakens the covalent bonds between the units
    The covalent bonds between glucose units are the same kind in both stores; branches add ends, and ends are where units come off.

Why: A cell removes sugar units from the ends of chains.
Every branch adds an end, so a branched store has many ends and can give up many units at once; a single chain has only two ends.
The bonds themselves are the same.

Q6 P14-q06

The liver of a fish holds a store of glucose that it releases into the blood between meals.

Which polysaccharide is this store, and how does its branching compare with a plant’s glucose store?

  1. A. Starch; the same branching as a plant’s store, because the polymer is the same
    Plants store glucose as starch; an animal’s store, in liver and muscle, is glycogen.
  2. B. Glycogen; unbranched chains packed into fibers
    Unbranched chains packed into fibers describes cellulose, the plant cell-wall polymer, rather than glycogen.
  3. C. Glycogen; unbranched, because animal stores are built as single chains
    Glycogen is the most heavily branched of the three.
  4. D. ✓ Glycogen; even more heavily branched than a plant’s starch

Why: Animals store glucose in liver and muscle as glycogen.
Glycogen is branched even more heavily than starch, the plant’s store, so many units can come off its many ends at once.

Q7 P14-q07

A bamboo stem is stiff enough to build with, and a bowl of cooked rice is soft food that is digested within hours. Both materials consist largely of polymers of glucose.

What explains the difference between them?

  1. A. The bamboo’s polymer is built from a different, stronger sugar than the rice’s polymer is
    Both polymers are built from glucose; the difference is how the units are arranged.
  2. B. ✓ The bamboo’s chains are unbranched and pack side by side into fibers; most of the rice’s chains are branched and come apart easily
  3. C. The bamboo’s polymer is held together by stronger covalent bonds between its glucose units than the rice’s is
    The covalent bond between two glucose units is the same kind in both; the strength comes from unbranched chains packing side by side.
  4. D. The rice’s polymer is a polysaccharide, but the bamboo’s is one single enormous sugar unit
    The rice’s polymer and the bamboo’s polymer are both polysaccharides, many glucose units joined; they differ in arrangement.

Why: Starch, glycogen and cellulose are all polymers of glucose.
The bamboo’s cellulose is unbranched chains packed side by side into strong fibers; the rice’s starch is mostly branched chains with many ends, built to be taken apart quickly.
The arrangement of the units, not the sugar, decides the job.

Q8 P14-q08

A bacterium builds a polysaccharide from a sugar that is not glucose. The polymer forms dense, heavily branched clusters with many chain ends.

Which job is this polysaccharide most likely to do for the bacterium, and why?

  1. A. A support fiber, because a sugar other than glucose makes stronger chains
    The arrangement of the units decides the job, not which sugar they are.
  2. B. A support fiber, because dense clusters pack tightly
    Fibers are made by unbranched chains lying straight against one another, and branched clusters cannot pack that way.
  3. C. ✓ A quick-release store of sugar, because its many ends let many units come off at once
  4. D. A quick-release store of sugar, because any polysaccharide made by a bacterium is a store
    The job follows from the arrangement, not from which organism made it.

Why: The arrangement of units, not the kind of sugar, decides the job.
Branched chains have many ends, and a cell removes units from the ends, so a heavily branched cluster is a store that can give up sugar quickly.
Unbranched chains packed side by side would make a fiber.

Q9 P14-q09

Four samples: table sugar, which is made of sugar units; rice starch; a cotton ball; and a spoonful of olive oil.

Which of the samples are carbohydrates?

  1. A. Table sugar only
    Carbohydrates are more than the sweet things; starch and cellulose are built from sugar units too.
  2. B. Rice starch and the cotton ball only
    Carbohydrates include the sugars themselves as well as the polymers built from them.
  3. C. ✓ Table sugar, rice starch and the cotton ball
  4. D. Table sugar, rice starch, the cotton ball and the olive oil
    Olive oil is a lipid; it is not built from sugar units.

Why: Carbohydrates are the sugars and the larger molecules built from sugar units.
Table sugar is sugar units, rice starch is chains of glucose, and cotton is cellulose, chains of glucose.
Olive oil is a lipid.

FRQ 1 P14-frq1 · Conceptual Analysis scaffolded

The night before a race, a marathon runner eats a large plate of pasta, which is mostly starch. Overnight, glucose from the pasta is carried in the blood to the runner’s leg muscles, where the cells build it into a store of glycogen. During the race the muscle cells take glucose units off this store. One muscle glycogen molecule holds about 1,000 glucose units and has about 40 chain ends.

(a) Identify the polysaccharide in the pasta and the polysaccharide built in the runner’s muscles, and name the monomer both are built from. (1 pt)

Frame The pasta’s polysaccharide is …, the muscle’s is …, and both are built from the monomer …

Hint Which kind of organism made the pasta, and which kind is the runner?

Model answer The pasta’s polysaccharide is starch, the muscle’s is glycogen, and both are built from the monomer glucose.
Rubric
  • Award 1 point for: starch in the pasta, glycogen in the muscle, glucose as the monomer of both.
  • Do not award: the two polysaccharides swapped, or cellulose named for either.

Slip Naming glycogen for the pasta. Glycogen is the animal store; a plant stores glucose as starch.

(b) Describe how the muscle cells build the store from single glucose units. (1 pt)

Frame The cells join glucose units one at a time by …, forming a … between each unit and the next and releasing …

Hint Which reaction joins any two monomers into a polymer?

Model answer The cells join glucose units one at a time by dehydration synthesis, forming a covalent bond between each unit and the next and releasing one water molecule at each join.
Rubric
  • Award 1 point for: dehydration synthesis, covalent bonds between units, one water molecule released per join.
  • Accept: ‘an –OH from one unit and an H from the next leave as water and the units bond’.
  • Do not award: hydrogen bonds between units, or hydrolysis.

Slip Writing that the units are held by hydrogen bonds. The units share a pair of electrons where the water came off: a covalent bond.

(c) Explain why a heavily branched store suits a muscle that needs a burst of glucose in the final sprint. (1 pt)

Frame A cell takes glucose units off the … of a chain; a branched store has …, so …

Hint Where on a chain can a unit be taken off?

Model answer A cell takes glucose units off the ends of a chain.
A branched store has many ends, one added by every branch, so many units can be taken off at the same moment and the store gives up its glucose quickly.
A single unbranched chain has only two ends.
Rubric
  • Award 1 point for: units come off the ends of chains, and a branched store has many ends, so many units can be removed at once.
  • Accept: ‘more ends, more places to take glucose from at the same time’.
  • Do not award: weaker bonds in the branched store, or ‘it holds more glucose’.

Slip Saying the branched store holds more glucose. Both a branched and an unbranched store can hold the same number of units; the branched one has more places to remove them from.

(d) A second runner’s muscle glycogen molecules each hold the same 1,000 glucose units but have only about 10 chain ends. Predict how the second runner’s store compares with the first runner’s in the sprint, and justify your prediction. (1 pt)

Frame The second runner’s store gives up glucose …, because …

Hint What differs between the two stores, and what did (c) say that difference controls?

Model answer The second runner’s store gives up glucose more slowly, because a glucose unit can come off only at a chain end: with about 10 ends instead of about 40, only about a quarter as many units can come off at one moment, so that runner’s muscles are supplied about four times more slowly in the sprint.
Rubric
  • Award 1 point for: the second store releases glucose more slowly, because with fewer chain ends, fewer units can come off at one moment (about 10 at a time against about 40).
  • Accept: ‘25% as many ends, so about 25% of the release’, or ‘slower, because units come off only at the ends and it has fewer of them’.
  • Do not award: the second store releases faster, or ‘the same, because both hold 1,000 units’, or slower with no reason from the ends.

Slip Predicting no difference because both stores hold 1,000 units. The total sets how much glucose there is; the number of ends sets how many units can come off at one moment.

(e) A teammate claims that the runner would release glucose from his muscle store faster if the muscles stored it as starch, the plant’s polysaccharide, instead of glycogen. Evaluate the teammate’s claim. (1 pt)

Frame The teammate’s claim is … because glycogen is … than starch, so it has … from which glucose can be released.

Hint Count the chain ends each polysaccharide has.

Model answer The teammate’s claim is not supported.
Glycogen is more highly branched than starch, so it has many more chain ends.
Glucose units are taken off at chain ends.
So the glycogen store releases glucose faster than a starch store would.
Rubric
  • Award 1 point for the judgement AND the ground for it: the claim is not supported, because glycogen is more branched than starch, so it has more chain ends from which glucose is released, and so releases glucose faster.
  • Accept: any answer that ties the speed of release to the number of chain ends (branches).
  • Do not award: the judgement with no ground, or the claim accepted because plants store more energy.

Slip Accepting the claim because plants store more energy, or rejecting it with no ground. The store’s speed of release depends on branching, not on which kind of organism built it.

FRQ 2 P14-frq2 · Conceptual Analysis

Termites eat wood, which is mostly cellulose. Microbes in a termite’s gut break the cellulose into free glucose, and the termite absorbs the glucose. The termite then builds some of that glucose into glycogen, its own store, which it draws on between meals.

(a) Describe the arrangement of glucose units in the wood’s cellulose, and identify the job that arrangement suits it to. (1 pt)

Frame In cellulose the glucose units form … chains that …, which suits cellulose to …

Model answer In cellulose the glucose units form unbranched chains that lie straight against one another and pack side by side into fibers, which suits cellulose to giving strength: it is what makes plant cell walls, and wood, strong.
Rubric
  • Award 1 point for: unbranched chains packed side by side into fibers, suited to strength or support.
  • Accept: ‘linear’ for unbranched.
  • Do not award: branched chains, or a storage job.

Slip Describing cellulose as branched because wood is bulky. Cellulose is the unbranched one; its strength comes from straight chains packing side by side.

(b) Explain how glucose units freed from cellulose can be built into glycogen, even though cellulose and glycogen are different polysaccharides. (1 pt)

Model answer Cellulose and glycogen are both polymers of the same monomer, glucose.
Once the microbes have broken the cellulose into free glucose, the termite’s cells can join those same units by dehydration synthesis into a new chain with a different arrangement, heavily branched, and that is glycogen.
The monomer is shared; only the way the units are linked and branched differs.
Rubric
  • Award 1 point for: both polysaccharides are made of glucose, so the freed units can be rejoined in a different arrangement.
  • Accept: ‘same monomer, different arrangement’ with the rejoining step.
  • Do not award: ‘the termite changes the sugar into a different sugar’.

Slip Assuming the glucose has to be changed into a different sugar first. Both polymers are glucose; only the arrangement of the units is different.

(c) Describe how the branching of the termite’s glycogen differs from the branching of the wood’s cellulose and of a plant’s starch. (1 pt)

Model answer The termite’s glycogen is the most heavily branched of the three.
Starch is mostly branched, with some unbranched chains; glycogen is branched even more heavily; cellulose is unbranched.
Rubric
  • Award 1 point for: glycogen more branched than starch, and cellulose unbranched.
  • Accept: the three placed in the order cellulose (none), starch, glycogen (most).
  • Do not award: starch as the most branched, or cellulose as branched.

Slip Calling starch unbranched. Most starch chains are branched; cellulose is the one with no branches.

(d) Support the claim that the termite’s glycogen is a better glucose store than the wood’s cellulose would be, using the arrangement of units in each. (1 pt)

Model answer A cell removes glucose units from the ends of chains.
Glycogen is a branched cluster with many ends, so the termite can take many units off at once between meals.
Cellulose is unbranched chains packed into fibers, so it has few ends and holds together tightly.
So cellulose suits strength, not quick release, and glycogen is the better store.
Rubric
  • Award 1 point for the evidence AND the reasoning that links it to the claim: units come off chain ends; glycogen’s branched clusters have many ends (the evidence), so glucose can be released quickly; cellulose’s packed unbranched fibers have few ends and suit strength instead (the reasoning).
  • Accept: ‘many ends for quick release’ with the contrast to fibers.
  • Do not award: ‘branched clusters hold more glucose’, weaker bonds, or the claim restated with no evidence.

Slip Saying a branched store holds more glucose, or restating the claim without evidence. The evidence is the number of ends, which sets how many units can be removed at the same time.

APBIO-U01-T14 End-of-topic test: Carbohydrates

Topic 1.4 · Carbohydrates · 18 MCQ · 2 FRQ

Answer every question. For each multiple-choice question, choose 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 answer against it.

Q1 T14-q01

Every bond between the sugar units of a carbohydrate is broken. What is left is a very large number of small, identical molecules, each a single sugar unit.

Which term describes those small molecules?

  1. A. ✓ Monosaccharides
  2. B. Polysaccharides
    “poly” means many units joined inside one molecule, and these are separate single units.
  3. C. Polymers
    A polymer is the long chain itself; once every bond is broken, what is left is the units the chain was built from.
  4. D. Macromolecules
    A macromolecule is a very large biological molecule, such as the whole chain; what is left is the small single units.

Why: Break a carbohydrate all the way down and what remains is its monomers: single sugar units that cannot be split into a smaller sugar, which are monosaccharides.

Q2 T14-q02

A blood test reports the amount of glucose in a patient's blood.

Which description of glucose is correct?

  1. A. A polysaccharide made of many sugar units
    Glucose is not a chain of units; it is the single unit that chains are built from.
  2. B. ✓ A monosaccharide: one single sugar unit
  3. C. A polymer that a cell can break into sugars
    Glucose is a single sugar unit that cannot be split into a smaller sugar, so it is a monomer, not a polymer.
  4. D. A chain of sugar units held by covalent bonds
    There is no chain in glucose; one glucose is one sugar unit.

Why: Glucose is a monosaccharide, a single sugar unit that cannot be split into a smaller sugar.
Monosaccharides are the monomers that carbohydrate polymers are built from.

Q3 T14-q03

A spoonful of pure glucose and a slice of bread sit side by side. The bread is mostly long chains of glucose units.

Is either of them a carbohydrate?

  1. A. Only the glucose
    Carbohydrates include the polymers built from sugars, so the bread’s chains of glucose count too.
  2. B. Only the bread
    A single sugar is a carbohydrate as well; the class is wider than the long chains.
  3. C. ✓ Both of them
  4. D. Neither of them
    Sugars and the polymers built from them are exactly what the word carbohydrate covers.

Why: Carbohydrate is the class made up of sugars and the polymers built from them.
Glucose is a sugar and the bread's chains are polymers of that sugar, so both are carbohydrates.

Q4 T14-q04

A plant cell joins 500 glucose units end to end into one single molecule.

What does the cell make, and how many water molecules leave?

  1. A. ✓ One polysaccharide; 499 water molecules
  2. B. One polysaccharide; no water molecules
    Every join between two sugar units is a dehydration synthesis, and each one releases a water molecule.
  3. C. One monosaccharide; 500 water molecules
    500 units joined into one molecule is a polymer of sugars, and 500 units in a row have 499 joins.
  4. D. 500 monosaccharides; 499 water molecules
    The units stay joined; the 499 covalent bonds make them one large molecule.

Why: Many monosaccharides joined by covalent bonds form one polysaccharide.
Each bond is made by dehydration synthesis and releases one water molecule, and 500 units in a row have 499 bonds.

Q5 T14-q05

Starch grains from a raw potato are stirred in cold water for an hour. Hydrogen bonds between the water molecules and the –OH groups on the starch form and break the whole time, yet each starch chain stays in one piece.

What holds the sugar units of a chain to one another?

  1. A. Hydrogen bonds between the units
    Hydrogen bonds are the weak attractions forming and breaking in the water around the chain, not the bond between units.
  2. B. ✓ Covalent bonds between the units
  3. C. Attraction between partial charges
    Attraction between partial charges is what gives a weak hydrogen bond, not the bond that joins two sugar units into one molecule.
  4. D. Attraction between ions
    The two units share electrons; neither hands an electron over completely.

Why: Each sugar unit in a polysaccharide is joined to the next by a covalent bond, a shared pair of electrons formed by dehydration synthesis.
Hydrogen bonds are far weaker and are the ones breaking and re-forming in the water.

Q6 T14-q06

A cereal label lists, per serving: glucose 8 g, starch 20 g, fiber 4 g. The fiber in this cereal is cellulose.

Which of the three entries are polysaccharides?

  1. A. Glucose only
    Glucose is a single sugar unit, a monosaccharide, rather than a chain of them.
  2. B. Starch only
    Cellulose is also a chain of many glucose units, so the fiber is a polysaccharide too.
  3. C. ✓ Starch and fiber
  4. D. Glucose, starch and fiber
    Glucose is the monomer rather than a polymer; only the starch and the cellulose are chains of many sugar units.

Why: A polysaccharide is many monosaccharides joined by covalent bonds.
Starch and cellulose are both such chains of glucose; glucose itself is the single unit.

Q7 T14-q07

The drawing shows four polysaccharides. Each bead is one sugar unit.

Four polysaccharides, P, Q, R and S. Each bead is one sugar unit; each line is a covalent bond.
Four polysaccharides, P, Q, R and S. Each bead is one sugar unit; each line is a covalent bond.

Which of the four are linear?

  1. A. P only
    Q bends, but bending is different from branching; nothing comes off its sides, so it is linear too.
  2. B. ✓ P and Q
  3. C. R and S
    R and S both carry side chains; those are the branched ones.
  4. D. P, Q and R
    R has side chains coming off along its length, so it is branched.

Why: A linear polysaccharide runs from one end to the other with nothing coming off its sides, however much it curves.
P and Q do that.
R and S have side chains, so they are branched.

Q8 T14-q08

A polysaccharide is described this way: a chain of about 300 sugar units, and at 20 places along it a shorter chain of units comes off the side.

How should it be classified?

  1. A. Linear, because it is mostly one long chain
    A chain with side chains coming off it is branched, however long the main chain is.
  2. B. Linear, because every unit is the same sugar
    Whether the units are all the same sugar has nothing to do with linear or branched.
  3. C. ✓ Branched, because chains come off its sides
  4. D. Branched, because it has 300 units
    A 300-unit chain with nothing coming off its sides would be linear.

Why: Branched means side chains come off along the length of the chain.
Twenty side chains make this a branched polysaccharide.

Q9 T14-q09

Molecules X and Y each hold 24 glucose units.

Molecule X and molecule Y. Each bead is one glucose unit; each line is a covalent bond.
Molecule X and molecule Y. Each bead is one glucose unit; each line is a covalent bond.

Which molecule can give up more glucose units at the same moment, and why?

  1. A. X, because it has more chain ends
    X is one chain, so it has only two ends.
  2. B. Y, because the bonds in its chains are weaker
    The bonds in X and Y are the same covalent bonds; what differs is how many chain ends each has.
  3. C. Neither: both hold the same 24 units
    The total sets how much glucose there is to give, not how many units can come off at once.
  4. D. ✓ Y, because it has more chain ends

Why: A cell removes units only from the ends of chains.
X is a single chain with two ends.
Every branch on Y adds another end, so Y can give up many units at the same moment while X can only be worked on at its two ends.

Q10 T14-q10

Three glucose storage polymers from three cells were measured. The table below shows the number of glucose units and the number of chain ends in each.

Three glucose storage polymers from three cells.
Three glucose storage polymers from three cells.

Which polymer can give up the most glucose units at once?

  1. A. X, because it holds the most units
    Holding the most units says how long the store would last, not how many units can come off at one time.
  2. B. ✓ Y, because it has the most chain ends
  3. C. X, because 2,000 units over 6 ends is the most per end
    Units per end says how long each end could keep going, not how many units come off at once.
  4. D. All three equally, because each is made of glucose
    Being made of glucose is what they share; how many units can be removed at once depends on the number of chain ends.

Why: A cell removes glucose units from chain ends, so the polymer with the most ends, Y, can give up the most units at the same time, even though it holds the fewest units in total.

Q11 T14-q11

A student looks at the drawing of a polysaccharide below.

A polysaccharide drawn as a chain of beads. Each bead is one sugar unit and each line is a covalent bond.
A polysaccharide drawn as a chain of beads. Each bead is one sugar unit and each line is a covalent bond.

How should the student classify it, and which feature of the drawing shows it?

  1. A. ✓ Branched; the three short runs that leave the main chain
  2. B. Branched; the curve of the arc
    A curve is different from a branch; a chain can bend as much as it likes and still be linear.
  3. C. Linear; the curve, which shows it is one chain
    A curved chain can still be linear.
    This polysaccharide has three side runs of beads coming off its main chain, so it is branched.
  4. D. Linear; the side runs are only bends in the chain
    A bend keeps every bead in the one chain, whereas a side run is beads attached to the side of the chain, which is a branch.

Why: Branched means side chains come off along the length of the main chain; linear means nothing comes off the sides, however much the chain curves.
The three runs of beads sticking out from the side are branches, so the polysaccharide is branched.

Q12 T14-q12

In 100 g of an animal's leg muscle, the amount of stored glucose polymer was 1.8 g before a run and 0.7 g right after it.

Which carbohydrate was measured?

  1. A. Starch
    Starch is the glucose store a plant makes, and this is an animal’s muscle.
  2. B. Cellulose
    Cellulose is the unbranched glucose polymer of a plant cell wall; it is a fiber, and animals do not make it.
  3. C. Glucose
    Glucose is a single sugar unit; the muscle’s store is a polymer built from glucose.
  4. D. ✓ Glycogen

Why: Animals store glucose as glycogen, held in liver and muscle.
The muscle used part of its glycogen during the run.

Q13 T14-q13

Three samples: a potato, a cotton thread, and a slice of liver. Each sample is rich in one polymer of glucose.

Which matching is correct?

  1. A. ✓ Potato: starch; cotton: cellulose; liver: glycogen
  2. B. Potato: glycogen; cotton: starch; liver: cellulose
    Glycogen is the animal store, so it belongs to the liver, and cellulose is the plant fiber, which is what cotton is.
  3. C. Potato: starch; cotton: glycogen; liver: cellulose
    Glycogen is made by animals, not by a cotton plant, and cellulose is a plant’s fiber, not a liver’s store.
  4. D. Potato: cellulose; cotton: starch; liver: glycogen
    A potato holds a plant’s glucose store, starch, and cotton is the plant fiber cellulose.

Why: Starch is a plant's glucose store (the potato), cellulose is the unbranched fiber of plant cell walls (the cotton thread), and glycogen is an animal's glucose store held in liver and muscle.

Q14 T14-q14

Starch, glycogen and cellulose are all polymers of glucose.

Which statement about their branching is correct?

  1. A. Cellulose is the most branched; glycogen is not branched
    Cellulose is the unbranched one and glycogen is the most branched.
  2. B. Starch has no branches at all; only glycogen is branched
    Most starch is made of branched chains, with some unbranched ones mixed in.
  3. C. ✓ Glycogen is more branched than starch; cellulose is unbranched
  4. D. All three are branched to about the same degree as each other
    The three differ a great deal: cellulose has no branches, starch has some, and glycogen has the most.

Why: Starch is mostly branched chains with some unbranched ones; glycogen is more highly branched still; cellulose is unbranched chains packed side by side.

Q15 T14-q15

The cell wall around a plant cell keeps its shape when the cell is pressed. The cell wall is built mostly from one polysaccharide.

Which polysaccharide is it, and how are its chains arranged?

  1. A. ✓ Cellulose: unbranched chains packed side by side
  2. B. Cellulose: highly branched compact clusters
    Cellulose has no branches; its strength comes from unbranched chains lying close together.
  3. C. Starch: unbranched chains packed side by side
    Starch is a plant’s glucose store rather than its cell wall, and most of its chains are branched.
  4. D. Glycogen: highly branched compact clusters
    Glycogen is an animal’s glucose store, held in liver and muscle; plants do not make it.

Why: A plant cell wall is built from cellulose: unbranched chains of glucose packed side by side into fibers, which is what gives the cell wall its strength.

Q16 T14-q16

Two large molecules from two different living things are broken all the way down. Both molecules give nothing but glucose, and the same amount of it. One of the molecules was linear; the other was branched.

What can you fairly conclude?

  1. A. They are one and the same molecule
    Linear and branched are different arrangements, so they are different molecules even though both are built from glucose.
  2. B. They must do the same job in both
    Sharing a monomer does not force two polymers to do the same job; the arrangement of the units is what suits a polymer to a job.
  3. C. ✓ They share a monomer but are arranged differently
  4. D. The branched one was built from a different sugar
    Both broke down to nothing but glucose, so the monomer is the same in both.

Why: Identical breakdown products show the monomer is the same.
Linear and branched are different arrangements of that monomer, and arrangement, not the choice of sugar, is what lets the two do different jobs.

Q17 T14-q17

A cotton thread and a spoonful of cornstarch are both almost pure polymer of glucose. The thread holds up a hanging weight without stretching. The cornstarch stirs into water and becomes a soft paste.

What best explains the difference?

  1. A. The cotton is built from a different sugar unit
    The cotton and the cornstarch are both polymers of glucose, so the sugar is the same in both.
  2. B. The cotton is a polymer and the cornstarch is not
    The cotton and the cornstarch are both polymers; cornstarch is starch, a chain of many glucose units.
  3. C. Each cotton unit has more covalent bonds holding it
    Each glucose unit is held in the chain by the same kind of covalent bond in both.
  4. D. ✓ The cotton's chains are unbranched and packed tight

Why: The cotton is cellulose: unbranched chains packed side by side into a fiber that carries a load.
The cornstarch is starch: mostly branched chains that make a loose store, not a fiber.
Same monomer, different arrangement, different job.

Q18 T14-q18

Imagine a plant whose cell walls were built from glucose chains carrying many side branches, instead of the unbranched chains a plant normally builds them from.

What would you expect of its cell walls?

  1. A. Stronger, because branches lock the chains together
    Side chains get in the way; a fiber is strong because unbranched chains lie close along their whole length.
  2. B. ✓ Weaker, because branched chains cannot pack side by side
  3. C. Unchanged, because the sugar is still glucose
    The sugar being the same does not keep the job the same; how the units are arranged decides whether the chains can pack into a strong fiber.
  4. D. Stronger, because the cell wall now holds more glucose
    How much glucose is present does not make a fiber; strength comes from unbranched chains packed side by side.

Why: Cellulose is strong because its unbranched chains pack side by side into fibers.
Chains with many side branches cannot lie close together, so the cell wall would be weaker.
The monomer is the same; the arrangement decides the job.

FRQ 1 T14-frq1 · Analyze Model or Visual Representation

The drawing shows three polysaccharides, I, II and III, taken from three different cells. Every bead is the same sugar unit, glucose, and every line between two beads is a covalent bond.

Polysaccharides I, II and III from three different cells. Every bead is the same sugar unit, glucose; every line is a covalent bond.
Polysaccharides I, II and III from three different cells. Every bead is the same sugar unit, glucose; every line is a covalent bond.

(a) Identify which of I, II and III are branched, and describe what in the drawing makes them branched rather than linear. (1 pt)

Model answer II and III are branched, because at some of their beads a further row of beads is joined on and leaves the side of the chain.
I is linear: each of its chains runs from one end to the other with nothing coming off its sides.
Rubric
  • Award 1 point for: II and III identified as branched because rows of units come off the sides of their chains, AND I identified as linear (unbranched) because nothing comes off the sides of its chains.
  • Accept: "side chains" for the rows that leave a chain; "unbranched" for linear.

Slip Calling I branched because it has three rows. Three separate chains lying side by side are each linear; a branch is a row of units joined to the side of a chain.

(b) Describe where a new branch of three units would be joined to polymer II. Then explain why units can be taken off a branched polymer quickly. (1 pt)

Model answer The new row of three units is joined, bead to bead, to a unit inside the main chain, away from its ends, so that the branch leaves the side of the chain, as in the drawing below.
Units are taken off a chain at its ends, and every branch adds an end, so a branched polymer has many ends and many units can be taken off at the same time.
Rubric
  • Award 1 point for: a row of three units joined bead to bead to a unit that lies within the main chain (away from the chain's ends), so that it leaves the side of the chain, AND the explanation that units are removed at chain ends and every branch adds another end, so many units can come off at once.
  • Accept: a branch attached to a unit that already carries a branch, or to a unit on one of the existing side chains. Three beads added at either end of the main chain only lengthen it and earn nothing.
  • Do not award the point for 'the bonds are weaker in a branched polymer' as the reason for the speed.

Slip Joining the three units to the end of the main chain, or explaining the speed by weaker bonds. A branch leaves the side of the chain, and it is the extra ends, not weaker bonds, that let many units come off at once.

(c) Explain how the arrangement of units in I suits it to a different job from II and III. (1 pt)

Model answer The unbranched chains of I lie side by side and hold together, making a strong fiber for support, as cellulose does in a plant cell wall.
The branched chains of II and III have many ends, so many glucose units can be removed at once: a store, as starch and glycogen are.
Rubric
  • Award 1 point for: the unbranched chains of I lie side by side and hold together, making a strong fiber for support (as cellulose does in a plant cell wall), whereas the branched chains of II and III have many ends, making a glucose store from which many units can be removed at once (as starch and glycogen do).
  • Do not accept: "because they are different molecules" or "because they contain different sugars"; the reason must come from the arrangement of the units.

Slip Saying they do different jobs ‘because they are different molecules’. The reason has to come from the arrangement: straight chains pack, branched chains have many ends.

(d) A fourth polymer, IV, is built from a different sugar unit, but its chains have the same arrangement as I: unbranched, lying straight, side by side. Determine whether IV is more likely to serve a cell as a support fiber or as a quick-release glucose store, and state the reasoning your decision rests on. (1 pt)

Model answer IV is more likely to serve as a support fiber.
Its unbranched chains lie straight and pack side by side into fibers, as I does.
Each chain has only two ends, so units come off slowly.
The job comes from how the units are arranged, not from which sugar the units are, so the same arrangement gives the same kind of job.
Rubric
  • Award 1 point for the decision AND the reasoning it rests on: a support fiber, because unbranched chains lie straight and pack side by side into fibers (and have only two ends each), and the job comes from the arrangement of the units rather than from which sugar they are.
  • Accept: 'structural, like I' with the packing reason and the statement that the sugar's identity is not what decides.
  • Do not award: 'a store'; 'it depends on the sugar'; or the decision with no reasoning.

Slip Deciding by the sugar, or deciding with no reasoning. The arrangement decides the job: straight, packed, unbranched chains make a fiber whichever sugar builds them.

FRQ 2 T14-frq2 · Conceptual Analysis

Between meals, an animal’s liver removes glucose units from its glycogen, a highly branched polymer of glucose, and sends the glucose into the blood so that the animal’s cells keep a supply of fuel. A plant stores glucose as starch, a less branched polymer of glucose. Now imagine an animal whose liver built its glucose store as long unbranched chains instead of branched clusters, holding the same total number of glucose units.

(a) Describe how single sugar units are built into a polysaccharide such as glycogen. (1 pt)

Model answer Single sugar units are joined by covalent bonds, each formed by dehydration synthesis: a water molecule is removed as each bond forms.
The chain may be linear or branched.
Rubric
  • Award 1 point for: monosaccharides are joined one to the next by covalent bonds, each formed by dehydration synthesis (a water molecule removed as each bond forms), giving a chain that may be linear or branched.
  • Accept: "covalent bonds" with either "dehydration synthesis" named or "a water molecule is removed at each join" described.

Slip Saying the units are held by hydrogen bonds. Units in a polysaccharide are joined by covalent bonds, made as water is removed.

(b) Explain why the branched shape of glycogen suits releasing glucose between meals. (1 pt)

Model answer A cell removes glucose units from the ends of chains.
A branched polymer has many ends, so many units can be removed at the same time.
Rubric
  • Award 1 point for: a cell removes glucose units from the ends of chains, and a branched polymer has many ends, so many units can be removed at the same time.
  • Do not accept: "branching makes the bonds weaker", "branched glycogen holds more glucose", or any answer that places the energy in the bonds.

Slip Saying branching makes the bonds weaker or stores more glucose. Branching gives more ends, and ends are where units come off.

(c) Predict how the release of glucose from the imagined animal's unbranched store would differ from release from normal glycogen. (1 pt)

Model answer Far fewer glucose units could be removed at any one moment, so glucose would reach the blood more slowly, even though the store holds the same total number of units.
Rubric
  • Award 1 point for: far fewer glucose units could be removed at any one moment, so glucose would reach the blood more slowly, even though the store holds the same total number of units.
  • Accept: "released more slowly", "fewer units come off at a time"; do not accept "the store would be used up sooner" or "less glucose would be stored" (the total is the same).

Slip Predicting that the store would be used up sooner or hold less. The total is the same; what changes is how many units can come off at once.

(d) A plant also builds cellulose, a third polymer of glucose, from unbranched chains. Identify the job that arrangement suits cellulose to in the plant, and explain why. (1 pt)

Model answer Cellulose chains lie straight and pack side by side into fibers, and those fibers give the plant's cell walls their strength.
Unbranched chains suit support because they pack tightly against one another along their whole length; with only two ends each, they are poor at releasing glucose quickly, which is why the plant keeps a separate branched store, starch.
Rubric
  • Award 1 point for: support (strength in the cell wall), because unbranched chains lie straight and pack side by side into fibers.
  • Accept: 'structural fiber' with the packing reason. Do not award the point for 'cellulose has stronger bonds' (the covalent bonds are the same kind as in starch) or for a job with no reason from the arrangement.

Slip Giving cellulose stronger bonds. The bonds between glucose units are the same kind in starch and cellulose; the strength comes from straight chains packing side by side.

APBIO-U01-L10 Why oil and water don't mix

Topic 1.5 · Lipids · 42 steps

A pan of water with a layer of cooking oil floating on top
A pan of water with a layer of cooking oil floating on top

Here is cooking oil poured into a pan of water. It gathers into a layer on top.

Stir it as hard as you like: the oil breaks into droplets, the droplets find one another, and the layer comes back. Oil and water will not stay mixed. Living things make use of that: it is how a waxy leaf sheds rain and how a duck’s feathers stay dry.

Unit 1 · Chemistry of Life

1Oil in a pan

2

Video: Watch first: Lipids

Oil on water, butter and olive oil, a whale’s blubber and the boundary around every cell: the questions this topic answers.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-T15-intro.mp4

3

Video: Watch: Why oil and water don't mix

Oil stirred into water comes back as a layer; sugar disappears into it. What water pulls on, and what it has nothing to pull on.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L10.mp4

4

Pour cooking oil into a pan of water and the oil gathers into a layer floating on top.

5

Stir it hard and the oil breaks into droplets, but the droplets find each other again and the layer comes back.

Oil stirred into water breaks into droplets; a minute later it is one layer on top again
Oil stirred into water breaks into droplets; a minute later it is one layer on top again
6

Now stir a spoonful of sugar into a second pan of water. The sugar disappears into the water, and no amount of waiting brings it back as a layer.

7

Rain falling on a waxy leaf beads up and rolls off. The wax stays where it is, and the water never soaks in.

8

Oil and wax will not stay mixed with water; each separates into a layer of its own. A substance that behaves this way is described as .

9

Sugar does the opposite: water is attracted to it, and it mixes in. A substance that behaves this way is described as .

10

Fats, oils and waxes all separate from water the way the cooking oil does. Biologists group these hydrophobic substances of living things together as .

11

What you are expected to know Say whether a substance is hydrophobic or hydrophilic from the way it behaves in water, and recognize the fats, oils and waxes of living things as lipids.

12
Check q1

A liquid pressed from sunflower seeds is shaken into a flask of water. It scatters into droplets, and within a minute the droplets have merged into one layer on top.

How should the liquid be classified?

  1. A. hydrophilic, because it scattered into droplets when shaken
    Scattering into droplets is not mixing in: shaking only broke the oil into pieces, and the pieces merged back into a layer.
  2. B. hydrophobic, but not a lipid, because it is a liquid
    Lipids are not only solids: the fats, oils and waxes of living things are all lipids, liquid or solid.
  3. C. ✓ hydrophobic, and as an oil from a living thing, a lipid
  4. D. hydrophilic, because it ended up as a single layer
    A substance that separates from water into its own layer is hydrophobic, not hydrophilic; a hydrophilic substance mixes in and stays mixed.

Why: The liquid will not stay mixed with water and separates into its own layer, so it is hydrophobic.
A hydrophobic oil pressed from a living thing’s seeds is a lipid.

13
Check q2

Honey stirred into a cup of tea disappears into the tea and does not come back out. Wax rubbed onto a boot makes rainwater bead up and run off.

Which labels fit the honey and the wax?

  1. A. honey hydrophobic; wax hydrophobic
    The honey mixed into the tea and stayed mixed, which is what hydrophilic means.
  2. B. honey hydrophilic; wax hydrophilic
    Water beads up on the wax and runs off instead of mixing in, which is what hydrophobic means.
  3. C. honey hydrophobic; wax hydrophilic
    It has the two labels reversed: the substance that mixes in is hydrophilic, and the one water beads up on is hydrophobic.
  4. D. ✓ honey hydrophilic; wax hydrophobic

Why: Honey mixes into the water of the tea and stays mixed, so it is hydrophilic.
Water beads up on the wax and runs off without mixing in, so the wax is hydrophobic.

14What water pulls on

15
Check q3

Quick recall: a water molecule.

Which atom of a water molecule is δ−?

  1. A. Each hydrogen
    Oxygen pulls the shared pair of each O–H bond harder, so the hydrogens are left δ+.
  2. B. None: water carries no partial charges
    Each O–H bond is polar, so the molecule carries partial charges: δ− on the oxygen and δ+ on each hydrogen.
  3. C. ✓ The oxygen

Why: Oxygen pulls the shared electrons of each O–H bond harder, so the oxygen end is δ− and each hydrogen is δ+: water is polar.

16

Those partial charges are how water molecules attract one another: the δ+ hydrogen of one molecule is attracted to the δ− oxygen of the next, in a hydrogen bond.

17

Water’s partial charges pull on any charge or partial charge that comes near them, not only on other water molecules.

18

Glucose is a six-carbon sugar with an –OH group on almost every carbon. Each –OH group is polar, so it carries partial charges, and water pulls on them. Glucose mixes in.

Glucose: a ring of five carbon atoms and one oxygen atom, with a sixth carbon outside the ring, and an –OH group on five of the six carbons
Glucose: a ring of five carbon atoms and one oxygen atom, with a sixth carbon outside the ring, and an –OH group on five of the six carbons
19

Here is another six-carbon molecule, hexane: six carbons in a row, each bonded to hydrogens, and nothing else.

Hexane: a chain of six carbon atoms, each bonded to hydrogen atoms, and nothing else
Hexane: a chain of six carbon atoms, each bonded to hydrogen atoms, and nothing else
20
Check q4

Quick recall: a C–H bond.

Is a C–H bond polar or nonpolar?

  1. A. Polar
    Carbon and hydrogen pull the shared electrons about equally, so neither end of the bond carries a partial charge.
  2. B. ✓ Nonpolar

Why: Carbon and hydrogen pull the shared electrons about equally, so the bond is nonpolar.

21

Every bond in hexane is a C–H or C–C bond, so this chain carries no partial charges anywhere, and no full charges either.

22

A chain of carbon and hydrogen atoms and nothing else is called a .

23

Drop hexane into water and this is what happens: water's partial charges pull on any charge or partial charge, and a nonpolar group offers none, so the water molecules stay attracted to one another and exclude it.

24

Six carbons each. The difference between glucose mixing in and hexane being pushed out is the –OH groups.

25

What you are expected to know Explain why a hydrocarbon is hydrophobic: its C–H bonds are nonpolar, so it offers water no charge or partial charge to pull on, and the water molecules stay attracted to one another and exclude it.

26
Check q5

Two molecules are about the same size. Molecule P carries several –OH groups. Molecule Q is built only from carbon and hydrogen.

Which one mixes into water?

  1. A. Q, because a molecule with no charges slips between water molecules
    A molecule with no charge or partial charge gives water nothing to pull on, so the water molecules stay attracted to one another and exclude it.
  2. B. ✓ P, because its –OH groups carry partial charges that water pulls on
  3. C. Both, because water dissolves any molecule this small
    Size does not decide mixing: water pulls a molecule in only if it carries a charge or partial charge, and Q carries neither.
  4. D. Neither, because neither molecule carries a full charge
    A full charge is not needed: water’s partial charges also pull on partial charges.

Why: Each –OH group on P is polar and carries partial charges, and water’s partial charges pull on them, so P mixes in.
Q offers no charge or partial charge, so the water molecules stay attracted to one another and exclude it.

27
Check q6

An organism makes a molecule built almost entirely of carbon and hydrogen. Nobody has tested it in water yet.

What can be predicted about it?

  1. A. The molecule is polar, because it is built from two different kinds of atom
    Two kinds of atom do not make a bond polar: a bond is polar only when one atom pulls the shared electrons harder, and carbon and hydrogen pull about equally.
  2. B. The molecule is hydrophilic, because carbon and hydrogen are both small atoms
    The size of the atoms plays no part: water pulls on charges and partial charges, and C–H bonds carry none.
  3. C. Nothing can be predicted about the molecule before it is tested in water
    The atoms alone settle it: C–H bonds are nonpolar, so a molecule of carbon and hydrogen carries no charge or partial charge.
  4. D. ✓ The molecule is hydrophobic, because water has nothing on it to pull on

Why: A molecule of carbon and hydrogen is a hydrocarbon.
Its C–H bonds are nonpolar, so it carries no charge or partial charge; water’s partial charges have nothing to pull on, and the water molecules stay attracted to one another and exclude it.

28

Water does not need partial charges on the other substance. Table salt carries none, but its ions carry full charges, and water’s partial charges pull on those. That is why salt dissolves.

29The fatty acid

30

Here is one building block that many lipids share, drawn with every atom: a chain of carbons, each bonded to hydrogens, with a small group of oxygens at one end.

A short fatty acid drawn twice: above, every carbon, hydrogen and oxygen atom; below, the same molecule with the tail drawn as a zigzag line
A short fatty acid drawn twice: above, every carbon, hydrogen and oxygen atom; below, the same molecule with the tail drawn as a zigzag line
31

Drawing every atom gets messy, so from here on the chain is drawn as a zigzag line. Each joint in the line is a carbon atom, with its hydrogens left out. The lower drawing is the same molecule.

32

Here is the building block with its full-length chain, drawn as a line.

A small group of one carbon, two oxygens and a hydrogen at one end of a long carbon–hydrogen tail
A small group of one carbon, two oxygens and a hydrogen at one end of a long carbon–hydrogen tail
33

At one end is a small group of atoms: a carbon bonded to two oxygens, one of the oxygens carrying a hydrogen. This group is called a , written –COOH.

34

The rest is a hydrocarbon tail, usually sixteen or eighteen carbons long.

35

A molecule built this way, a long hydrocarbon tail with a carboxyl group at one end, is called a .

36

The carboxyl group carries partial charges, so water pulls on that end.

37

But the tail is most of the molecule, and along the tail water has nothing to pull on. So a fatty acid is mostly hydrophobic: as a whole, it separates from water.

38

What you are expected to know Describe a fatty acid as a long hydrocarbon tail with a carboxyl group (–COOH) at one end, and say that it is mostly hydrophobic because the tail is most of the molecule.

39
Check q7

Here are two molecules, numbered 1 and 2. Each molecule is a long chain of carbon and hydrogen with a small group at its left end.

Two molecules, each a long carbon–hydrogen chain with a small group at its left end
Two molecules, each a long carbon–hydrogen chain with a small group at its left end

Which of them is a fatty acid?

  1. A. ✓ 1 only
  2. B. 2 only
    An –OH group is not a carboxyl group: a carboxyl group is –COOH, a carbon bonded to two oxygens, one carrying a hydrogen.
  3. C. both 1 and 2
    Not every small group at the end of a hydrocarbon tail is a carboxyl group; molecule 2 ends in a plain –OH.
  4. D. neither 1 nor 2
    Molecule 1 is exactly a fatty acid: a long hydrocarbon tail with a carboxyl group, –COOH, at one end.

Why: A fatty acid is a long hydrocarbon tail with a carboxyl group, –COOH, at one end.
Molecule 1 ends in –COOH; molecule 2 ends in an –OH group, which is a hydroxyl group, not a carboxyl group.

40
Check q8

A fatty acid has one carboxyl group, which is polar, at the end of an eighteen-carbon hydrocarbon tail.

How does the whole molecule behave in water?

  1. A. The fatty acid mixes in completely, because one polar group is enough to pull it in
    One small polar group does not decide for the whole molecule: eighteen nonpolar carbons far outweigh it.
  2. B. ✓ The fatty acid is mostly hydrophobic, because the tail is most of the molecule
  3. C. The fatty acid is mostly hydrophobic, because the carboxyl group is nonpolar too
    The carboxyl group is polar, and water does pull on it.
  4. D. The fatty acid splits in two: the tail floats and the carboxyl group dissolves
    The carboxyl group is covalently bonded to the tail and stays with it; the molecule moves as one piece.

Why: Which behavior wins depends on the proportions.
Water pulls on the small carboxyl group, but eighteen nonpolar carbons give water nothing to pull on, so the whole molecule is mostly hydrophobic.

41

The oil layer in the pan is millions of hydrocarbon tails that water has excluded.

Glossary

hydrophobic
Describes a substance that will not stay mixed with water and separates into its own layer, because it offers water no charge or partial charge to pull on. Oil and wax are hydrophobic.
hydrophilic
Describes a substance that water is attracted to, so that it mixes in and stays mixed. Sugar is hydrophilic.
lipid
One of the hydrophobic substances of living things: the fats, oils and waxes.
hydrocarbon
A chain of carbon and hydrogen atoms and nothing else. Its C–H bonds are nonpolar, so it carries no charges or partial charges.
carboxyl group (–COOH)
A small group of atoms: a carbon bonded to two oxygens, one of the oxygens carrying a hydrogen. It sits at one end of a fatty acid and carries partial charges.
fatty acid
A long hydrocarbon tail with a carboxyl group (–COOH) at one end; a building block of many lipids. Because the tail is most of the molecule, it is mostly hydrophobic.

APBIO-U01-L11 Butter or olive oil

Topic 1.5 · Lipids · 61 steps

A block of butter beside a bottle of olive oil pouring into a dish
A block of butter beside a bottle of olive oil pouring into a dish

Butter is solid enough to slice. Olive oil pours. Butter and olive oil are both fat, and the whole difference is one bend in a chain of carbon atoms.

Unit 1 · Chemistry of Life

1Straight tails and bent tails

2

Video: Watch: Butter or olive oil

A straight tail and a kinked one, why molecules attract when they touch, and what a kink does to packing.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L11.mp4

3

A fatty acid has a carboxyl group at one end, and a long hydrocarbon tail. The tail is drawn as a zigzag line; each joint is a carbon with its hydrogens.

4

Here is one with an eighteen-carbon tail. Every carbon is joined to the next by a single bond, one shared pair of electrons, and the tail runs straight.

A fatty acid with an eighteen-carbon tail joined by single bonds: the tail runs straight
A fatty acid with an eighteen-carbon tail joined by single bonds: the tail runs straight
5

Here is a sixteen-carbon tail, also joined by single bonds only. Shorter, but just as straight.

An eighteen-carbon tail and a sixteen-carbon tail, both joined by single bonds and both straight
An eighteen-carbon tail and a sixteen-carbon tail, both joined by single bonds and both straight
6

Now one pair of carbons in the tail shares two pairs of electrons instead of one. A bond like this is called a , and it is drawn as a double stroke.

A tail with one double bond, drawn as a double stroke: the chain bends there and runs on at an angle
A tail with one double bond, drawn as a double stroke: the chain bends there and runs on at an angle
7

At the double bond the tail bends. It kinks at that point and runs on at an angle.

8

A second double bond, further along, adds a second kink.

A tail with two double bonds, each drawn as a double stroke: the chain bends at each one
A tail with two double bonds, each drawn as a double stroke: the chain bends at each one
9

A fatty acid whose carbons are joined only by single bonds, so that its tail runs straight, is a .

10

A fatty acid with at least one double bond is an . In some unsaturated fatty acids, including those in plant oils and fish oils, each double bond kinks the tail.

11

“Saturated” because, with only single bonds, every carbon in the tail holds as many hydrogen atoms as it can. A double bond takes up a place a hydrogen would otherwise have filled.

12

What you are expected to know Say whether a drawn fatty acid is saturated or unsaturated from its bonds, and mark where a double bond kinks the tail.

13
Check q1

The model below shows fatty acids X and Y, each with eighteen carbons.

Fatty acids X and Y, each with eighteen carbons: X runs straight; Y has two double bonds, drawn as double strokes, and bends at each one
Fatty acids X and Y, each with eighteen carbons: X runs straight; Y has two double bonds, drawn as double strokes, and bends at each one

What accounts for the bends in Y?

  1. A. ✓ Y has two double bonds, and each one kinks the chain
  2. B. Y is shorter than X, so its chain has to fold to fit
    X and Y are the same length, eighteen carbons each, so nothing forces Y to fold.
  3. C. Y carries more hydrogens than X, and they push the chain out of line
    A double bond takes up a place a hydrogen would have filled, so a kinked tail holds fewer hydrogens than a straight one, not more.
  4. D. Y has two single bonds where X has double bonds
    Single bonds let a tail run straight, as in X; it is a double bond that bends a tail.

Why: A bend in a fatty-acid tail marks a carbon–carbon double bond, drawn as a double stroke.
Two bends mean two double bonds, so Y is unsaturated, while X, with single bonds only, runs straight and is saturated.

14
Check q2

Here are three fatty acids, numbered 1 and 2 and 3.

Three fatty acids numbered 1, 2 and 3
Three fatty acids numbered 1, 2 and 3

Which of them are saturated?

  1. A. 1 only
    Tail 3 is shorter than tail 1, but every bond in it is a single bond, so tail 3 is saturated too.
  2. B. 2 only
    Tail 2 has a double bond, drawn as a double stroke, and kinks there, which makes it unsaturated.
  3. C. ✓ 1 and 3
  4. D. 2 and 3
    Tail 2 has a double bond and kinks, so it is unsaturated.

Why: Tails 1 and 3 are joined by single bonds only and run straight, so both are saturated, whatever their length.
Tail 2 has a double bond and kinks there, so it is unsaturated.

15Molecules attract when they lie close

16

Take a pan of oil and water. Stirred into droplets, the oil droplets find one another and merge. Something holds oil molecules together.

17

Any two molecules attract one another weakly when they lie close together, even when neither carries a charge or a partial charge.

18

Why? The electrons in any molecule are always moving. For an instant, one side of a molecule has slightly more electrons than the other, so it carries a fleeting partial charge.

19

That fleeting partial charge pulls on the electrons of a neighboring molecule, and for that instant the two attract. The pull is weak and brief, but it happens over and over, everywhere the molecules touch.

20

So the more of their length is in contact, the stronger the attraction. Two long straight tails lying side by side attract along their whole length.

Two straight tails lying side by side, marked with attraction along their length, beside two tails touching only at their tips
Two straight tails lying side by side, marked with attraction along their length, beside two tails touching only at their tips
21

These attractions are weak, far weaker than water’s pull on itself. Water excludes hydrocarbon tails because its own attractions are stronger, not because the tails do not attract at all.

22

What you are expected to know Say that any two molecules attract weakly when they lie close, more strongly the more of their length is in contact, even with no charges or partial charges on either.

23
Check q3

Quick recall: a hexane molecule carries no charges and no partial charges.

What kind of molecule is hexane?

  1. A. Polar
    A polar molecule carries partial charges; hexane carries none.
  2. B. ✓ Nonpolar

Why: A molecule with no charges and no partial charges is nonpolar.

24
Check q4

Two hexane molecules drift close together inside a drop of oil. Both molecules are nonpolar.

What happens between them?

  1. A. The hexane molecules attract each other as strongly as two water molecules do
    Two water molecules pull on each other through partial charges, and two hexane molecules have none; their attraction is far weaker.
  2. B. The hexane molecules do not attract each other at all, having no charges
    Molecules with no charges still attract: any two molecules attract weakly when they lie close.
  3. C. ✓ The hexane molecules attract each other weakly, as any two molecules do
  4. D. The hexane molecules form a hydrogen bond with each other, as water does
    A hydrogen bond needs a δ+ hydrogen and a δ− oxygen or nitrogen, and hexane has neither.

Why: Any two molecules attract one another weakly when they lie close together, even with no charges or partial charges on either.
That weak attraction is what holds the oil molecules together in the drop.

25
Check q5

The model below shows two pairs of straight hydrocarbon tails: pair 1 lying side by side along their whole length, pair 2 touching only at their tips.

Two pairs of straight hydrocarbon tails: in pair 1 the tails lie side by side along their whole length; in pair 2 they touch only at their tips
Two pairs of straight hydrocarbon tails: in pair 1 the tails lie side by side along their whole length; in pair 2 they touch only at their tips

Which pair attracts more strongly?

  1. A. the tip-to-tip pair, because the attraction is concentrated at one point
    The attraction does not concentrate at a point: it grows with how much of the two molecules is in contact, so one point of contact gives the least.
  2. B. neither pair, because hydrocarbon tails carry no charges
    Molecules with no charges still attract weakly when they lie close.
  3. C. both the same, because the molecules are identical
    Identical molecules can still differ in how much of their length touches, and that is exactly how the two pairs differ.
  4. D. ✓ the side-by-side pair, because more of their length is in contact

Why: Two molecules attract more strongly the more of their length is in contact.
Side by side, the tails touch all along their length; tip to tip, they touch at one point.

26More double bonds: liquid at lower temperatures

27

Butter is solid on the counter. Olive oil is liquid beside it, at the same temperature. Fish oil stays liquid even in near-freezing seawater.

28

Line up their fatty-acid tails. Most of butter’s are like the top one, with no double bonds. Olive oil’s have about one each. Fish oil’s have several.

Tails with no, one and three double bonds, labeled butter, olive oil and fish oil
Tails with no, one and three double bonds, labeled butter, olive oil and fish oil
29

Add a double bond to a tail and you add a kink; the lipid is more unsaturated.

30

The more kinks a lipid’s tails carry, the lower the temperature at which it still pours: butter is solid on the counter, olive oil is liquid on the counter, fish oil is liquid near freezing.

31

The exam puts the rule this way: the more unsaturated a lipid is, the more liquid it is at room temperature.

32

What you are expected to know Predict, from the number of double bonds in their fatty-acid tails, which of two lipids is liquid at room temperature and which stays liquid at a lower temperature.

33
Check q6

Butter is solid on a kitchen counter. Olive oil is liquid beside it. Fish oil stays liquid in near-freezing seawater.

How many double bonds do their fatty-acid tails most likely carry, compared with one another?

  1. A. ✓ butter the fewest, fish oil the most
  2. B. butter the most, fish oil the fewest
    Double bonds add kinks, and kinks keep a lipid liquid at lower temperatures, so the lipid still liquid in the coldest water has the most.
  3. C. about the same; the difference is their water content
    Water content is not what separates these three: it is the double bonds in their tails, each one adding a kink.
  4. D. only fish oil has any; butter and olive oil have none
    Olive oil is liquid at room temperature, which its tails could not be without kinks, so its tails do carry double bonds.

Why: Each double bond adds a kink, and the more kinks a lipid’s tails carry, the lower the temperature at which it still pours.
The lipid that is solid on the counter has the fewest double bonds, and the one that stays liquid near freezing has the most.

34
Check q7

Two newly made lipids have tails of the same length. In lipid X every tail is joined by single bonds only. In lipid Y every tail has three double bonds.

Which is more likely to be liquid at room temperature?

  1. A. X, because single bonds let its tails swing freely
    Single bonds let a tail run straight, and straight tails are the tails of solid fats such as butter.
  2. B. ✓ Y, because each double bond puts a kink in a tail
  3. C. Both the same, because the tails are the same length
    Two tails of the same length can differ in their double bonds, and that difference decides it.
  4. D. X, because straight tails slide past one another more easily
    Straight tails do the opposite: they line up close and hold one another, like the tails of solid butter.

Why: Each double bond adds a kink, and the more kinks a lipid’s tails carry, the lower the temperature at which it still pours.
Y, with three double bonds in every tail, is the liquid one; X, with none, is the more likely solid.

35Why the kink decides solid or liquid

36

Straight tails line up close against one another along their whole length, so the weak attractions between them add up and the molecules are hard to pull apart.

Five straight tails stacked close together beside four kinked tails held apart by their kinks
Five straight tails stacked close together beside four kinked tails held apart by their kinks
37

Kinked tails cannot lie close against their neighbors, so the attractions between tails are weaker and the molecules slide past one another.

38

So a lipid built from straight tails is solid at room temperature: its molecules hold one another in place. A lipid built from kinked tails is liquid: its molecules slide past one another.

39

Put the two together. The straighter the tails, the better they line up, the stronger the attraction between molecules, and the higher the temperature needed to turn the solid into a liquid. More double bonds means more kinks, less lining up, weaker attraction, and a liquid at a lower temperature.

40

Bubble hydrogen gas through a liquid vegetable oil and its double bonds become single bonds. The kinks are gone, the tails line up, and the product is a spreadable solid.

41

What you are expected to know Explain why a lipid with kinked tails is liquid where one with straight tails is solid. Straight tails lie close, so their weak attractions add up. Kinked tails cannot lie close, so the attractions are weaker and the molecules slide past one another.

42
Check q8

A manufacturer treats a liquid vegetable oil so that most of the double bonds in its tails become single bonds. The product is a spreadable solid at room temperature.

Why did the oil become solid?

  1. A. The added hydrogen made each molecule heavier, and heavier molecules are always solid
    Extra mass on its own does not decide solid or liquid; how closely the tails can lie against one another does.
  2. B. ✓ The tails lost their kinks, so they lie close and the attractions between them add up
  3. C. The tails became polar, so they now hydrogen bond to one another
    The tails are still hydrocarbon and still nonpolar, so no hydrogen bonding has appeared.
  4. D. The tails became shorter, and shorter tails always give a solid
    Turning a double bond into a single bond removes a kink, not a carbon atom; the tails are the same length.

Why: Removing double bonds removes the kinks.
Straight tails line up close against one another along their whole length, so the weak attractions between them add up and the molecules are hard to pull apart: the lipid is solid.

43Cooling packs the tails; warming loosens them

44

Take a bottle of olive oil out of a refrigerator: it is cloudy and thick. Leave it on the counter and it clears and pours again.

45
Check q9

Quick recall: a substance is warmed.

What happens to its molecules?

  1. A. They move more slowly
    Warming gives the molecules more energy, and they move faster, not more slowly.
  2. B. Their speed does not change
    Warming gives the molecules more energy, and they move faster.
  3. C. ✓ They move faster

Why: Warming a substance gives its molecules more energy, so they move faster.

46

Cool a lipid and its tails move less. They settle closer against one another, the attractions between them add up, and the molecules stop sliding past one another so freely: the lipid thickens and begins to set.

The same straight tails spaced apart when warm and packed close when cold
The same straight tails spaced apart when warm and packed close when cold
47

Warm it and the tails move more. They pull apart and slide past one another again, and the lipid thins and pours.

48

Kinks set a limit on how close cooling can bring the tails. A fish’s oils stay runny in near-freezing water because their tails are kinked.

49

What you are expected to know Predict from a change in temperature how closely the tails of a lipid pack and whether it sets.

50
Check q10

A block of butter is left out on the counter in a warm kitchen.

The butter becomes …

  1. A. ✓ softer, because warming lets its tails move more and pull apart
  2. B. harder, because faster molecules collide more and lock together
    Faster tails pull apart and slide past one another; they do not lock together.
  3. C. unchanged, because straight tails are already packed as tightly as they can be
    Packed tails still pull apart once they move faster, and that is what warming makes them do.
  4. D. softer, because warming adds kinks to its tails
    Warming adds or removes no double bonds; the molecules are unchanged.

Why: Warming makes the tails move more.
They pull apart, the attractions between them no longer add up, and the molecules slide past one another again: the butter softens and begins to melt.

51
Check q11

A fish swims in seawater close to freezing, yet the oils in its body stay runny.

Why do they stay runny in the cold?

  1. A. The cold makes the oils’ tails move faster, keeping them apart
    Cooling slows the tails; it does not speed them up.
  2. B. Cold water adds double bonds to the oils’ tails
    Cooling adds or removes no bonds; the fish’s tails already carry their double bonds.
  3. C. ✓ The oils’ tails are kinked, so cooling cannot pack them closely
  4. D. The oils’ tails are straight, so they slide past one another
    Straight tails pack closely when cooled and the lipid thickens; it is kinked tails that cannot pack.

Why: The fish’s oils have kinked tails.
Cooling slows the tails, but the kinks set a limit on how close they can settle against one another, so the attractions stay weak and the oil stays runny.

52

Butter’s straight tails pack tightly and it softens only on a warm counter; olive oil’s kinked tails cannot pack, and only a refrigerator thickens it.

53Mixed practice mixed practice

54
Check q12

A fatty-acid tail has two double bonds.

Is the fatty acid saturated or unsaturated?

  1. A. Saturated
    A saturated tail has single bonds only; a double bond makes the tail unsaturated.
  2. B. ✓ Unsaturated

Why: Each double bond kinks the tail, so a tail with a double bond is unsaturated.

55
Check q13

A fatty-acid tail of twelve carbons is joined by single bonds only.

Is the fatty acid saturated or unsaturated?

  1. A. ✓ Saturated
  2. B. Unsaturated
    An unsaturated tail has at least one double bond; this tail has none.

Why: With single bonds only, the tail runs straight and holds as many hydrogens as it can: saturated, whatever its length.

56
Check q14

Lipid P’s tails carry no double bonds. Lipid Q’s tails carry two double bonds each.

Which lipid is more likely to be liquid at room temperature?

  1. A. Lipid P
    Straight tails pack closely and hold one another, so a lipid with no double bonds is the more likely solid.
  2. B. ✓ Lipid Q

Why: Each double bond adds a kink.
Kinked tails cannot lie close, so the attractions between them stay weak and the molecules slide past one another: Q is the liquid one.

57
Check q15

A bottle of oil goes into a refrigerator.

What happens to the oil’s tails?

  1. A. ✓ They move less and settle closer together
  2. B. They move more and pull apart
    Cooling takes energy from the molecules, so the tails move less, not more.

Why: Cooling makes the tails move less.
So they settle closer together, the attractions between them add up, and the oil thickens.

58
Check q16

In a cold room, lipid Q with kinked tails stays liquid while lipid P with straight tails sets solid.

Why does Q stay liquid?

  1. A. Its tails are shorter than P’s, so they weigh less and settle more slowly.
    The tails of P and Q can be the same length; the kinks, not the length, decide it.
  2. B. Its molecules move faster in the cold than P’s do, so they keep sliding past one another.
    Cooling slows every molecule; Q’s tails move less in the cold, like P’s.
  3. C. ✓ Its kinks stop the tails settling close together, so the attractions between them stay weak.

Why: Cooling slows the tails of both lipids.
Q’s kinks set a limit on how close its tails can settle.
So the attractions between Q’s tails stay weak, and Q stays liquid.

59
Check q17

Two straight hydrocarbon tails lying side by side attract more strongly than two kinked tails do.

Why?

  1. A. ✓ More of their length is in contact, so the weak attractions add up.
  2. B. Straight tails carry partial charges and kinked tails do not.
    Hydrocarbon tails carry no partial charges, straight or kinked.
  3. C. Straight tails share electrons with one another.
    No electrons are shared between separate molecules; the attraction is the weak pull between any two molecules lying close.

Why: Any two molecules attract more strongly the more of their length is in contact.
Straight tails touch along their whole length; kinked tails cannot, so their attraction is weaker.

60
Practice writing an answer

At 20 °C coconut oil is a white solid and canola oil is a clear liquid. Coconut oil and canola oil are both fats built from fatty-acid tails of about the same length.

(a) Identify which oil’s tails carry more double bonds. (1 pt)

Model answer Canola oil’s tails carry more double bonds.
Rubric
  • Award 1 point for: canola oil.
  • Accept: ‘the liquid one’ named as canola oil.
  • Do not award the point for: coconut oil, or for ‘both the same’.

Slip Choosing the solid: the more unsaturated a lipid is, the more liquid it is at room temperature, so the liquid oil carries more double bonds.

(b) Explain why coconut oil is solid at 20 °C. (1 pt)

Model answer Coconut oil’s tails have few or no double bonds, so they run straight.
Straight tails lie close against one another along their whole length.
So the weak attractions between the tails add up.
So the molecules hold one another in place, and the oil is solid.
Rubric
  • Award 1 point for: straight (saturated) tails lie close along their length, so the weak attractions between them add up and the molecules hold one another in place.
  • Accept: ‘no kinks, so the tails pack closely and the lipid is solid’.
  • Do not award the point for: ‘saturated fats are solid’ with no reason, or for an answer about the oil’s mass or water content.

Slip Naming ‘saturated’ and stopping: the point is for why straight tails hold one another, the packing and the added-up attractions.

Glossary

double bond
A covalent bond in which two atoms share two pairs of electrons instead of one; drawn as a double stroke. A double bond between two carbons in a fatty-acid tail kinks the tail at that point.
saturated fatty acid
A fatty acid whose carbons are joined only by single bonds, so its tail runs straight. Every carbon holds as many hydrogen atoms as it can.
unsaturated fatty acid
A fatty acid with at least one double bond between two of its carbons. In some, including those in plant oils and fish oils, the tail kinks at each double bond.

APBIO-U01-L12 Where the energy in a food store comes out

Topic 1.5 · Lipids · 30 steps

A small bird in flight over open water, far from land, with two more birds far behind it
A small bird in flight over open water, far from land, with two more birds far behind it

Here is a small bird flying over open water, far from any land.

It set off days ago and has not eaten since. Every wingbeat is powered by fat it stored in its body before it left. Where does the energy in that store actually come out?

Unit 1 · Chemistry of Life

1Hydrolysis frees the glucose

2

Video: Watch: Where the energy in a food store comes out

Hydrolysis frees the glucose but gives no energy; the reaction with oxygen does, and the products end up lower in energy. Why a flying bird stores fat.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L12.mp4

3

A cell takes a chain of sugar units apart by hydrolysis: water is added at each bond, and the units come free as glucose.

A chain of five sugar units on the left; after hydrolysis, on the right, five free glucose units scattered apart
A chain of five sugar units on the left; after hydrolysis, on the right, five free glucose units scattered apart
4

Taking the store apart by hydrolysis frees the glucose, but it doesn’t immediately give the cell any usable energy. To actually get energy, the cell needs to break down the glucose even further.

5

Living things take in oxygen to do that. The cell reacts glucose with oxygen, and the products are carbon dioxide and water.

Glucose, drawn as a small circle, plus oxygen, reacting to give carbon dioxide and water
Glucose, drawn as a small circle, plus oxygen, reacting to give carbon dioxide and water
6

This reaction is the one that releases the energy the cell uses.

7

What you are expected to know Hydrolysis frees the glucose units from a store and gives the cell no usable energy. The energy comes out when the cell reacts the glucose with oxygen, making carbon dioxide and water.

8
Check q1

A cell breaks a chain of sugar units into free glucose by hydrolysis. Separately, it reacts glucose with oxygen to make carbon dioxide and water.

Which step releases the energy the cell uses?

  1. A. The hydrolysis, because breaking the bonds between the sugar units releases the energy they hold
    Hydrolysis frees the glucose units and gives the cell no usable energy; breaking a bond takes energy in.
  2. B. ✓ The reaction with oxygen; the hydrolysis only frees the glucose and gives no usable energy
  3. C. Both equally, because each of the two steps breaks bonds inside a molecule
    The two steps are not alike: hydrolysis frees the glucose and gives no usable energy.
  4. D. The hydrolysis, because the water it adds carries energy into the chain
    Water is added to break the bond, not to bring energy; hydrolysis frees the glucose and gives the cell no usable energy.

Why: Hydrolysis frees the glucose units but gives the cell no usable energy.
The energy the cell uses comes out when the glucose reacts with oxygen to make carbon dioxide and water.

9Why the products hold less energy

10

We can think of the reactants and products of this reaction in terms of their energy: how much each of them holds. Picture a scale of energy running upward.

11

Glucose and oxygen have high energy. On the scale, they stand near the top.

An energy scale drawn as an upward arrow; glucose, drawn as a small circle, and oxygen stand on a high level near the top
An energy scale drawn as an upward arrow; glucose, drawn as a small circle, and oxygen stand on a high level near the top
12

Carbon dioxide and water sit at lower energy, further down the scale.

The same energy scale: glucose, drawn as a small circle, and oxygen on a high level; carbon dioxide and water on a lower level; the drop between them labeled energy released
The same energy scale: glucose, drawn as a small circle, and oxygen on a high level; carbon dioxide and water on a lower level; the drop between them labeled energy released
13

The products hold less energy than the glucose and oxygen did. The difference between the two levels is the energy released, and it is what the cell uses.

14

Why do the products hold less energy? Because the bonds inside carbon dioxide and water are stronger than the bonds inside glucose and oxygen.

15

A molecule held together by stronger bonds is more stable: it is harder to break apart, and would take more energy to break. Molecules like that sit lower on the energy scale. We say they are at a lower energy state.

16

So energy comes out of this reaction because the new, stronger bonds that form leave the products lower in energy. Breaking bonds on its own only takes energy in.

17

What you are expected to know Explain where a cell’s usable energy comes from when it breaks down a stored sugar: in the reaction with oxygen, the products hold less energy than the starting molecules, and that difference is released. They hold less because the new bonds formed are stronger than the bonds broken.

18
Check q2

Glucose reacts with oxygen inside a cell, and energy is released.

Where does that energy come from?

  1. A. The carbon dioxide formed holds more energy than the glucose did
    The products sit lower in energy than the starting molecules, not higher.
  2. B. Breaking the bonds in glucose releases the energy the bonds hold
    Breaking a bond takes energy in.
  3. C. ✓ The products hold less energy than glucose and oxygen did
  4. D. Oxygen carries the energy into the cell and hands it over
    Oxygen is one of the starting molecules, not a carrier of energy.

Why: The products, carbon dioxide and water, hold less energy than the starting molecules did, and that difference is the energy released.
They hold less because the new bonds formed in them are stronger than the bonds broken in glucose and oxygen.

19Fat or glucose

20

A cell can react a fat with oxygen in the same way. The products are again carbon dioxide and water, and again they hold less energy than the fat and oxygen did, so energy is released.

21

Gram for gram, a fat gives more than twice the energy a sugar gives. The same energy can be stored in less than half the mass.

Two stores holding the same energy: the sugar store is a wide block, the fat store is a block less than half as wide
Two stores holding the same energy: the sugar store is a wide block, the fat store is a block less than half as wide
22

That is why a migrating bird stores fat before it sets off, not extra glucose.

23

A flying bird uses fat for energy rather than glucose because it can get more energy from less mass stored in its body. Less mass stored in its body means less mass to lift with every wingbeat.

24

What you are expected to know A cell gets usable energy from a fat the same way as from glucose, by reacting it with oxygen. Gram for gram a fat gives more than twice the energy, so a flying bird stores fat: more energy from less mass to lift.

25
Check q3

A small bird about to fly a long way over open water stores fat rather than extra glucose.

Why does fat suit the flight better?

  1. A. ✓ The same energy is carried in less mass as fat than as glucose
  2. B. Glucose is used up faster than fat during flight
    The two stores are not used at different speeds; the difference is the energy released per gram.
  3. C. Fat holds its energy in its bonds, and glucose has fewer bonds
    Energy is not held in bonds and released by breaking them; it is released when the fat reacts with oxygen and new, stronger bonds form.
  4. D. Fat is taken apart by hydrolysis, and that releases its energy
    Hydrolysis frees the pieces of a store and gives the cell no usable energy; the energy comes out in the reaction with oxygen.

Why: When a fat reacts with oxygen, more than twice as much energy is released per gram as from a sugar.
A bird that must lift every gram of its fuel into the air gets more energy from less mass stored as fat.

26

A bird flying for days over open water is flying on fat: its cells react that fat with oxygen, the products hold less energy than the fat and oxygen did, and the difference powers every wingbeat.

27Mixed practice mixed practice

28
Check q4

A cell reacts a fat with oxygen, and energy is released.

Why is energy released in this reaction?

  1. A. Breaking the bonds in the fat releases the energy the bonds hold
    Breaking a bond takes energy in; energy is not held in a bond waiting to be released.
  2. B. ✓ The products hold less energy than the fat and oxygen did
  3. C. Oxygen carries energy into the cell and hands it over
    Oxygen is one of the starting molecules, not a carrier of energy.
  4. D. The fat’s bonds are weak, and breaking a weak bond gives out energy
    Breaking any bond, weak or strong, takes energy in.

Why: When a fat reacts with oxygen, the products hold less energy than the starting molecules did, and that difference is released.
They hold less because the new bonds in carbon dioxide and water are stronger than the bonds broken.

29
Check q5

A cell takes a fat apart by hydrolysis into its pieces. Then it reacts those pieces with oxygen.

Which step releases the energy the cell uses?

  1. A. The hydrolysis, because breaking the bonds in the fat releases the energy they held
    Breaking the bonds in the fat takes energy in; hydrolysis frees the pieces and gives the cell no usable energy.
  2. B. Both steps equally, because each step breaks bonds inside a molecule
    Breaking bonds is not the source in either step; on its own it takes energy in.
  3. C. ✓ The reaction with oxygen, because its products hold less energy than the pieces and oxygen did
  4. D. The hydrolysis, because the water it adds carries energy into the fat
    Water is added to break the bond, not to bring energy.

Why: Taking the fat apart by hydrolysis frees its pieces but gives the cell no usable energy.
When the pieces react with oxygen, the products hold less energy than the starting molecules did, because the new bonds formed are stronger than the bonds broken, and that difference is released.

APBIO-U01-L12B Building a fat

Topic 1.5 · Lipids · 19 steps

A whale swimming in polar water between ice floes, with a cut-away section showing the thick layer of fat under its skin
A whale swimming in polar water between ice floes, with a cut-away section showing the thick layer of fat under its skin

Here is a whale in polar water. Under its skin is a layer of fat as thick as your arm.

The water around it is near freezing, and the whale swims through it for months, sometimes without eating. The layer of fat is what makes both possible.

Unit 1 · Chemistry of Life

1Three fatty acids on a glycerol

2

Video: Watch: Building a fat

Three fatty acids joined to a glycerol by dehydration synthesis, and the two jobs a fat does: a store of energy, and a layer under the skin that slows heat escaping.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L12B.mp4

3

Here is a fat. Three fatty acids are joined to one small three-carbon molecule.

Three fatty-acid tails joined to a three-carbon glycerol
Three fatty-acid tails joined to a three-carbon glycerol
4

That three-carbon molecule is called .

5

Each fatty acid is joined to the glycerol by dehydration synthesis, the same reaction that joins two sugar units: one water molecule leaves at each join.

The same fat with each of the three joins to the glycerol ringed; one water molecule leaves at each join
The same fat with each of the three joins to the glycerol ringed; one water molecule leaves at each join
6

There are three joins, so three water molecules leave when a fat is built.

7

What you are expected to know You can now say what a fat is built from: three fatty acids, each joined by dehydration synthesis to one small three-carbon glycerol, with one water molecule leaving at each join.

8
Check q1

Here is a fat.

Three long hydrocarbon tails, each beginning with a carbon double-bonded to an oxygen and joined through a second oxygen to one carbon of a three-carbon chain
Three long hydrocarbon tails, each beginning with a carbon double-bonded to an oxygen and joined through a second oxygen to one carbon of a three-carbon chain

What is a fat made of?

  1. A. Three fatty acids joined to one another end to end
    The three tails are not joined to one another; each is joined to a separate carbon of the small three-carbon molecule at the left of the drawing.
  2. B. A chain of sugar units joined by dehydration synthesis
    A chain of sugar units is a polysaccharide; a fat is built from fatty acids and glycerol, not sugar units.
  3. C. ✓ Three fatty acids joined to one glycerol
  4. D. Three glycerols joined to one fatty acid
    The numbers are swapped: one small glycerol carries the three fatty acids, as the drawing shows.

Why: A fat is three fatty acids, each joined by dehydration synthesis to one small three-carbon glycerol.

9Two jobs for a fat

10

A fat is a store of energy. That energy comes out the same way as the energy in a sugar: the cell reacts the fat with oxygen, the products hold less energy than the fat and oxygen did, and the difference is released.

11

You’ve also seen that, gram for gram, a fat gives more than twice the energy a sugar gives. An animal that goes a long time without eating lives on stored fat: a whale on its months-long migration, and a bear through the winter.

12

In some mammals, a fat has a second job. A thick layer of fat under the skin slows heat escaping from the body.

A body in cold water with a fat layer under its skin, and one without: fewer heat arrows escape through the fat
A body in cold water with a fat layer under its skin, and one without: fewer heat arrows escape through the fat
13

That is insulation. Heat made inside the body escapes more slowly through the fat layer, so the body stays warm in cold water.

14

So the whale’s blubber does two jobs:

  1. It is a store of energy, which the whale lives on when it is not eating.
  2. It is a layer under the skin that slows heat escaping into the near-freezing water.

15

What you are expected to know Fats do two jobs: they store energy, which comes out when the fat reacts with oxygen, and in some mammals a layer of fat under the skin slows heat escaping from the body.

16
Check q2

Two seals of the same size swim in the same icy water. One has a thick layer of blubber under its skin; the other, after a long illness, has only a very thin layer.

What does the blubber do for the first seal?

  1. A. ✓ The blubber slows heat escaping from the seal’s body into the water
  2. B. The blubber keeps the seal’s skin dry by pushing water away
    The blubber lies under the skin, where water never reaches it.
  3. C. The blubber steadies the seal’s temperature with a high specific heat capacity
    Fat needs far less energy than water to warm up, so it has no high specific heat capacity.
  4. D. The blubber reacts with oxygen at the skin to make heat there
    A layer of fat under the skin does not make heat.

Why: A layer of fat under the skin insulates: it slows the escape of heat from the body.
The seal without it loses heat much faster, which is exactly what the thin seal shows.

17
Check q3

A bear lives for months of winter on the fat it stored in the fall.

Why does fat suit a long fast better than the same mass of sugar?

  1. A. Fat insulates the bear, and insulation powers its body
    Insulation slows heat escaping; it supplies no energy.
  2. B. Sugar is used up faster than fat while the bear sleeps
    How quickly each is used is not the difference; how much energy each releases for the mass stored is.
  3. C. Fat holds its energy in its bonds, and breaking them releases it
    Energy is not held in bonds and released by breaking them; it is released when the fat reacts and stronger bonds form.
  4. D. ✓ Fat releases more than twice as much energy per gram when it reacts with oxygen

Why: Gram for gram, a fat reacting with oxygen releases more than twice the energy a sugar gives, so the same store of energy has less mass as fat.

18

A whale swims for months without eating and stays warm in near-freezing water because its blubber does both jobs: it is a store of energy, and it is a layer under the skin that slows heat escaping.

Glossary

glycerol
A small three-carbon molecule. A fat is three fatty acids joined to one glycerol.

APBIO-U01-L12C Steroids and hormones

Topic 1.5 · Lipids · 27 steps

Cholesterol on the left and testosterone on the right, each drawn as four carbon rings joined edge to edge
Cholesterol on the left and testosterone on the right, each drawn as four carbon rings joined edge to edge

Here are two molecules drawn side by side: cholesterol on the left, testosterone on the right.

Both molecules are built on the same four rings of carbon atoms. Cholesterol is found in every animal. Testosterone is made in one part of the body and carried in the blood to tell muscle and bone elsewhere to grow.

Unit 1 · Chemistry of Life

1A steroid

2

Video: Watch: Steroids and hormones

A lipid built from four carbon rings with no long tail, cholesterol and testosterone, and why many steroids, but not all, are hormones.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L12C.mp4

3

Here is another lipid, drawn beside a fatty acid. Four rings of carbon atoms joined edge to edge: compact, with no long tail.

A fatty acid with its long tail beside a steroid: four carbon rings joined edge to edge, with no long tail
A fatty acid with its long tail beside a steroid: four carbon rings joined edge to edge, with no long tail
4

Three of the rings have six carbon atoms each. The fourth ring has five, so it is drawn as a pentagon.

The four rings of a steroid with the number of carbon atoms written in each: six, six, six and five
The four rings of a steroid with the number of carbon atoms written in each: six, six, six and five
5

A lipid built like this is called a .

6

is a steroid. So is testosterone. Both steroids are built on the same four rings.

Cholesterol and testosterone drawn side by side, each as the same four carbon rings joined edge to edge
Cholesterol and testosterone drawn side by side, each as the same four carbon rings joined edge to edge
7

A steroid is a lipid for the same reason every lipid is: it is almost all carbon and hydrogen, so water has almost nothing on it to pull on, and it is hydrophobic.

8

What you are expected to know Identify a steroid in a drawing as a compact lipid built from four carbon rings joined edge to edge, three of six carbons and one of five, with no long tail.

9
Check q1

Here are four molecules, numbered 1 to 4.

Four molecules numbered 1 to 4
Four molecules numbered 1 to 4

Which of them is a steroid?

  1. A. molecule 1
    Molecule 1 is a long hydrocarbon tail with a small group at one end, which is a fatty acid, and a steroid has no long tail.
  2. B. molecule 2
    Molecule 2 is one ring on its own, and a steroid is four carbon rings joined edge to edge.
  3. C. ✓ molecule 3
  4. D. molecule 4
    Molecule 4 is three rings joined by bonds between them, not rings sharing their edges.

Why: A steroid is a compact lipid built from four carbon rings joined edge to edge, with no long tail.
Molecule 3 is the only one built that way.

10
Check q2

A fat and a steroid are both lipids, and water excludes both.

Which feature tells the steroid apart from the fat?

  1. A. three fatty-acid tails joined to one small glycerol
    Three fatty acids on a glycerol is what a fat is, and a steroid has no tails at all.
  2. B. ✓ four carbon rings joined edge to edge, with no long tail
  3. C. a carboxyl group at the end of one long tail
    A carboxyl group at the end of one long tail describes a fatty acid, the building block of a fat; a steroid has no long tail.
  4. D. being hydrophobic, so that water excludes it
    Both molecules are hydrophobic, so that cannot tell them apart.

Why: A steroid is a compact lipid built from four carbon rings joined edge to edge, with no long tail.
A fat is three fatty-acid tails on a glycerol.
A steroid and a fat are both hydrophobic, so only the shape tells them apart.

11Many steroids are hormones

12

Testosterone is made in one part of the body and carried in the blood to other parts. Cells in muscle and bone respond to it by growing.

A gland releases testosterone into the blood, and cells in muscle and bone elsewhere respond by growing
A gland releases testosterone into the blood, and cells in muscle and bone elsewhere respond by growing
13

A chemical signal like that, made in one part of the body to change what happens somewhere else, is called a .

14

Testosterone and estrogen are steroid hormones. They drive growth and development, including the changes of puberty.

15

Cortisol is a steroid hormone that raises the level of glucose in the blood when the body needs fuel: it controls the glucose supply.

16

Aldosterone is a steroid hormone that tells the kidneys to keep salt. That keeps the body’s internal conditions steady: homeostasis.

17

Many steroids act as hormones. Not all of them do.

18

Nor is every hormone a steroid. The body makes hormones of other kinds too; what makes a substance a hormone is its job as a signal, not what it is built from.

19

What you are expected to know Many steroids act as hormones: chemical signals made in one part of the body that change what happens elsewhere, in growth and development, the body’s glucose supply and homeostasis.

20
Check q3

A person’s adrenal glands stop releasing their steroid hormones. The level of glucose in their blood swings wildly, and so does their salt balance.

Which jobs of steroid hormones have been lost?

  1. A. storing energy and slowing the escape of heat from the body
    Storing energy and insulating are the jobs of a fat, not of a steroid hormone, which is a signal.
  2. B. driving growth and the changes of puberty
    Growth and puberty are the jobs of testosterone and estrogen.
    The swings in blood glucose and salt show that cortisol and aldosterone are the hormones lost.
  3. C. storing glucose in the liver and releasing it between meals
    Storing glucose is the job of glycogen, the liver’s glucose store; a steroid hormone does not store glucose.
  4. D. ✓ controlling the glucose supply and the salt balance

Why: Cortisol raises the level of glucose in the blood when the body needs fuel, and aldosterone tells the kidneys to keep salt, keeping the conditions inside the body steady.
Without those steroid hormones, the body cannot keep its blood glucose or its salt balance steady.

21
Check q4

A gland in the neck releases a substance into the blood. Cells in the leg bones respond to it by growing faster.

What kind of substance is it?

  1. A. ✓ a hormone: a signal made in one place, acting in another
  2. B. a fat: a store of energy the bones burn to grow
    A fat stores energy; it does not carry a message from one part of the body to another.
  3. C. a steroid: every signal carried in the blood is one
    Many hormones are not steroids; being a steroid is what a molecule is built like, not what makes it a signal.
  4. D. a polysaccharide: a store of glucose for the bones to use
    A polysaccharide is a chain of sugar units used for storage or strength, not a signal.

Why: A substance made in one part of the body that travels to another part and changes what the cells there do is a hormone, whatever it is built from.

22

Cholesterol and testosterone are both steroids: four carbon rings joined edge to edge, with no long tail. Testosterone is also a hormone: it is made in one place and tells muscle and bone elsewhere to grow.

23Mixed practice mixed practice

24
Check q5

The model below shows a molecule taken from a cell.

A molecule drawn as four carbon rings joined edge to edge, with no long tail
A molecule drawn as four carbon rings joined edge to edge, with no long tail

What kind of molecule is it?

  1. A. ✓ A steroid
  2. B. A fat
    A fat is three long tails on a glycerol, and this molecule has no tails.
  3. C. A fatty acid
    A fatty acid is one long tail with a carboxyl group at one end, and this molecule has rings and no tail.
  4. D. A polysaccharide
    A polysaccharide is a chain of sugar units, not four rings sharing their edges.

Why: A compact lipid built from four carbon rings joined edge to edge, with no long tail, is a steroid.

25
Check q6

Testosterone, cortisol and aldosterone are all hormones.

Which statement describes a hormone?

  1. A. A hormone is a layer of fat under the skin that slows heat escaping from the body
    A layer of fat under the skin is insulation, a job of fat, and a hormone is a signal, not a layer.
  2. B. A hormone is a store of energy that a cell reacts with oxygen to release
    A store of energy is a food store; a hormone carries a message and is not burned for energy.
  3. C. A hormone is any steroid that is carried around the body in the blood
    Not every steroid in the blood is a hormone, and many hormones are not steroids at all.
  4. D. ✓ A hormone is a signal made in one part of the body that acts in another part

Why: A hormone is a chemical signal made in one part of the body and carried to another part, where it changes what the cells there do.

26
Check q7

A gland releases a steroid into the blood. Cells in a distant part of the body respond to it by changing what they do.

What makes this steroid a hormone?

  1. A. ✓ Its job as a signal, made in one place and acting in another
  2. B. Its four carbon rings, which every hormone has
    Many hormones have no rings at all.
  3. C. Being carried in the blood, which only hormones are
    Glucose and oxygen travel in the blood too and are not hormones.
  4. D. Being a lipid, since every lipid carries a message
    A fat is a lipid and carries no message.

Why: A substance is a hormone because of its job: it is made in one part of the body and changes what happens in another.
Being a steroid is what it is built from, not what makes it a hormone.

Glossary

steroid
A compact lipid built from four carbon rings joined edge to edge, with no long tail. Cholesterol and testosterone are steroids; many steroids act as hormones.
cholesterol
A steroid found in animals; four carbon rings joined edge to edge.
hormone
A chemical signal made in one part of the body that changes what happens in another part. Testosterone, estrogen and cortisol are steroid hormones.

APBIO-U01-L13 The membrane around every cell

Topic 1.5 · Lipids · 37 steps

A single cell with part of its boundary magnified into two rows of molecules, with water molecules above and below the two rows
A single cell with part of its boundary magnified into two rows of molecules, with water molecules above and below the two rows

Here is a single cell, with its boundary drawn close up: two rows of molecules, with water on both sides.

Every cell you have is wrapped in a boundary two molecules thick, and that boundary sits in water: watery fluid inside the cell and watery fluid outside it. What are these molecules, and why do they line up in two rows to make a boundary?

Unit 1 · Chemistry of Life

1The phospholipid: one molecule, two sides

2

Video: Watch: The membrane around every cell

One molecule with a charged head and two hydrocarbon tails, and why in water many of them line up into a two-sheet boundary.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L13.mp4

3
Check q1

Quick recall: a fat molecule.

How many fatty-acid tails does a fat have, and what are they joined to?

  1. A. Two tails, joined to one glycerol
    A fat has three fatty-acid tails, not two.
  2. B. ✓ Three tails, joined to one glycerol
  3. C. Three tails, joined to a phosphate group
    A fat has no phosphate group; its three tails are joined to glycerol.

Why: A fat is one glycerol with three fatty-acid tails joined to it.

4

Here is a molecule built the same way, but with two tails, not three. Where the third tail would be, the glycerol carries a head.

A phospholipid: a head made of another group joined through an oxygen to a phosphate group, in which a phosphorus atom is bonded to four oxygens and carries a full negative charge; below the phosphate is glycerol, a chain of three carbons, with the head on one end carbon and a hydrocarbon tail hanging down from each of the other two
A phospholipid: a head made of another group joined through an oxygen to a phosphate group, in which a phosphorus atom is bonded to four oxygens and carries a full negative charge; below the phosphate is glycerol, a chain of three carbons, with the head on one end carbon and a hydrocarbon tail hanging down from each of the other two
5

In the head is a phosphorus atom bonded to four oxygens. A group built like this is called a , because a phosphorus atom sits at its center.

6

The phosphate group carries a full negative charge, written −. Beyond it, the head often carries other charged or polar groups too.

7

A full charge is not the same as a partial charge. The phosphate group carries a full charge, −, as an ion does. A polar group carries only partial charges, δ+ and δ−.

8

A molecule built this way, two fatty-acid tails and a head containing a phosphate group on one glycerol, is called a : phospho for the phosphate group in its head, lipid because, like a fat, it is glycerol joined to fatty-acid tails.

9

Now put one phospholipid in water. Here is a water molecule again, with its charges marked: the oxygen is δ−, and each hydrogen is δ+.

A water molecule with its charges marked: the oxygen is slightly negative, marked delta minus; each hydrogen is slightly positive, marked delta plus
A water molecule with its charges marked: the oxygen is slightly negative, marked delta minus; each hydrogen is slightly positive, marked delta plus
10

Opposite charges attract. The head carries a full negative charge, −, so the δ+ hydrogens of nearby water molecules are attracted to it, and the water molecules are pulled toward the head.

A phospholipid in water. The head carries a full negative charge, marked minus. Water molecules near the head turn their delta-plus hydrogens toward it and are pulled toward it. Water molecules beside the tails have nothing to pull on and stay where they are
A phospholipid in water. The head carries a full negative charge, marked minus. Water molecules near the head turn their delta-plus hydrogens toward it and are pulled toward it. Water molecules beside the tails have nothing to pull on and stay where they are
11

Water’s partial charges pull on the other charged and polar groups in the head in the same way. So the head is attracted to water: it is hydrophilic.

12

The tails are hydrocarbon: carbon and hydrogen only. They carry no charge and no partial charge, so water’s δ+ and δ− have nothing to pull on there.

13

So the tails are not attracted to water: they are hydrophobic.

14

What you are expected to know You can now describe a phospholipid as two fatty-acid tails and a head containing a phosphate group, joined to one glycerol, and say which part water is attracted to and why.

15
Check q2

A single phospholipid is placed in water.

Which parts of it are attracted to the water?

  1. A. ✓ The head, and not the two tails
  2. B. The two tails, and not the head
    It has the two ends swapped: the tails are hydrocarbon and offer water nothing to pull on.
  3. C. The whole molecule, since it is sitting in water
    Sitting in water is not enough: water pulls only on charges and partial charges, and the hydrocarbon tails carry neither.
  4. D. No part of it, because every lipid is nonpolar
    A phospholipid is not built like a fat: its head carries a phosphate group with a full negative charge, and water is attracted to it.

Why: The head carries a phosphate group with a full negative charge, and often other charged or polar groups, so the δ+ hydrogens of water are attracted to it: the head is hydrophilic.
The hydrocarbon tails carry no charge or partial charge, so water has nothing to pull on there.

16
Check q3

A phospholipid has a head, a glycerol and two tails.

Which part of it carries a full negative charge?

  1. A. the glycerol
    Glycerol is a small three-carbon molecule with no full charge.
  2. B. the hydrocarbon tails
    Hydrocarbon tails carry no charge and no partial charge at all.
  3. C. ✓ the phosphate group
  4. D. every polar group in the head
    Polar is not the same as charged: a polar group carries only partial charges.

Why: The phosphate group, a phosphorus atom bonded to four oxygens, carries a full negative charge.
Other groups on the head may be charged or only polar; the tails carry neither.

17

In the commonest phospholipid heads, the group beyond the phosphate contains nitrogen. So a phospholipid is built from carbon, hydrogen, oxygen and phosphorus, and usually nitrogen too.

18Why phospholipids build a bilayer

19

Now drop a great many phospholipids into water at once. Water pulls on every head and on none of the tails.

20

The phospholipids line up side by side in a sheet: every head in the water above, every pair of tails hanging down below it.

A single sheet of phospholipids in water: the heads face the water above, but the tails underneath still touch water; the underside is marked with a dashed box
A single sheet of phospholipids in water: the heads face the water above, but the tails underneath still touch water; the underside is marked with a dashed box
21

Look at the underside of the sheet. The tails there are touching water.

22

The tails are hydrophobic. Water has nothing to pull on along them, so the water molecules stay attracted to one another and exclude the tails.

23

So a single sheet cannot last: its underside is hydrophobic tails in water.

24

There is one arrangement that fixes this. A second sheet lays its tails against the first sheet’s tails.

A first sheet of phospholipids with its tails hanging down, and a second sheet below it, tails up, moving up so that its tails lie against the first sheet's tails; arrows at each side point up
A first sheet of phospholipids with its tails hanging down, and a second sheet below it, tails up, moving up so that its tails lie against the first sheet's tails; arrows at each side point up
25

Now every tail is tucked inside, between the two sheets, touching only other tails. Every head faces water, above or below.

Two sheets of phospholipids laid tail to tail in water: heads face the water on both sides, and every tail is inside
Two sheets of phospholipids laid tail to tail in water: heads face the water on both sides, and every tail is inside
26

When two sheets of phospholipids lie tail to tail like this, we call the pair a : bi because it is two layers of lipid molecules.

27

Every cell has a boundary that controls what enters and leaves it. That boundary is a lipid bilayer like this one, with watery fluid on both sides of it.

28

Biologists call the boundary around a cell its . It is also called the cell membrane; the two names mean the same boundary. The other membranes inside a cell are lipid bilayers too.

29

What you are expected to know You can now explain why many phospholipids in water line up as two sheets laid tail to tail. The heads are hydrophilic, so they face the water. The tails are hydrophobic, so a single sheet, with its underside tails in water, cannot last. A second sheet lays its tails against the first sheet’s tails, so every tail is tucked away from the water.

30
Check q4

Here is a lipid bilayer in water.

A lipid bilayer with water molecules above it and below it
A lipid bilayer with water molecules above it and below it

Which part of it touches the water?

  1. A. the tails on both faces
    Water pulls on heads, not tails, so the tails end up inside, away from the water.
  2. B. ✓ the heads on both faces
  3. C. the heads on one face and the tails on the other
    A single sheet cannot last: its underside tails are hydrophobic tails in water, so a second sheet lays its tails against them.
  4. D. nothing; the bilayer keeps water off entirely
    Water pulls on the heads, and the heads on both faces sit in the water.

Why: Water pulls on the charged and polar heads and not on the tails.
In a bilayer the heads face the water on both faces, and every tail is inside, away from water.

31
Check q5

The heads are removed from every phospholipid in a sample, leaving only glycerol and the tails, and the sample is put back into water.

What happens?

  1. A. A bilayer forms exactly as before, because the tails were doing all the work
    A bilayer forms only because water pulls on the heads; with no heads, nothing holds a sheet in place.
  2. B. The molecules spread out and dissolve evenly all through the water
    The tails offer water nothing to pull on, so the water molecules stay attracted to one another and exclude them; a hydrocarbon does not dissolve.
  3. C. The tails still line up in two sheets, tail to tail
    It is water pulling on the heads that lines the molecules up in sheets; without heads there is nothing to face the water.
  4. D. ✓ No bilayer: with no charged head for water to hold, the tails gather into a drop

Why: A bilayer forms because water pulls on the heads while the tails are excluded.
Remove the heads and only exclusion is left: the tails are pushed together into a drop, as oil is in a pan.

32

A phospholipid is two fatty-acid tails and a head with a phosphate group, on one glycerol.

33

Phospholipids in water form a bilayer.

34

The heads are hydrophilic, so they face the water.

35

The tails are hydrophobic, so they are tucked inside.

36

This bilayer is the boundary of every cell: the cell membrane.

Glossary

phosphate group
A phosphorus atom bonded to four oxygens. In a phospholipid it sits in the head and carries a full negative charge.
phospholipid
A lipid made of two fatty-acid tails and a head containing a phosphate group, joined to one glycerol. Water is attracted to the charged and polar head and not to the hydrocarbon tails.
lipid bilayer
Two sheets of phospholipids laid tail to tail, heads facing the water on both sides and every tail inside. Cell membranes are lipid bilayers.
plasma membrane
The boundary around a cell, also called the cell membrane: a lipid bilayer that controls what enters and leaves the cell.

APBIO-U01-L13B Cholesterol, cold water and the membrane

Topic 1.5 · Lipids · 40 steps

A fish swimming in icy water; one of its cells; and part of that cell's boundary magnified into two rows of molecules with small ringed molecules wedged among the tails
A fish swimming in icy water; one of its cells; and part of that cell's boundary magnified into two rows of molecules with small ringed molecules wedged among the tails

Here is a fish in near-freezing water, one of its cells, and that cell’s boundary drawn close up: a lipid bilayer, with a few smaller molecules wedged among its tails.

The fish’s cells go on working in the cold, so the lipids of every membrane must keep sliding past one another. A membrane whose lipids set stiff, as olive oil does in a refrigerator, can no longer control what enters and leaves the cell. What are the smaller molecules among the tails, and what stops the membrane setting stiff in icy water?

Unit 1 · Chemistry of Life

1Cholesterol in the membrane

2

Video: Watch: Cholesterol, cold water and the membrane

Cholesterol wedged among the tails, what cooling does to the tails, and why a cold-water fish’s membranes keep sliding.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L13B.mp4

3

Cholesterol is a steroid: four carbon rings joined edge to edge, with no long tail.

Cholesterol: four carbon rings joined edge to edge, three six-sided and one five-sided, with no long tail
Cholesterol: four carbon rings joined edge to edge, three six-sided and one five-sided, with no long tail
4

Cholesterol is a steroid that is not a hormone. It carries no signal from one part of the body to another.

5

In an animal cell, cholesterol sits inside the membrane, wedged among the phospholipid tails.

A lipid bilayer with cholesterol molecules, drawn as four small rings, sitting among the tails
A lipid bilayer with cholesterol molecules, drawn as four small rings, sitting among the tails
6

It sits there because most of it is nonpolar. Its four rings, like the tails, have no charge or partial charge for water to pull on, so they stay in the part of the membrane that water does not reach.

7

Cholesterol does carry one polar group, an –OH. That group is attracted to water, so it sits at the edge of the tails, beside the phospholipid heads.

8

Wedged there, it steadies the membrane. Animal cells whose membranes have had their cholesterol removed keep complete bilayers, but those membranes come apart more easily.

9

What you are expected to know You can now say that cholesterol is a steroid that is not a hormone, that it sits among the phospholipid tails of an animal cell membrane because most of it is nonpolar, and that it steadies the membrane.

10
Check q1

Two batches of animal cells are compared. Cholesterol has been removed from the membranes of one batch. Both batches still have complete phospholipid bilayers.

What difference is expected?

  1. A. The stripped cells’ tails lose their kinks
    Phospholipids build the bilayer, not cholesterol, and both batches still have complete bilayers.
  2. B. The stripped cells can no longer store energy
    Storing energy is the job of a fat, not of cholesterol.
  3. C. ✓ The stripped cells have less stable membranes
  4. D. The stripped cells can no longer build phospholipids
    Cholesterol sits among the phospholipid tails; it plays no part in making phospholipids.

Why: Cholesterol sits among the phospholipid tails and steadies an animal cell membrane.
Take it out and the bilayer is still complete, but the membrane comes apart more easily.

11
Check q2

Cholesterol is a steroid.

Is it a hormone?

  1. A. ✓ No: it steadies animal cell membranes
  2. B. Yes: every steroid is a hormone
    Many steroids are hormones but not all are, and cholesterol is one that is not.
  3. C. Yes: it signals the body’s cells to grow
    Signaling cells to grow is testosterone’s job, and cholesterol carries no signal at all.
  4. D. No: no steroid is ever a hormone
    Many steroids are hormones: testosterone, cortisol and aldosterone are all steroids; cholesterol is a steroid that happens not to be one.

Why: Cholesterol is a steroid that is not a hormone.
Instead of carrying a signal, it sits among the phospholipid tails of an animal cell membrane and steadies the membrane.

12Heat and cold in the membrane

13

The tails of a phospholipid are fatty-acid tails, so what is true of the tails of a fat is true of a membrane too.

14

Here are the two kinds of tail again. A saturated tail has only single bonds between its carbons and runs straight. A double bond puts a kink in a tail.

Two fatty-acid tails drawn as lines. Left: a saturated tail, single bonds only, running straight. Right: a tail with one double bond, drawn as a double line, where the tail bends into a kink
Two fatty-acid tails drawn as lines. Left: a saturated tail, single bonds only, running straight. Right: a tail with one double bond, drawn as a double line, where the tail bends into a kink
15

Straight tails can lie close against their neighbors along their whole length, so the weak attractions between them add up. Kinked tails cannot lie close, so the attractions between them are weaker.

16

Now warm a membrane or cool it. In warm water the tails move more and lie apart, so the attractions between them are weak and the molecules slide past one another: the membrane is liquid.

The same straight-tailed phospholipids in warm water, spaced apart and moving, and in cold water, packed close with attractions marked between the tails
The same straight-tailed phospholipids in warm water, spaced apart and moving, and in cold water, packed close with attractions marked between the tails
17

In cold water the tails move less and settle closer together, so the attractions between them add up and the molecules stop sliding past one another: the membrane lipids set stiff, the way olive oil thickens in a refrigerator.

18

Kinks limit how close the tails can get. Add a double bond to a membrane’s tails and follow the chain: more kinks, so the tails pack loosely, so the attractions between them are weaker, so the molecules keep sliding past one another. The membrane stays liquid at a lower temperature.

Five linked steps: double bonds, kinks, tails pack loosely, weaker attractions, tails slide past one another so the membrane stays liquid
Five linked steps: double bonds, kinks, tails pack loosely, weaker attractions, tails slide past one another so the membrane stays liquid
19

What you are expected to know You can now say what cooling does to the tails of a membrane. Cooled tails move less and settle closer, so the attractions between them add up. With the attractions added up, the molecules stop sliding past one another. You can also say that kinks limit how close the tails can get, so more double bonds keep a membrane liquid at a lower temperature.

20
Check q3

A phospholipid bilayer is measured at 37 °C and then at 5 °C. Nothing about its molecules has changed.

What happens to the bilayer at 5 °C, and why?

  1. A. Its molecules slide past one another more freely, because cooling slows the tails down
    Slower tails settle closer together and their attractions add up, so the molecules slide past one another less freely, not more.
  2. B. Nothing changes, because the number of double bonds in its tails has not changed at all
    Temperature changes how the tails pack even when the molecules stay the same.
  3. C. Its tails straighten out, because cooling takes the double bonds out of them
    Cooling adds or removes no bonds; the molecules are unchanged.
  4. D. ✓ Its tails move less and sit closer, so the attractions between them are stronger and they stop sliding freely

Why: Cooling makes the tails move less, so they settle closer against one another.
The attractions between them add up and the molecules stop sliding past one another freely: the bilayer sets stiffer, even though not one double bond has changed.

21The fish in cold water

22

Here is the chain at work, one step at a time. A fish that lives in warm water is moved into cold water.

23

Step 1: the fish’s membrane tails have few double bonds, so most of them are straight.

24

Step 2: in the cold, the tails move less and settle closer together.

The same straight-tailed phospholipids in warm water, spaced apart and moving, and in cold water, packed close with attractions marked between the tails
The same straight-tailed phospholipids in warm water, spaced apart and moving, and in cold water, packed close with attractions marked between the tails
25

Step 3: straight tails lie close along their whole length, so the weak attractions between them add up.

26

Step 4: held by those attractions, the molecules stop sliding past one another. The membrane lipids set stiff.

27

A fish that lives in near-freezing water is built differently: its membrane tails have more double bonds than the warm-water fish’s.

28

Now write your own. A cold-water fish’s membrane lipids keep sliding past one another in the cold. Explain why, step by step. Write one short sentence per step of your reasoning.

29

A model answer: more double bonds put more kinks in the tails. Kinked tails cannot lie close against their neighbors, so the attractions between tails are weaker and the molecules slide past one another, even when cooling slows them. The membrane stays liquid.

30

What you are expected to know You can now predict and justify what a change in the number of double bonds in fatty-acid tails, or a change in temperature, does to a fat or a bilayer: whether its molecules slide past one another (liquid) or hold one another in place (set stiff or solid). Give the steps: double bond, kink, how closely the tails pack, how strongly they attract.

31
Check q4

Three fats have tails of equal length with one, two and three double bonds per tail. At 20 °C the one-bond fat is a thick liquid that pours slowly, and the three-bond fat is a thin, runny liquid.

What is the two-bond fat most likely like at 20 °C?

  1. A. a hard solid
    Every extra kink makes packing worse, so the two-bond fat packs worse than the one-bond fat, not better.
  2. B. ✓ between the two in thickness
  3. C. exactly the same as the three-bond fat
    One kink is not a complete block: each extra kink holds the tails further apart.
  4. D. the same as the one-bond fat
    Kinks do not cancel; each one adds to how far apart the tails are held.

Why: Each double bond adds a kink, each kink makes the tails pack worse, and worse packing means weaker attractions between tails, so the molecules slide past one another more freely.
Two double bonds per tail sits between the one-bond and three-bond results.

32
Check q5

Bacteria moved into a colder tank build membrane phospholipids whose tails have more double bonds than before.

Why does that help the bacteria?

  1. A. ✓ The extra kinks stop the cooled tails from packing closely, so the molecules keep sliding
  2. B. The extra double bonds let the tails pack more tightly, so the membrane holds together in the cold
    A double bond kinks the tail, and kinked tails cannot lie close against their neighbors, so double bonds make packing worse, not tighter.
  3. C. Double bonds make the tails polar, so water pulls on them and keeps the membrane liquid
    A double bond between two carbons is nonpolar; the tails stay hydrocarbon and water still has nothing to pull on.
  4. D. Double bonds make the tails longer, so they reach further across the membrane and hold it together
    A double bond adds no carbons; it puts a kink in the tail.

Why: Cooling packs straight tails closer, so the molecules stop sliding past one another and the membrane sets stiff.
Extra double bonds add kinks, kinked tails cannot lie close against their neighbors, so the attractions between tails stay weak and the molecules keep sliding in the cold.

33

Cholesterol sits among the phospholipid tails of an animal cell membrane and steadies it.

34

Cooling packs straight tails closer, so the attractions between them add up and the lipids stop sliding: the membrane sets stiff.

35

Double bonds put kinks in the tails; kinks keep the tails apart, so the lipids keep sliding in the cold.

36

A cold-water fish has more double bonds in its membrane tails, so its membranes keep sliding in icy water.

37

A cold-water fish’s membranes keep working in near-freezing water for two reasons: kinked tails keep its membrane lipids sliding, and cholesterol steadies the bilayer.

38Mixed practice mixed practice

39
Practice writing an answer

Two cooking fats sit on a kitchen counter at 22 °C. Butter, whose fatty-acid tails are mostly saturated, is a soft solid. Olive oil, whose tails mostly carry one double bond each, is a liquid. Both fats are then put in a refrigerator at 4 °C.

(a) Describe the difference in shape between a saturated tail and a tail with one double bond. (1 pt)

Frame A saturated tail has … and runs …; a double bond …

Model answer A saturated tail has only single bonds between its carbons and runs straight.
A double bond puts a kink in the tail at that point.
Rubric
  • Award 1 point for: a saturated tail runs straight, and a double bond puts a kink (bend) in the tail.
  • Accept: ‘bend’ for kink.
  • Do not award: ‘the unsaturated tail has fewer hydrogens’ with no bend, or a double bond described as making the tail shorter or longer.

Slip Describing the double bond only by the missing hydrogens. What matters for the fat is the shape: the double bond bends the tail.

(b) Explain why the olive oil is a liquid at 22 °C while the butter is a solid. (1 pt)

Model answer The olive oil’s kinked tails cannot lie close against their neighbors.
So the attractions between its tails are weak, and the molecules slide past one another: a liquid.
The butter’s straight tails pack close together.
So the attractions between them add up and hold the molecules in place: a solid.
Rubric
  • Award 1 point for: kinked tails cannot pack close, so the attractions between tails are weaker and the molecules slide past one another, while straight tails pack close and their attractions add up.
  • Accept: the olive-oil half alone (kink, poor packing, weaker attraction, molecules slide) earns the point.
  • Do not award: ‘double bonds are weaker bonds’, or ‘double bonds hold more energy’.

Slip Saying the double bonds themselves are weak or break easily. Nothing breaks; the kinks keep the tails apart, so the attractions between whole tails are weaker.

(c) Determine how easily the olive oil pours after a night in the refrigerator compared with how it poured at room temperature, and state the reasoning from its tails that your decision rests on. (1 pt)

Model answer The olive oil pours less easily than it did at room temperature: it has thickened and may be partly solid.
Cooling slows the tails, so they settle closer together.
The attractions between them add up, and the molecules slide past one another less freely.
The kinks still keep the tails from packing as closely as the butter’s, so it stays softer than butter.
Rubric
  • Award 1 point for the decision AND the reasoning it rests on: the oil thickens (turns partly solid), because cooling slows the tails so they settle closer and the attractions between them add up.
  • Accept: ‘it thickens’, ‘it starts to set’ or ‘it stays liquid but gets thicker’ with the packing reason; noting that the kinks keep it softer than butter is a good addition.
  • Do not award: ‘nothing changes because the double bonds are still there’, or ‘the cold removes the double bonds’.

Slip Predicting no change because the tails still have their double bonds. Temperature changes how closely the tails pack even when the molecules stay the same: cooling packs the tails closer.

APBIO-U01-P15 Practice questions: Topic 1.5

Topic 1.5 · Lipids · 10 MCQ · 2 FRQ · for APBIO-U01-T15

Answer every question. For each multiple-choice question choose one answer 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. Use a hint if you are stuck, then open the full-credit answer and score your own work against it.

Video: Watch first: Lipids, summed up

What water pulls on and what it excludes, straight and kinked tails, fats, steroids and the phospholipid bilayer.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-T15-summary.mp4

Q1 P15-q01

A duck spreads oil from a gland near its tail over its feathers. Rain beads up on the oiled feathers and rolls off. In a separate test, a pinch of table salt dropped into a glass of water disappears into the water within a minute.

How should the duck’s oil and the salt be classified?

  1. A. ✓ The oil is hydrophobic and a lipid; the salt is hydrophilic
  2. B. The oil is hydrophilic and a lipid; the salt is hydrophobic
    Water beads up on the oil instead of mixing in, which is hydrophobic, and the salt disappears into the water, which is hydrophilic.
  3. C. The oil is hydrophobic and the salt is hydrophobic; only the salt is a lipid
    The salt mixes into the water and stays mixed, so it is hydrophilic, and it is not one of the fats, oils or waxes.
  4. D. The oil and the salt are both hydrophilic; the oil beads up because it is light
    A hydrophilic substance mixes in, and water refuses to mix with the oil and rolls off it.

Why: A substance that will not stay mixed with water is hydrophobic; one that water is attracted to and mixes with is hydrophilic.
The oil is hydrophobic, and as an oil from a living thing it is a lipid.
The salt mixes in, so it is hydrophilic.

Q2 P15-q02

A student says: “Water dissolves a substance only when it can hydrogen-bond to it.” Yet table salt, which is made of ions and has no hydrogen to offer, dissolves in water.

Which statement explains how the salt dissolves?

  1. A. The ions form hydrogen bonds to the water, so the student is right
    A hydrogen bond needs a δ+ hydrogen bonded to an oxygen or nitrogen, and the ions have none.
  2. B. ✓ Water’s partial charges pull on the ions’ full charges, so no hydrogen bond is needed
  3. C. The ions have no charge, and uncharged particles slip between the water molecules
    Each ion carries a full charge, and that is exactly what water’s partial charges pull on.
  4. D. Water breaks the ions into smaller pieces that carry partial charges
    Water does not break the ions; it pulls the whole ions apart from one another.

Why: Water’s partial charges pull on any charge or partial charge.
The ions of table salt carry full charges, so water’s δ− oxygens and δ+ hydrogens are pulled toward them and the salt dissolves, with no hydrogen bond to the ions at all.

Q3 P15-q03

Candle wax is a hydrocarbon: long chains of carbon and hydrogen atoms and nothing else. Drops of melted wax that fall into a bowl of water set as solid beads and stay separate from the water.

Why does the water exclude the wax?

  1. A. The wax carries a full charge along its chains, and water’s partial charges push that charge away
    A hydrocarbon carries no full charge and no partial charge; that is exactly why water has nothing to pull on.
  2. B. The C–H bonds of the wax are polar, so the wax molecules are attracted to one another far more strongly than they are to water
    Carbon and hydrogen pull shared electrons about equally, so C–H bonds are nonpolar and the chain has no partial charges.
  3. C. The wax is too heavy for the water molecules to lift into the liquid, so it stays as beads on the surface
    Mass has nothing to do with it: water pulls on charges and partial charges, and the wax offers neither.
  4. D. ✓ The wax has no charge or partial charge for water to pull on, so the water molecules stay attracted to one another and exclude it

Why: A C–H bond is nonpolar, so a hydrocarbon carries no partial charges and no full charges.
Water’s partial charges pull on any charge or partial charge, and a nonpolar group offers none, so the water molecules stay attracted to one another and exclude the wax.

Q4 P15-q04

Two fatty acids are compared. Each fatty acid has a carboxyl group, –COOH, at one end. One has a tail of 4 carbons; the other has a tail of 18 carbons.

Which fatty acid is more strongly hydrophobic, and why?

  1. A. The 4-carbon one, because a shorter chain is excluded from water more easily than a long one
    What decides the behavior is how much of the molecule is nonpolar tail, and 18 carbons of tail is far more than 4.
  2. B. Neither; both carry a polar carboxyl group, so both mix into water completely and stay mixed
    One small polar group does not decide for the whole molecule: water pulls on the carboxyl group, but a long hydrocarbon tail gives it nothing to pull on.
  3. C. ✓ The 18-carbon one, because a larger share of the molecule is nonpolar tail with nothing for water to pull on
  4. D. Both equally, because each has exactly one carboxyl group and that group decides the behavior
    The tails differ, and the tail is the hydrophobic part.

Why: A fatty acid is a long hydrocarbon tail with a carboxyl group at one end.
Water pulls on the polar carboxyl group, but along the tail water has nothing to pull on.
The longer the tail, the more hydrophobic the molecule, so the 18-carbon fatty acid is more strongly hydrophobic.

Q5 P15-q05

The drawing shows models of three fatty acids, each with a 14-carbon tail. Each corner of a zigzag is a carbon atom, and a double stroke marks a double bond.

Models of three fatty acids, each with a 14-carbon tail. Each corner of a zigzag is one carbon atom; a double stroke marks a double bond.
Models of three fatty acids, each with a 14-carbon tail. Each corner of a zigzag is one carbon atom; a double stroke marks a double bond.

Which statement about the three tails is correct?

  1. A. Tail 1 is unsaturated, because a zigzag is a chain of kinks
    The zigzag is just how a straight chain of single bonds is drawn: tail 1 has no double bonds and runs straight, so it is saturated.
  2. B. ✓ Tail 2 has one double bond and tail 3 has three double bonds, so both are unsaturated
  3. C. Tail 2 is saturated, because a single double bond is not enough to make a fatty acid unsaturated
    A fatty acid with even one double bond is unsaturated, and the tail kinks at that point.
  4. D. Tail 3 is saturated, because its three double bonds hold the tail straight
    A double bond does the opposite: it kinks the tail, and tail 3 bends at each of its three.

Why: A saturated fatty acid has only single bonds, so its tail runs straight, as in tail 1.
Each double bond, drawn as a double stroke, kinks the tail and makes the fatty acid unsaturated.
So tail 2, with one double bond, and tail 3, with three, are unsaturated.

Q6 P15-q06

Two hydrocarbon waxes are compared at 20 °C. Wax P is made of straight chains about 30 carbons long and is a hard solid. Wax Q is made of straight chains about 10 carbons long and is a runny liquid. Both waxes have single bonds only.

Why is the long-chain wax solid while the short-chain wax is liquid?

  1. A. The long chains are heavier, so they sink and settle together as a solid
    Mass on its own does not hold molecules together; a heavy molecule whose neighbors barely attract it still flows as a liquid.
  2. B. ✓ The long chains lie against neighbors along more of their length, so the weak attractions between them add up
  3. C. The long chains have more covalent bonds, and those bonds hold neighboring molecules together
    Covalent bonds join the carbons and hydrogens within one wax molecule; no covalent bond joins one wax molecule to the next.
  4. D. The long chains are more polar, because every extra C–H bond adds to the molecule’s partial charge
    Carbon and hydrogen pull on shared electrons about equally, so a C–H bond is nonpolar and adding more of them gives the molecule no partial charge.

Why: Any two molecules attract weakly when they lie close, and more strongly the more of their length is in contact.
A 30-carbon chain lying against its neighbors has far more length in contact than a 10-carbon chain, so the attractions add up and the long-chain wax is solid.

Q7 P15-q07

Sunflower oil has about two double bonds in each fatty-acid tail. Palm oil has about one double bond in every two tails. Both oils are compared at 20 °C.

Which of the two is more likely to be liquid at 20 °C, and why?

  1. A. Palm oil, because fewer double bonds let its tails move more freely
    Single bonds let a tail run straight, and straight tails line up and attract one another into a solid; kinks are what keep a lipid liquid.
  2. B. Both the same, because a double bond changes the mass of a tail by very little
    Mass is not what matters; shape is.
  3. C. ✓ Sunflower oil, because each double bond kinks a tail, and kinked tails cannot line up and attract strongly
  4. D. Sunflower oil, because double bonds make its tails polar and water keeps them apart
    A double bond between two carbons is nonpolar; the tails stay hydrocarbon.

Why: Each double bond kinks a tail, and kinked tails line up and attract one another less.
Sunflower oil, with about two double bonds per tail, has many more kinks than palm oil.
So its tails attract one another less, and it stays liquid at 20 °C.

Q8 P15-q08

A jar of coconut oil is a white solid in a pantry at 20 °C. On a hot afternoon at 30 °C the same jar is a clear liquid.

Why did the oil become liquid?

  1. A. ✓ Warming made the tails move more, so they pulled apart and slid past one another
  2. B. Warming added double bonds to the tails, so the tails kinked
    Warming adds or removes no bonds; it makes the tails move more so they no longer pack closely.
  3. C. Warming broke the fatty acids off the glycerol, so the fat could flow
    Warming to 30 °C breaks no covalent bonds; the fatty acids stay joined to the glycerol, and the whole fat molecules simply move more and slide past one another.
  4. D. Warming made the tails polar, so water in the air pulled them apart
    The tails stay hydrocarbon and gain no partial charges.

Why: Cooling a lipid slows its tails so they pack closer and the molecules stop sliding past one another freely; warming does the reverse.
At 30 °C the tails move more, pull apart and slide past one another, so the oil is liquid, with not one bond changed.

Q9 P15-q09

A camel’s hump is a store of fat, not water. A student writes: “The camel gets its energy from the hump when the bonds in the fat break, releasing the energy stored in them.”

Which statement corrects the student?

  1. A. ✓ The energy is released when the fat reacts with oxygen and new, stronger bonds form, so the products hold less energy
  2. B. The hump holds no usable energy; fat only insulates, and the camel’s energy comes from the sugar in its food
    Fat stores energy, more than twice as much per gram as sugar, and a camel’s hump is exactly such a store.
  3. C. The energy is released when hydrolysis splits the fat into glycerol and fatty acids
    Hydrolysis only frees the fatty acids from the glycerol; usable energy comes out later, when they react with oxygen.
  4. D. The student is right: breaking any bond releases the energy stored in it, and fat has many bonds
    Breaking a bond on its own takes energy in.

Why: Breaking a bond takes energy in.
When a fat reacts with oxygen, the new bonds formed in carbon dioxide and water are stronger than the bonds broken, so the products hold less energy than the fat and oxygen did, and that difference is the energy the camel uses.

Q10 P15-q10

Estrogen is a molecule of four carbon rings joined edge to edge with no long tail. It is made in the ovaries, travels in the blood and changes what cells in the uterus do. Cholesterol has the same four-ring frame and sits among the tails of animal cell membranes.

Which statement about the two molecules is correct?

  1. A. Estrogen and cholesterol are both steroid hormones, since every steroid carries a signal
    Not every steroid carries a signal: cholesterol steadies the membrane it sits in.
  2. B. ✓ Estrogen and cholesterol are both steroids; estrogen is a hormone and cholesterol is not
  3. C. Only estrogen is a steroid; cholesterol is a fat
    Cholesterol has the four-ring frame with no long tails, which is a steroid, not three fatty acids on a glycerol.
  4. D. Only cholesterol is a steroid; estrogen is a hormone, so it is a different kind of molecule
    Hormone and steroid are not exclusive: a steroid is what a molecule is built like, a hormone is what it does as a signal, and estrogen is both.

Why: A steroid is a compact lipid built from four carbon rings joined edge to edge, so both molecules are steroids.
A hormone is a signal made in one part of the body that acts elsewhere: estrogen’s job.
Cholesterol is a steroid that is not a hormone; it steadies animal cell membranes.

FRQ 1 P15-frq1 · Conceptual Analysis scaffolded

A reindeer stands in snow for months, and the fat in its lower legs, near the hooves, stays at about 0 °C while the fat in its body core stays near 38 °C. The fatty-acid tails in the leg fat contain many more double bonds than the tails in the core fat. The leg fat stays soft in the cold.

(a) Describe what a double bond does to the shape of a fatty-acid tail. (1 pt)

Frame At a double bond the tail …; a tail with single bonds only …

Hint Picture a saturated tail beside an unsaturated one.

Model answer At a double bond the tail kinks and runs on at an angle; a tail with single bonds only runs straight.
Rubric
  • Award 1 point for: a double bond puts a kink (bend) in the tail, and a tail with only single bonds runs straight.
  • Accept: ‘bend’ for kink.
  • Do not award: a double bond described only as ‘fewer hydrogens’, or as making the tail shorter.

Slip Describing the double bond only by the hydrogens it removes. What matters for the fat is the shape: the double bond bends the tail.

(b) Describe how straight tails pack together compared with kinked tails. (1 pt)

Frame Straight tails lie …, whereas kinked tails …

Hint Picture many tails side by side and ask how close each can get to its neighbors.

Model answer Straight tails lie close against one another along their whole length, whereas kinked tails cannot lie close against their neighbors, so they are held further apart.
Rubric
  • Award 1 point for: straight tails pack close along their length; kinked tails cannot pack closely.
  • Accept: ‘the kinks hold the tails apart’.
  • Do not award: kinked tails packing more tightly, or no difference in packing.

Slip Having kinks lock the tails together like hooks. A kink stops a tail lying flat against its neighbor, so kinked tails pack worse, not better.

(c) Explain why a fat whose tails have more double bonds stays liquid at a lower temperature. (1 pt)

Frame Because kinked tails cannot lie close, the weak attractions between them are …, so the molecules …

Hint What does the strength of the attraction between two tails depend on?

Model answer Any two tails attract weakly when they lie close, and more strongly the more of their length is in contact.
Because kinked tails cannot lie close, the weak attractions between them are weaker, so the molecules slide past one another instead of being held in place, and the fat stays liquid down to a lower temperature.
Rubric
  • Award 1 point for: kinked tails cannot lie close, so the attractions between tails are weaker and the molecules slide past one another (the fat stays liquid).
  • Accept: the packing step and the attraction step in either order, provided both appear.
  • Do not award: ‘double bonds are weaker bonds’, or ‘double bonds hold more energy’.

Slip Saying the double bonds themselves are weak or break easily. Nothing breaks; the kinks keep whole tails apart, so the attractions between tails are weaker.

(d) Predict what would happen to the fat near the hooves at 0 °C if it were built like the core fat, with few double bonds. (1 pt)

Frame At 0 °C that fat would …

Hint Look back at (b) and (c): what do straight tails do that kinked tails cannot?

Model answer At 0 °C that fat would set hard instead of staying soft, so the reindeer’s lower legs would stiffen.
Rubric
  • Award 1 point for: the fat would set hard (become solid, its molecules held in place) at 0 °C.
  • Accept: ‘it would be solid’ or ‘it would go hard like the core fat’.
  • Do not award: it would stay soft, or it would melt.

Slip Predicting no change because the temperature is the same for both fats. The temperature is the same; the tails are different, and straight tails set hard in the cold.

(e) A third sample of fat, from the reindeer’s neck, sits at about 20 °C in the animal and is soft at that temperature, but it sets hard when cooled to 0 °C. Determine whether its tails have more or fewer double bonds than the leg fat’s tails, and state the reasoning your decision rests on. (1 pt)

Frame The neck fat’s tails have … double bonds than the leg fat’s, because a fat that sets hard at 0 °C must have tails that …

Hint What does a fat that sets hard at 0 °C tell you about its tails?

Model answer The neck fat’s tails have fewer double bonds than the leg fat’s.
A fat that sets hard at 0 °C must have tails that pack closely and attract one another strongly once cooling slows them.
Close packing needs straighter tails with fewer kinks, so fewer double bonds.
The leg fat stays soft at 0 °C because its many kinks keep its tails apart even when cold.
Rubric
  • Award 1 point for the decision AND the reasoning it rests on: fewer double bonds than the leg fat, because setting hard at 0 °C means the tails pack closely and attract strongly, which needs straighter tails with fewer kinks.
  • Accept: ‘fewer kinks, so the tails can lock together at 0 °C, which the leg fat’s tails cannot’.
  • Do not award: more double bonds than the leg fat, or fewer with no reasoning from packing or attraction.

Slip Deciding from where the fat sits in the body instead of from what it does at 0 °C. Setting hard when cold means the tails can pack and hold one another, and that takes straight tails.

FRQ 2 P15-frq2 · Analyze Model or Visual Representation

The model shows two lipid molecules. Molecule 1 has three fatty-acid tails joined to a small three-carbon molecule. Molecule 2 has two fatty-acid tails and a head, containing a phosphate group marked P, joined to the same kind of three-carbon molecule. One of molecule 2’s tails bends where a double stroke is drawn.

Two lipid molecules. Molecule 1 has three tails on a small three-carbon molecule. Molecule 2 has two tails and a head, marked P for its phosphate group, on the same kind of three-carbon molecule; one of its tails bends where marked by a double stroke.
Two lipid molecules. Molecule 1 has three tails on a small three-carbon molecule. Molecule 2 has two tails and a head, marked P for its phosphate group, on the same kind of three-carbon molecule; one of its tails bends where marked by a double stroke.

(a) Identify whether each of molecule 1 and molecule 2 is a fat or a phospholipid, and name the small three-carbon molecule they share. (1 pt)

Frame Molecule 1 is a …, molecule 2 is a …, and both are built on …

Model answer Molecule 1 is a fat, molecule 2 is a phospholipid, and both are built on glycerol.
Rubric
  • Award 1 point for: fat, phospholipid, glycerol.
  • Do not award: the two molecules swapped, or a steroid named for either.

Slip Calling molecule 2 a fat with a missing tail. The head with its phosphate group is what makes it a phospholipid.

(b) Explain why the head of molecule 2 is hydrophilic but the tails of both molecules are hydrophobic. (1 pt)

Model answer The phosphate group in the head carries a full negative charge, and the head often carries other charged or polar groups too, so water’s partial charges pull on it: the head is hydrophilic.
The tails are hydrocarbon, with nonpolar C–H bonds and no charge or partial charge, so water has nothing to pull on and is not attracted to them: the tails are hydrophobic.
Rubric
  • Award 1 point for: the head’s phosphate group carries a full charge (and polar groups), which water’s partial charges pull on, so the head is hydrophilic; the hydrocarbon tails carry no charge or partial charge, so water is not attracted to them and they are hydrophobic.
  • Accept: ‘the head is charged and polar, the tails are nonpolar’ with water’s partial charges as the reason.
  • Do not award: the head described as polar with partial charges only, or the tails described as repelled by a charge.

Slip Describing the phosphate group as carrying partial charges. It carries a full negative charge, as an ion does; a polar group carries partial charges only.

(c) Many copies of each molecule are stirred into separate beakers of water. Predict how each kind of molecule arranges itself, and justify each prediction. (1 pt)

Model answer Molecules of the fat gather into oily droplets or a layer, because no part of a fat has a charge or partial charge for water to pull on, so water excludes the whole molecule.
The phospholipids line up as a lipid bilayer, two sheets laid tail to tail with heads facing the water on both sides, because water pulls on the heads and not the tails, and a double sheet keeps every tail away from the water.
Rubric
  • Award 1 point for: fats gather into droplets or a layer because water excludes the whole molecule; phospholipids form a bilayer (two sheets tail to tail, heads out) because water pulls on the heads but not the tails.
  • Accept: ‘a single sheet would leave tails touching water, so two sheets form’ as the bilayer reason.
  • Accept: a single-layered ball with heads out and tails packed inside, provided the reason is that every tail is kept from the water.
  • Do not award: a bilayer of fat molecules, or phospholipids spread evenly through the water.

Slip Drawing the phospholipids as a single sheet. A single sheet leaves the tails on its underside touching water; two sheets laid tail to tail keep every tail dry.

(d) Explain where the usable energy comes from when an animal’s cells break down a stored fat. (1 pt)

Model answer The energy comes out when the fat reacts with oxygen: the new bonds formed in carbon dioxide and water are stronger than the bonds broken, so the products hold less energy than the fat and oxygen did, and that difference is released for the cell to use.
Breaking bonds on its own takes energy in; hydrolysis of the fat into glycerol and fatty acids frees them but releases no usable energy.
Rubric
  • Award 1 point for: energy is released in the reaction with oxygen because the new bonds formed are stronger than the bonds broken, leaving the products lower in energy.
  • Accept: ‘the products hold less energy than the starting molecules; the difference is released’.
  • Do not award: ‘energy stored in the bonds is released when they break’, or hydrolysis named as the energy-releasing step.

Slip Placing the energy in the fat’s bonds and releasing it by breaking them. Breaking a bond takes energy in; the release comes from the new, stronger bonds that form.

APBIO-U01-T15 End-of-topic test: Lipids

Topic 1.5 · Lipids · 18 MCQ · 2 FRQ

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.

Q1 T15-q01

A student scrapes the waxy coating off a holly leaf and shakes the flakes hard in a tube of water. After a minute the wax has gathered into its own layer at the top, leaving clear water below. In a second tube, a spoonful of table sugar shaken into water disappears into it.

How should the wax and the sugar be classified?

  1. A. ✓ Wax hydrophobic and a lipid; sugar hydrophilic
  2. B. Wax hydrophilic and a lipid; sugar hydrophobic
    The wax separated into its own layer, which is what hydrophobic means, and the sugar mixed in, which is hydrophilic.
  3. C. Both hydrophobic; only the wax is a lipid
    The sugar disappeared into the water, so water is attracted to it: that is hydrophilic, not hydrophobic.
  4. D. Both hydrophilic; the wax floats because it is light
    Floating shows only that the wax is less dense than water; what matters is that the wax would not stay mixed, which is hydrophobic.

Why: A substance that will not stay mixed with water and gathers into its own layer is hydrophobic, and the hydrophobic fats, oils and waxes of living things are grouped together as lipids.
A substance that water is attracted to and that mixes in, like sugar, is hydrophilic.

Q2 T15-q02

Two molecules are about the same size. Molecule A is a chain of carbon atoms with an –OH group on almost every carbon. Molecule B is a chain built only from carbon and hydrogen atoms.

Which molecule mixes into water, and why?

  1. A. B: with no charges it squeezes between water molecules
    Water’s partial charges have nothing to pull on in an uncharged chain, so the water molecules stay attracted to one another and push the chain out.
  2. B. ✓ A: its –OH groups carry partial charges water pulls on
  3. C. Both: water dissolves anything this small
    Size is not what decides it: water needs a charge or partial charge to pull on, and a chain of only carbon and hydrogen offers none.
  4. D. Neither: chains this long cannot dissolve
    Length does not decide mixing: water pulls on the partial charges of A’s many –OH groups however long the chain is, so A mixes in.

Why: Each O–H bond is polar, so the –OH groups carry partial charges.
Water’s own partial charges pull on those, so A mixes in.
The C–H bonds of B are nonpolar, so B carries no charge or partial charge.
So the water molecules stay attracted to one another and exclude B.

Q3 T15-q03

Four substances are stirred into separate beakers of water. Substance W is made of ions, each carrying a full charge. Substance X is a hydrocarbon: a chain of carbon and hydrogen atoms only. Substance Y is a small molecule with several polar O–H bonds. Substance Z is a 16-carbon chain of carbon and hydrogen with a single –OH group at one end.

Which substances separate into their own layer instead of mixing in?

  1. A. X only
    Z is nearly all hydrocarbon: one small –OH group at the end of a 16-carbon chain is not enough for water to pull on, so Z separates out.
  2. B. W and X
    Water's partial charges pull on full charges as well as on partial ones, so the ions of W are pulled apart and mixed in.
  3. C. ✓ X and Z
  4. D. W, X and Z
    W is made of ions with full charges, and water's partial charges pull hard on full charges, so W mixes in.

Why: Water’s partial charges pull on any charge or partial charge.
W (full charges) and Y (partial charges on several O–H bonds) are pulled in and mix.
X has no charge anywhere, so water excludes it.
Z is nearly all hydrocarbon, so it separates out too.

Q4 T15-q04

The figure shows a fatty acid. Region X is the small group at one end; region Y is the rest of the molecule.

A fatty acid. X marks the small group at one end; Y marks the rest of the molecule.
A fatty acid. X marks the small group at one end; Y marks the rest of the molecule.

What is region X, and how does the whole molecule behave in water?

  1. A. A carboxyl group; hydrophilic overall
    Region X, though polar, is one small group on a chain of 16 or more carbons, and the nonpolar tail is most of the molecule.
  2. B. A phosphate group; hydrophilic overall
    A phosphate group is a phosphorus atom bonded to four oxygens, and region X is a carbon bonded to two oxygens, one carrying a hydrogen: a carboxyl group, –COOH.
  3. C. A hydrocarbon; mostly hydrophobic
    The hydrocarbon is region Y, the long chain; region X has oxygen atoms in it.
  4. D. ✓ A carboxyl group; mostly hydrophobic

Why: A fatty acid is a long hydrocarbon tail (Y) with a carboxyl group, –COOH, at one end (X).
The carboxyl group is polar, but the nonpolar tail is most of the molecule, so a fatty acid behaves mostly as hydrophobic.

Q5 T15-q05

The figure shows models of two fatty-acid tails, each 18 carbons long. Tail P runs straight. Tail Q bends, and a double stroke is drawn across the chain at each bend.

Two 18-carbon fatty-acid tails, P and Q.
Two 18-carbon fatty-acid tails, P and Q.

What do the double strokes show about tail Q: how many carbon–carbon double bonds does it contain, and is it saturated or unsaturated?

  1. A. None; saturated
    A tail with only single bonds runs straight, like P, and Q bends twice.
  2. B. One; unsaturated
    One double bond gives one kink, and Q has two bends.
  3. C. ✓ Two; unsaturated
  4. D. Two; saturated
    Saturated means every carbon–carbon bond in the tail is a single bond, and Q has two double bonds.

Why: In a fatty-acid tail, a double bond between two carbons, drawn as a double stroke, kinks the chain there.
Q bends twice, so it has two double bonds, and any tail with at least one double bond is unsaturated.
P, with only single bonds, runs straight and is saturated.

Q6 T15-q06

Two long, straight hydrocarbon tails lie side by side, touching along their whole length. Both tails are nonpolar, built from carbon and hydrogen only.

What attraction, if any, is there between the two tails?

  1. A. None: attraction needs a charge
    Any two molecules attract one another weakly when they lie close together, even with no charge or partial charge on either.
  2. B. ✓ A weak attraction along their length
  3. C. A hydrogen bond between the two tails
    A hydrogen bond needs a δ+ hydrogen bonded to oxygen or nitrogen and a δ− oxygen or nitrogen to pull on it, and a hydrocarbon tail has neither.
  4. D. A strong attraction like that between ions
    Ions carry full charges and pull on one another strongly, while these tails carry no charge at all.

Why: Any two molecules attract one another weakly when they lie close, and more strongly the more of their length is in contact.
Two straight tails touching along their whole length attract weakly all the way along, which is what lets straight-tailed lipids pack into a solid.

Q7 T15-q07

Butter is solid on a kitchen counter. Olive oil is liquid beside it, at the same temperature. Fish oil stays liquid even in near-freezing seawater.

How many double bonds do the fatty-acid tails of each most likely contain, compared with one another?

  1. A. ✓ Butter the fewest, fish oil the most
  2. B. Butter the most, fish oil the fewest
    A double bond puts a kink in a tail; kinked tails cannot line up and attract as strongly, so a fat with more double bonds stays liquid when colder.
  3. C. About the same; the tails differ in length
    The everyday difference between these three fats comes from double bonds, not length.
  4. D. Only fish oil has any double bonds
    Olive oil is liquid at room temperature, so its tails must carry kinks, and kinks come from double bonds.

Why: Each double bond adds a kink.
Straight tails line up and attract along their length, so the fat stays solid.
More double bonds means more kinks, weaker attraction, and a fat that is liquid at a lower temperature.
Butter has the fewest, olive oil more, and fish oil the most.

Q8 T15-q08

A manufacturer bubbles hydrogen gas through a liquid vegetable oil. Afterwards most of the double bonds in its tails have become single bonds, and the product is a solid that can be spread with a knife.

Why did the oil become solid?

  1. A. The tails are now polar and hydrogen bond
    The tails are still made of carbon and hydrogen only, so they are still nonpolar; adding hydrogen gives them no partial charges.
  2. B. The added hydrogen atoms made the molecules heavier
    A few extra hydrogen atoms add almost nothing to the mass, and mass is not what decides whether a lipid is solid.
  3. C. ✓ The tails lost their kinks and now pack closely
  4. D. The tails became shorter and stiffer
    Turning a double bond into a single bond removes no carbon atoms, so the tails are the same length.

Why: Removing a double bond removes the kink at that point.
Straight tails can lie close against their neighbors along their whole length, so the weak attractions between them add up and the molecules are hard to pull apart: the lipid is solid.

Q9 T15-q09

Three fats were left for an hour at each of three temperatures, and each was recorded as solid, soft or liquid. The table below shows the results, with the number of double bonds per tail in each fat.

Three fats left for an hour at each of three temperatures, and the state of each.
Three fats left for an hour at each of three temperatures, and the state of each.

What explains the pattern in these results?

  1. A. Cooling removes double bonds from the tails, so at low temperature every fat straightens, lines up and sets solid
    Cooling does not change the bonds in a molecule: Fat B keeps its one double bond and one kink per tail at every temperature.
  2. B. ✓ Cooling slows the tails so they settle closer; kinks stop them lining up, so the more kinks, the colder it must be before the fat sets
  3. C. Warming breaks the fatty acids off the glycerol, so a fat flows once its molecules have been split into smaller pieces
    The fatty acids stay joined to the glycerol at every temperature here; nothing is split when a fat melts, the whole molecules simply slide past one another.
  4. D. Fat C stays liquid at every temperature because its tails are shorter, and short tails have less length to attract along
    Length is not what differs between these fats; the table gives the number of double bonds per tail.

Why: Cooling slows the tails; they settle closer and their attractions add up, so the fat sets.
Kinks keep tails apart, so the more kinks, the colder a fat must be before it sets.
A has straight tails, B one kink per tail, C three: A sets first, C stays liquid.

Q10 T15-q10

A student writes: "A fat stores energy in its bonds. When a cell breaks those bonds, the energy stored in them is released for the cell to use."

Which statement corrects the student?

  1. A. The energy is released only when the fat's own C–H bonds are broken apart
    Breaking any bond, C–H included, takes energy in.
  2. B. Fat holds no usable energy; only sugars and starch do
    Fat is the cell's richest energy store, gram for gram; the student's mistake is about when the energy comes out, not whether fat has any.
  3. C. The student is right: energy comes out when bonds are broken
    Pulling two bonded atoms apart always takes energy in.
  4. D. ✓ Breaking bonds takes energy in; forming new, stronger bonds releases it

Why: Breaking a bond on its own takes energy in.
When a fat reacts with oxygen, the new bonds formed in carbon dioxide and water are stronger than the bonds broken, so the products hold less energy than the starting molecules did, and that difference is the energy released.

Q11 T15-q11

The model kit below has glycerol pieces, each a small three-carbon molecule, and fatty-acid pieces, each a long tail with a carboxyl group at one end.

The two kinds of piece in the kit: a glycerol piece (three carbons in a row) and a fatty-acid piece (a long hydrocarbon tail with a carboxyl group, COOH, at one end).
The two kinds of piece in the kit: a glycerol piece (three carbons in a row) and a fatty-acid piece (a long hydrocarbon tail with a carboxyl group, COOH, at one end).

Which assembly is a model of a fat?

  1. A. One fatty acid with three glycerols attached
    Glycerol is the small three-carbon backbone, and the three fatty acids hang from it, one on each carbon.
  2. B. One glycerol with two fatty acids attached
    Two fatty acids on a glycerol is the tail end of a phospholipid, which carries a phosphate-containing head on the third carbon.
  3. C. ✓ One glycerol with three fatty acids attached
  4. D. Three glycerols joined end to end, no fatty acids
    Glycerol on its own is not a lipid.

Why: A fat is three fatty acids joined to one glycerol, a small three-carbon molecule.
Fats store energy and, in some mammals, insulate the body.

Q12 T15-q12

A seal has a thick layer of fat, its blubber, under its skin. A second seal of the same size, recovering from illness, has lost most of that layer. Both swim in the same cold water, and the thin seal must eat far more to hold the same body temperature.

Why does the thin seal need more food?

  1. A. Fat makes heat directly; less fat, less heat
    A layer of fat under the skin does not make heat; it slows the escape of heat the body has already made.
  2. B. ✓ Heat escapes faster, so it burns more fuel to generate more heat
  3. C. Fat is the only fuel a seal can break down
    A seal can break down sugars as well as fat, and the thin seal is eating and using food.
  4. D. Without fat its cell membranes fall apart and waste energy
    Membranes are built from phospholipids and steadied by cholesterol, not from stored fat, so the thin seal's membranes are intact.

Why: In some mammals a layer of fat under the skin insulates: it slows the escape of body heat.
With most of its blubber gone, the thin seal loses heat faster and must break down more food to generate more heat.

Q13 T15-q13

The figure shows the carbon skeletons of four lipid molecules from an animal, numbered 1 to 4.

Carbon skeletons of four lipid molecules, numbered 1 to 4.
Carbon skeletons of four lipid molecules, numbered 1 to 4.

Which molecule is a steroid?

  1. A. ✓ Molecule 1
  2. B. Molecule 2
    Molecule 2 is a long zigzag chain with a –COOH group at one end and no rings: a fatty acid.
  3. C. Molecule 3
    Molecule 3 is three long tails joined to a small three-carbon glycerol: a fat.
  4. D. Molecule 4
    Molecule 4 is three rings joined by bonds between them, not rings sharing their edges.

Why: A steroid is a lipid built from four carbon rings joined edge to edge, with no long tails.
Molecule 1 has that frame.
Molecule 2 is a fatty acid and molecule 3 a fat: tails, not rings.
Molecule 4 is three separate rings joined by bonds, not rings sharing edges.

Q14 T15-q14

Cortisol is a steroid. It is made in the two glands that sit above the kidneys, travels in the blood, and acts on the liver and muscles, where it raises the level of sugar in the blood when the body needs fuel.

Going by what it does, what kind of molecule is cortisol?

  1. A. A fat: it stores energy for the body to use later
    A fat is three fatty acids on a glycerol and stores energy, while cortisol is a compact four-ring steroid whose job is to carry a message.
  2. B. A phospholipid: it builds the cell's membranes
    Cortisol has the four-ring frame of a steroid, not the head and two tails of a phospholipid, and it travels in the blood to act on other organs.
  3. C. A form of cholesterol: it is a steroid, and so not a hormone
    Cholesterol is a steroid that is not a hormone, but that does not make every steroid the same: cortisol is made in one place and changes what happens elsewhere.
  4. D. ✓ A hormone: a signal made in one place, acting elsewhere

Why: A hormone is a chemical signal made in one part of the body that changes what happens elsewhere.
Cortisol is made above the kidneys and acts on the liver and muscles, so it is a hormone.
Many steroids are hormones; cholesterol is one steroid that is not.

Q15 T15-q15

A single phospholipid is placed in water.

Which parts of the molecule are attracted to the water?

  1. A. ✓ The head; the two tails are not
  2. B. The two tails; the head is not
    The tails are hydrocarbon chains with no charges or partial charges, so water has nothing to pull on there.
  3. C. The whole molecule
    Only the head carries charged and polar groups; the two hydrocarbon tails offer water nothing to pull on, so they are hydrophobic.
  4. D. No part, because every lipid is nonpolar
    That is true of a fat, where no part attracts water, and a phospholipid is different.

Why: The head of a phospholipid contains a phosphate group with a full negative charge, and often other charged or polar groups too, so water is pulled toward it: the head is hydrophilic.
The two hydrocarbon tails carry no charges or partial charges and are hydrophobic.

Q16 T15-q16

The figure shows one phospholipid: the phosphate group (P) in the head, the glycerol, and the two fatty-acid tails.

One phospholipid, with its phosphate group, glycerol and two fatty-acid tails labeled. The double stroke on one tail marks a double bond.
One phospholipid, with its phosphate group, glycerol and two fatty-acid tails labeled. The double stroke on one tail marks a double bond.

What kind of charge does the phosphate group carry?

  1. A. Partial charges only, like an O–H bond
    A polar group carries partial charges only; the phosphate group has given up a hydrogen ion and carries a full negative charge, like an ion.
  2. B. ✓ A full negative charge
  3. C. No charge, like the tails
    The tails are hydrocarbon with no charge; the phosphate group carries a full negative charge.
  4. D. A full positive charge
    The phosphate group's full charge is negative, not positive.

Why: The phosphate group, a phosphorus atom bonded to four oxygens, carries a full negative charge.
The rest of the head often carries other charged or polar groups, so the whole head is charged or polar.
Charged means a full charge, like an ion; polar means partial charges only.

Q17 T15-q17

The heads are removed from every phospholipid in a sample, leaving only the pairs of hydrocarbon tails joined to glycerol, and the sample is stirred into water.

What happens?

  1. A. A bilayer forms as before
    A bilayer needs a head that water is attracted to and tails that it is not; with the heads gone there is nothing to face the water.
  2. B. The molecules spread out evenly through the water
    The tails are hydrocarbon, with no charge or partial charge for water to pull on, so water excludes them just as it excludes cooking oil.
  3. C. A single sheet forms, tails facing the water
    Tails never face the water: water is not attracted to them, so they are pushed together away from it; the heads that faced the water are gone.
  4. D. ✓ No bilayer; the tails gather into an oily clump

Why: Water is attracted to the charged and polar heads and not to the tails, so phospholipids line up as two sheets, heads out and tails tucked inside.
Take the heads away and only the hydrophobic tails are left.
Water excludes them and they gather together, like oil.

Q18 T15-q18

Cholesterol has the four-ring frame of a steroid. One batch of animal cells has had the cholesterol removed from its membranes.

Where in the membrane did the cholesterol sit, and what difference does removing it make?

  1. A. ✓ Among the phospholipid tails; the membranes are less stable
  2. B. Among the phospholipid heads; the cells can no longer signal
    Only cholesterol’s small –OH group sits by the heads; its four rings sit among the tails.
    Cholesterol is a steroid that is not a hormone, so it carries no signal.
  3. C. Among the phospholipid heads; the bilayers fall apart
    Only cholesterol’s small –OH group sits by the heads; its four rings sit among the tails.
    Cells with the cholesterol removed keep complete bilayers.
  4. D. In the watery inside of the cell; the cells store less energy
    Cholesterol’s four rings are nonpolar, so water excludes them from the watery inside of the cell.
    Energy storage is the job of fats, not cholesterol.

Why: Cholesterol is a steroid that is not a hormone.
Its four rings are nonpolar, so they sit among the phospholipid tails; its one polar group, an –OH, sits by the heads, next to the water.
Remove cholesterol and the bilayer still forms, but the membrane is less stable.

FRQ 1 T15-frq1 · Conceptual Analysis

Two closely related fish species are studied: one lives in a 4 °C ocean and one on a 28 °C reef. A reef fish is moved into 4 °C water.

(a) Describe the difference in structure between a saturated fatty-acid tail and an unsaturated one, and what that difference does to the shape of the tail. (1 pt)

Model answer A saturated tail has only single bonds between its carbons and runs straight; an unsaturated tail has at least one carbon–carbon double bond, which puts a kink in the tail at that point.
Rubric
  • Award 1 point for: a saturated tail has only single bonds between its carbons and runs straight; an unsaturated tail has at least one carbon–carbon double bond, which puts a kink (bend) in the tail at that point.
  • Accept: "a double bond bends the tail" without the word kink. Do not award the point for "unsaturated tails have fewer hydrogens" alone, with no mention of the double bond or the bend.

Slip Describing the unsaturated tail only as having fewer hydrogens. The point needs the double bond and the bend it puts in the tail.

(b) Explain why membrane lipids whose tails have more double bonds stay liquid down to a lower temperature. (1 pt)

Model answer Kinked tails cannot lie close against their neighbors, so the weak attractions between the tails do not add up, and the molecules keep sliding past one another as the temperature falls: the lipids stay liquid down to a lower temperature.
Rubric
  • Award 1 point for: kinked tails cannot lie close against their neighbors, so the weak attractions between the tails are weaker (or do not add up), and the molecules keep sliding past one another.
  • Accept: "the kinks keep the tails apart so they cannot pack tightly" as the packing step, provided it is linked to weaker attraction between tails or to the molecules moving more freely.

Slip Saying double bonds are weaker or break more easily. The bonds stay whole; the kinks keep the tails apart.

(c) Predict what happens to the membrane lipids of the reef fish in the first minutes after it is moved into 4 °C water. (1 pt)

Model answer The reef fish’s membrane lipids pack closer and stop sliding past one another freely: the membrane sets stiffer and more solid than it was in warm water.
Rubric
  • Award 1 point for: its membrane lipids pack more tightly and set stiffer (more solid, molecules no longer sliding freely) than they were in warm water.
  • Accept: 'the tails pack together' or 'the membrane becomes more solid'. Do not accept an answer that says the membrane melts or that nothing changes.

Slip Predicting no change because the fish’s molecules are the same. Cooling changes how closely the tails pack even when nothing about the molecules changes.

(d) Determine which species’ membrane phospholipids have fatty-acid tails with more double bonds, and state the reasoning your decision rests on. (1 pt)

Model answer The cold-water species.
Its membranes must keep their molecules sliding past one another at 4 °C.
Only kinked tails, which cannot lie close against their neighbors, keep the attractions between tails weak when cooling slows them.
Each double bond adds a kink, so the cold-water species needs more double bonds.
The reef fish’s tails can have few double bonds, because at 28 °C even straight tails move too fast to settle close together.
Rubric
  • Award 1 point for the decision AND the reasoning it rests on: the cold-water species, because more double bonds give more kinks, kinked tails cannot pack closely, so the attractions between them stay weak and the membrane lipids keep sliding past one another at 4 °C.
  • Accept: the reverse comparison (the reef fish's tails can be straighter because warm tails move too much to settle together).
  • Do not award: the cold-water species with no reasoning from kinks, packing or attraction.

Slip Naming the cold-water species with no chain of reasons. The point needs double bonds, kinks, packing and attraction linked to staying liquid in the cold.

FRQ 2 T15-frq2 · Analyze Model or Visual Representation

The model shows one phospholipid on the left, with its head (which contains a phosphate group, marked P), its glycerol, and its two fatty-acid tails; one tail bends where a double stroke is drawn. On the right is a cross-section of a lipid bilayer lying in water. Each water molecule is drawn with its partial charges: δ− on the oxygen and δ+ on each hydrogen.

Left: one phospholipid; one tail bends where a double stroke is drawn. Right: a cross-section of a lipid bilayer in water; δ− and δ+ mark the partial charges on each water molecule.
Left: one phospholipid; one tail bends where a double stroke is drawn. Right: a cross-section of a lipid bilayer in water; δ− and δ+ mark the partial charges on each water molecule.

(a) Identify which region of the phospholipid is hydrophilic and which is hydrophobic. (1 pt)

Model answer The head is hydrophilic: water is attracted to its charged phosphate group and polar glycerol.
The two fatty-acid tails are hydrophobic: they are hydrocarbon, so water is not attracted to them.
Rubric
  • Award 1 point for: the head is hydrophilic and the two fatty-acid tails are hydrophobic.
  • Accept: “charged or polar head, nonpolar tails”. Accept with or without the reason (water is attracted to the head and not to the tails).
  • Do not award the point for the head alone, for the tails alone, or for “the whole phospholipid is hydrophobic because it is a lipid”.

Slip Calling the whole phospholipid hydrophobic because it is a lipid. The head carries a phosphate group, and water is attracted to it; only the tails are hydrophobic.

(b) Use the water molecules in the model to explain why the phospholipids in the bilayer are arranged as the model shows. (1 pt)

Model answer Water’s partial charges pull on the charged and polar groups of each head, so the heads face the water.
The hydrocarbon tails offer water no charge or partial charge to pull on, so the water molecules stay attracted to one another and exclude the tails, which gather together away from water.
Two sheets laid tail to tail keep every tail away from water.
Rubric
  • Award 1 point for: the partial charges on water pull on the charged and polar groups of the head, so heads face the water; the hydrocarbon tails offer water no charge or partial charge to pull on, so the water molecules stay attracted to one another and exclude the tails, which gather together away from water; two sheets laid tail to tail keep every tail away from water.
  • Accept: "heads are attracted to water, tails are not, so the tails hide inside" provided the answer says why the head attracts water (its charged or polar groups pulled on by water's partial charges). Do not award the point for "like mixes with like" with no mention of charges.

Slip Writing ‘like mixes with like’ with no charges. The point needs water’s partial charges pulling on the heads and finding nothing to pull on in the tails.

(c) A tiny droplet of water sits inside oil, and a student adds phospholipids. Predict how the phospholipids arrange themselves around the droplet. (1 pt)

Model answer A single layer of phospholipids coats the droplet, heads pointing inward toward the water and tails pointing outward into the oil.
Rubric
  • Award 1 point for: a single layer of phospholipids coats the droplet with the heads pointing inward toward the water and the tails pointing outward into the oil.
  • Accept: any wording with heads to the water and tails to the oil. Do not award the point for a two-sheet bilayer around the droplet or for heads pointing into the oil.

Slip Predicting a bilayer around the droplet. With water inside and oil outside, one layer does the job: heads to the water, tails to the oil.

(d) Cholesterol, a steroid, is found in animal cell membranes. Predict where most of the cholesterol molecule sits in the membrane, and justify your prediction. (1 pt)

Model answer Most of the cholesterol molecule sits among the fatty-acid tails, away from the water.
Its four rings and short tail are hydrocarbon, with no charge or partial charge for water to pull on.
Water is not attracted to those parts, so they gather among the hydrocarbon tails, which water excludes in the same way.
Cholesterol’s one polar group, an –OH, is attracted to water, so it sits at the edge of the tails, beside the heads.
Rubric
  • Award 1 point for: the prediction that most of cholesterol sits among the fatty-acid tails, AND the reason: most of cholesterol (its rings) is nonpolar (hydrophobic), so water is not attracted to it; it therefore stays away from the water at the heads and sits among the hydrocarbon tails, which water excludes in the same way.
  • Accept: "hydrophobic, like the tails, so it gathers with them away from water", provided the answer says why (no charge or partial charge for water to pull on). Accept an answer that also places cholesterol’s –OH group beside the heads, next to the water.
  • Do not award the point for the prediction alone, for "because it is a steroid" with no reason from polarity or charge, for calling cholesterol a hormone, or for "it is attracted to the tails" with no mention of water.

Slip Answering ‘because it is a steroid’ or ‘it is attracted to the tails’. The reason is water: most of cholesterol has no charge or partial charge for water to pull on, so water excludes it, just as it excludes the tails.

APBIO-U01-L17 Inside one amino acid

Topic 1.7 · Proteins: Structure and Function · 41 steps

A strand of hair, a fingernail and a drop of blood
A strand of hair, a fingernail and a drop of blood

Here are a strand of hair, a fingernail and a drop of blood.

Unit 1 · Chemistry of Life

1

Hair and fingernails consist mostly of keratin. Keratin is a long chain of small units, and many of these chains wind together into a tough fiber.

2

Blood is red because of hemoglobin. Hemoglobin is a different long chain of the same kind of units, folded up into a compact shape, and it carries oxygen around your body.

3

Molecules that do jobs like these in a living thing are called proteins.

4

Every protein, whatever its job, is built from the same twenty kinds of small unit. What is inside one unit, and what makes the twenty different?

5Inside one unit

6

Video: Watch first: Proteins

Hair, blood and the twenty units every protein is built from.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-T17-intro.mp4

7

Video: Watch: Inside one amino acid

From one protein chain to one unit, and how water sorts its R groups into three kinds.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L17.mp4

8

Here is one protein chain. It is a long line of small units joined end to end.

One protein chain: a long line of small units joined end to end, with one unit marked
One protein chain: a long line of small units joined end to end, with one unit marked
9

Here is the marked unit, drawn large. At its center is a single carbon atom, and four things are covalently bonded to it.

One unit: a central carbon with four things bonded to it, written H, –NH₂, –COOH and R
One unit: a central carbon with four things bonded to it, written H, –NH₂, –COOH and R
10

Above the carbon sits one hydrogen atom.

11

On one side is –COOH, a carboxyl group: the same group as at the end of a fatty acid.

12

On the other side is a nitrogen bonded to two hydrogens, –NH₂. A group like this is called an .

13

The fourth thing, hanging below, is written R. It is called the . The letter R does not name one particular group: it represents whichever group this unit carries there, and you will see some examples in a moment.

The same unit with its groups named: a hydrogen atom, an amine group, a carboxyl group and the R group
The same unit with its groups named: a hydrogen atom, an amine group, a carboxyl group and the R group
14

Here are two of the twenty units side by side. In the left one, the R group is a single hydrogen atom. In the right one, it is –CH₃: a carbon with three hydrogens.

Two amino acids side by side, identical except at the R group: a hydrogen atom on the left, –CH₃ on the right
Two amino acids side by side, identical except at the R group: a hydrogen atom on the left, –CH₃ on the right
15

Carbon, hydrogen, amine group, carboxyl group: the same in both. Only the R group differs, and that is true of all twenty units.

16

Units like this are called because each one carries an amine group and a carboxylic acid group, the carboxyl group.

17
Check q1

Quick recall: a long chain built from repeating small units.

What is the whole chain called?

  1. A. A monomer
    Mono means one: a monomer is one single unit, not the chain of many units.
  2. B. ✓ A polymer

Why: A long chain built from repeating small units is a polymer, and each unit is a monomer.

18

Amino acids are the monomers of proteins.

19

What you are expected to know Find the central carbon of a drawn amino acid and name the four things bonded to it: a hydrogen atom, a carboxyl group (–COOH), an amine group (–NH₂) and the R group, the only part that differs.

20
Check q2

An amino acid is drawn below with its four groups labeled W, X, Y and Z.

An amino acid drawn with its four groups labelled W, X, Y and Z
An amino acid drawn with its four groups labelled W, X, Y and Z

Which label marks the amine group?

  1. A. W
    W is a single hydrogen atom.
  2. B. X
    X is the carboxyl group, –COOH.
  3. C. ✓ Y
  4. D. Z
    Z is the R group, the part that varies from one amino acid to the next.

Why: The amine group is a nitrogen bonded to two hydrogens, –NH₂.
In this drawing it sits at Y, on the right of the central carbon.

21
Check q3

Two different amino acids are compared part by part.

Which part differs between them?

  1. A. the amine group
    Every amino acid has the same amine group, –NH₂.
  2. B. the carboxyl group
    Every amino acid has the same carboxyl group, –COOH.
  3. C. the central carbon
    Every amino acid has the same single central carbon.
  4. D. ✓ the R group

Why: The hydrogen, the amine group and the carboxyl group are the same in all twenty amino acids.
The R group is the only part that differs.

22Three kinds of R group

23

There are twenty different R groups. Water sorts them into three kinds.

24

Start with the R group –CH₃: one carbon with three hydrogens. Its C–H bonds are nonpolar, so –CH₃ carries no partial charge and no full charge.

R group –CH₃: only C–H bonds, no partial charges; the water molecules stay with one another
R group –CH₃: only C–H bonds, no partial charges; the water molecules stay with one another
25

A water molecule has a δ− end and a δ+ end, but there is no charge or partial charge anywhere on –CH₃ for either end to be attracted to.

26

So the water molecules stay hydrogen-bonded to one another, and none of them is attracted to –CH₃. Water treats the tail of a fatty acid the same way.

27

In most of the twenty units the working end of the R group sits on a short carbon stalk: a carbon with two hydrogens, written –CH₂–. The stalk is nonpolar, like –CH₃; what the R group does is decided by the group at its end. That is why the examples that follow are written as the stalk and then the group at its end.

28

Now suppose the R group had an –OH on it instead. Swap –CH₃ for –CH₂–OH: a carbon, then a hydroxyl group.

R group –CH₂–OH: a carbon, then a hydroxyl group whose O–H bond is polar; a water molecule hydrogen-bonds to it
R group –CH₂–OH: a carbon, then a hydroxyl group whose O–H bond is polar; a water molecule hydrogen-bonds to it
29

The O–H bond is polar: the oxygen is δ− and the hydrogen δ+. Now there is a partial charge for water to be attracted to, and a water molecule hydrogen-bonds to the –OH.

30

Swap again, this time for –CH₂–COO⁻: a carbon, then a carboxyl group that has given up its hydrogen ion. It carries a full negative charge, and water’s δ+ hydrogens are pulled toward that charge.

R group –CH₂–COO⁻: a carbon, then a carboxyl group carrying a full negative charge; water's δ+ hydrogens are pulled toward it
R group –CH₂–COO⁻: a carbon, then a carboxyl group carrying a full negative charge; water's δ+ hydrogens are pulled toward it
31

Other R groups carry a full positive charge instead. In the amino acid lysine, the R group is a stalk of four carbons, –CH₂–CH₂–CH₂–CH₂–, ending in –NH₃⁺: an amine group that has taken on an extra hydrogen ion. Water’s δ− oxygens are pulled toward that charge.

Lysine’s R group, –CH₂–CH₂–CH₂–CH₂–NH₃⁺: a stalk of four carbons, then an amine group carrying a full positive charge; water is pulled toward the charge
Lysine’s R group, –CH₂–CH₂–CH₂–CH₂–NH₃⁺: a stalk of four carbons, then an amine group carrying a full positive charge; water is pulled toward the charge
32

One more swap, this time for the R group of the amino acid leucine: a carbon, then a carbon that carries two –CH₃ groups, written –CH₂–CH(CH₃)₂.

Leucine’s R group, –CH₂–CH(CH₃)₂: a carbon, then a carbon carrying two –CH₃ groups, every carbon with four bonds; still no partial charges, water still stays with water
Leucine’s R group, –CH₂–CH(CH₃)₂: a carbon, then a carbon carrying two –CH₃ groups, every carbon with four bonds; still no partial charges, water still stays with water
33

Longer and branched, but still only C–C and C–H bonds, so still no charge or partial charge. Water treats it just as it treated –CH₃: the water molecules stay with one another.

34

So there are three kinds of R group, and water treats each kind differently. The first two names are the ones used for oil and for sugar.

  1. Nonpolar R groups, such as –CH₃ and leucine’s –CH₂–CH(CH₃)₂. They are hydrophobic, because water does not attract them: they carry no charge or partial charge for water to pull on.
  2. Polar R groups, such as –CH₂–OH. They are hydrophilic, because water attracts them and forms hydrogen bonds with them.
  3. Charged R groups, such as –CH₂–COO⁻ and lysine’s –CH₂–CH₂–CH₂–CH₂–NH₃⁺, which carry a full negative or positive charge. Water pulls on them even more strongly. Some textbooks call these ionic R groups.

35

Note: a polar R group is not the same as a charged R group. A polar R group carries only partial charges, δ+ and δ−. A charged R group carries a full charge. Water is attracted to both, but more strongly to the full charge.

36

What you are expected to know Sort an R group by how water treats it: nonpolar and hydrophobic (no charge or partial charge, so water does not attract it), polar and hydrophilic (water hydrogen-bonds to it) or charged (a full positive or negative charge that water pulls on strongly).

37
Check q4

Two R groups are drawn below: –CH(CH₃)₂ on the left and –CH₂–OH on the right.

Two R groups drawn side by side: –CH(CH₃)₂ on the left and –CH₂–OH on the right
Two R groups drawn side by side: –CH(CH₃)₂ on the left and –CH₂–OH on the right

How does water treat each one?

  1. A. Both R groups are hydrophobic: water does not attract either.
    –CH₂–OH ends in a polar O–H bond, which water hydrogen-bonds to, so it is not hydrophobic.
  2. B. ✓ The first is hydrophobic; the second is hydrophilic.
  3. C. Both R groups are hydrophilic: water attracts both.
    –CH(CH₃)₂ has only C–C and C–H bonds and no partial charges, so water does not attract it.
  4. D. The first is hydrophilic; the second is hydrophobic.
    –CH(CH₃)₂ is the hydrophobic group and –CH₂–OH the hydrophilic one.

Why: –CH(CH₃)₂ has only nonpolar bonds and no partial charges, so water does not attract it: hydrophobic. –CH₂–OH ends in a polar O–H bond that water hydrogen-bonds to: hydrophilic.

38
Check q5

Two R groups are drawn below: –CH₂–COO⁻ on the left and –CH₂–OH on the right. Water is attracted to both.

Two R groups drawn side by side: –CH₂–COO⁻ on the left and –CH₂–OH on the right
Two R groups drawn side by side: –CH₂–COO⁻ on the left and –CH₂–OH on the right

Which of them is charged?

  1. A. ✓ –CH₂–COO⁻ only
  2. B. –CH₂–OH only
    The δ+ and δ− on the O–H bond of –CH₂–OH are partial charges, not a full charge.
  3. C. both of them
    A polar bond carries partial charges only, so –CH₂–OH is polar, not charged.
  4. D. neither of them
    –COO⁻ does carry a charge: the carboxyl group has given up its hydrogen ion and is left with a full negative charge.

Why: –COO⁻ carries a full negative charge, so it is charged. –OH carries partial charges only, δ− on the oxygen and δ+ on the hydrogen, so it is polar, not charged.

39
Check q6

One R group is drawn below, hanging from the central carbon of its amino acid.

One R group drawn hanging from the central carbon: a stalk of four –CH₂– carbons ending in –NH₃⁺
One R group drawn hanging from the central carbon: a stalk of four –CH₂– carbons ending in –NH₃⁺

Which kind of R group is it?

  1. A. hydrophobic: it is mostly carbon and hydrogen
    The group does not end in carbon and hydrogen: it ends in –NH₃⁺.
  2. B. polar: its N–H bonds carry partial charges
    The N–H bonds are not the whole story: the group also carries a full positive charge, and a full charge makes an R group charged rather than polar.
  3. C. ✓ charged: it carries a full positive charge
  4. D. hydrophobic: its full charge pushes water away
    A full charge does not push water away: water’s partial charges are pulled toward any full charge, positive or negative.

Why: The group ends in –NH₃⁺, which carries a full positive charge.
An R group with a full charge is charged, and water is pulled toward it.

40

Keratin and hemoglobin use the same twenty units; their R groups, sorted by water, are where the difference starts.

Glossary

amino acid
The small unit, or monomer, that proteins are built from: a central carbon bonded to a hydrogen atom, an amine group, a carboxyl group and an R group.
amine group
A nitrogen atom bonded to two hydrogen atoms, –NH₂; every amino acid has one on its central carbon.
R group
The part of an amino acid that differs from one amino acid to the next; water treats it as nonpolar (hydrophobic), polar (hydrophilic) or charged.

APBIO-U01-L18 From amino acids to a chain

Topic 1.7 · Proteins: Structure and Function · 37 steps

Two chains of twenty beads each, the same kinds of bead in a different order, labeled keratin and hemoglobin
Two chains of twenty beads each, the same kinds of bead in a different order, labeled keratin and hemoglobin

Here are two chains of beads. Both chains use the same beads; only the order differs.

Unit 1 · Chemistry of Life

1

The top chain represents keratin, the protein of hair. The bottom chain represents hemoglobin, the protein that carries oxygen in blood.

2

Both proteins are built from the same twenty amino acids. Yet they have totally different properties: one is a tough fiber, the other carries oxygen around the blood.

3

That is because, even though the two proteins are built from the same units, the units are joined in a different order, and the order decides what the protein can do.

4

So two questions. How does one amino acid join the next? And why does the order matter so much?

5Joining two amino acids

6

Video: Watch: From amino acids to a chain

How two amino acids join, what a polypeptide is, and why the order of its amino acids matters.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L18.mp4

7

Here are two amino acids side by side. The carboxyl group of the first faces the amine group of the second.

Two amino acids side by side: the carboxyl group of the first faces the amine group of the second
Two amino acids side by side: the carboxyl group of the first faces the amine group of the second
8
Check q1

Quick recall: two sugar units join by dehydration synthesis.

What leaves as the two units join?

  1. A. ✓ One water molecule: a whole –OH from one unit and an H from the other
  2. B. Two carbon atoms: one from each unit, lost as the bond between them forms
    No carbon leaves: every carbon stays in its unit, and what leaves is one water molecule.
  3. C. Nothing: the two units bond to each other, and every atom of both stays in the product
    Not every atom stays: an –OH and an H leave, together as one water molecule, and only then does the bond form.

Why: A whole –OH leaves one unit and an H leaves the other, and the two leave together as one water molecule.

9

The same count works here. The carboxyl group of the first amino acid gives up its whole –OH. The amine group of the second gives up one of its hydrogens, an H. Those pieces are one O and two H, and they leave as one water molecule, H₂O.

The first carboxyl group gives up its whole OH and the second amine group gives up one H; the two leave as one water molecule, and the carboxyl carbon will bond to the amine nitrogen. The drawing shows how the atoms line up, not how the cell does it
The first carboxyl group gives up its whole OH and the second amine group gives up one H; the two leave as one water molecule, and the carboxyl carbon will bond to the amine nitrogen. The drawing shows how the atoms line up, not how the cell does it
10

The drawing shows how the atoms line up, not how the cell does it.

11

A covalent bond now joins the carboxyl carbon of the first amino acid to the amine nitrogen of the second.

The two amino acids joined: the carboxyl carbon of the first is now bonded to the amine nitrogen of the second
The two amino acids joined: the carboxyl carbon of the first is now bonded to the amine nitrogen of the second
12

Two units have become one two-unit chain, plus one water molecule.

13

This covalent bond between two amino acids is called a .

14

Look at what the join leaves behind: a carbon double-bonded to an oxygen, C=O, and a nitrogen bonded to a hydrogen, N–H. Every peptide bond along a chain leaves both.

The joined unit with its C=O and N–H marked: every peptide bond leaves both behind in the backbone
The joined unit with its C=O and N–H marked: every peptide bond leaves both behind in the backbone
15

What you are expected to know Say which two groups a peptide bond joins, the carboxyl group of one amino acid and the amine group of the next, and what leaves as it forms: one water molecule, made from the carboxyl group’s –OH and one H from the amine group.

16
Check q2

A cell adds one more amino acid to the end of a chain it is building.

Which two groups join, and what else happens?

  1. A. Two R groups join, and one water molecule is taken in.
    The R groups take no part in the join, and water leaves rather than being taken in.
  2. B. Two carboxyl groups join, and one water molecule leaves.
    A peptide bond never joins two carboxyl groups.
  3. C. ✓ A carboxyl group and an amine group join, and one water molecule leaves.
  4. D. A carboxyl group and an amine group join, and one water molecule is taken in.
    Joining two amino acids is dehydration synthesis, which releases water; taking water in is hydrolysis, which breaks a chain apart.

Why: A peptide bond forms between the carboxyl group of one amino acid and the amine group of the next, and an –OH and an H leave together as one water molecule.

17
Check q3

Two joined amino acids are drawn below, with four of their bonds labeled W, X, Y and Z.

Two joined amino acids with four bonds labelled W, X, Y and Z
Two joined amino acids with four bonds labelled W, X, Y and Z

Which label marks the peptide bond?

  1. A. W
    W is the C=O double bond inside the carboxyl group, which was there before the join.
  2. B. ✓ X
  3. C. Y
    Y is the bond from a central carbon to its own R group, inside one amino acid.
  4. D. Z
    Z is the bond between a central carbon and its own amine nitrogen, inside one amino acid.

Why: The peptide bond is the bond formed when the two amino acids joined: it runs from the carboxyl carbon of the first to the amine nitrogen of the second, at X.

18The chain that results

19

Add a third amino acid to the end of the chain, then a fourth, then a fifth.

Five amino acids joined in a row: four joins, one water molecule released at each
Five amino acids joined in a row: four joins, one water molecule released at each
20

Each one joins by one more peptide bond, and one more water molecule leaves.

21

Five amino acids in a row have four peptide bonds between them: one fewer bond than units, the same count as with sugars.

22

The chain is one line. Each amino acid is joined to the one before it and the one after it, and nothing branches off.

Left: a chain of amino acids in one line. Right: a drawing with a side branch, which is not a polypeptide
Left: a chain of amino acids in one line. Right: a drawing with a side branch, which is not a polypeptide
23

A chain of amino acids joined one after another by peptide bonds is called a .

24

Polypeptide names the chain itself. Protein names the finished working molecule, built from one or more polypeptides.

25

What you are expected to know Describe a polypeptide as one unbranched chain of amino acids joined by peptide bonds, and give the number of bonds in a chain of a given length: one fewer than the number of amino acids.

26
Check q4

The drawing below is a student’s model of a polypeptide; each bead is one amino acid.

A student's drawing: a chain of beads with three side branches coming off the middle of the chain
A student's drawing: a chain of beads with three side branches coming off the middle of the chain

What is wrong with the drawing?

  1. A. Nothing; polypeptides branch just as some polysaccharides do.
    Branching belongs to some polysaccharides, never to a polypeptide.
  2. B. Amino acids are joined by hydrogen bonds, which cannot branch.
    The joins along a polypeptide are covalent peptide bonds, not hydrogen bonds.
  3. C. Peptide bonds form only at the two ends, so nothing joins in the middle.
    Every neighboring pair along the chain is joined by a peptide bond, not only the ends.
  4. D. ✓ Amino acids join one after another in one line, so a polypeptide has no branches.

Why: Each amino acid is joined to the one before it and the one after it, so a polypeptide is one unbranched line.
A drawing with side branches is wrong.

27
Check q5

A cell builds a polypeptide of twelve amino acids.

How many peptide bonds hold the chain together?

  1. A. six
    Each neighboring pair of amino acids has its own peptide bond, and twelve in a row make more than six pairs.
  2. B. ✓ eleven
  3. C. twelve
    The bonds sit between the amino acids, not one on each.
  4. D. twenty-four
    Each join is a single peptide bond, not two.

Why: Peptide bonds sit between neighboring amino acids, so a chain has one fewer bond than it has units: twelve amino acids, eleven peptide bonds.

28The order decides

29

Here are two polypeptides built from the same eight amino acids, one for one, in a different order.

Two polypeptides built from the same eight amino acids in a different order
Two polypeptides built from the same eight amino acids in a different order
30

The order of amino acids in a polypeptide, read from the first to the last, is its .

31

The R groups are the parts that touch water, one another and other molecules. Put them in a different order and you have a different protein.

32

The two chains fold into two different shapes. The primary structure decides the overall shape the finished protein takes.

Two different orders of the same amino acids give two different shapes
Two different orders of the same amino acids give two different shapes
33

What you are expected to know Give the name for the order of amino acids in a polypeptide, its primary structure, and say that this order decides the shape the protein takes.

34
Check q6

Two polypeptides contain exactly the same twenty amino acids, one of each, but joined in a different order.

What should you predict about them?

  1. A. ✓ The two polypeptides have different shapes, because their R groups sit in a different order.
  2. B. The two polypeptides are the same protein, because the backbone is the same in both.
    The backbone repeats identically in every polypeptide, so it cannot be what makes two proteins the same.
  3. C. The two polypeptides have the same shape, because they contain the same amino acids.
    Having the same amino acids is not enough: the order of R groups along the chain, not the list of them, decides the shape.
  4. D. The two polypeptides have different shapes, because their backbones are built differently.
    The backbone is the same in both chains; what differs is the order of the R groups along it.

Why: The primary structure, the order of amino acids, decides the shape.
Same amino acids in a different order means different primary structures and different shapes.

35
Check q7

Which of these is a polypeptide’s primary structure?

  1. A. the number of amino acids in the chain
    Two chains of the same length can have different orders, so the length alone is not the primary structure.
  2. B. the kinds of R group present, whatever their order
    The same R groups in a different order make a different primary structure, so a list of the kinds present is not enough.
  3. C. the shape the chain finally takes
    The shape is what the primary structure decides, not the primary structure itself.
  4. D. ✓ the order of amino acids from the first to the last

Why: Primary structure is the order of amino acids in a polypeptide, read from the first to the last.

36

The two bead chains differ only in order, and that order is the primary structure that decides what each protein becomes.

Glossary

peptide bond
The covalent bond that joins the carboxyl group of one amino acid to the amine group of the next; it forms by dehydration synthesis, releasing one water molecule.
polypeptide
One unbranched chain of amino acids joined one after another by peptide bonds.
primary structure
The order of amino acids in a polypeptide, from the first to the last; it decides the shape the protein takes.

APBIO-U01-L19 Coils and sheets in the chain

Topic 1.7 · Proteins: Structure and Function · 21 steps

A folded protein drawn as a coiled ribbon inside a compact shape, surrounded by water molecules
A folded protein drawn as a coiled ribbon inside a compact shape, surrounded by water molecules

Here is a model of one of hemoglobin’s chains, drawn as a ribbon and sitting in water.

Look at the stretches where the ribbon coils into a spiral. Almost every protein has stretches coiled like this, whatever its amino acids are. What holds a coil like that together?

Unit 1 · Chemistry of Life

1

A protein is not a loose string of beads. It is a specific three-dimensional object, and this ribbon is one polypeptide folded into its shape.

2

The shape of a protein depends on the order of amino acids in its chain. Start with the part of the chain that is the same in every amino acid.

3The backbone bonds to itself

4

Video: Watch: Coils and sheets in the chain

Every join in the backbone carries an N–H and a C=O; they hydrogen-bond to one another and pull the chain into coils and sheets.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L19.mp4

5

Whatever its R group, every amino acid adds the same three atoms to the line the chain is built along: a nitrogen, then a carbon, then a carbon.

Three amino acids in a chain: the backbone repeats N, C, C, and every join carries an N–H and a C=O
Three amino acids in a chain: the backbone repeats N, C, C, and every join carries an N–H and a C=O
6

That line is the chain’s backbone. Along it, every join repeats an N–H and a C=O: the two groups the peptide bond left behind.

7

The hydrogen of each backbone N–H is δ+. The oxygen of each backbone C=O is δ−.

8

Bend the chain so that an N–H comes close to a C=O further along. The δ+ hydrogen and the δ− oxygen attract each other.

A backbone N–H on one part of the chain attracted to a backbone C=O further along: a hydrogen bond inside one molecule
A backbone N–H on one part of the chain attracted to a backbone C=O further along: a hydrogen bond inside one molecule
9

This is a hydrogen bond, the same attraction as between two water molecules. Here it is between two parts of one molecule.

10

So every chain carries N–H and C=O groups along its whole backbone, whatever its R groups are. Any chain can hydrogen-bond to itself.

11

What you are expected to know You can now say which two groups of a polypeptide backbone form a hydrogen bond: the δ+ hydrogen of a backbone N–H and the δ− oxygen of a backbone C=O further along the chain.

12
Check q1

A polypeptide chain bends so that two parts of its backbone come close together.

Which two backbone groups form a hydrogen bond?

  1. A. ✓ an N–H and a C=O: the δ+ hydrogen is attracted to the δ− oxygen
  2. B. two N–H groups: the two δ+ hydrogens are attracted to each other
    Both hydrogens are δ+, and two like charges do not attract.
  3. C. two C=O groups: the two δ− oxygens are attracted to each other
    Both oxygens are δ−, and two like charges do not attract.
  4. D. an N–H and an R group: the hydrogen is attracted to the R group
    This bond forms between two groups of the backbone, and an R group is not part of the backbone.

Why: The δ+ hydrogen of a backbone N–H is attracted to the δ− oxygen of a backbone C=O further along the chain.
That attraction is a hydrogen bond inside one molecule.

13Coils and sheets

14

When these backbone hydrogen bonds pull a stretch of chain into a coil, with each turn held to the next, we call the coil an . The R groups point outward from the coil.

An alpha helix: the chain coils, each turn is held to the next by hydrogen bonds between backbone groups, and the R groups point outward from the coil
An alpha helix: the chain coils, each turn is held to the next by hydrogen bonds between backbone groups, and the R groups point outward from the coil
15

When they hold stretches of the chain lying side by side, we call the flat arrangement a . The R groups point above and below the sheet.

A beta pleated sheet: stretches of the chain lie side by side, held by hydrogen bonds between backbone groups; the R groups point above and below the sheet
A beta pleated sheet: stretches of the chain lie side by side, held by hydrogen bonds between backbone groups; the R groups point above and below the sheet
16

When hydrogen bonds between backbone groups fold parts of the chain into coils and sheets like these, we call that folding the chain’s , because it is built on top of the primary structure, the order of the amino acids.

17

The R groups take no part in secondary structure. Only the backbone N–H and C=O groups bond.

  1. Primary structure: the order of amino acids along the chain, held by peptide bonds.
  2. Secondary structure: coils and sheets in the chain, held by hydrogen bonds between backbone N–H and C=O groups.

18

What you are expected to know You can now recognize a coil, or stretches lying side by side, held by hydrogen bonds between backbone N–H and C=O groups as secondary structure, and name the coil an alpha helix and the flat arrangement a beta pleated sheet.

19
Check q2

Two stretches of one polypeptide are drawn below, lying side by side, with dashed lines between them.

Two stretches of a chain lying side by side with dashed lines drawn between them
Two stretches of a chain lying side by side with dashed lines drawn between them

What do the dashed lines represent?

  1. A. peptide bonds joining the two stretches
    Peptide bonds run along the chain, joining one amino acid to the next, while these dashed lines run across, between the stretches.
  2. B. ✓ hydrogen bonds between the backbones of the two stretches
  3. C. hydrogen bonds between R groups
    In a sheet the R groups point above and below and take no part in the bonding.
  4. D. covalent bonds between R groups
    The links between the stretches are weak hydrogen bonds, not covalent bonds, and they join the backbones, not R groups.

Why: Stretches lying side by side, joined by dashed lines, are a beta pleated sheet.
The dashed lines are hydrogen bonds between the δ+ hydrogen of a backbone N–H and the δ− oxygen of a backbone C=O.

20
Check q3

A stretch of one polypeptide is drawn below as a coil, with dashed lines between neighboring turns.

A stretch of chain drawn as a coil: a spiral seen from the side, its turns overlapping, with short dashed lines joining each turn to the next, above and below the coil
A stretch of chain drawn as a coil: a spiral seen from the side, its turns overlapping, with short dashed lines joining each turn to the next, above and below the coil

What is this coiled stretch called?

  1. A. a beta pleated sheet
    A sheet is stretches lying flat side by side, not a coil.
  2. B. a double helix
    A double helix is two strands wound around each other, and this is one chain coiled on its own.
  3. C. ✓ an alpha helix
  4. D. a primary structure
    Primary structure is the order of amino acids, not a shape.

Why: One chain coiled into a spiral, with each turn hydrogen-bonded to the next, is an alpha helix.

Glossary

secondary structure
Local folding of a polypeptide held by hydrogen bonds between backbone N–H and C=O groups; the alpha helix and the beta pleated sheet.
alpha helix
A stretch of polypeptide coiled into a spiral, each turn held to the next by hydrogen bonds between backbone groups.
beta pleated sheet
Stretches of polypeptide lying side by side, held together by hydrogen bonds between backbone groups.

APBIO-U01-L19B What the R groups do

Topic 1.7 · Proteins: Structure and Function · 20 steps

One polypeptide folded back on itself: R groups from the two halves of the chain come together in the middle
One polypeptide folded back on itself: R groups from the two halves of the chain come together in the middle

Here is one polypeptide folded back on itself into a compact shape.

Two R groups that sit far apart along the chain, twenty amino acids or more, are now side by side. Something has to hold them there, or the fold would fall open. What holds two R groups together when the fold brings them side by side?

Unit 1 · Chemistry of Life

1
Check q1

Quick recall: the first kind of fold, the coils and sheets.

Which groups form the hydrogen bonds that hold a coil or a sheet?

  1. A. The R groups
    The R groups take no part in coils and sheets; those hydrogen bonds are between backbone groups.
  2. B. ✓ Backbone N–H and C=O groups

Why: Hydrogen bonds between backbone N–H and C=O groups pull stretches of the chain into coils and sheets; the R groups take no part in that.

2

Now the whole chain folds again, into one compact three-dimensional shape. R groups that were far apart along the chain now sit close together.

The whole chain folded back on itself into one compact shape; R groups far apart along the chain now sit close together
The whole chain folded back on itself into one compact shape; R groups far apart along the chain now sit close together

3Four ways two R groups hold on

4

Video: Watch: What the R groups do

Four kinds of interaction between R groups, one at a time, and the shape they hold: the chain’s tertiary structure.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L19B.mp4

5

If two of those R groups happen to be polar, then when they come close they form a hydrogen bond with each other, just as two water molecules do.

Two polar R groups, one from each part of the chain, hydrogen-bonded to each other
Two polar R groups, one from each part of the chain, hydrogen-bonded to each other
6

Nonpolar R groups end up gathered together in the middle of the fold, away from the water. When nonpolar R groups gather like this, we call it a , because these R groups are hydrophobic: water does not attract them.

Nonpolar R groups from different parts of the chain gathered together, with the water molecules outside staying with one another
Nonpolar R groups from different parts of the chain gathered together, with the water molecules outside staying with one another
7

An R group with a full negative charge and one with a full positive charge attract each other. When two charged R groups hold on like this, we call it an , because the attraction is between ions: a full − and a full +.

A negative R group and a positive R group attracting each other
A negative R group and a positive R group attracting each other
8

One of the twenty amino acids, cysteine, has an R group that ends in a sulfur atom. When two cysteine R groups come close, their sulfur atoms can form a covalent bond. We call it a : di for two, sulfide for the sulfur atoms, and a bridge because the covalent bond joins two parts of the chain. It is far stronger than the other three. Only cysteine forms it.

Two cysteine R groups joined by a covalent bond between their sulfur atoms
Two cysteine R groups joined by a covalent bond between their sulfur atoms
9

So four kinds of interaction can hold two R groups together:

  • Hydrogen bond: between two polar R groups.
  • Hydrophobic interaction: nonpolar R groups gathered together, away from the water.
  • Ionic interaction: between a full + charge and a full − charge.
  • Disulfide bridge: a covalent bond between the sulfur atoms of two cysteines, far stronger than the other three.

10

What you are expected to know You can now sort a drawn interaction between two R groups as a hydrogen bond, a hydrophobic interaction, an ionic interaction or a disulfide bridge.

11
Check q2

Two parts of a folded chain are drawn below. Their R groups, each made only of carbon and hydrogen, sit side by side in the middle, with water around the outside.

Two parts of a folded chain with R groups made only of carbon and hydrogen coming together in the middle, water around the outside
Two parts of a folded chain with R groups made only of carbon and hydrogen coming together in the middle, water around the outside

Which interaction is this?

  1. A. a disulfide bridge
    A disulfide bridge needs two cysteines, each with a sulfur atom, and these R groups are carbon and hydrogen only.
  2. B. a hydrogen bond
    A hydrogen bond needs a δ+ hydrogen and a δ− atom, and C–H bonds are nonpolar and carry neither.
  3. C. ✓ a hydrophobic interaction
  4. D. an ionic interaction
    An ionic interaction needs a full positive and a full negative charge, and these R groups carry no charge.

Why: R groups made only of carbon and hydrogen are nonpolar.
Gathered together away from the water, they form a hydrophobic interaction.

12Tertiary structure

13

When these four interactions between R groups hold the whole chain in one three-dimensional shape, we call that shape the protein’s : the third level, after the primary and the secondary structure.

14

So a folded chain has three levels of structure:

  1. Primary structure: the order of amino acids along the chain, held by peptide bonds.
  2. Secondary structure: coils and sheets in the chain, held by hydrogen bonds between backbone N–H and C=O groups.
  3. Tertiary structure: the overall three-dimensional shape of the whole chain, held by interactions between R groups.

15

A hydrogen bond can belong to secondary structure or to tertiary structure. What sets the level is what is bonding:

  • A backbone N–H bonded to a backbone C=O: secondary structure.
  • A polar R group bonded to another polar R group: tertiary structure.

16

What you are expected to know You can now say that the four R-group interactions together hold a protein’s tertiary structure, and tell a secondary-structure hydrogen bond, backbone to backbone, from a tertiary one, R group to R group.

17
Check q3

One folded chain is drawn below with two hydrogen bonds marked. Bond X joins a backbone N–H to a backbone C=O a few amino acids further along. Bond Y joins two R groups on parts of the chain far apart along the chain.

One folded chain with two hydrogen bonds marked: X between a backbone N–H and a backbone C=O a few amino acids apart; Y between the H of one R group's –OH and the O of another R group's –OH, on parts of the chain far apart
One folded chain with two hydrogen bonds marked: X between a backbone N–H and a backbone C=O a few amino acids apart; Y between the H of one R group's –OH and the O of another R group's –OH, on parts of the chain far apart

Which level of structure does each bond belong to?

  1. A. Both X and Y are secondary structure, because both are hydrogen bonds.
    The kind of bond does not set the level; what is bonding does.
  2. B. ✓ X is secondary structure; Y is tertiary structure.
  3. C. X is tertiary structure; Y is secondary structure.
    Bond X, between backbone groups, is secondary structure; bond Y, between R groups, holds the tertiary structure.
  4. D. Both X and Y are tertiary structure, because both hold the chain in a fold.
    Holding a fold is not what decides the level; what is bonding does.

Why: The level is decided by what is bonding.
Bond X, between backbone groups, is secondary structure; bond Y, between R groups, is one of the interactions that hold the tertiary structure.

18
Check q4

In a folded protein, every disulfide bridge is broken while every peptide bond stays intact.

What is the most likely result?

  1. A. The chain breaks into separate amino acids.
    The amino acids are held in a row by peptide bonds, and those are intact.
  2. B. The order of amino acids in the chain changes.
    The order of amino acids is fixed by the peptide bonds, which are intact.
  3. C. Nothing changes, because disulfide bridges play no part in the fold.
    Disulfide bridges are one of the four interactions that hold the tertiary structure, so cutting them loosens the fold.
  4. D. ✓ The chain loses part of its shape but stays in one piece.

Why: Disulfide bridges are one of the interactions holding the tertiary structure, so cutting them loosens the fold.
The peptide bonds still hold every amino acid in place, so the chain stays whole.

19

Two R groups that come together in a fold are held together by one of four interactions: a hydrogen bond, a hydrophobic interaction, an ionic interaction or a disulfide bridge. Together, interactions like these hold the whole chain in its tertiary structure.

Glossary

tertiary structure
The overall three-dimensional shape of one polypeptide, held by interactions between its R groups: hydrogen bonds, hydrophobic interactions, ionic interactions and disulfide bridges.
hydrophobic interaction
Nonpolar R groups gathered together in the middle of a fold, away from the water, because water is not attracted to them.
ionic interaction
The attraction between an R group with a full negative charge and one with a full positive charge.
disulfide bridge
A covalent bond between the sulfur atoms of two cysteine R groups; far stronger than the other interactions that hold a fold.

APBIO-U01-L19C Why the nonpolar R groups end up inside

Topic 1.7 · Proteins: Structure and Function · 16 steps

A folded polypeptide in water: nonpolar R groups inside the fold, polar and charged R groups on the outside among the water molecules
A folded polypeptide in water: nonpolar R groups inside the fold, polar and charged R groups on the outside among the water molecules

Here is a folded polypeptide sitting in water, with its R groups marked.

The nonpolar R groups are all inside, in the middle of the fold. The polar and charged R groups are all on the outside, touching the water. Nearly every protein dissolved in water is arranged this way. Why do the nonpolar R groups end up inside?

Unit 1 · Chemistry of Life

1

Nonpolar R groups gathered together away from the water are a hydrophobic interaction, one of the four interactions that hold a fold. Here is why they gather there.

2Water sorts the R groups

3

Video: Watch: Why the nonpolar R groups end up inside

Water pulls on polar and charged R groups and has nothing to pull on in a nonpolar one, so the nonpolar R groups are left together in the middle of the fold.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L19C.mp4

4

Here is the folded chain again, with its R groups marked: polar and charged R groups on the outside, touching the water; nonpolar R groups inside.

A folded chain in water: polar and charged R groups on the outside, touching water; nonpolar R groups inside
A folded chain in water: polar and charged R groups on the outside, touching water; nonpolar R groups inside
5
Check q1

Quick recall: oil is dropped into water.

Why do the water molecules stay together and leave the oil on its own?

  1. A. ✓ Oil has no charge or partial charge, so water has nothing to pull on
  2. B. Oil molecules are too large to fit between the water molecules
    Size is not the reason: water pulls on charges and partial charges, and oil has none.

Why: Water’s δ+ hydrogens and δ− oxygen pull on any charge or partial charge.
Oil has none, so the water molecules stay attracted to one another and leave the oil on its own.

6

R groups are sorted the same way. A polar R group carries partial charges, δ+ and δ−; a charged R group carries a full charge. Water pulls on both.

Left: a polar R group, an –OH with its oxygen δ− and its hydrogen δ+, and a water molecule turned toward it with one δ+ hydrogen hydrogen-bonded to the oxygen. Right: a nonpolar R group, a –CH₃, with a water molecule beside it and nothing to pull on
Left: a polar R group, an –OH with its oxygen δ− and its hydrogen δ+, and a water molecule turned toward it with one δ+ hydrogen hydrogen-bonded to the oxygen. Right: a nonpolar R group, a –CH₃, with a water molecule beside it and nothing to pull on
7

A nonpolar R group contains only C–C and C–H bonds. It has no charge and no partial charge, so water has nothing to pull on.

8

So the water molecules stay attracted to one another and to the polar and charged R groups.

9

The polar and charged R groups stay in contact with the water, on the outside of the fold.

10

The nonpolar R groups are left together, away from the water: in the middle of the fold.

11

That is how the order of R groups along the chain sets where it folds: wherever a stretch of nonpolar R groups sits, the chain tucks that stretch inward.

12

What you are expected to know You can now explain why a polypeptide in water folds with its nonpolar R groups inside and its polar and charged R groups facing the water.

13
Check q2

A protein sits in the watery inside of a cell. One stretch of its chain is buried in the middle of the molecule, away from the water.

Which best describes the R groups along that buried stretch?

  1. A. ✓ mostly nonpolar
  2. B. mostly polar
    Water hydrogen-bonds to polar R groups, so they stay on the outside in contact with the water.
  3. C. mostly charged
    Water is pulled toward a full charge, so charged R groups stay on the outside in the water.
  4. D. an even mix of nonpolar, polar and charged
    Water sorts the R groups: the polar and charged ones stay in contact with the water, so the middle is not an even mix.

Why: Water is attracted to polar and charged R groups and not to nonpolar ones, so a stretch buried away from the water is made mostly of nonpolar R groups.

14
Check q3

A protein sits in the watery inside of a cell. One stretch of its chain lies on the surface, in contact with the water.

Which R groups would you expect along that surface stretch?

  1. A. the nonpolar ones, pushed outward by the water
    Water is not attracted to nonpolar R groups, so they end up inside, not on the surface.
  2. B. the charged ones only; polar ones sit inside
    Water hydrogen-bonds to polar R groups just as it is pulled toward charged ones, so both kinds face the water.
  3. C. ✓ the polar and charged ones, which water is attracted to
  4. D. none; every R group points inward, away from the water
    The polar and charged R groups do face outward, staying in contact with the water.

Why: Water is attracted to polar and to charged R groups, so those are the ones on the surface, in contact with it.

15

A polypeptide folds in water. Water pulls on its polar and charged R groups, so they stay on the outside, in contact with the water. Water has nothing to pull on in its nonpolar R groups, so they are left together inside.

APBIO-U01-L20 Shape is the job

Topic 1.7 · Proteins: Structure and Function · 37 steps

A raw egg white, clear, beside a cooked egg white, solid and white; each with its yolk
A raw egg white, clear, beside a cooked egg white, solid and white; each with its yolk

Here is a raw egg white beside a cooked one.

Unit 1 · Chemistry of Life

1

Same protein, nothing added, only heat. Why did the egg white turn solid and white?

2More than one chain

3

Video: Watch: Shape is the job

Hemoglobin's four chains, the four levels of structure, and why a protein's shape is what lets it do its job.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L20.mp4

4

A polypeptide, one chain of amino acids joined by peptide bonds, folds into its tertiary structure. Many proteins are one such folded chain.

5

Hemoglobin is four: four polypeptides, each folded on its own.

Four polypeptides, each folded on its own
Four polypeptides, each folded on its own
6

The four folded chains fit together into one protein.

The four folded polypeptides fitted together into one protein, hemoglobin
The four folded polypeptides fitted together into one protein, hemoglobin
7

When two or more separately folded polypeptides fit together like this into one protein, we call the arrangement , the fourth level, because it is built from chains that each already have their first three levels.

8

A protein made of a single chain has primary, secondary and tertiary structure, and no quaternary structure.

9

Hemoglobin, four chains fitted together, has all four levels:

  1. Primary structure: the order of amino acids along each chain, held by peptide bonds.
  2. Secondary structure: coils and sheets in each chain, held by hydrogen bonds between backbone N–H and C=O groups.
  3. Tertiary structure: the overall three-dimensional shape of each chain, held by interactions between its R groups.
  4. Quaternary structure: the four folded chains fitted together into one protein.

The four levels of protein structure side by side: primary, secondary, tertiary, quaternary
The four levels of protein structure side by side: primary, secondary, tertiary, quaternary
10

What you are expected to know Decide from a description how many levels of structure a protein has: a single folded chain stops at tertiary structure; two or more chains fitted together add quaternary structure.

11
Check q1

Protein A is a single folded chain of 240 amino acids. Protein B is made of three folded chains of 80 amino acids each, held tightly together.

Which levels of structure does each protein have?

  1. A. Both proteins have all four levels, because both contain 240 amino acids.
    The number of amino acids does not decide quaternary structure; the number of separate chains does.
  2. B. ✓ A has primary, secondary and tertiary structure; B has all four.
  3. C. A has all four levels; B has only primary and secondary structure.
    Protein B, with three chains, is the one with quaternary structure; protein A is a single chain.
  4. D. Neither has quaternary structure, because neither chain is long enough.
    Chain length is not the test; quaternary structure needs two or more separate chains fitted together, and B has three.

Why: Quaternary structure exists only where separate folded chains fit together.
Protein A is one chain, so it stops at tertiary structure; protein B’s three chains give it all four levels.

12
Check q2

A protein is one polypeptide that folds into two compact regions joined by a short stretch of chain. A student says the two regions give it quaternary structure.

Is the student right?

  1. A. Yes; two folded regions count as two chains
    Both regions are parts of one polypeptide, joined by peptide bonds all the way along, so they are one chain.
  2. B. ✓ No; quaternary structure needs two or more separate polypeptides
  3. C. No; quaternary structure needs at least four chains, as in hemoglobin
    Four is hemoglobin’s number, not the rule: two separately folded chains fitted together are enough.
  4. D. Yes; any protein with tertiary structure has quaternary structure too
    A single folded chain stops at tertiary structure.

Why: Quaternary structure arises only when two or more separately folded polypeptides fit together.
This protein is a single chain, however many regions it folds into, so it has no quaternary structure.

13Shape is the job

14

All four levels together give a protein one particular shape. Each of hemoglobin’s four folded chains has a pocket, and each pocket holds one oxygen molecule: four chains, four pockets, four oxygen molecules.

Hemoglobin's four folded chains: each chain has a pocket of its own, and each pocket holds one oxygen molecule, O₂
Hemoglobin's four folded chains: each chain has a pocket of its own, and each pocket holds one oxygen molecule, O₂
15

Inside each pocket sits a small group that is not part of the chain, called a heme group, with one iron atom at its center. The oxygen molecule binds to that iron atom.

16

That is what lets hemoglobin do its job: the pockets pick up oxygen in the lungs, and hemoglobin carries it around the blood to the rest of the body.

17

Keratin’s long coiled chains wind around one another into a tough fiber. That fiber is what a hair is built from, and it is what makes hair tough to pull apart.

Keratin: long coiled chains wound around one another into a tough fiber
Keratin: long coiled chains wound around one another into a tough fiber
18

In each case the shape is what lets the protein do its job: the pockets hold oxygen; the fiber resists being pulled apart.

19

What you are expected to know Say that a protein’s shape, built up through all its levels of structure, is what lets it do its job, as each of hemoglobin’s four pockets holds one oxygen molecule and keratin’s fibers make hair tough.

20
Check q3

Collagen, a protein of skin and tendons, is built from three long chains wound around one another into a rope-like fiber.

What does this shape have to do with collagen’s job?

  1. A. ✓ Collagen’s rope shape is what makes it strong; with a different shape it would not do the job.
  2. B. Collagen’s job comes from which amino acids it contains, whatever shape they take.
    The amino acids set the shape, and it is the shape that does the job.
  3. C. Collagen’s shape hardly matters; the chains would hold tissue together however they were arranged.
    Loose chains would not resist pulling the way three chains wound into a rope do.
  4. D. Collagen’s rope shape is what makes it strong, so every protein with a job to do has this same shape.
    Each protein’s job needs its own shape: a rope suits pulling, while hemoglobin needs pockets to hold oxygen.

Why: A protein’s shape is what lets it do its job.
Collagen’s three chains wound into a rope make a fiber that resists pulling, which is what skin and tendons need.

21What heat does

22

Video: Watch: what heat does to a protein

The egg white, then the hair: heat breaks the weak interactions that hold a fold.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L20-heat.mp4

23

Back to the raw egg white beside the cooked one. Raw egg white is mostly water, with folded protein molecules dissolved in it.

Raw egg white: folded protein molecules dissolved in water
Raw egg white: folded protein molecules dissolved in water
24

Each fold is held by weak interactions: hydrogen bonds, ionic interactions and hydrophobic interactions.

25

Heat makes the molecules move faster.

26
Check q4

Quick recall: liquid water is heated.

What does the heat do to the hydrogen bonds between the water molecules?

  1. A. It makes them stronger
    Heat makes the molecules move faster, and the faster-moving molecules pull apart, so the weak hydrogen bonds break.
  2. B. Nothing: heat does not affect hydrogen bonds
    Hydrogen bonds are weak, and the faster-moving molecules break them.
  3. C. ✓ It breaks them

Why: Heat makes the molecules move faster, and the faster-moving molecules break the weak hydrogen bonds between them.

27

Here the same heat breaks the weak interactions holding each fold.

28

The chains unfold, and the unfolded chains tangle with one another. The tangled mass is what you see: the white has turned solid and white.

Cooked egg white: the chains have unfolded and tangled with one another
Cooked egg white: the chains have unfolded and tangled with one another
29

The peptide bonds are covalent and survive. Every chain still has the same amino acids in the same order. Only the fold is lost.

30

Each protein has lost its fold, so it has lost its shape. Without its shape, it cannot do its job. Cooling does not untangle the chains, so the cooked white stays solid.

31

The same thing happens to keratin. In a curl of hair, the coiled keratin chains are held in their shape by hydrogen bonds between them.

32

A hair straightener heats the hair. The heat breaks those hydrogen bonds, so the chains can be pulled straight and the curl comes out. The peptide bonds survive, so the chains are still keratin.

Keratin chains in a curl of hair, coiled and held by hydrogen bonds, then heated: the hydrogen bonds break and the chains lie straight
Keratin chains in a curl of hair, coiled and held by hydrogen bonds, then heated: the hydrogen bonds break and the chains lie straight
33

What you are expected to know Predict what heating does to a protein: the weak interactions break, the chains unfold or lose their shape, and the protein loses its shape and its job, while the peptide bonds and the order of amino acids survive.

34
Check q5

A curling iron heats a length of straight hair, and the hair comes out curled. Hair’s shape is held by keratin chains.

What has the heat most likely done?

  1. A. Broken the peptide bonds, so the keratin chains are now shorter.
    Heat from a curling iron breaks weak interactions, not the strong covalent peptide bonds along the chain.
  2. B. Changed the order of amino acids in the keratin chains.
    The order of amino acids is held by peptide bonds, which survive the heat.
  3. C. Made new peptide bonds between neighboring chains, locking them curled.
    Heat breaks weak interactions; it does not build peptide bonds.
  4. D. ✓ Broken the weak interactions that held the keratin chains in their shape.

Why: Heat breaks the weak interactions, such as hydrogen bonds, that hold the keratin chains in their shape, so the hair can take a new shape.
The peptide bonds and the order of amino acids survive.

35
Check q6

Egg white is heated until it turns solid.

Of its folded shape and its order of amino acids, what has each protein molecule lost?

  1. A. Its order of amino acids, but not its shape.
    The peptide bonds that fix the order survive, and the weak interactions that hold the fold break.
  2. B. Both its shape and its order of amino acids.
    The peptide bonds are covalent and survive the heat, so the order of amino acids is unchanged.
  3. C. ✓ Its shape, but not its order of amino acids.
  4. D. Neither; the molecules only moved faster, then settled again.
    The weak interactions broke, the chains unfolded and tangled, and the white turned solid, so the fold is gone.

Why: Heat breaks the weak interactions, so the fold is lost.
The covalent peptide bonds survive, so the order of amino acids does not change.

36

The egg white’s proteins lost their fold but kept their order of amino acids, and without the fold they lost their job.

Glossary

quaternary structure
The arrangement that arises when two or more separately folded polypeptides fit together into one protein; hemoglobin’s four chains are an example.

APBIO-U01-L20B Change one amino acid

Topic 1.7 · Proteins: Structure and Function · 23 steps

A sickle, a curved farm blade with a handle, beside a disc-shaped red blood cell and a red blood cell bent into a sickle shape
A sickle, a curved farm blade with a handle, beside a disc-shaped red blood cell and a red blood cell bent into a sickle shape

Here is a sickle, a curved farm blade, beside two red blood cells: one a round disc, the other bent into the same curve as the blade.

Unit 1 · Chemistry of Life

1

Sickle cell disease is an inherited disease of the blood. People who have it get bouts of severe pain, tiredness and breathlessness.

2

The reason is the shape of their red blood cells. Some of the cells bend out of the usual disc shape into a curve like a sickle blade, and the bent cells block small blood vessels.

3

The cells bend because of their hemoglobin, and the difference in the hemoglobin comes down to one amino acid.

4One amino acid is swapped

5

Video: Watch: Change one amino acid

Sickle cell disease: from one swapped amino acid to a bent red blood cell.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L20B.mp4

6

Hemoglobin is four polypeptides, each folded on its own and fitted together, with pockets that hold oxygen. In each pocket, the oxygen binds to the iron atom of a heme group.

7

Here is the start of one of those chains, in most people and in someone with sickle cell disease. One amino acid near the start is different.

The start of one hemoglobin chain in most people and in sickle cell disease: one amino acid near the start differs, a charged R group replaced by a nonpolar one
The start of one hemoglobin chain in most people and in sickle cell disease: one amino acid near the start differs, a charged R group replaced by a nonpolar one
8

In most people the amino acid at that spot has a charged R group. In sickle cell disease it has a nonpolar R group instead. Every other amino acid in the chain is the same.

9

Look at where that R group sits. In most people, the charged R group sits on the outside of the folded chain, facing the water, and water is attracted to it.

One hemoglobin chain folded in water. Left: the charged R group sits on the outside, facing the water, and water is attracted to it. Right: in sickle cell hemoglobin the R group at that spot is nonpolar; it still sits on the outside, but water is not attracted to it
One hemoglobin chain folded in water. Left: the charged R group sits on the outside, facing the water, and water is attracted to it. Right: in sickle cell hemoglobin the R group at that spot is nonpolar; it still sits on the outside, but water is not attracted to it
10

In sickle cell hemoglobin, the R group at that spot is nonpolar. It still sits on the outside of the chain, but now water is not attracted to it.

11
Check q1

Quick recall: nonpolar R groups in water.

Where do nonpolar R groups end up?

  1. A. Spread out, each touching the water
    Water has nothing to pull on in a nonpolar R group, so the water molecules stay attracted to one another and the nonpolar groups gather together.
  2. B. ✓ Together, away from the water

Why: Water has nothing to pull on in a nonpolar R group, so nonpolar R groups end up together, away from the water.

12

This nonpolar R group is on the surface, so it settles against a nonpolar patch on the outside of a neighboring hemoglobin molecule. This sticking happens mainly once the hemoglobin has let go of its oxygen.

Two sickle cell hemoglobin molecules in water: the nonpolar R group on the outside of one settles against a nonpolar patch on the other
Two sickle cell hemoglobin molecules in water: the nonpolar R group on the outside of one settles against a nonpolar patch on the other
13

Molecule sticks to molecule, and the hemoglobin builds up into long, stiff fibers inside the red blood cell.

Sickle cell hemoglobin molecules stuck to one another in a long fiber
Sickle cell hemoglobin molecules stuck to one another in a long fiber
14

The fibers bend the red blood cell out of its disc shape into a curve, the shape of a sickle blade. That is where the disease gets its name.

A sickle blade; a red blood cell as a disc; the same kind of cell bent into a sickle shape by the fibers
A sickle blade; a red blood cell as a disc; the same kind of cell bent into a sickle shape by the fibers
15

The bent cells block small blood vessels and carry oxygen less well, and that is what causes the pain, the tiredness and the breathlessness.

16

The whole chain of causes, from the one swapped amino acid to the disease:

  • Someone with sickle cell disease has a different R group on one amino acid of hemoglobin: nonpolar in place of charged.
  • That R group makes different interactions with what is around it: water is not attracted to it, and it settles against nonpolar patches on neighboring hemoglobin molecules, mainly once the hemoglobin has let go of its oxygen.
  • Those different interactions make the molecules stick together into fibers, and the fibers change the shape of the red blood cell.
  • A changed shape does its job differently or not at all: the bent cells block small blood vessels and carry oxygen less well.
  • The result is the disease: bouts of severe pain, tiredness and breathlessness.

17

Every protein follows the same chain of causes. A different amino acid means a different R group. A different R group makes different interactions. Different interactions make a different fold, or make molecules stick together. A changed shape does its job differently, or not at all.

18

What you are expected to know Predict and justify what one swapped amino acid does to a protein.

19
Check q2

In a protein that sits in water, a large nonpolar R group replaces a polar R group on the surface. The chain is the same length and every other amino acid is unchanged.

What is the most likely result?

  1. A. Nothing can change; one amino acid is never enough to alter a fold.
    One swapped R group changes the interactions at that spot, and one swap in hemoglobin is enough to cause sickle cell disease.
  2. B. The chain breaks there, because the swapped unit cannot form a peptide bond.
    Every amino acid has the same carboxyl and amine groups, so the new one forms peptide bonds just as the old one did.
  3. C. The alpha helices come apart, because the backbone at that spot has changed.
    Every amino acid adds the same N, C, C to the backbone, so the backbone and its helices are unchanged by the swap.
  4. D. ✓ Water is not attracted to the new R group, so the fold changes and the job with it.

Why: A nonpolar R group on the surface is not attracted to water, so the chain folds differently there or sticks to other molecules.
A changed shape does the job differently or not at all.

20
Check q3

A protein sits in water. On its surface, a new amino acid replaces one whose R group carries a full positive charge. The new R group also carries a full positive charge. The chain is the same length, and every other amino acid is unchanged.

Which prediction about the fold is best?

  1. A. The protein unfolds completely, because any swap destroys the fold.
    What matters is whether the new R group interacts differently, and a charged group swapped for a charged group interacts in much the same way.
  2. B. ✓ Little change: the new R group is also charged, so water treats it the same way.
  3. C. The protein loses its primary structure, so it can no longer fold.
    The chain still has an order of amino acids; one position in that order has changed, and that is a changed primary structure, not a lost one.
  4. D. Water is not attracted to the new R group, so it moves into the core.
    The new R group carries a full charge, so water is pulled toward it and it stays on the surface.

Why: The fold depends on how water and the other R groups treat each R group.
A full positive charge swapped for another full positive charge is treated in much the same way, so the fold changes little.

21
Check q4

A protein in water has a nonpolar R group buried in its core, among other nonpolar R groups. An amino acid with a charged R group replaces that amino acid. Everything else is unchanged.

What is the most likely effect on the fold?

  1. A. ✓ The chain folds differently, so that the charged R group can reach the water.
  2. B. No change: the core is away from the water, so water cannot affect it.
    The fold itself is set by how water treats each R group, and a charged R group is pulled toward the water wherever it sits.
  3. C. The chain breaks at the new amino acid.
    A swapped amino acid still forms peptide bonds on both sides, so the chain stays whole.
  4. D. The charged R group forms a disulfide bridge with its nonpolar neighbors.
    A disulfide bridge needs two cysteines, each with a sulfur atom in its R group, and a charge does not make one.

Why: Water is pulled toward a full charge, so a charged R group cannot stay buried among nonpolar ones.
The chain folds differently to bring it toward the water, and the protein’s shape changes.

22
Practice writing an answer

A protein in water has a disulfide bridge between two cysteine R groups, drawn on the left below. In a variant of the protein, drawn on the right, one amino acid is different. The chain is the same length, and every other amino acid is unchanged.

Left: two stretches of one folded protein chain held together by a disulfide bridge, S–S, between two cysteine R groups, each drawn as a carbon with its two hydrogens and then the sulfur. Right: the variant, in which one of those two R groups is different: a carbon with its two hydrogens, then an oxygen bonded to a hydrogen
Left: two stretches of one folded protein chain held together by a disulfide bridge, S–S, between two cysteine R groups, each drawn as a carbon with its two hydrogens and then the sulfur. Right: the variant, in which one of those two R groups is different: a carbon with its two hydrogens, then an oxygen bonded to a hydrogen

(a) Describe what has changed in the variant’s primary structure, and what that does to the R groups available for the bridge. (1 pt)

Frame In the variant, …

Model answer In the variant, the primary structure differs at one position: a cysteine is replaced by an amino acid whose R group contains no sulfur.
So only one cysteine is left, and the disulfide bridge can no longer form.
Rubric
  • Award 1 point for: one amino acid in the order is different, so one of the two cysteines needed for the disulfide bridge is gone.
  • Accept: ‘the sequence differs at one position, and that position has lost its sulfur’.
  • Do not award: ‘the primary structure is unchanged; only the shape changes’, or a change to the peptide bonds.

Slip Saying the primary structure is the same because the chain is the same length. Primary structure is the order of amino acids, and one position in that order is different.

(b) Predict what happens to the shape of the variant protein, and justify your prediction. (1 pt)

Model answer The fold changes in the region the bridge held, so the variant takes a different, looser shape there.
The bridge is gone, so nothing holds those two stretches of chain together, and they are free to move apart.
Rubric
  • Award 1 point for: the prediction that the fold changes in the region the bridge held (a different shape), AND the reason: the bridge is lost, so nothing holds those two stretches of chain together.
  • Accept: ‘that part of the chain loosens or unfolds’, with the lost bridge as the reason.
  • Do not award: the prediction alone; ‘nothing changes because one amino acid is too small to matter’; or ‘the chain breaks’.

Slip Predicting no effect from one amino acid. One swap in hemoglobin is enough to change how its molecules behave; here the swap removes a bond that held the fold.

(c) Explain how the change in shape could change the variant’s job. (1 pt)

Model answer A protein’s shape is what lets it do its job.
The lost bridge changes the fold, so the shape is different.
A different shape does the job differently or not at all, even though the rest of the chain is the same.
Rubric
  • Award 1 point for: the job depends on the shape, and the changed fold gives a changed shape.
  • Accept: ‘shape is the job’ applied to this protein’s changed fold.
  • Do not award: ‘the job changes because the amino acids are different’ with no link to shape.

Slip Going straight from ‘different amino acid’ to ‘different job’. The step in between is the shape: the R group changes the interactions, the interactions change the fold, and the fold is what does the job.

APBIO-U01-P17 Practice questions: Topic 1.7

Topic 1.7 · Proteins: Structure and Function · 10 MCQ · 2 FRQ · for APBIO-U01-T17

Answer every question. For each multiple-choice question choose one answer 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. Use a hint if you are stuck, then open the full-credit answer and score your own work against it.

Video: Watch first: Proteins, summed up

Amino acids, the chain, the four levels of folding, and why shape is the job.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-T17-summary.mp4

Q1 P17-q01

The drawing shows one amino acid with the four groups on its central carbon numbered 1 to 4.

One amino acid. The four groups bonded to the central carbon are numbered 1 to 4.
One amino acid. The four groups bonded to the central carbon are numbered 1 to 4.

Which numbered group is the carboxyl group?

  1. A. Group 1
    Group 1 is the single hydrogen atom.
  2. B. Group 2
    Group 2 is the amine group, –NH₂.
  3. C. ✓ Group 3
  4. D. Group 4
    Group 4 is the R group, the part that varies.

Why: Every amino acid has a central carbon bonded to a hydrogen atom (1), an amine group –NH₂ (2), a carboxyl group –COOH (3) and an R group (4).
The carboxyl group is the carbon bonded to two oxygens, one of them carrying a hydrogen.

Q2 P17-q02

Three R groups, cut from three different amino acids, are drawn below, numbered 1 to 3.

Three R groups, numbered 1 to 3, cut from three different amino acids. The short line above each is the bond that joined it to its central carbon.
Three R groups, numbered 1 to 3, cut from three different amino acids. The short line above each is the bond that joined it to its central carbon.

Which classification gives the three R groups in the order 1, 2, 3?

  1. A. Polar, charged, nonpolar
    A chain of carbon and hydrogen only has no partial charges, so water is not attracted to it, and –OH has a polar bond that water hydrogen-bonds to.
  2. B. Nonpolar, polar, charged
    –NH₃⁺ carries a full positive charge, so it is charged, and –OH carries partial charges only, so it is polar.
  3. C. Charged, nonpolar, polar
    –CH₂–CH(CH₃)₂ has only nonpolar bonds and no charge; the full charge is on –NH₃⁺.
  4. D. ✓ Nonpolar, charged, polar

Why: –CH₂–CH(CH₃)₂ is carbon and hydrogen only, with no partial charges, so water excludes it: nonpolar.
–CH₂–CH₂–CH₂–CH₂–NH₃⁺ carries a full positive charge: charged.
–CH₂–OH ends in a polar O–H bond that water hydrogen-bonds to: polar.

Q3 P17-q03

A student writes: “A peptide bond forms between the R groups of two neighboring amino acids, and a water molecule is taken in as it forms.”

Which statement corrects the student?

  1. A. ✓ A peptide bond forms between the carboxyl group of one amino acid and the amine group of the next, and one water molecule leaves
  2. B. A peptide bond forms between the R groups, as the student says, but two water molecules leave
    The R groups take no part in the join, and only one water molecule leaves.
  3. C. A peptide bond forms between the carboxyl group of one amino acid and the carboxyl group of the next, and one water molecule leaves
    A peptide bond never joins two carboxyl groups.
  4. D. A peptide bond forms between the carboxyl group of one amino acid and the amine group of the next, and one water molecule is taken in
    Joining two amino acids is dehydration synthesis, which releases water; taking water in is hydrolysis, which breaks a chain apart.

Why: Two amino acids join by dehydration synthesis.
The –OH of one carboxyl group and one hydrogen of the next amine group leave as one water molecule.
A covalent bond, the peptide bond, forms between the carboxyl carbon and the amine nitrogen.
The R groups take no part in the join.

Q4 P17-q04

A cell builds a polypeptide of 150 amino acids, adding them one after another.

How many peptide bonds does the finished chain contain, and how are its amino acids arranged?

  1. A. 150 bonds; in one unbranched line
    The bonds sit between the units, not one on each, so 150 units in a row have 149 joins.
  2. B. 149 bonds; in a branched chain, with some amino acids joined onto its side
    A polypeptide never branches: each amino acid joins only the one before and the one after it; the R groups are parts of those amino acids, not extra ones.
  3. C. ✓ 149 bonds; in one unbranched line
  4. D. 75 bonds; in one unbranched line
    Each pair of neighbors has its own peptide bond, and 150 amino acids in a row make 149 neighboring pairs, not 75.

Why: A polypeptide is one unbranched chain of amino acids joined one after another.
Peptide bonds sit between neighbors, so a chain has one fewer bond than amino acids.
So 150 amino acids have 149 peptide bonds, as the working shows.

Q5 P17-q05

Two polypeptides of 30 amino acids are identical except that the amino acids at positions 3 and 5 are exchanged with each other. Both chains have the same length and the same list of amino acids.

Do the two polypeptides have the same primary structure, and what should be expected of their shapes?

  1. A. Yes; the same amino acids are present, so the primary structure and the shape are the same
    Primary structure is the order of amino acids from first to last, and two positions in that order differ.
  2. B. ✓ No; the order of amino acids differs, so different shapes should be expected
  3. C. Yes; the primary structure is the shape, and only two amino acids moved
    Primary structure is the order of amino acids, not the shape; the order decides the shape.
  4. D. No; one chain is shorter, so it folds differently
    Both chains are 30 amino acids long; what differs is the order of two of them.

Why: Primary structure is the specific order of amino acids in a polypeptide, from first to last.
Exchanging positions 3 and 5 changes that order, so the two primary structures are different, and because the primary structure determines the shape, different shapes should be expected.

Q6 P17-q06

The model below shows a stretch of one polypeptide coiled into a spiral, with dashed lines running from one turn to the next.

A stretch of one polypeptide coiled into a spiral (the far side of each turn is drawn faint), with dashed lines from one turn to the next.
A stretch of one polypeptide coiled into a spiral (the far side of each turn is drawn faint), with dashed lines from one turn to the next.

What is this coiled stretch, and what are the dashed lines?

  1. A. A double helix; hydrogen bonds between paired bases
    A double helix is two strands wound together, and this is one polypeptide coiled on its own.
  2. B. ✓ An alpha helix; hydrogen bonds between backbone groups, which is secondary structure
  3. C. An alpha helix; peptide bonds between the turns
    Peptide bonds run along the chain, joining one amino acid to the next; the dashed lines between the turns are hydrogen bonds.
  4. D. An alpha helix; hydrogen bonds between R groups, which is tertiary structure
    The dashed lines join backbone N–H and C=O groups, not R groups, and backbone-to-backbone hydrogen bonds are secondary structure.

Why: The hydrogen of a backbone N–H is δ+ and the oxygen of a backbone C=O is δ−, so they attract: a hydrogen bond within one molecule.
When such bonds pull a stretch of chain into a coil, the coil is an alpha helix: secondary structure.

Q7 P17-q07

The model below shows two R groups of a folded protein that are far apart along the chain but sit close together. One ends in an –OH group; the other ends in a C=O group. A dashed line runs from the hydrogen of the –OH to the oxygen of the C=O.

Two stretches of one folded protein, far apart along the chain, lying close together. An R group from each hangs into the gap: one ends in –OH, the other in C=O. A dashed line runs from the H to the O.
Two stretches of one folded protein, far apart along the chain, lying close together. An R group from each hangs into the gap: one ends in –OH, the other in C=O. A dashed line runs from the H to the O.

Which interaction is drawn, and which level of structure does it help hold?

  1. A. A hydrogen bond; secondary structure, because every hydrogen bond in a protein is secondary
    The level is set by what is bonding, not by the kind of bond: backbone to backbone is secondary, R group to R group is tertiary.
  2. B. An ionic interaction; tertiary structure
    Neither R group carries a full charge; the –OH and C=O carry partial charges.
  3. C. ✓ A hydrogen bond; tertiary structure, because it joins two R groups
  4. D. A hydrogen bond; quaternary structure, because the R groups are far apart along the chain
    Quaternary structure needs two or more separate chains, and these R groups are on one chain.

Why: A δ+ hydrogen on one polar R group attracted to a δ− oxygen on another is a hydrogen bond.
Because it joins two R groups, it is one of the interactions that hold the tertiary structure; hydrogen bonds between backbone groups are secondary structure.

Q8 P17-q08

A polypeptide floats in the watery inside of a cell. Along one stretch of the chain, ten amino acids in a row carry R groups made only of carbon and hydrogen.

Where will that stretch most likely end up when the chain folds, and why?

  1. A. On the surface, because water’s partial charges pull on nonpolar R groups most strongly
    Water's partial charges pull on charges and partial charges, and a hydrocarbon R group offers neither.
  2. B. ✓ In the interior, because water is attracted to polar and charged R groups and excludes nonpolar ones
  3. C. On the surface, because hydrocarbon R groups hydrogen-bond to the water around the protein
    A hydrogen bond needs a δ+ hydrogen and a δ− oxygen or nitrogen, and C–H bonds carry no partial charges.
  4. D. Spread evenly through the fold, because R groups take no part in deciding where a chain folds
    The R groups are exactly what water sorts: polar and charged ones stay in contact with the water, and nonpolar ones end up in the middle.

Why: Water is attracted to charged and polar R groups and not to nonpolar ones, so a polypeptide in water folds with its hydrophobic R groups clustered in the interior.
A run of ten hydrocarbon R groups will be tucked into the middle of the fold, away from the water.

Q9 P17-q09

A person’s fever climbs to 43 °C, and many of the proteins in their cells stop working. After the fever passes, some of those proteins stay tangled together and stay out of action.

What did the heat most likely do to those proteins?

  1. A. ✓ It broke the weak interactions holding each fold, so the chains unfolded and tangled
  2. B. It broke the peptide bonds along each chain, so the chains fell apart into free amino acids
    A fever breaks the weak interactions that hold the fold, not the strong covalent peptide bonds along the chain.
  3. C. It changed the order of amino acids in each chain, so each chain became a different protein
    The order of amino acids is fixed by peptide bonds, which survive the heat.
  4. D. It removed the R groups from each chain, so the chains lost their shape and could not fold again
    R groups are covalently bonded to the chain and heat does not remove them; heat breaks the weak interactions between them.

Why: Heat breaks the weak interactions that hold a protein’s fold: hydrogen bonds, ionic interactions and hydrophobic interactions.
The chains unfold and tangle, so the protein loses its shape and its job, while the covalent peptide bonds and the amino-acid sequence survive.
Cooling does not untangle the chains.

Q10 P17-q10

In a protein that sits in water, an R group carrying a full negative charge attracts an R group carrying a full positive charge on a distant part of the chain, and this interaction holds one part of the fold in place. In a variant of the protein, the negatively charged amino acid is replaced by an amino acid with a nonpolar R group. Everything else is unchanged.

What is the most likely effect of the substitution?

  1. A. None; a single amino acid among hundreds is too few to change the fold
    The swapped R group took part in an interaction that held the fold, and one swap in hemoglobin is enough to cause sickle cell disease.
  2. B. The chain breaks at the new amino acid, because a nonpolar R group forms no peptide bond
    Every amino acid has the same carboxyl and amine groups, so the new one forms peptide bonds just as the old one did.
  3. C. The new R group forms a stronger ionic interaction, so the fold is held more tightly
    An ionic interaction needs a positive and a negative R group, and the new group has no charge.
  4. D. ✓ The ionic interaction is lost, so the fold changes in that region and the protein’s job is affected

Why: A different R group makes different interactions.
The nonpolar R group carries no charge, so the ionic interaction that held that part of the fold is lost.
The fold changes there, and a changed shape does its job differently or not at all.

FRQ 1 P17-frq1 · Conceptual Analysis scaffolded

Spider silk is a protein. Long stretches of each chain are made of small amino acids with nonpolar R groups, and in the finished thread those stretches lie side by side in flat arrangements held by hydrogen bonds between backbone groups, as drawn below. Many such arrangements packed together make the thread strong enough to stop a flying insect. A laboratory makes a variant of the silk protein in which every third amino acid in those stretches is replaced by an amino acid whose R group carries a full charge.

Left: one sheet of spider silk, three stretches of the chain side by side, with dashed lines between them and R groups pointing above and below. Right: many such sheets packed together into the thread.
Left: one sheet of spider silk, three stretches of the chain side by side, with dashed lines between them and R groups pointing above and below. Right: many such sheets packed together into the thread.

(a) Identify the level of structure formed by the stretches lying side by side, and name the arrangement. (1 pt)

Frame The stretches lying side by side are … structure, and the arrangement is called a …

Hint What kind of bond holds the stretches together, and which level of structure does that bond build?

Model answer The stretches lying side by side are secondary structure.
The arrangement is a beta pleated sheet.
Rubric
  • Award 1 point for: secondary structure, a beta pleated sheet.
  • Do not award: alpha helix, or tertiary structure.

Slip Calling the side-by-side stretches tertiary structure because they are folds. Folding held by backbone-to-backbone hydrogen bonds is secondary structure.

(b) Describe one hydrogen bond in these sheets: name the two backbone groups it joins, state the partial charge on each, and say which atom of one group attracts which atom of the other. (1 pt)

Frame The hydrogen bond joins a backbone … group on one stretch to a backbone … group on the neighboring stretch. The … of the … group is δ… and the … of the … group is δ…, so the … attracts the …

Hint Every peptide bond leaves the same two polar groups in the backbone. Which atom in each carries a partial charge, and with which sign?

Model answer The hydrogen bond joins a backbone N–H group on one stretch to a backbone C=O group on the neighboring stretch.
The H of the N–H group is δ+, because the N pulls the shared electrons toward itself.
The O of the C=O group is δ−, because the O pulls the shared electrons toward itself.
So the δ+ H of the N–H group attracts the δ− O of the C=O group; that attraction is the hydrogen bond.
Rubric
  • Award 1 point for: the bond joins a backbone N–H group and a backbone C=O group on neighboring stretches; the H of the N–H is δ+ and the O of the C=O is δ−; the δ+ H attracts the δ− O.
  • Accept: ‘partly positive’ and ‘partly negative’ for δ+ and δ−; the reason for the partial charges is not required.
  • Do not award: a hydrogen bond between R groups, the partial charges reversed, or the N named as the atom that attracts the O.

Slip Placing the hydrogen bond between R groups. In a sheet the R groups point above and below the sheet; the bonds that hold the stretches together join a backbone N–H group to a backbone C=O group.

(c) Explain how the order of amino acids in the silk chain decides the shape the chain takes. (1 pt)

Frame The order of amino acids is the chain’s …; it sets where each kind of … sits along the chain, so it sets which … can form and where the chain …

Hint Think about what part of each amino acid differs, and what those parts do when the chain folds.

Model answer The order of amino acids is the chain’s primary structure; it sets where each kind of R group sits along the chain, so it sets which interactions can form and where the chain folds.
A different order would put different R groups in each place and give a different shape.
Rubric
  • Award 1 point for: the order (primary structure) fixes where each R group sits, which fixes the interactions and so the fold.
  • Accept: ‘primary structure determines shape’ provided the R groups are given as the link.
  • Do not award: ‘the amino acids decide the shape’ with no mention of order or R groups.

Slip Saying the shape depends on which amino acids are present. The same twenty in a different order give a different shape; it is the order that matters.

(d) Predict what happens to the sheets in the variant protein, in which every third R group in those stretches carries a full charge. (1 pt)

Frame In the variant, water is pulled toward the … R groups, so those stretches …, and the sheets …

Hint Ask how water treats a charged R group compared with a nonpolar one.

Model answer In the variant, water is pulled toward the charged R groups, so those stretches are held in contact with the water instead of packing side by side away from it, and the sheets form poorly or fall apart; the chain folds differently in that region.
Rubric
  • Award 1 point for: water is attracted to the charged R groups, so the stretches no longer pack together and the sheets are disrupted (the fold changes).
  • Accept: ‘the charged groups pull that part of the chain toward the water and the sheet does not form properly’.
  • Do not award: no change, or the chain breaking.

Slip Predicting no change because the backbone is the same. The backbone is the same, but the R groups are what water sorts, and a charged R group is treated very differently from a nonpolar one.

(e) Support the claim that the variant thread would be weaker, using the relationship between a protein’s shape and its job. (1 pt)

Frame A protein’s shape is what lets it …; the thread is strong because …; in the variant the … are disrupted, so …

Hint Connect the stacked sheets to the strength of the thread.

Model answer A protein’s shape is what lets it do its job.
The thread is strong because many sheets pack together into a tough fiber.
In the variant the sheets are disrupted, so the packed fiber cannot form as before.
So the thread is weaker.
Rubric
  • Award 1 point for the evidence AND the reasoning that links it to the claim: the strength comes from the shape (stacked sheets packed together), and the variant’s sheets are disrupted (the evidence), so the packed fiber cannot form, so the thread is weaker (the reasoning).
  • Accept: ‘shape is the job’ applied to the disrupted sheets.
  • Do not award: ‘it is weaker because the amino acids are different’ with no link through shape, or the claim restated with no evidence.

Slip Going straight from ‘different amino acid’ to ‘weaker thread’. The step in between is the shape: the R groups change the interactions, the interactions change the fold, and the fold is what does the job.

FRQ 2 P17-frq2 · Conceptual Analysis

Insulin is a small protein made of two separately folded polypeptide chains that fit together into one molecule, which travels in the watery blood. People with one form of diabetes inject insulin, and the label warns them to keep it cool. A vial of insulin left in a hot car at about 50 °C for several hours no longer lowers blood sugar when injected; the liquid in the vial has turned cloudy, and cooling the vial again does not restore it.

(a) Describe the levels of structure that a molecule of insulin has. (1 pt)

Frame Each chain has …, … and … structure; because the two chains fit together, insulin also has …

Model answer Each chain has primary structure (its order of amino acids), secondary structure (coils and sheets held by backbone hydrogen bonds) and tertiary structure (its overall fold held by R-group interactions); because two separately folded chains fit together, insulin also has quaternary structure.
Rubric
  • Award 1 point for: primary, secondary and tertiary structure in each chain, plus quaternary structure because two chains fit together.
  • Accept: the four levels named with quaternary tied to the two chains.
  • Do not award: quaternary structure denied, or ‘all four levels’ with no reason for the fourth.

Slip Denying quaternary structure because insulin is small. Quaternary structure needs two or more separately folded chains fitted together, and insulin has two.

(b) Explain why the arrangement of hydrophobic R groups along each chain matters for the way the chain folds in the watery blood. (1 pt)

Model answer Water is attracted to charged and polar R groups and not to nonpolar ones, so a chain in water folds with its hydrophobic R groups clustered in the interior and its polar and charged R groups facing the water.
Wherever the nonpolar R groups sit along the chain, the chain tucks inward there, so their arrangement sets where the chain folds.
Rubric
  • Award 1 point for: water excludes nonpolar R groups and is attracted to polar and charged ones, so the chain folds to bury the hydrophobic R groups; their positions set where it folds.
  • Accept: ‘the nonpolar R groups end up inside, away from water, so where they are decides the fold’.
  • Do not award: hydrophobic R groups on the surface, or the fold explained by the backbone alone.

Slip Putting the hydrophobic R groups on the outside. Water excludes them, so they gather in the middle of the fold.

(c) Describe what the heat in the car did to the shape of the insulin molecules, and explain why they stopped working. (1 pt)

Model answer The heat broke the weak interactions holding each fold, the hydrogen bonds, ionic interactions and hydrophobic interactions, so the chains unfolded and clumped together with one another, which is what turned the liquid cloudy.
The peptide bonds and the order of amino acids survived, but the molecules lost their shape, and a protein’s shape is what lets it do its job, so the insulin no longer works.
Rubric
  • Award 1 point for: heat broke the weak interactions so the chains unfolded and clumped together; the shape is lost, and shape is what lets the protein do its job.
  • Accept: ‘the fold is lost but the sequence survives, and without its shape it cannot work’.
  • Do not award: peptide bonds broken, or the sequence changed.

Slip Saying the heat broke the protein into amino acids. Peptide bonds are covalent and survive; the fold, held by weak interactions, is what the heat destroyed.

(d) Support the claim that the insulin stays out of action after the vial is cooled again. (1 pt)

Model answer The cloudiness shows that the unfolded chains have clumped together.
Cooling does not pull the clumped chains apart, and it does not fold each one back into the particular shape it had.
So the shape stays lost.
A protein’s job depends on its shape, so the insulin stays out of action, just as a cooked egg white stays solid when it cools.
Rubric
  • Award 1 point for the evidence AND the reasoning that links it to the claim: the unfolded chains have clumped together (the cloudiness is the evidence), and cooling does not pull them apart or restore the original fold, so the shape and the job stay lost (the reasoning).
  • Accept: comparison with cooked egg white staying solid, with the clumping named.
  • Do not award: ‘the peptide bonds are gone’, ‘the protein was used up’, or the claim restated with no evidence.

Slip Expecting the fold to return when the interactions can form again. The clumped chains are stuck against one another in the wrong places; the original shape does not re-form.

APBIO-U01-T17 End-of-topic test: Proteins: Structure and Function

Topic 1.7 · Proteins: Structure and Function · 18 MCQ · 2 FRQ

Answer every question. For each multiple-choice question choose the one best answer and check it; 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. Write the steps in the box. Then open the scoring guide and score yourself point by point.

Q1 T17-q01

The figure shows two different amino acids drawn side by side. The parts of each are numbered 1 to 4.

Two amino acids drawn side by side. The four groups on each central carbon are numbered.
Two amino acids drawn side by side. The four groups on each central carbon are numbered.

Which number marks the amine group?

  1. A. 1
    Number 1 marks a single hydrogen atom bonded to the central carbon, not a group of atoms.
  2. B. ✓ 2
  3. C. 3
    Number 3 marks the carboxyl group, –COOH, a carbon bonded to two oxygens.
  4. D. 4
    Number 4 marks the R group, the one part that differs between the two amino acids.

Why: The amine group is –NH₂, a nitrogen bonded to two hydrogens; it is number 2 in both drawings.
Every amino acid has the same central carbon, hydrogen atom, carboxyl group and amine group; only the R group differs from one amino acid to another.

Q2 T17-q02

Three R groups, cut from three different amino acids, are drawn below, numbered 1 to 3.

Three R groups, numbered 1 to 3, cut from three different amino acids. The short line above each is the bond that joined it to its central carbon.
Three R groups, numbered 1 to 3, cut from three different amino acids. The short line above each is the bond that joined it to its central carbon.

Which classification gives the three R groups in the order 1, 2, 3?

  1. A. ✓ Hydrophobic, hydrophilic, charged
  2. B. Hydrophilic, hydrophobic, charged
    –CH₃ is carbon and hydrogen only, with no partial charges, so water is not attracted to it: it is hydrophobic, not hydrophilic.
  3. C. Hydrophobic, charged, hydrophilic
    –OH carries only the partial charges of its polar O–H bond, so it is hydrophilic, not charged.
  4. D. Charged, hydrophilic, hydrophobic
    –CH₃ has no charge of any kind, partial or full, so it is hydrophobic, not charged.

Why: Water sorts R groups by charge.
–CH₃ has only nonpolar C–H bonds and no charge, so water is not attracted to it (hydrophobic).
–OH has a polar bond with partial charges that water hydrogen-bonds to (hydrophilic).
–COO⁻ carries a full negative charge (charged, also called ionic).

Q3 T17-q03

An R group ends in an O–H bond. A student says the R group must be charged, because its oxygen is δ− and its hydrogen is δ+.

Which description of this R group is correct?

  1. A. Charged: it carries one full charge
    A full charge comes from an electron given up or taken completely, as in an ion, and the δ+ and δ− on a polar bond are much smaller partial charges.
  2. B. Hydrophobic: it carries no charge at all
    The O–H bond is polar, so this R group does carry partial charges and water is attracted to them.
  3. C. ✓ Hydrophilic: it carries partial charges only
  4. D. Charged: it carries two charges, + and −
    δ+ and δ− are the two ends of one polar bond: partial charges, not a full + and a full −.

Why: The δ+ and δ− on an O–H bond are partial charges, far smaller than the full charge on an ion.
An R group with a polar bond is hydrophilic (polar): water hydrogen-bonds to it.
Only an R group with a full charge, such as –COO⁻, is charged.

Q4 T17-q04

The figure shows two amino acids that have just been joined. Two of the bonds are labeled b and c.

Two amino acids after joining. Two bonds are labeled b and c.
Two amino acids after joining. Two bonds are labeled b and c.

Which labeled bond is the peptide bond, and what left the two amino acids as it formed?

  1. A. Bond c; one water molecule
    Bond c is the N–H bond that was already part of the amine group.
  2. B. Bond b; one hydrogen ion only
    A hydrogen ion is only half of what leaves: the carboxyl group gives up a hydroxyl group as well, and the two leave together as one water molecule.
  3. C. Bond c; one hydrogen ion only
    Bond c was already part of the amine group, and a hydrogen ion is only half of what leaves.
  4. D. ✓ Bond b; one water molecule

Why: Bond b joins the carboxyl carbon of one amino acid to the amine nitrogen of the next: the peptide bond.
It forms by dehydration synthesis: a hydroxyl group from the carboxyl group and a hydrogen ion from the amine group leave together as one water molecule.

Q5 T17-q05

A cell builds a polypeptide from twelve amino acids, adding them one after another.

How many peptide bonds does the finished chain contain, and how are its amino acids arranged?

  1. A. ✓ Eleven; in one unbranched line
  2. B. Twelve; in one unbranched line
    Each peptide bond joins two neighbors, so twelve amino acids in a row have eleven joins between them, one fewer than the number of units.
  3. C. Eleven; in a branched chain, with some amino acids joined onto its side
    A polypeptide never branches: each amino acid joins through its carboxyl group on one side and its amine group on the other; R groups are not extra amino acids.
  4. D. Twelve; in a branched chain, with some amino acids joined onto its side
    Twelve units in a row have eleven joins, not twelve, and a polypeptide never branches; the R groups are parts of each amino acid, not extra amino acids.

Why: Twelve amino acids in a row are held by eleven peptide bonds, one between each pair of neighbors.
Each amino acid joins the chain through its carboxyl group on one side and its amine group on the other, so the chain is linear and unbranched.

Q6 T17-q06

Two polypeptides are each built from the same twenty amino acids, one of each kind, but joined in a different order.

What should you predict about the two proteins they become?

  1. A. Identical: the backbone is the same
    The backbone is the same in every polypeptide, but the R groups hanging off it are in a different order, and R groups are the parts that interact.
  2. B. Same shape: same amino acids present
    Having the same amino acids is not enough: their order along the chain decides which R groups end up near one another.
  3. C. ✓ Different shapes: the order differs
  4. D. Different only if the first amino acid differs
    Every position matters, not only the first: a different order anywhere along the chain puts different R groups next to one another.

Why: The order of amino acids from first to last is the primary structure, and it determines the shape the protein folds into.
Two chains with the same twenty amino acids in a different order are two different proteins with different shapes.

Q7 T17-q07

A protein chain is held in its folded shape by bonds and attractions of several kinds. Some of them involve only the repeating backbone of the chain; others involve the R groups.

Which level of protein folding is held together by bonds along the backbone alone, with no part played by R groups?

  1. A. Tertiary: the backbone folds the whole chain
    Tertiary structure is held by interactions between R groups: hydrogen bonds, ionic and hydrophobic interactions, and disulfide bridges.
  2. B. Quaternary: the backbone binds other chains
    Quaternary structure is two or more folded chains fitting together, and their fit depends on the R groups on their surfaces.
  3. C. None: all folding depends on R groups
    One level does depend on the backbone alone.
  4. D. ✓ Secondary: hydrogen bonds along the backbone

Why: Secondary structure, the alpha helix and the beta pleated sheet, is held by hydrogen bonds between backbone atoms: the δ+ hydrogen of a backbone N–H attracted to the δ− oxygen of a backbone C=O further along the chain.
No R group is needed.

Q8 T17-q08

The figure shows a stretch of one polypeptide drawn as a line that turns back on itself, so two lengths of the chain lie side by side. The short lines marked R are its R groups. Dashed lines run between the two lengths of chain.

A stretch of one polypeptide, drawn folded back on itself. R marks the R groups; dashed lines run between the two lengths of chain.
A stretch of one polypeptide, drawn folded back on itself. R marks the R groups; dashed lines run between the two lengths of chain.

Which level of structure is shown, and what are the dashed lines?

  1. A. Tertiary; hydrogen bonds between R groups
    The dashed lines run between the two lengths of the chain itself, not between the R groups, which point away from the gap.
  2. B. ✓ Secondary; hydrogen bonds between backbone atoms
  3. C. Secondary; peptide bonds joining the two lengths
    Peptide bonds run along the chain, joining each amino acid to the next, and never cross between two lengths of chain.
  4. D. Quaternary; two chains lying side by side
    The drawing is one chain folded back on itself, not two separate chains.

Why: Two stretches of one chain lying side by side and held by hydrogen bonds between backbone atoms, the N–H of one stretch to the C=O of the other, is a beta pleated sheet.
Like the alpha helix, it is secondary structure.

Q9 T17-q09

Two hydrogen bonds are found inside the same folded protein. Hydrogen bond X joins two atoms of the polypeptide backbone a few amino acids apart. Hydrogen bond Y joins two polar R groups on stretches of the chain that are far apart in the sequence.

Which level of structure does each hydrogen bond belong to?

  1. A. Both secondary: both are hydrogen bonds
    The kind of bond does not set the level; what is bonding does.
  2. B. ✓ X secondary; Y tertiary
  3. C. X tertiary; Y secondary
    X, between backbone atoms, is secondary structure; Y, between R groups, is one of the interactions that hold the tertiary structure.
  4. D. Both tertiary: both hold the chain in a fold
    Both bonds hold a fold, but at different levels.

Why: The level is set by what is bonding.
Hydrogen bonds between backbone atoms (N–H to C=O), like X, form secondary structure.
Hydrogen bonds between polar R groups, like Y, are one of the four kinds of R-group interaction that hold the tertiary structure.

Q10 T17-q10

The figure shows two R groups on distant parts of one folded polypeptide, drawn close together. One carries a full positive charge and the other a full negative charge.

Two R groups on distant parts of one folded polypeptide, drawn close together.
Two R groups on distant parts of one folded polypeptide, drawn close together.

Which interaction is drawn, and which level of structure does it help hold?

  1. A. ✓ Ionic interaction; tertiary
  2. B. Hydrogen bond; secondary
    A hydrogen bond is the attraction between a δ+ hydrogen and a δ− oxygen or nitrogen, partial charges, and these two R groups carry full charges.
  3. C. Ionic interaction; secondary
    Secondary structure is held by hydrogen bonds between backbone atoms, and this attraction is between R groups.
  4. D. Disulfide bridge; tertiary
    A disulfide bridge is a covalent bond between the sulfur atoms of two cysteine R groups; these two R groups carry charges, not sulfur.

Why: A full positive charge and a full negative charge on two R groups attract each other: an ionic interaction.
It is between R groups, so it is one of the four kinds of interaction that hold the tertiary structure.

Q11 T17-q11

A hairdresser gives straight hair a curl that lasts for months. The first solution breaks the disulfide bridges in the hair’s keratin chains. The hairdresser winds the hair into curls, then applies the second solution.

Why does the hair keep its new curl?

  1. A. The first solution broke the peptide bonds, and the second joined the amino acids in a new order
    Neither solution touches the peptide bonds, so the amino acids stay in their order.
  2. B. Hydrogen bonds between the keratin chains hold the curl, as they do after a curling iron
    A curling iron’s curl is held by hydrogen bonds and comes out; the second solution formed disulfide bridges, which are covalent bonds and far stronger.
  3. C. ✓ New disulfide bridges hold the keratin chains in the curled fold
  4. D. The two solutions built new keratin chains in the curled shape
    The keratin chains are not rebuilt; only the disulfide bridges between their cysteines are broken and re-formed.

Why: A disulfide bridge is a covalent bond between the sulfur atoms of two cysteine R groups; it helps hold the tertiary structure.
The first solution breaks those bridges, so the chains can be curled.
The second forms new bridges between the cysteines now side by side, so the curl holds.

Q12 T17-q12

A protein floats in the watery inside of a cell. One stretch of its chain is buried in the middle of the folded molecule, well away from the water.

What is most likely true of the R groups along that buried stretch?

  1. A. Mostly charged
    Water's partial charges pull on full charges, so charged R groups are drawn to the water and sit on the surface.
  2. B. Mostly hydrophilic (polar)
    Water hydrogen-bonds to polar R groups, so these face the water at the surface.
  3. C. An even mix of all three kinds
    The fold is not random: water sorts the R groups.
  4. D. ✓ Mostly hydrophobic (nonpolar)

Why: Water is attracted to charged and polar R groups and not to nonpolar ones, so the chain folds with its hydrophobic (nonpolar) R groups clustered in the interior and its hydrophilic and charged R groups facing the water.
A buried stretch is therefore mostly nonpolar.

Q13 T17-q13

Two proteins are compared. Protein A is one folded chain of 240 amino acids. Protein B is three folded chains of 80 amino acids each, held tightly against one another.

Which levels of structure does each protein have?

  1. A. Both proteins have all four levels
    Quaternary structure needs two or more separately folded chains fitting together, and protein A is a single chain.
  2. B. ✓ A: primary to tertiary; B: all four
  3. C. A: all four; B: primary and secondary only
    Each of protein B’s chains is folded, so each has secondary and tertiary structure; the three fitting together add quaternary structure, which protein A, one chain, lacks.
  4. D. Neither has quaternary structure
    Protein B is three separate polypeptides packed together, which is exactly what quaternary structure is.

Why: Quaternary structure arises only when two or more separately folded polypeptides fit together.
Protein A is one chain, so it has primary, secondary and tertiary structure.
Protein B's three chains give it all four levels.

Q14 T17-q14

Hemoglobin's four folded chains fit together to make pockets that each hold one oxygen molecule. A biologist examining a sample of hemoglobin sees that some of the chains have folded into a different shape, with no pockets. Every one of those chains still has its full amino-acid sequence.

Would that hemoglobin carry oxygen, and why?

  1. A. ✓ No: the job depends on the shape
  2. B. Yes: the sequence is unchanged
    The sequence is only the first level of structure, and the job is done by the finished shape that all four levels build.
  3. C. Yes: the same amino acids are present
    Having every amino acid is not the same as having the shape.
  4. D. Partly: each chain holds oxygen on its own
    No chain holds oxygen by itself: the pockets are made by the four folded chains fitting together in one particular shape.

Why: The four levels of structure give a protein its shape, and the shape lets it do its job.
Hemoglobin holds oxygen in pockets made by its folded chains.
Chains folded into a different shape make no pockets, so this hemoglobin cannot carry oxygen even though its sequence is unchanged.

Q15 T17-q15

Raw fish flesh is translucent and soft. After cooking it is opaque and firm, and it does not become translucent again as it cools. Nobody added anything to it; heating was the only change.

What has happened to the protein molecules in the fish?

  1. A. The peptide bonds broke, freeing amino acids
    Peptide bonds are covalent and survive cooking; if the chains had fallen apart into free amino acids the flesh would not have set firm.
  2. B. The order of amino acids was changed by heat
    Heat does not rewrite a sequence: the amino acids stay in the same order, joined by the same peptide bonds.
  3. C. ✓ The weak interactions holding the fold broke
  4. D. New peptide bonds joined the chains into one
    No new peptide bonds form; a peptide bond is made by dehydration synthesis in a cell, not by heat in a pan.

Why: Heat breaks the weak interactions that hold a protein's fold: hydrogen bonds, ionic and hydrophobic interactions.
The chains unfold, tangle with one another and stay tangled as they cool, so the protein has lost its shape and its function.
The covalent peptide bonds and the amino-acid sequence survive.

Q16 T17-q16

A protein is heated until it loses its shape and stops working.

Which feature of the protein is the same before and after the heating?

  1. A. Its tertiary structure
    The tertiary structure is the fold, held by weak interactions between R groups, and heat breaks those interactions.
  2. B. Its hydrogen bonds
    Hydrogen bonds are among the weak interactions that heat breaks, both those between backbone atoms and those between R groups.
  3. C. Its function
    A protein's function depends on its shape, so when the shape is lost the function is lost with it.
  4. D. ✓ Its primary structure

Why: Heat breaks the weak interactions (hydrogen bonds, ionic and hydrophobic interactions) that hold the fold, so secondary and tertiary structure are lost and with them the function.
The covalent peptide bonds survive, so the amino-acid sequence, the primary structure, is unchanged.

Q17 T17-q17

A protein gives off green light, and its brightness can be measured. Researchers made two variants, each with one amino acid replaced, and measured all three under the same conditions. Original protein: 100 units. Variant P, a nonpolar R group replaced by a different nonpolar R group: 96 units. Variant Q, a negatively charged R group replaced by a positively charged R group: 18 units.

Which best explains why the two substitutions had such different effects?

  1. A. ✓ Variant Q's swap changed which interactions form; variant P's kept the same kind
  2. B. Variant Q's new R group is larger, so it pushed the fold further out of shape
    Nothing in the data says the new R group is larger; what changed in Q is the charge, from negative to positive, and that changes its ionic interactions.
  3. C. Variant P changed the primary structure less, because both R groups were nonpolar
    Each variant has one amino acid replaced, so each changed the primary structure by exactly one position; the difference is in what the new R group does.
  4. D. Nonpolar R groups play no part in folding, so only the swap in variant Q could change the shape
    Nonpolar R groups do take part in folding, gathering together away from water, and the data agree: variant P's swap did change the brightness a little (96 units, not 100).

Why: Interactions between R groups hold the fold, and the fold makes the protein work.
In P, one nonpolar R group replaced another, so the shape barely changes.
In Q, a negative charge became positive, so the ionic interactions changed, the fold changed, and the protein lost most of its brightness.

Q18 T17-q18

A protein floats in the watery inside of a cell. Deep in its interior, a stretch of nonpolar R groups is clustered together. In a variant of this protein, one of those interior amino acids is replaced by an amino acid with a charged R group. The chain is the same length and every other amino acid is unchanged.

What is the most likely effect of this substitution?

  1. A. None: one amino acid in hundreds is too few
    Water pulls on a full charge wherever it is, so a charged R group buried among nonpolar ones is out of place.
  2. B. The chain breaks in two at the new amino acid
    A substitution swaps one amino acid for another, and the peptide bonds on either side of it are still there.
  3. C. ✓ The fold shifts to bring the charge toward the water
  4. D. The sequence changes but the shape stays the same
    A changed sequence is a changed set of R-group interactions, so the shape changes too.

Why: The fold is set by how water treats each R group.
A charged R group is attracted to water, so it cannot stay buried among nonpolar groups; the chain re-folds to bring it toward the surface, and the protein's shape, and so its job, changes.

FRQ 1 T17-frq1 · Conceptual Analysis

Hemoglobin is the protein in red blood cells that carries oxygen. Each hemoglobin molecule is four polypeptide chains, each folded and then packed together, and it holds oxygen only when the chains are folded correctly. In one variant form of hemoglobin, a single amino acid on the surface of two of the chains is replaced. In the usual form, that position holds an amino acid whose R group carries a negative charge and faces the surrounding water. In the variant, the amino acid at that position has a nonpolar R group. The chains are the same length, and every other amino acid is unchanged.

(a) Describe the primary structure of one hemoglobin chain, including the kind of bond that holds its amino acids together. (1 pt)

Model answer The primary structure of one chain is the specific order of its amino acids from first to last, held together by peptide bonds: the covalent bond between the carboxyl group of one amino acid and the amine group of the next.
Rubric
  • Award 1 point for describing primary structure as the specific order (sequence) of amino acids in the chain, from first to last, joined by peptide bonds.
  • Accept: the peptide bond described as the covalent bond between the carboxyl group of one amino acid and the amine group of the next, or as the bond formed by dehydration synthesis.
  • Do not award for describing the fold or shape of the chain, or for 'the amino acids it contains' without their order.

Slip Describing the fold, or listing which amino acids are present. Primary structure is their order, held by peptide bonds.

(b) Explain how the order of amino acids in a chain determines the three-dimensional shape the chain folds into. (1 pt)

Model answer The order of amino acids sets the order of R groups along the chain, and the R groups fold it: nonpolar R groups gather together away from water, polar and charged R groups face the water, and R groups on distant parts of the chain hold one another by hydrogen bonds, ionic interactions or disulfide bridges.
A different order gives a different set of interactions and a different fold.
Rubric
  • Award 1 point for explaining that the order of amino acids sets the order of R groups along the chain, and that interactions involving the R groups fold the chain: nonpolar R groups gather together away from water, polar and charged R groups face the water, and R groups on distant parts of the chain hold one another by hydrogen bonds, ionic interactions or disulfide bridges.
  • Accept: an answer naming at least one specific R-group interaction (hydrophobic interaction, hydrogen bond, ionic interaction, disulfide bridge, or attraction to water) and linking it to the fold.
  • Do not award for 'the sequence determines the shape' restated without any mechanism.

Slip Writing ‘the sequence determines the shape’ and stopping. Name at least one R-group interaction and say how it folds the chain.

(c) Make a claim about how this substitution would most likely affect hemoglobin molecules in the watery inside of a red blood cell. (1 pt)

Model answer The variant hemoglobin molecules stick to one another into fibers, so they carry oxygen less well.
Rubric
  • Award 1 point for the claim: EITHER the molecules stick to one another (clump, form fibers) where the nonpolar patches touch, OR the chain re-folds or shifts to move the nonpolar group away from the water so the shape is altered; in either case the protein carries oxygen less well. The point is for the assertion; the reasoning is scored in (d).
  • Accept: 'the molecules stick together', 'the nonpolar patches on neighboring molecules gather together away from water', or 'the shape changes so the pockets that hold oxygen are affected'.
  • Do not award: 'nothing changes because only one amino acid differs', or a claim that the chain breaks or unfolds completely.

Slip Claiming no change because only one amino acid differs. One surface R group that water excludes is enough to change how the molecules behave.

(d) Support your claim using the relationship between a protein's shape and its function. (1 pt)

Model answer A protein’s function depends on its shape.
The shape depends on how its R groups interact with water and with one another.
In the variant, a surface R group has changed from charged to nonpolar, so water is no longer attracted to that spot.
So the nonpolar patches on neighboring molecules settle against one another, and the molecules stick together.
The stuck-together molecules no longer hold their working shape, so they carry oxygen less well.
Rubric
  • Award 1 point for the evidence AND the reasoning that links it to the claim: a protein's function depends on its shape; the shape depends on how its R groups interact with water and with one another; the surface R group has changed from charged to nonpolar (the evidence), so those interactions change, so the shape or behavior of the protein changes even though the chain is the same length and every other amino acid is unchanged (the reasoning).
  • Accept: a response that explicitly links the R-group change to a shape change and the shape change to a change in function.
  • Do not award: the claim restated without connecting shape to function.

Slip Repeating the prediction. The justification must connect the R-group change to the shape and the shape to the job.

FRQ 2 T17-frq2 · Analyze Model or Visual Representation

The model shows one folded polypeptide (chain 1) in water, with four labeled features, and part of a second folded polypeptide (chain 2) fitted against it. W: a coiled stretch of chain 1, with dashed lines between backbone atoms of one turn and the next. X: an S–S link between two cysteine R groups. Y: a positively charged R group and a negatively charged R group close together. Z: a cluster of nonpolar R groups in the interior of the fold.

One folded polypeptide (chain 1) in water, with features W, X, Y and Z labeled, and a second polypeptide (chain 2) fitted against it.
One folded polypeptide (chain 1) in water, with features W, X, Y and Z labeled, and a second polypeptide (chain 2) fitted against it.

(a) Describe the level of structure shown at W, and the level of structure shown by chain 1 and chain 2 fitting together. (1 pt)

Model answer W is secondary structure, an alpha helix held by hydrogen bonds between backbone atoms of one turn and the next; chain 1 and chain 2 fitting together is quaternary structure, two separately folded polypeptides making one protein.
Rubric
  • Award 1 point for identifying W as secondary structure (an alpha helix) held by hydrogen bonds between backbone atoms, AND the fit between chain 1 and chain 2 as quaternary structure (two or more separately folded polypeptides fitting together into one protein).
  • Accept: 'alpha helix' or 'a coil held by backbone hydrogen bonds' for W.
  • Do not award if W is called tertiary structure, or if the contact between the two chains is called tertiary structure.

Slip Calling W or the fit between the two chains tertiary structure. Tertiary structure is the fold of one chain; a coil held by backbone hydrogen bonds is secondary, and two chains fitting together is quaternary.

(b) Describe one of the hydrogen bonds at W: name the two backbone groups involved, state the partial charge on each, and say which atom of one group attracts which atom of the other. (1 pt)

Model answer One hydrogen bond at W joins a backbone C=O group on one turn of the coil to a backbone N–H group on the next turn.
The O of the C=O group is δ−.
The H of the N–H group is δ+.
So the δ+ H of the N–H group attracts the δ− O of the C=O group; that attraction is the hydrogen bond.
Rubric
  • Award 1 point for: a backbone C=O group and a backbone N–H group from different turns of the coil; δ− on the O of the C=O and δ+ on the H of the N–H; the δ+ H attracts the δ− O.
  • Accept: the two groups named and the H-to-O attraction stated without the δ+ and δ− labels.
  • Do not award: a hydrogen bond between two R groups, the partial charges reversed, or the N named as the atom that attracts the O.

Slip Placing the hydrogen bond between two R groups, or naming the N as the atom that attracts the O. The bonds at W join backbone groups, and it is the δ+ H of the N–H that is attracted to the δ− O of the C=O.

(c) Explain why the nonpolar R groups at Z are found in the interior of the fold rather than on the surface facing the water. (1 pt)

Model answer Water’s partial charges are attracted to charged and polar R groups but find nothing to pull on in nonpolar ones, so the chain folds with its nonpolar R groups clustered together away from the water, in the interior, and its polar and charged R groups facing the water.
Rubric
  • Award 1 point for explaining that water's partial charges are attracted to charged and polar R groups but not to nonpolar ones, so the chain folds with its nonpolar (hydrophobic) R groups clustered together away from the water and its polar and charged R groups facing the water.
  • Accept: 'nonpolar R groups are hydrophobic, so water excludes them and they gather in the interior (a hydrophobic interaction)'.
  • Do not award for 'nonpolar groups repel water', or for 'nonpolar groups are attracted to each other' with no reference to water.

Slip Saying nonpolar groups ‘repel water’ or ‘attract each other’ with no water in the story. Water excludes them; that is what pushes them together inside.

(d) The protein is warmed gently, enough to break the interactions at W, Y and Z while leaving the S–S link at X and every peptide bond intact. Explain what the protein loses when those interactions break, and why that stops it doing its job even though its amino-acid sequence is unchanged. (1 pt)

Model answer The weak interactions, the backbone hydrogen bonds at W, the ionic interaction at Y and the hydrophobic interaction at Z, hold the fold.
When they break, the chain unfolds and loses its three-dimensional shape, and the two chains no longer fit together.
A protein’s function depends on its shape, so the function is lost, while the covalent peptide bonds and the primary structure survive.
Rubric
  • Award 1 point for explaining that the weak interactions (the backbone hydrogen bonds at W, the ionic interaction at Y, the hydrophobic interaction at Z) hold the fold; when they break, the chain unfolds and loses its three-dimensional shape (and the two chains no longer fit together); and a protein's function depends on its shape, so the function is lost while the covalent peptide bonds and the primary structure survive.
  • Accept: 'the shape is lost, and the job depends on the shape', with at least one of the broken interactions named.
  • Do not award for 'the peptide bonds break' or 'the sequence changes'.

Slip Saying the peptide bonds break or the sequence changes. Gentle warming breaks only the weak interactions; the chain and its order of amino acids survive, and the shape is what is lost.

APBIO-U01-L14 One strand of DNA

Topic 1.6 · Nucleic Acids · 51 steps

A person with the heart and liver marked, and a molecule of DNA, two strands twisted around each other
A person with the heart and liver marked, and a molecule of DNA, two strands twisted around each other

Here is a human. A human body is made of cells, and cells in different places do different jobs.

The cells in your heart pump blood around your body. The cells in your liver store sugar as glycogen and clean your blood. How does a heart cell know to do a heart cell’s job, and a liver cell a liver cell’s? Deep inside every cell there are hidden instructions, held in a long molecule called DNA. Here is what a molecule of DNA looks like: two long strands twisted around each other. Every part of it has a name, and the first part to look at is its smallest repeating piece.

Unit 1 · Chemistry of Life

1The units of a DNA strand

2

Video: Watch first: Nucleic acids

A human, cells doing different jobs, and the long molecule inside every cell that holds the instructions.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-T16-intro.mp4

3

Video: Watch: The nucleotide

One unit of DNA taken apart: a phosphate group, a five-carbon sugar and a base, then the same unit atom by atom.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L14.mp4

4

DNA is the material that carries a living thing’s inherited instructions. The instructions pass from parent to offspring, and almost every cell in your body holds a full copy.

5

To see its parts, take one of the two strands and draw it straight. Here is a short piece of one strand. It is a chain of small units, one after another, like the chain of glucose units in starch.

A short piece of one DNA strand: four units in a row, lettered A, T, G, C, with one unit boxed
A short piece of one DNA strand: four units in a row, lettered A, T, G, C, with one unit boxed
6

The units come in four kinds, lettered A, T, G and C. A strand is a long row of these four kinds of unit.

7

DNA was first found in the nucleus of cells, so DNA and the molecules built the same way are called . One unit of a nucleic acid is called a .

8

So DNA is a polymer, and the nucleotide is its monomer.

9

Every nucleotide has the same three parts. Here is one unit on its own, drawn the same way up as in the strand.

One nucleotide: a phosphate group to the left, a five-carbon sugar in the middle, a nitrogenous base on top
One nucleotide: a phosphate group to the left, a five-carbon sugar in the middle, a nitrogenous base on top
10

The first part, on the left, is a phosphate group: a phosphorus atom with four oxygen atoms around it, the same group as in the head of a phospholipid. It is drawn as a circle marked P.

11

The second part, in the middle, is a sugar with five carbon atoms. It is drawn as a five-sided ring, a pentagon.

12

The third part, on top, is a ring of carbon and nitrogen atoms. A ring like this is called a : nitrogenous because it contains nitrogen, and a base because in water it can take up a hydrogen ion, which is what chemists call a base.

13

Here is the same nucleotide drawn atom by atom. P is phosphorus, O is oxygen, C is carbon and N is nitrogen. Most of the hydrogen atoms are left out so that the three parts stay easy to see.

The same nucleotide drawn atom by atom: phosphate group at left, deoxyribose ring in the middle, the base thymine on top
The same nucleotide drawn atom by atom: phosphate group at left, deoxyribose ring in the middle, the base thymine on top
14

In DNA the base is one of four: . The letter written on a strand is the first letter of the base that unit carries.

The four bases of DNA drawn as lettered rings: adenine A, thymine T, guanine G, cytosine C
The four bases of DNA drawn as lettered rings: adenine A, thymine T, guanine G, cytosine C
15

The phosphate and the sugar are the same in every nucleotide of DNA. Only the base changes from one nucleotide to the next.

Two nucleotides side by side, identical except for the base
Two nucleotides side by side, identical except for the base
16

What you are expected to know You can now name the three parts of a drawn nucleotide, and say that the base is the only part that changes from one nucleotide to the next.

17
Check q1

Here is one nucleotide, drawn with its parts marked 1, 2 and 3.

One nucleotide with its three parts marked 1, 2 and 3
One nucleotide with its three parts marked 1, 2 and 3

Which list names the parts in order?

  1. A. 1 five-carbon sugar, 2 phosphate group, 3 nitrogenous base
    The circle marked P is the phosphate group, not the sugar.
  2. B. 1 nitrogenous base, 2 five-carbon sugar, 3 phosphate group
    The circle marked P is the phosphate group, not a base.
  3. C. ✓ 1 phosphate group, 2 five-carbon sugar, 3 nitrogenous base
  4. D. 1 phosphate group, 2 nitrogenous base, 3 five-carbon sugar
    The five-sided ring is the sugar, not the base.

Why: The circle marked P is the phosphate group (1), the five-sided ring is the five-carbon sugar (2), and the ring on top is the nitrogenous base (3).

18
Check q2

Two nucleotides are taken from different places in the same DNA strand and compared side by side.

Which part of them might be different?

  1. A. The phosphate group
    The phosphate group is the same in every nucleotide.
  2. B. ✓ The nitrogenous base
  3. C. The five-carbon sugar
    Every nucleotide of DNA has the same sugar, deoxyribose.
  4. D. Nothing; every nucleotide in a strand is identical
    The nucleotides of a strand are not all identical.

Why: The phosphate group and the sugar are the same in every nucleotide of DNA.
The base is the only part that changes, so the base is the part that might differ.

19The sugar’s five carbons

20

Look at the sugar on its own, with its atoms drawn. The ring has five corners, but only four of them are carbon atoms; the fifth corner is an oxygen atom. The fifth carbon sits outside the ring.

The five-carbon sugar with its atoms drawn: four carbons and one oxygen make the ring, carbon 5 sits outside; the phosphate is at carbon 5, the base at carbon 1, a hydroxyl group at carbon 3
The five-carbon sugar with its atoms drawn: four carbons and one oxygen make the ring, carbon 5 sits outside; the phosphate is at carbon 5, the base at carbon 1, a hydroxyl group at carbon 3
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The five carbons are numbered 1 to 5. Carbon 1 is the ring carbon that carries the base; the numbers then run around the ring to carbon 4, and carbon 5 is the one outside.

22

The base is attached at carbon 1.

23

The phosphate group is attached at carbon 5.

24

Carbon 3 carries a hydroxyl group, –OH.

25

Carbon 2 is where the two sugars of nucleic acids differ. Here they are side by side.

Ribose and deoxyribose side by side: ribose carries –OH on carbon 2, deoxyribose carries H on carbon 2
Ribose and deoxyribose side by side: ribose carries –OH on carbon 2, deoxyribose carries H on carbon 2
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The sugar on the left carries –OH on carbon 2. A five-carbon sugar like this is called .

27

The sugar on the right carries only an H on carbon 2: it is ribose with one oxygen atom taken away. A sugar like this is called , because it is ribose with an oxygen removed (de-oxy).

28

DNA is built with deoxyribose. That is where the D in DNA comes from: DNA is short for deoxyribonucleic acid.

29

In the simple drawing both sugars are drawn as the same pentagon. The ribose pentagon carries a small –OH mark at carbon 2, so you can tell the two apart at a glance.

The two sugars in the simple drawing: the deoxyribose pentagon is plain; the ribose pentagon carries a small –OH mark at carbon 2
The two sugars in the simple drawing: the deoxyribose pentagon is plain; the ribose pentagon carries a small –OH mark at carbon 2
30

What you are expected to know You can now number the sugar’s five carbons, say which carbon carries the phosphate, the base and the hydroxyl group, and tell ribose from deoxyribose by what sits on carbon 2.

31
Check q3

Here is the five-carbon sugar with its carbons numbered.

The five-carbon sugar with its atoms drawn and its carbons numbered 1 to 5, nothing attached
The five-carbon sugar with its atoms drawn and its carbons numbered 1 to 5, nothing attached

In a nucleotide, which carbon carries the phosphate group?

  1. A. Carbon 1
    Carbon 1 carries the base.
  2. B. Carbon 2
    Carbon 2 carries an H in deoxyribose or an –OH in ribose.
  3. C. Carbon 3
    Carbon 3 carries a hydroxyl group, –OH.
  4. D. ✓ Carbon 5

Why: The phosphate group is attached at carbon 5, the carbon outside the ring.
Carbon 1 carries the base and carbon 3 carries the hydroxyl group.

32
Check q4

How does deoxyribose differ from ribose?

  1. A. It has an –OH where ribose has an H
    It runs the difference the wrong way: ribose is the sugar with the extra –OH.
  2. B. ✓ It has an H where ribose has an –OH
  3. C. It has six carbons where ribose has five
    Both sugars have five carbons.
  4. D. It has no hydroxyl group on carbon 3
    Both sugars carry –OH on carbon 3.

Why: Deoxyribose is ribose with one oxygen taken away.
The oxygen missing is the one in the –OH on carbon 2, so deoxyribose carries only an H there.

33Four bases in DNA, and a fifth in RNA

34

Besides DNA, cells hold a second nucleic acid, called . RNA is also a chain of nucleotides, and it does a different job: it carries working copies of short stretches of DNA’s instructions to the places in the cell where they are used.

An RNA nucleotide: a phosphate group, the sugar ribose with its –OH mark at carbon 2, and the base uracil on top
An RNA nucleotide: a phosphate group, the sugar ribose with its –OH mark at carbon 2, and the base uracil on top
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In an RNA nucleotide the sugar is ribose, the sugar with –OH on carbon 2. That is where the R in RNA comes from: RNA is short for ribonucleic acid.

36

RNA has no thymine. In its place is a fifth base, . So RNA’s four bases are A, U, G and C.

The five bases: DNA uses A, T, G and C; RNA uses A, U, G and C
The five bases: DNA uses A, T, G and C; RNA uses A, U, G and C
37

DNA and RNA are the two nucleic acids. Both nucleic acids are long chains of nucleotides; they differ in their sugar and in one of their four bases.

38

What you are expected to know You can now tell a DNA nucleotide from an RNA nucleotide by its sugar and by its base, and name the five bases.

39
Check q5

A nucleotide is taken from a cell. Its sugar is ribose and its base is uracil.

Which nucleic acid did it come from?

  1. A. ✓ RNA, because ribose and uracil are found in RNA
  2. B. DNA, because every nucleotide with a phosphate group is DNA
    Every nucleotide of DNA and of RNA has a phosphate group, so the phosphate group does not tell the two apart.
  3. C. DNA, because uracil is one of the four bases of DNA
    DNA’s four bases are adenine, thymine, guanine and cytosine; uracil is RNA’s base.
  4. D. Either, because both nucleic acids use the same sugar
    The two nucleic acids use different sugars: deoxyribose in DNA, ribose in RNA.

Why: Ribose is the sugar of RNA, and uracil is the base RNA carries in place of thymine.
Ribose and uracil both show that the strand is RNA.

40
Check q6

Which base does RNA carry in place of thymine?

  1. A. Adenine
    Adenine is found in both DNA and RNA.
  2. B. Guanine
    Guanine is found in both DNA and RNA.
  3. C. Cytosine
    Cytosine is found in both DNA and RNA.
  4. D. ✓ Uracil

Why: RNA has no thymine.
Its fifth base, uracil, takes thymine’s place, so RNA’s bases are A, U, G and C.

41

The instructions hidden inside every cell of a human body are written in nucleotides: the same phosphate group and the same sugar every time, carrying one of four bases.

42Mixed practice mixed practice

43
Check q7

Which parts of a nucleotide are the same in every nucleotide of a DNA strand?

  1. A. The phosphate group only
    The sugar is also the same in every nucleotide of DNA.
  2. B. The phosphate group and the base
    The base changes from one nucleotide to the next.
  3. C. The sugar and the base
    The base changes from one nucleotide to the next.
  4. D. ✓ The phosphate group and the sugar

Why: Every nucleotide of DNA has the same phosphate group and the same sugar, deoxyribose.
Only the base differs from one nucleotide to the next.

44
Check q8

The letters A, T, G and C written along a DNA strand each stand for what?

  1. A. ✓ The base that nucleotide carries
  2. B. The sugar that nucleotide carries
    Every nucleotide of DNA has the same sugar, so a letter for the sugar would be the same everywhere.
  3. C. The number of phosphate groups
    Every nucleotide in a strand carries one phosphate group.
  4. D. The carbon the base is attached to
    The base is attached at carbon 1 in every nucleotide.

Why: A, T, G and C are the first letters of the four bases: adenine, thymine, guanine and cytosine.
The letter on a unit names the base that unit carries.

45
Check q9

Here is one nucleotide with its middle part marked X. The small –OH mark sits on carbon 2 of the ring, the corner numbered 2.

One nucleotide with its middle part marked X; that part is a five-sided ring carrying a small –OH mark on the corner numbered 2
One nucleotide with its middle part marked X; that part is a five-sided ring carrying a small –OH mark on the corner numbered 2

What is part X?

  1. A. ✓ Ribose, the sugar of RNA
  2. B. Deoxyribose, the sugar of DNA
    The pentagon carries a small –OH mark at carbon 2, which is the mark of ribose, not deoxyribose.
  3. C. A phosphate group
    The phosphate group is the circle marked P, to the left.
  4. D. A nitrogenous base
    The base is the ring on top of the sugar.

Why: The pentagon is the sugar, and the small –OH mark at carbon 2 shows it is ribose.
Ribose is the sugar of RNA, so this is an RNA nucleotide.

46
Check q10

Here is the five-carbon sugar with its carbons numbered.

The five-carbon sugar with its atoms drawn and its carbons numbered 1 to 5, nothing attached
The five-carbon sugar with its atoms drawn and its carbons numbered 1 to 5, nothing attached

In a nucleotide, which carbon carries the base?

  1. A. Carbon 5
    Carbon 5, outside the ring, carries the phosphate group.
  2. B. Carbon 3
    Carbon 3 carries a hydroxyl group, –OH.
  3. C. ✓ Carbon 1
  4. D. Carbon 4
    Carbon 4 is the last ring carbon and carries carbon 5.

Why: The base is attached at carbon 1.
Carbon 5 carries the phosphate group, and carbon 3 carries the hydroxyl group.

47
Check q11

A nucleotide’s sugar is deoxyribose.

Which base could this nucleotide carry?

  1. A. Thymine only, the base found in DNA but not RNA
    Thymine is only one of the four bases a DNA nucleotide may carry; the sugar deoxyribose goes with all four of them.
  2. B. Adenine, uracil, guanine or cytosine
    Uracil is RNA’s base, and a nucleotide with deoxyribose is a DNA nucleotide, which carries thymine where RNA carries uracil.
  3. C. ✓ Adenine, thymine, guanine or cytosine
  4. D. Adenine, thymine, guanine, cytosine or uracil
    No nucleic acid uses all five bases; DNA uses four and RNA uses four.

Why: Deoxyribose is the sugar of DNA, so this is a DNA nucleotide, and its base is one of DNA’s four: adenine, thymine, guanine or cytosine.

48
Check q12

What does the “deoxy” in deoxyribose tell you about the sugar?

  1. A. ✓ It has one oxygen atom fewer than ribose, at carbon 2
  2. B. It has one carbon atom fewer than ribose
    Both sugars have five carbons.
  3. C. It carries no oxygen atoms at all
    Deoxyribose still has oxygen atoms: one in its ring and one in the –OH on carbon 3.
  4. D. It has one oxygen atom more than ribose, at carbon 2
    De-oxy means an oxygen removed, not added.

Why: De-oxy means an oxygen removed.
Deoxyribose is ribose with the oxygen of the carbon 2 hydroxyl group taken away, leaving an H there.

49
Check q13

A nucleotide from DNA and a nucleotide from RNA are compared.

Which parts can differ between them?

  1. A. Only the base
    The sugar differs too: deoxyribose in DNA, ribose in RNA.
  2. B. Only the sugar
    The base can differ too: RNA carries uracil, which DNA never does.
  3. C. ✓ The sugar and the base
  4. D. The phosphate group and the sugar
    The phosphate group is the same in every nucleotide of both nucleic acids.

Why: The phosphate group is the same in every nucleotide.
A DNA nucleotide has deoxyribose and one of A, T, G, C; an RNA nucleotide has ribose and one of A, U, G, C. So the sugar and the base can differ.

50
Check q14

The ring on top of a nucleotide is called a nitrogenous base.

Why is it called that?

  1. A. Because its ring holds oxygen atoms and in water it gives up a hydrogen ion
    The ring is made of carbon and nitrogen atoms, and giving up a hydrogen ion is what an acid does; a base takes one up.
  2. B. Because it sits at the bottom of the nucleotide, under the sugar
    Base here is the chemical word, not a position in the drawing; in our drawings the base sits on top.
  3. C. Because it contains phosphorus, the same element as the phosphate group
    The phosphorus of a nucleotide is all in the phosphate group; the base contains none.
  4. D. ✓ Because it is a ring of carbon and nitrogen atoms that can take up a hydrogen ion in water

Why: Nitrogenous means containing nitrogen, and the ring is carbon and nitrogen.
In water it can take up a hydrogen ion, which is what chemists call a base.

Glossary

nucleotide
The repeating unit of DNA and RNA: a phosphate group, a five-carbon sugar and a nitrogenous base.
nucleic acid
A long chain of nucleotides that carries a living thing’s instructions; DNA and RNA are the two nucleic acids.
nitrogenous base
The part of a nucleotide that is a ring of carbon and nitrogen atoms; it differs from one nucleotide to the next and gives the nucleotide its letter.
adenine, thymine, guanine, cytosine, uracil
The five nitrogenous bases, written A, T, G, C and U. DNA uses A, T, G and C; RNA uses A, U, G and C.
ribose and deoxyribose
The two five-carbon sugars of nucleotides. Ribose, in RNA, carries –OH on carbon 2; deoxyribose, in DNA, carries only an H there.
RNA
The second nucleic acid: a chain of nucleotides whose sugar is ribose and whose bases are A, U, G and C.

APBIO-U01-L14B Joining nucleotides into a strand

Topic 1.6 · Nucleic Acids · 49 steps

Three loose nucleotides, an arrow, and three nucleotides joined into a strand
Three loose nucleotides, an arrow, and three nucleotides joined into a strand

Here are three nucleotides, not yet joined, and beside them three that have been joined into a strand.

Joined end to end, nucleotides make a strand of DNA. One set of human DNA is about three billion pairs of nucleotides long, and most of your body cells carry two sets. Every one of those nucleotides was joined on one at a time, always at the same end of the growing strand.

Unit 1 · Chemistry of Life

1Joining two nucleotides

2

Video: Watch: Joining nucleotides into a strand

Nucleotides click together one at a time, always at the same end, and the finished strand is read from its 5 end.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L14B.mp4

3

A reminder of the unit. Every nucleotide is a phosphate group (P), a five-carbon sugar (the pentagon) and a base on top. The sugar’s carbons are numbered 1 to 5: the base sits on carbon 1, the phosphate group on carbon 5, and carbon 3 carries a hydroxyl group, –OH.

One nucleotide: phosphate group on carbon 5, base on carbon 1, a hydroxyl group on carbon 3
One nucleotide: phosphate group on carbon 5, base on carbon 1, a hydroxyl group on carbon 3
4

Two nucleotides join by a covalent bond, the kind of bond that holds the glucose units of starch together. The bond runs from carbon 3 of the first nucleotide’s sugar to the phosphate group of the second.

Two nucleotides joined by a covalent bond from carbon 3 of the first sugar to the phosphate group of the second
Two nucleotides joined by a covalent bond from carbon 3 of the first sugar to the phosphate group of the second
5

So along the strand, sugar and phosphate alternate: sugar, phosphate, sugar, phosphate. This repeating chain is called the , because it is made of sugars and phosphates and it runs the whole length of the strand, with everything else hanging off it.

Sugar and phosphate alternate along the backbone, with a base on every sugar
Sugar and phosphate alternate along the backbone, with a base on every sugar
6

A base hangs off every sugar, so the bases sit along the backbone in a fixed order.

7

What you are expected to know You can now describe how nucleotides join into a strand: a covalent bond from carbon 3 of one sugar to the next phosphate group, giving a backbone with a base on every sugar.

8
Check q1

A single strand of DNA is cut into two shorter pieces.

Which bond was broken?

  1. A. A hydrogen bond between two nucleotides
    Along a single strand the nucleotides are joined by covalent bonds, not hydrogen bonds.
  2. B. The bond holding a base onto its sugar
    Taking a base off its sugar would leave the strand in one piece with a base missing.
  3. C. A bond joining two neighboring bases directly to each other
    The bases hang off the backbone and are not bonded to their neighbors along the strand.
  4. D. ✓ The covalent bond from one sugar to the next phosphate group

Why: Along a strand, one nucleotide is joined to the next only through the backbone: a covalent bond from a sugar’s carbon 3 to the next phosphate group.
Cutting the strand means breaking one of those bonds.

9
Check q2

Along a strand, which two parts of neighboring nucleotides are bonded to each other?

  1. A. ✓ The sugar of one and the phosphate group of the next
  2. B. The base of one and the base of the next
    The bases are not bonded to one another along a strand; each hangs off its own sugar.
  3. C. The phosphate group of one and the phosphate group of the next
    Along a strand a sugar always sits between one phosphate group and the next, so two phosphate groups are not bonded to each other in the backbone.
  4. D. The base of one and the sugar of the next
    A base is bonded only to its own sugar, at carbon 1.

Why: The covalent bond runs from carbon 3 of one sugar to the phosphate group of the next nucleotide.
That is why sugar and phosphate alternate along the backbone.

10The two ends of a strand

11

Now turn the strand so that it runs down the page. Each phosphate group still sits to the left of its sugar, and the bases now point to the right.

One strand running down the page: a free phosphate group at the top, the 5 end; a free hydroxyl group at the bottom, the 3 end
One strand running down the page: a free phosphate group at the top, the 5 end; a free hydroxyl group at the bottom, the 3 end
12

Follow the backbone to the top. The top sugar’s carbon 5 carries a phosphate group joined to nothing further: a free phosphate. This end is called the , after carbon 5, the carbon that carries the free phosphate.

13

Follow the backbone to the bottom. The bottom sugar’s carbon 3 carries a hydroxyl group joined to nothing further: a free –OH. This end is called the , after carbon 3.

14

The two ends differ, so a strand has a direction. Going from the 5 end toward the 3 end is called the 5-to-3 direction.

15

One note on notation. Your exam prints these numbers with a small mark, 5′ and 3′, and reads them “five prime” and “three prime”. The 5′ end is the 5 end and the 3′ end is the 3 end; the mark only shows that the numbers belong to the sugar’s carbons.

16

One note on why the numbers matter. The 5 end and the 3 end may look like a small detail. They are not: when two strands of DNA lie together, which end sits where decides how the whole molecule is put together, so it is worth fixing them in memory now.

17

What you are expected to know You can now pick out the 5 end and the 3 end of a drawn strand by what each end carries: a free phosphate group on carbon 5, or a free hydroxyl group on carbon 3.

18
Check q3

Here is a strand of three nucleotides with its ends unlabeled. The key beside it names the shapes. Reminder: find the group at each end that is joined to nothing further, a phosphate group or a hydroxyl group, and use the carbon it sits on.

A strand of three nucleotides running vertically with its two ends unlabeled; a key names the shapes
A strand of three nucleotides running vertically with its two ends unlabeled; a key names the shapes

Which end is at the top?

  1. A. The 5 end; the top phosphate group is joined to nothing further
    The top phosphate group is not free: its bond runs to the sugar below it.
  2. B. Either; the two ends of a strand carry the same groups
    The two ends of a strand carry different groups: a free phosphate at one end, a free –OH at the other.
  3. C. ✓ The 3 end; the top sugar carries a free –OH
  4. D. The 5 end; the top of a drawing is always the 5 end
    Which end is at the top depends on how the strand is drawn, not on a rule.

Why: The top sugar carries a hydroxyl group joined to nothing further, and a free –OH on carbon 3 marks the 3 end.
The free phosphate, and so the 5 end, is at the bottom of this drawing.

19
Check q4

A student says a DNA strand is the same at both ends, so it can be read from either end and mean the same thing.

Why is the student wrong?

  1. A. Both ends carry a free phosphate group, so neither end is a starting point
    Only the 5 end carries a free phosphate group; the 3 end carries a free hydroxyl group.
  2. B. ✓ The two ends differ, so the strand has a direction and is read one way
  3. C. Both ends carry a free hydroxyl group, so the strand can start from either
    Only the 3 end carries a free hydroxyl group; the 5 end carries a free phosphate group.
  4. D. The bases are the same all along the strand, so the start makes no difference
    The bases differ along a strand.

Why: One end carries a free phosphate group on a carbon 5, and the other a free hydroxyl group on a carbon 3.
Because the ends differ, the strand has a direction.
So reading it the other way gives a different order of bases.

20Which way a strand grows

21

A reminder before the strand grows. One nucleotide on its own is a phosphate group, a sugar and a base; its phosphate group sits on carbon 5 of its sugar, and its carbon 3 carries a free –OH.

One nucleotide: phosphate group on carbon 5, base on carbon 1, a hydroxyl group on carbon 3
One nucleotide: phosphate group on carbon 5, base on carbon 1, a hydroxyl group on carbon 3
22

When a cell builds a new strand, it adds one nucleotide at a time, and it adds every new nucleotide at the 3 end.

New nucleotides join only at the 3 end of a growing strand: the incoming nucleotide’s phosphate bonds to the free hydroxyl group on the last sugar’s carbon 3. The drawing shows how the atoms line up, not how the cell does it
New nucleotides join only at the 3 end of a growing strand: the incoming nucleotide’s phosphate bonds to the free hydroxyl group on the last sugar’s carbon 3. The drawing shows how the atoms line up, not how the cell does it
23

The new bond is a covalent bond between the –OH on the strand’s last carbon 3 and the phosphate group of the incoming nucleotide.

24

Once joined, the incoming nucleotide’s own carbon 3 carries the strand’s new free –OH. So the strand still ends in a 3 end, ready for the next nucleotide.

25

The 5 end never gains a nucleotide. So a strand only ever grows in the 5-to-3 direction.

26

What you are expected to know You can now say which end of a growing strand each new nucleotide joins, which groups form the new bond, and which direction a strand grows in.

27
Check q5

A new DNA strand grows one nucleotide at a time until it is 500 nucleotides long.

Where is the first nucleotide that was laid down?

  1. A. ✓ At the 5 end, because that end never gains a nucleotide
  2. B. At the 3 end, because that is the end nucleotides are added to
    The 3 end is the growing end, and every new nucleotide pushes it further from the first one.
  3. C. Somewhere in the middle, because nucleotides are added at both ends
    Nucleotides join at one end only, the 3 end.
  4. D. At either end, because a strand can grow from whichever end is free
    Only the 3 end, with its free hydroxyl group, can take a new nucleotide.

Why: New nucleotides join only at the 3 end, so the 5 end stays exactly as it started.
The first nucleotide laid down is still there, at the 5 end.

28
Check q6

The hydroxyl group at the 3 end of a growing DNA strand is blocked, so that nothing can bond to it.

What happens to the strand?

  1. A. It keeps growing, because the incoming nucleotide brings its own hydroxyl group
    The new bond forms between the strand’s own –OH on carbon 3 and the incoming phosphate group; the incoming nucleotide’s –OH only matters after it has joined.
  2. B. It keeps growing, with the new phosphate group bonding to the sugar’s carbon 5 instead
    The last sugar’s carbon 5 already carries the backbone’s phosphate group, so there is no room for another there.
  3. C. It stops growing, because the block also stops the 5 end
    The 5 end never gains a nucleotide anyway, blocked or not; it is the 3 block alone that matters.
  4. D. ✓ It stops growing, because new nucleotides join only at the free –OH on carbon 3

Why: The bond to the next nucleotide forms at the strand’s free –OH on carbon 3.
With that group blocked, the incoming phosphate group has nowhere to bond, so the strand stops growing.

29Reading a strand

30

Two strands can be built from the same bases and still be different. Here are two strands of six bases.

Two strands built from the same six bases in two different orders: G-A-T-T-A-C and T-A-G-C-A-T, each read from its 5 end
Two strands built from the same six bases in two different orders: G-A-T-T-A-C and T-A-G-C-A-T, each read from its 5 end
31

A strand is written from its 5 end to its 3 end. That is the rule biologists use, so every written sequence follows it.

32

Read the two strands in the figure that way. The first reads G-A-T-T-A-C. The second reads T-A-G-C-A-T. Each strand has one G, two A’s, two T’s and one C, yet the order differs, so the two strands carry different information.

33

So the information in DNA is in the order of its bases, read from the 5 end to the 3 end, not in which bases are present or how many.

34

The same letters in a different order spell a different word; the same bases in a different order carry a different message.

35

What you are expected to know You can now say where the information in a nucleic acid is held: in the order of the bases along the strand, written from the 5 end to the 3 end.

36
Check q7

Two stretches of DNA from different places in a cell contain exactly the same number of each kind of base.

Can the two stretches carry different information?

  1. A. No; the same bases in the same amounts means the same information
    Information is in the order of the bases, so equal counts can still give different orders.
  2. B. ✓ Yes; the bases can sit in a different order
  3. C. Yes, but only if one stretch is longer than the other
    Two stretches of the same length carry different information whenever their bases are in a different order.
  4. D. No; the information is in the sugar and phosphate, not in the bases
    The sugar and phosphate repeat unchanged along every strand; only the order of the bases differs.

Why: The information is in the order of the bases along the strand.
Two stretches with the same bases in the same amounts can still place them in different orders, and then they carry different information.

37
Check q8

Here is a strand of four bases, drawn with its 3 end at the top.

A strand of four bases running down the page with the 3 end at the top and the 5 end at the bottom; the bases from top to bottom are T, C, G, A
A strand of four bases running down the page with the 3 end at the top and the 5 end at the bottom; the bases from top to bottom are T, C, G, A

How is this strand written?

  1. A. T-C-G-A
    Reading from the top starts at the 3 end; a strand is read from its 5 end.
  2. B. A-T-C-G
    Those bases are not in order from either end of the strand.
  3. C. ✓ A-G-C-T
  4. D. T-A-G-C
    Those bases are not in order from either end of the strand.

Why: A strand is written from its 5 end to its 3 end.
Here the 5 end is at the bottom, so the bases are read upward: A, G, C, T.

38

Loose nucleotides join into a strand one at a time, each new one bonding at the 3 end, and the finished strand is read from its 5 end to its 3 end.

39Mixed practice mixed practice

40
Check q9

Which kind of bond joins one nucleotide to the next along a strand?

  1. A. A hydrogen bond between a base and the next phosphate group
    Bases take no part in joining nucleotides, and the backbone is held by covalent bonds, not hydrogen bonds.
  2. B. ✓ A covalent bond from a sugar to the next phosphate group
  3. C. A covalent bond from a base to the next base
    The bases hang off the backbone and are not bonded to one another.
  4. D. A hydrogen bond from a sugar to the next phosphate group
    The bond along the backbone is a covalent bond, a shared pair of electrons, not a hydrogen bond.

Why: Nucleotides are joined along a strand by covalent bonds, each running from carbon 3 of one sugar to the phosphate group of the next nucleotide.

41
Check q10

Here is a strand of three nucleotides drawn horizontally, with its two ends unlabeled.

A strand of three nucleotides running horizontally, ends unlabeled: a phosphate group joined to nothing further at the left, a hydroxyl group joined to nothing further at the right
A strand of three nucleotides running horizontally, ends unlabeled: a phosphate group joined to nothing further at the left, a hydroxyl group joined to nothing further at the right

Which end is on the left?

  1. A. ✓ The 5 end; the phosphate group on the left is joined to nothing further
  2. B. The 3 end; the phosphate group on the left is joined to nothing further
    A free phosphate group marks the 5 end, not the 3 end.
  3. C. The 3 end; the sugar on the left carries a free –OH
    The free –OH is on the sugar at the right-hand end, not the left.
  4. D. The 5 end; the left of a drawing is always the 5 end
    Which end sits on the left depends on how the strand is drawn.

Why: The phosphate group at the left is joined to nothing further, and a free phosphate group on carbon 5 marks the 5 end.
The free –OH, and so the 3 end, is at the right.

42
Check q11

A DNA strand has grown to 300 nucleotides long. Number the nucleotides in the order they joined: nucleotide 1 joined first, nucleotide 300 last.

Which nucleotide is at the 3 end?

  1. A. Nucleotide 1, the first one laid down
    The first nucleotide laid down sits at the 5 end, the end that never gains a nucleotide.
  2. B. Nucleotide 150, halfway along the strand
    Nucleotides join at an end, never in the middle, so the middle holds nucleotides that joined midway through.
  3. C. The nucleotide carrying the strand’s free phosphate group
    A free phosphate group marks the 5 end, and the nucleotide there is nucleotide 1, the first laid down; the 3 end carries a free –OH.
  4. D. ✓ Nucleotide 300, the last one to join

Why: Every new nucleotide joins at the 3 end.
So the nucleotide at the 3 end is always the last one to have joined: nucleotide 300.
Nucleotide 1 is at the 5 end.

43
Check q12

A nucleotide is about to join a growing DNA strand.

Which part of the incoming nucleotide forms the new bond, and to which group on the strand?

  1. A. Its –OH on carbon 3, to the phosphate group at the strand’s 5 end
    The 5 end never gains a nucleotide, and it is the incoming phosphate group, not the incoming –OH, that bonds to the strand.
  2. B. Its base, to the base on the strand’s last nucleotide
    Bases take no part in joining nucleotides along a strand; they hang off the backbone.
  3. C. ✓ Its phosphate group, to the free –OH on carbon 3 of the strand’s last sugar
  4. D. Its phosphate group, to the –OH on carbon 2 of the strand’s last sugar
    DNA’s sugar, deoxyribose, carries only an H on carbon 2, and the backbone bond is made at carbon 3 in any case.

Why: The incoming nucleotide bonds through its phosphate group.
The new covalent bond forms between that phosphate group and the free hydroxyl group on carbon 3 of the strand’s last sugar.

44
Check q13

One DNA strand reads G-A-C-T from its 5 end. Another reads T-C-A-G from its 5 end.

Which statement about the two strands is correct?

  1. A. They carry the same information, because they contain the same four bases
    Containing the same bases is not enough; the information is in their order.
  2. B. ✓ They carry different information, because their bases are in a different order
  3. C. They carry the same information, because one is the other read backward
    A strand is always read from its 5 end, so the two orders are simply different, not one message read two ways.
  4. D. They carry different information, because one has more bases than the other
    Both strands have four bases.

Why: Both strands are read from the 5 end, and the orders G-A-C-T and T-C-A-G differ.
Different order, different information.

45
Check q14

What is the sugar-phosphate backbone made of?

  1. A. ✓ Sugars and phosphate groups alternating, joined by covalent bonds
  2. B. Bases joined end to end by covalent bonds
    The bases hang off the backbone; they are not part of it.
  3. C. Sugars only, each joined to the next sugar
    A phosphate group always sits between two sugars along the strand.
  4. D. Phosphate groups and bases alternating, joined by hydrogen bonds
    The backbone contains no bases and is held by covalent bonds, not hydrogen bonds.

Why: The backbone is the repeating chain sugar, phosphate, sugar, phosphate, joined by covalent bonds.
The bases hang off the sugars and are not part of it.

46
Check q15

Here is a strand of four bases, drawn with its 3 end at the top.

A strand of four bases running down the page with the 3 end at the top and the 5 end at the bottom; the bases from top to bottom are G, T, T, A
A strand of four bases running down the page with the 3 end at the top and the 5 end at the bottom; the bases from top to bottom are G, T, T, A

How is this strand written?

  1. A. G-T-T-A
    Reading from the top starts at the 3 end; a strand is read from its 5 end.
  2. B. T-T-A-G
    Those bases are not in order from either end of the strand.
  3. C. G-A-T-T
    Those bases are not in order from either end of the strand.
  4. D. ✓ A-T-T-G

Why: A strand is written from its 5 end to its 3 end.
Here the 5 end is at the bottom, so the bases are read upward: A, T, T, G.

47
Check q16

One end of a single DNA strand has a hydroxyl group on its last sugar, joined to nothing further.

Which end is it, and on which carbon does that hydroxyl group sit?

  1. A. The 5 end; carbon 5
    The 5 end carries a free phosphate group, not a free hydroxyl group.
  2. B. The 5 end; carbon 3
    A free hydroxyl group marks the 3 end, not the 5 end.
  3. C. ✓ The 3 end; carbon 3
  4. D. The 3 end; carbon 5
    Carbon 5 carries the phosphate group, not the hydroxyl group.

Why: A hydroxyl group joined to nothing further sits on carbon 3 of the last sugar, and that free –OH is what marks the 3 end.

48
Practice writing an answer

A strand of DNA reads A-C-G-T-T-A from its 5 end. It was built one nucleotide at a time.

(a) Identify the three parts that make up any nucleotide, and state which of them differs from one nucleotide to the next. (1 pt)

Frame Every nucleotide has a …, a … and a …; the part that differs is …

Model answer Every nucleotide has a phosphate group, a five-carbon sugar and a nitrogenous base.
The part that differs from one nucleotide to the next is the base.
Rubric
  • Award 1 point for: naming all three parts (phosphate group, five-carbon sugar, nitrogenous base) and identifying the base as the part that differs.
  • Accept: ‘sugar’ for five-carbon sugar and ‘base’ for nitrogenous base.
  • Do not award: the sugar or the phosphate named as the part that differs.

Slip Naming the sugar as the part that differs. Within DNA every sugar is deoxyribose; only the base changes.

(b) Describe how two neighboring nucleotides are joined along this strand. (1 pt)

Model answer A covalent bond runs from carbon 3 of one nucleotide’s sugar to the phosphate group of the next nucleotide.
So sugars and phosphate groups alternate along the sugar-phosphate backbone.
Rubric
  • Award 1 point for: a covalent bond from the sugar of one nucleotide to the phosphate group of the next.
  • Accept: ‘sugar to phosphate’ with the bond named as covalent; naming carbon 3 is not required.
  • Do not award: hydrogen bonds, or bonds between neighboring bases.

Slip Saying the nucleotides are held by hydrogen bonds. Along a strand the bonds are covalent; hydrogen bonds do not join nucleotides in a strand.

(c) A seventh nucleotide, carrying the base guanine, joins this strand. Identify the end at which it joins, and write the seven-base strand as it now reads from its 5 end. (1 pt)

Frame It joins at the … end, so the strand now reads …

Model answer It joins at the 3 end, after the final A, so the strand now reads A-C-G-T-T-A-G from its 5 end.
Rubric
  • Award 1 point for: the 3 end AND the strand written A-C-G-T-T-A-G.
  • Accept: the seven bases listed in order in words, with the new guanine last.
  • Do not award: G-A-C-G-T-T-A (the new base written first), or the 5 end named.

Slip Writing G-A-C-G-T-T-A. That puts the new nucleotide at the 5 end, which never gains a nucleotide; the strand grows at its 3 end, so the new base is the last one written.

(d) Explain why a strand grows at only one of its two ends. (1 pt)

Model answer The new covalent bond forms between the free hydroxyl group on carbon 3 of the last sugar and the incoming nucleotide’s phosphate group.
Only the 3 end carries that free –OH.
The 5 end carries a phosphate group with no free hydroxyl group, so nothing can join there.
Rubric
  • Award 1 point for: the incoming phosphate group bonds to the free hydroxyl group (–OH) on carbon 3, and only the 3 end carries one; the 5 end has a free phosphate group and no free –OH.
  • Accept: ‘only the 3 end has the free –OH the new bond needs’.
  • Do not award: ‘because strands are read from the 5 end’, or a restatement that the strand grows at the 3 end with no reason.

Slip Explaining by where the strand is read from. Reading starts at the 5 end, but building happens at the 3 end because that is where the free –OH is.

Glossary

sugar-phosphate backbone
The repeating chain of alternating sugars and phosphate groups, joined by covalent bonds, that runs the length of a strand.
5 end and 3 end
The two different ends of a strand: the 5 end carries a free phosphate group on the sugar’s carbon 5; the 3 end carries a free hydroxyl group on the sugar’s carbon 3. The exam prints them 5′ and 3′.

APBIO-U01-L15 The second strand

Topic 1.6 · Nucleic Acids · 51 steps

A zipper half open: closed on the left with its teeth meshed, open on the right with the two halves parted
A zipper half open: closed on the left with its teeth meshed, open on the right with the two halves parted

Here is a zipper, half open.

A single strand of DNA is only half of the molecule. In a cell, a second strand lies alongside the first. Like the two halves of the zipper, the two strands hold together along their whole length, and they can be pulled apart.

Unit 1 · Chemistry of Life

1Two strands, held by hydrogen bonds

2

Video: Watch: The second strand

A second strand comes alongside the first; the bases pair in the middle and hold by hydrogen bonds, and the zipper comes apart.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L15.mp4

3

A reminder of one strand. Its sugar-phosphate backbone is sugar, phosphate, sugar, phosphate, joined by covalent bonds, with a base on every sugar. Its 5 end carries a free phosphate group and its 3 end a free –OH.

One strand, reminder: a sugar-phosphate backbone of alternating sugars and phosphate groups joined by covalent bonds, a base on every sugar, a free phosphate at the 5 end and a free hydroxyl group at the 3 end
One strand, reminder: a sugar-phosphate backbone of alternating sugars and phosphate groups joined by covalent bonds, a base on every sugar, a free phosphate at the 5 end and a free hydroxyl group at the 3 end
4

Here is the same strand drawn more simply: the backbone as a bar, and each base as a six-sided ring.

One strand drawn simply: the backbone as a bar, with a base on every nucleotide
One strand drawn simply: the backbone as a bar, with a base on every nucleotide
5

Now bring a second strand alongside, so that its bases face the bases of the first. Where two bases face each other, they hold together by hydrogen bonds, drawn as dashed lines.

Two strands side by side, with the bases of one meeting the bases of the other in the middle, held by hydrogen bonds drawn as dashed lines
Two strands side by side, with the bases of one meeting the bases of the other in the middle, held by hydrogen bonds drawn as dashed lines
6
Check q1

Quick recall: two water molecules side by side.

What holds one water molecule to the next?

  1. A. A covalent bond: the two molecules share a pair of electrons between an oxygen and a hydrogen
    No electrons are shared between the two molecules; the covalent bonds are inside each molecule.
  2. B. An ionic bond: one molecule has lost an electron to the other, so the two carry full opposite charges
    No electron moves from one water molecule to the other; water molecules carry only partial charges, not the full charges of ions.
  3. C. ✓ A hydrogen bond: a δ+ hydrogen on one molecule is attracted to the δ− oxygen on the other

Why: A hydrogen carrying a partial positive charge on one molecule is attracted to an oxygen or nitrogen carrying a partial negative charge on the other: a hydrogen bond.

7

Water is not the only molecule that does this. Ammonia, NH₃, does it too: a hydrogen of one ammonia molecule is attracted to the nitrogen of the next. Any molecules with polar groups can hydrogen-bond, and the bases carry polar N–H and O groups, so two bases can too.

A hydrogen bond between two bases, between two water molecules, and between two ammonia molecules: the same attraction, drawn as a dashed line
A hydrogen bond between two bases, between two water molecules, and between two ammonia molecules: the same attraction, drawn as a dashed line
8

Two bases held together by hydrogen bonds like this are called a .

9

One hydrogen bond is weak. But there is a base pair at every step along the strands, so together the hydrogen bonds hold the two strands firmly.

10

Here are the two strands drawn with every bond. The covalent bonds run along each backbone, joining sugar to phosphate. Between the two strands there are only hydrogen bonds, and they run between the bases.

Two strands drawn with every bond: covalent bonds run along each backbone, joining sugar to phosphate; hydrogen bonds run only between the strands, between paired bases
Two strands drawn with every bond: covalent bonds run along each backbone, joining sugar to phosphate; hydrogen bonds run only between the strands, between paired bases
11

What you are expected to know You can now say what holds the two strands of DNA together, hydrogen bonds between paired bases, and tell that apart from the covalent bonds along each backbone.

12
Check q2

A DNA sample is heated to about 90 °C. The two strands come apart, but each separated strand is still a complete, unbroken chain of nucleotides.

Which bonds did the heat break?

  1. A. The covalent bonds joining nucleotides along each backbone
    If the covalent bonds along a backbone had broken, each strand would have come away in pieces, not as one whole chain.
  2. B. ✓ The hydrogen bonds between the paired bases
  3. C. Both the covalent bonds and the hydrogen bonds
    The strands came away whole, so the covalent bonds along each backbone are intact.
  4. D. The bonds holding each base onto its sugar
    Each strand came away complete, bases included, so the bonds holding bases to their sugars are intact.

Why: Only the attraction between the two strands gave way, and that attraction is the hydrogen bonding between paired bases.
The covalent bonds along each backbone held, so each strand came away whole.

13
Check q3

Here are two strands drawn with every bond. One bond is marked X and another is marked Y.

Two strands drawn with every bond; one bond along a backbone is marked X and one bond between the two strands is marked Y
Two strands drawn with every bond; one bond along a backbone is marked X and one bond between the two strands is marked Y

What kinds of bond are X and Y?

  1. A. ✓ X is a covalent bond; Y is a hydrogen bond
  2. B. X is a hydrogen bond; Y is a covalent bond
    X, along a backbone, is the covalent bond; Y, between the strands, is the hydrogen bond.
  3. C. X and Y are both covalent bonds
    The only bonds between the two strands are hydrogen bonds, and Y runs between the strands.
  4. D. X and Y are both hydrogen bonds
    The bonds along a backbone are covalent, and X runs along a backbone.

Why: X joins a sugar to the next phosphate along a backbone: a covalent bond.
Y runs between the bases of the two strands: a hydrogen bond, the only kind of bond between the strands.

14Which base pairs with which

15

The bases do not pair at random. Here are four pairings tried out: two that occur in DNA, and two that never do.

Four pairings tried out: adenine with thymine, tick; guanine with cytosine, tick; adenine with cytosine, cross; guanine with thymine, cross
Four pairings tried out: adenine with thymine, tick; guanine with cytosine, tick; adenine with cytosine, cross; guanine with thymine, cross
16

Adenine pairs with thymine. Guanine pairs with cytosine. Adenine never pairs with cytosine, and guanine never pairs with thymine: those bases do not fit each other, so the hydrogen bonds cannot form between them.

17

Here are the pairs of DNA as a table. Read it either way: opposite A is T, and opposite T is A.

baseits partner
AT
TA
GC
CG

the base pairs of DNA

The base pairs of DNA: A with T, T with A, G with C, C with G
18

What you are expected to know You can now name the base that lies opposite any given base in DNA, from the table and then from memory.

19
Check q4

In a double-stranded DNA molecule, one base lies opposite a guanine. Use the table.

baseits partner
AT
TA
GC
CG

the base pairs of DNA

The base pairs of DNA: A with T, T with A, G with C, C with G

Which base is it?

  1. A. Adenine
    Adenine’s partner is thymine.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  2. B. Thymine
    Thymine’s partner is adenine.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  3. C. ✓ Cytosine
  4. D. Uracil
    Uracil is a base of RNA, and this molecule is DNA.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

Why: Guanine pairs with cytosine.

baseits partner
AT
TA
GC
CG

the base pairs of DNA

20
Check q5

One strand of a DNA molecule carries a thymine at one point along its length.

Which base on the other strand is hydrogen-bonded to that thymine?

  1. A. ✓ Adenine
  2. B. Cytosine
    Cytosine’s partner is guanine.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  3. C. Guanine
    Guanine’s partner is cytosine.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  4. D. Uracil
    Uracil is a base of RNA, and this molecule is DNA.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

Why: Thymine pairs with adenine.

baseits partner
AT
TA
GC
CG

the base pairs of DNA

21

One more detail, which you will not be tested on: an adenine–thymine pair is held by two hydrogen bonds, and a guanine–cytosine pair by three.

22RNA: one strand, and one different base

23

Cells have DNA, and they also have a second nucleic acid, RNA. RNA is also a chain of nucleotides, with ribose as its sugar, and its job is different: it carries working copies of short stretches of DNA’s instructions to the places in the cell where they are used.

24

RNA is also built differently. In a cell, DNA is two strands held together, like the zipper. RNA is a single strand: it has no partner strand lying alongside it.

DNA drawn as two strands held together; RNA drawn as a single strand with no partner
DNA drawn as two strands held together; RNA drawn as a single strand with no partner
25

There is one more difference, in the bases. RNA has no thymine. In its place it carries uracil, U. So where an RNA base pairs with adenine, uracil takes thymine’s place: adenine pairs with uracil. Guanine still pairs with cytosine.

baseits partner
AU
UA
GC
CG

the base pairs of RNA

The base pairs of RNA: A with U, U with A, G with C, C with G
26

One simplification we made here. We said RNA is a single strand, which is what your exam questions will expect. In reality an RNA strand can fold back on itself and pair with its own bases along short stretches, and a few viruses carry RNA as two strands; it is just that the single strand is the form that matters here. From now on we will treat RNA as a single strand.

27

What you are expected to know You can now say that RNA is a single strand while DNA is two, and name the base opposite any given base in RNA.

28
Check q6

A nucleic acid taken from a cell is made of two strands held together along their whole length.

Is it DNA or RNA?

  1. A. RNA, because RNA is two strands and DNA is a single strand
    DNA is the one with two strands; RNA is the single strand.
  2. B. Either, because both nucleic acids are two strands
    The two nucleic acids differ here: RNA is a single strand.
  3. C. RNA, because two strands can only be held together by uracil
    Strands are held together by hydrogen bonds between paired bases, and uracil has nothing to do with whether there are two strands.
  4. D. ✓ DNA, because DNA is two strands and RNA is a single strand

Why: In a cell, DNA is two strands held together along their length; RNA is a single strand.
Two strands held together means DNA.

29
Check q7

Which base does RNA carry in place of thymine, and which base does it pair with?

  1. A. Uracil; it pairs with guanine
    Guanine’s partner is cytosine, in RNA as in DNA.
    baseits partner
    AU
    UA
    GC
    CG

    the base pairs of RNA

  2. B. ✓ Uracil; it pairs with adenine
  3. C. Cytosine; it pairs with adenine
    Cytosine is found in both DNA and RNA and pairs with guanine.
    baseits partner
    AU
    UA
    GC
    CG

    the base pairs of RNA

  4. D. Thymine; it pairs with uracil
    RNA has no thymine at all.
    baseits partner
    AU
    UA
    GC
    CG

    the base pairs of RNA

Why: RNA carries uracil in place of thymine, and uracil pairs with adenine.

baseits partner
AU
UA
GC
CG

the base pairs of RNA

30One strand fixes the other

31

Because each base has exactly one partner, the order of bases along one strand fixes the order along the other.

A strand of five bases, G-C-A-T-T, and under each base the only base that can lie opposite it, C-G-T-A-A
A strand of five bases, G-C-A-T-T, and under each base the only base that can lie opposite it, C-G-T-A-A
32

Take the bases of the given strand one at a time and write each one’s partner from the table: G gives C, C gives G, A gives T, T gives A, T gives A.

33

So the strand G-C-A-T-T can only lie opposite the strand C-G-T-A-A.

34

Two strands whose bases pair all the way along are .

35

On paper, write the strand that lies opposite T-T-G-A-C, one base at a time. Then continue.

36

Check your answer: T gives A, T gives A, G gives C, A gives T, C gives G, so the opposite strand is A-A-C-T-G.

37

What you are expected to know You can now write the strand complementary to a given DNA strand, base by base.

38
Check q8

One stretch of a DNA strand reads A-T-G-G-C.

Which bases lie opposite these, read in the same left-to-right order?

  1. A. A-T-G-G-C
    The opposite strand carries each base’s partner, not the same base.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  2. B. U-A-C-C-G
    Uracil belongs to RNA and this partner strand is DNA, so adenine’s partner is thymine.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  3. C. ✓ T-A-C-C-G
  4. D. T-A-G-G-C
    The G’s and the C have been copied instead of replaced by their partners.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

Why: Take each base and write its partner: A gives T, T gives A, G gives C, G gives C, C gives G.
So the opposite strand reads T-A-C-C-G.

baseits partner
AT
TA
GC
CG

the base pairs of DNA

39
Check q9

A student is asked for the strand lying opposite C-C-A-T-G and writes G-G-T-T-C.

Is the answer right?

  1. A. Yes; every base has been replaced by its partner
    The fourth base has been copied, not replaced: opposite T the partner is A.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  2. B. No; the first two bases should stay C-C, copied across
    The opposite strand carries each base’s partner, and the partner of C is G, so G-G is right.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  3. C. No; the third base should be U, since A pairs with U
    This is DNA, so the partner of A is T and the student’s third base is right.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  4. D. ✓ No; the fourth base should be A, since T pairs with A

Why: Take each base and write its partner: C gives G, C gives G, A gives T, T gives A, G gives C.
So the opposite strand should read G-G-T-A-C, and the fourth base is wrong.

baseits partner
AT
TA
GC
CG

the base pairs of DNA

40

Like a zipper opening, the two strands come apart along the hydrogen bonds, and each half comes away complete.

41Mixed practice mixed practice

42
Check q10

Two strands of DNA lie side by side along their whole length.

Which bonds hold the two strands to each other?

  1. A. Covalent bonds between the two backbones
    The backbones never touch; the strands hold together only where their bases pair.
  2. B. Covalent bonds between paired bases
    Paired bases hold together by hydrogen bonds, the same attraction as between water molecules, not by covalent bonds.
  3. C. Hydrogen bonds along each backbone
    Along each backbone the nucleotides are joined by covalent bonds; the hydrogen bonds run between the strands.
  4. D. ✓ Hydrogen bonds between paired bases

Why: Between the two strands there are only hydrogen bonds, one set at every base pair.
The covalent bonds run along each backbone.

43
Check q11

One strand of a DNA molecule reads C-A-G-T along one stretch. Written base by base beneath it, the strand opposite reads G-?-C-A, with one base missing.

Which base is missing?

  1. A. Adenine
    The missing base lies opposite an adenine, and the opposite strand carries adenine’s partner, not a copy of it.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  2. B. ✓ Thymine
  3. C. Guanine
    Guanine’s partner is cytosine, and the missing base lies opposite an adenine.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  4. D. Uracil
    Uracil is a base of RNA, and this molecule is DNA.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

Why: The gap lies opposite the A of C-A-G-T, and adenine pairs with thymine, so the missing base is T.
Check the rest: C with G, G with C, T with A.
So the opposite strand reads G-T-C-A.

baseits partner
AT
TA
GC
CG

the base pairs of DNA

44
Check q12

One stretch of a DNA strand reads G-A-T-C-A.

What does the strand opposite it read, base by base?

  1. A. ✓ C-T-A-G-T
  2. B. G-A-T-C-A
    The opposite strand carries each base’s partner, not the same base.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  3. C. C-U-A-G-U
    Uracil belongs to RNA and this partner strand is DNA, so adenine’s partner is thymine.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  4. D. C-A-T-G-A
    The A’s and the T have been copied instead of replaced by their partners.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

Why: Take each base and write its partner: G gives C, A gives T, T gives A, C gives G, A gives T.
So the opposite strand reads C-T-A-G-T.

baseits partner
AT
TA
GC
CG

the base pairs of DNA

45
Check q13

A nucleic acid contains the base uracil.

Which nucleic acid is it?

  1. A. DNA, because uracil is one of DNA’s four bases
    DNA’s four bases are adenine, thymine, guanine and cytosine.
  2. B. Either, because both nucleic acids use uracil
    DNA has no uracil; it has thymine in that place.
  3. C. ✓ RNA, because uracil is found in RNA and never in DNA
  4. D. DNA, because uracil pairs with thymine
    Uracil and thymine are never paired with each other; each pairs with adenine, and they are never found in the same nucleic acid.

Why: Uracil is the base RNA carries in place of thymine.
DNA never contains uracil, so a nucleic acid with uracil is RNA.

46
Check q14

Which nucleic acid is a single strand in a cell, with no partner strand?

  1. A. ✓ RNA
  2. B. DNA
    In a cell DNA is two strands held together along their length.
  3. C. Both DNA and RNA
    DNA is two strands; only RNA is a single strand.
  4. D. Neither; both are two strands
    RNA is a single strand.

Why: In a cell, DNA is two strands held together by hydrogen bonds between paired bases.
RNA is a single strand, with no partner.

47
Check q15

A DNA sample is heated to about 90 °C and its two strands separate. One separated strand reads T-G-C-A-A along one stretch.

What does the other separated strand read along the same stretch?

  1. A. T-G-C-A-A
    Heat breaks only the hydrogen bonds, so each strand still carries its partner’s bases, not the same bases as its partner.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  2. B. A-C-G-U-U
    Both strands are DNA, so adenine’s partner is thymine, not uracil.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  3. C. ✓ A-C-G-T-T
  4. D. A-G-C-T-T
    The G and the C have been copied instead of replaced by their partners.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

Why: Heat breaks only the hydrogen bonds between the strands, so each comes away whole and still complementary to the other.
Write each base’s partner: T gives A, G gives C, C gives G, A gives T, A gives T.

baseits partner
AT
TA
GC
CG

the base pairs of DNA

48
Check q16

Two bases on opposite strands, held together by hydrogen bonds, are called what?

  1. A. A nucleotide
    A nucleotide is one unit of a strand: a phosphate group, a sugar and one base.
  2. B. ✓ A base pair
  3. C. A backbone
    The backbone is the chain of sugars and phosphates along one strand.
  4. D. A complementary strand
    A complementary strand is a whole strand whose bases pair all the way along with another; two bases are not a strand.

Why: Two bases on opposite strands held together by hydrogen bonds are a base pair.

49
Check q17

Which of these is a pairing found in DNA?

  1. A. Adenine with cytosine
    Adenine pairs with thymine, and cytosine with guanine.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  2. B. Guanine with thymine
    Guanine pairs with cytosine, and thymine with adenine.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  3. C. Adenine with guanine
    Adenine pairs with thymine and guanine with cytosine; adenine and guanine never pair.
    baseits partner
    AT
    TA
    GC
    CG

    the base pairs of DNA

  4. D. ✓ Guanine with cytosine

Why: DNA has two pairings: adenine with thymine, and guanine with cytosine.

baseits partner
AT
TA
GC
CG

the base pairs of DNA

50
Practice writing an answer

A DNA strand, strand 1, reads C-A-T-G-G-A along one stretch, written from its 5 end: the C is nearest the 5 end and the final A nearest the 3 end. A second strand, strand 2, lies alongside it so that every base on strand 1 is paired with a base on strand 2. The two strands are then heated to 95 °C and separate.

(a) Describe the bonds that hold strand 2 to strand 1 before heating. (1 pt)

Frame Strand 2 is held to strand 1 by … between …

Model answer Strand 2 is held to strand 1 by hydrogen bonds between the paired bases.
Each base on strand 1 hydrogen-bonds to its partner base on strand 2, and there is a pair at every step along the strands.
Rubric
  • Award 1 point for: hydrogen bonds between paired bases on the two strands.
  • Accept: ‘hydrogen bonds between the bases’, with or without the note that there is a pair at every step.
  • Do not award: covalent bonds, or bonds between the backbones.

Slip Saying the strands are joined by covalent bonds. Covalent bonds run along each backbone; between the strands there are only hydrogen bonds.

(b) Write the bases of strand 2 along the same stretch, base by base opposite strand 1, starting opposite the C at strand 1’s 5 end. (1 pt)

Model answer Written base by base opposite strand 1, starting opposite the C at strand 1’s 5 end, strand 2 reads G-T-A-C-C-T: opposite C is G, opposite A is T, opposite T is A, opposite G is C, opposite G is C, and opposite A is T.
Rubric
  • Award 1 point for: G-T-A-C-C-T, each base the partner of the base opposite it on strand 1, written in the order asked (starting opposite strand 1’s 5 end).
  • Accept: the six partners listed in that order in words (guanine, thymine, adenine, cytosine, cytosine, thymine). Also accept T-C-C-A-T-G only where the student states it is the same six partners written from strand 2’s own 5 end.
  • Do not award: a copy of strand 1, or uracil anywhere.

Slip Copying strand 1 instead of writing each base’s partner. Every base on strand 2 is the partner of the base opposite it.

(c) Explain why heating to 95 °C separates the two strands but leaves each strand a complete, unbroken chain. (1 pt)

Model answer The hydrogen bonds between the paired bases are weak, so the heat breaks them and the strands come apart.
The covalent bonds along each backbone are far stronger and survive the heat.
So each strand stays a whole chain of nucleotides.
Rubric
  • Award 1 point for: the heat breaks the weak hydrogen bonds between the strands while the stronger covalent bonds along each backbone survive.
  • Accept: ‘hydrogen bonds are weak and break; covalent bonds are strong and do not’.
  • Do not award: heat breaks the backbone, or no mention of which bonds survive.

Slip Saying heat breaks every bond. The covalent bonds of the backbone are far stronger than hydrogen bonds and survive, which is why each strand stays whole.

Glossary

base pair
Two bases on opposite strands held together by hydrogen bonds: adenine with thymine (or with uracil in RNA), and guanine with cytosine.
complementary
Describes two strands whose bases pair all the way along, so that the order of bases on one strand fixes the order on the other.

APBIO-U01-L15B Counting the bases

Topic 1.6 · Nucleic Acids · 33 steps

A sample of double-stranded DNA: adenine 30%, thymine, guanine and cytosine not yet known
A sample of double-stranded DNA: adenine 30%, thymine, guanine and cytosine not yet known

Here is what is known about a sample of double-stranded DNA: 30% of its bases are adenine.

Nothing else has been measured. How much thymine does the sample hold? How much guanine, and how much cytosine?

Unit 1 · Chemistry of Life

1
Check q1

Quick recall: base pairing in DNA.

Which base pairs with adenine (A)?

  1. A. Guanine (G)
    Guanine pairs with cytosine, not with adenine.
  2. B. ✓ Thymine (T)
  3. C. Cytosine (C)
    Cytosine pairs with guanine, not with adenine.

Why: Adenine pairs with thymine, and guanine pairs with cytosine.

2

That one fact, how the bases pair, is all you need to answer the question. To see how, start by counting the bases in a small piece of DNA, where you can see every base.

3Count first: ten pairs

4

Video: Watch: Counting the bases

A sample is 30% adenine: how much of each other base? Ten base pairs counted by hand, then the same reasoning with percentages.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L15B.mp4

5

A reminder of the pairs. In double-stranded DNA every base is paired with its partner on the other strand: adenine with thymine, and guanine with cytosine.

baseits partner
AT
TA
GC
CG

the base pairs of DNA

The base pairs of DNA: A with T, T with A, G with C, C with G
6

Here are ten base pairs, with both strands drawn. Count first, before any arithmetic.

Ten base pairs drawn as two rows of bases joined by dashed lines: six adenine–thymine pairs and four guanine–cytosine pairs; the counts read A 6, T 6, G 4, C 4
Ten base pairs drawn as two rows of bases joined by dashed lines: six adenine–thymine pairs and four guanine–cytosine pairs; the counts read A 6, T 6, G 4, C 4
7

Six of the ten pairs are adenine–thymine pairs. Each of those pairs holds one A and one T. So across both strands there are six A’s and six T’s.

8

The other four pairs are guanine–cytosine pairs. Each pair holds one G and one C. So there are four G’s and four C’s.

9

Every A is paired with a T. So the number of A’s always equals the number of T’s.

10

Every G is paired with a C. So the number of G’s always equals the number of C’s.

11

That is true for these ten pairs, and it is true for a molecule of millions of pairs.

12

So if you know how many of one base a double-stranded molecule holds, you can work out the other three. Here it is with plain numbers first.

13
Worked example

A double-stranded DNA molecule holds 20 bases in all, and 6 of them are adenine. How many of each of the other three bases does it hold?

Write down the values in the question:
total bases = 20
A = 6
Write down the equation:
A+T+G+C=20
Use the pairs: every A is paired with a T, so T equals A:
T=A=6
Substitute the values into the equation:
A+T+G+C=20
6+6+G+C=20
G+C=20−12=8
Use the pairs again: every G is paired with a C, so G equals C, and the two share the 8 equally:
G=C=82=4
T=6,G=4,C=4bases
14

What you are expected to know You can now count the bases in a drawn stretch of double-stranded DNA and, given the number of one base, work out the number of each of the other three.

15
Check q2 numeric entry

A short stretch of double-stranded DNA holds 50 bases in all, and 15 of them are cytosine.

Calculate the number of adenine bases.

Part 1. Every C is paired with a G. State the number of guanine bases, G.

Answer: 15  (tolerance ±0)

Working
Use the pairs: G equals C:
G=C=15

Part 2. Calculate the number of bases left for adenine and thymine together, A + T.

Answer: 20  (tolerance ±0)

Working
Substitute into the equation and take G and C away from the total:
A+T+G+C=50
A+T+15+15=50
A+T=50−30=20

Answer: 10  (tolerance ±0)

Working
Write down the values in the question:
total bases = 50
C = 15
Write down the equation:
A+T+G+C=50
Use the pairs: G equals C:
G=C=15
Substitute the values into the equation:
A+T+G+C=50
A+T+15+15=50
A+T=20
Use the pairs again: A equals T, so the two share the 20 equally:
A=T=202=10
16
Check q3 numeric entry

A stretch of double-stranded DNA from a bacterium holds 80 bases in all, and 30 of them are thymine.

Calculate the number of guanine bases.

Answer: 10  (tolerance ±0)

Working
Write down the values in the question:
total bases = 80
T = 30
Write down the equation:
A+T+G+C=80
Use the pairs: A equals T:
A=T=30
Substitute the values into the equation:
A+T+G+C=80
30+30+G+C=80
G+C=80−60=20
Use the pairs again: G equals C, so the two share the 20 equally:
G=C=202=10

17Millions of pairs: use percentages

18

Ten pairs is a small example. A real DNA molecule holds millions of base pairs, so nobody counts its bases one by one. Instead, biologists measure what percentage of all the bases each of the four makes up.

19

Here are the ten pairs turned into percentages.

20
Worked example

In the ten pairs above, 6 of the 20 bases are adenine. What percentage of the bases is adenine, and what are the other three percentages?

Write down the values in the question:
total bases = 20
A = 6
T = 6
G = 4
C = 4
Write down the equation:
%A=number of Atotal bases×100%
Substitute the values into the equation:
%A=number of Atotal bases×100%
%A=620×100%=30%
Do the same for the other three bases:
%T=620×100%=30%
%G=420×100%=20%
%C=420×100%=20%
21

The four percentages add up to 100%, because every base is one of the four. That equation is always the place to start: %A+%T+%G+%C=100%.

22

Now a double-stranded DNA sample that is 30% adenine, with nothing else measured. Start from the equation, simplify it using the pairs, and only then put the number in.

23
Worked example

A double-stranded DNA sample is 30% adenine. What percentage of each of the other three bases does it hold?

Write down the values in the question:
%A = 30%
Write down the equation:
%A+%T+%G+%C=100%
Simplify using the pairs: T equals A, and C equals G:
%A+%A+%G+%G=100%
2×%A+2×%G=100%
Substitute the values into the equation:
2×%A+2×%G=100%
2×30%+2×%G=100%
60%+2×%G=100%
2×%G=40%
%G=20%
Write down the other two from the pairs:
%T=%A=30%
%C=%G=20%
24

What you are expected to know You can now work out the percentage of each base in a double-stranded DNA sample from the percentage of one base, starting from the equation that the four add up to 100%.

25
Check q4 numeric entry

A double-stranded DNA sample is 22% guanine.

Calculate the percentage of adenine.

Part 1. Every G is paired with a C. State the percentage of cytosine, %C.

Answer: 22 %  (tolerance ±0)

Working
Use the pairs: C equals G:
%C=%G=22%

Part 2. Calculate the percentage left for adenine and thymine together, %A + %T.

Answer: 56 %  (tolerance ±0)

Working
Substitute into the equation and take G and C away from 100%:
%A+%T+%G+%C=100%
%A+%T+22%+22%=100%
%A+%T=100%−44%=56%

Answer: 28 %  (tolerance ±0)

Working
Write down the values in the question:
%G = 22%
Write down the equation:
%A+%T+%G+%C=100%
Simplify using the pairs: T equals A, and C equals G:
2×%A+2×%G=100%
Substitute the values into the equation:
2×%A+2×%G=100%
2×%A+2×22%=100%
2×%A=100%−44%=56%
%A=28%
26
Check q5 numeric entry

Double-stranded DNA from a wheat plant is 18% thymine.

Calculate the percentage of cytosine.

Answer: 32 %  (tolerance ±0)

Working
Write down the values in the question:
%T = 18%
Write down the equation:
%A+%T+%G+%C=100%
Simplify using the pairs: A equals T, and G equals C:
2×%T+2×%C=100%
Substitute the values into the equation:
2×%T+2×%C=100%
2×18%+2×%C=100%
2×%C=100%−36%=64%
%C=32%
27

A double-stranded DNA sample that is 30% adenine is 30% thymine, 20% guanine and 20% cytosine. Every A has a T as its partner and every G has a C, and together the four bases make up the whole sample.

28Mixed practice mixed practice

29
Check q6 numeric entry

A double-stranded DNA sample is 24% cytosine.

Calculate the percentage of thymine.

Answer: 26 %  (tolerance ±0)

Working
Write down the values in the question:
%C = 24%
Write down the equation:
%A+%T+%G+%C=100%
Simplify using the pairs: A equals T, and G equals C:
2×%T+2×%C=100%
Substitute the values into the equation:
2×%T+2×%C=100%
2×%T+2×24%=100%
2×%T=100%−48%=52%
%T=26%
30
Check q7

In every sample of double-stranded DNA, the amount of adenine equals the amount of thymine.

Why?

  1. A. Because adenine and thymine are the same size
    Size has nothing to do with the count; the count comes from pairing.
  2. B. ✓ Because every adenine on one strand is paired with a thymine on the other
  3. C. Because each strand carries equal numbers of all four bases
    A single strand can carry any mix of bases; it is the pairing across the two strands that makes A equal T.
  4. D. Because adenine turns into thymine over time
    Bases do not change into one another in a strand.

Why: Every adenine is paired one-to-one with a thymine on the other strand, so the two are counted together: one T for every A.

baseits partner
AT
TA
GC
CG

the base pairs of DNA

31
Check q8 numeric entry

A stretch of double-stranded DNA from a fruit fly holds 200 bases in all, and 70 of them are adenine.

Calculate the number of guanine bases.

Answer: 30  (tolerance ±0)

Working
Write down the values in the question:
total bases = 200
A = 70
Write down the equation:
A+T+G+C=200
Use the pairs: T equals A:
T=A=70
Substitute the values into the equation:
A+T+G+C=200
70+70+G+C=200
G+C=200−140=60
Use the pairs again: G equals C, so the two share the 60 equally:
G=C=602=30
32
Check q9 numeric entry

A double-stranded DNA sample from a mouse is 29% adenine.

Calculate the percentage of thymine.

Answer: 29 %  (tolerance ±0)

Working
Write down the values in the question:
%A = 29%
Write down the equation:
%T=%A
Substitute the values into the equation:
%T=%A
%T=29%

APBIO-U01-L15C One strand, no partner

Topic 1.6 · Nucleic Acids · 20 steps

One strand of RNA from a virus: a single backbone with ten bases and no partner strand
One strand of RNA from a virus: a single backbone with ten bases and no partner strand

Here is the nucleic acid from a virus: RNA, a single strand.

Its bases have been measured: 24% adenine, but 32% uracil. In double-stranded DNA, a base and its partner always came out equal. Adenine’s partner in RNA is uracil, yet here the two do not match. How can that be?

Unit 1 · Chemistry of Life

1
Check q1

Quick recall: DNA and RNA in a cell.

How many strands does each have?

  1. A. DNA has one strand; RNA has two strands
    It is DNA that has two strands held together along their length; RNA has one.
  2. B. DNA and RNA both have two strands
    RNA is a single strand, with no partner strand.
  3. C. ✓ DNA has two strands; RNA has one strand

Why: In a cell DNA is two strands held together along their length; RNA is a single strand, with no partner strand.

2No partner, nothing to match

3

Video: Watch: One strand, no partner

A single strand has no partner strand, so nothing pairs its bases and nothing forces the amounts to match; unequal amounts mark a single strand.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L15C.mp4

4

Everything in counting the bases rests on one fact: in two paired strands, every base has a partner on the other strand. That is what makes A equal T and G equal C.

5

A single strand has no partner strand. Its bases are paired with nothing.

6

So nothing forces the amounts in a single strand to match. A single strand can hold any mix of bases.

7

Here is a single strand of RNA, ten bases long, with its bases counted.

A single strand of ten RNA bases, A-U-G-A-A-C-U-G-G-A, with its bases counted: A 4, U 2, G 3, C 1; A and U do not match
A single strand of ten RNA bases, A-U-G-A-A-C-U-G-G-A, with its bases counted: A 4, U 2, G 3, C 1; A and U do not match
8
Worked example

A single strand of RNA reads A-U-G-A-A-C-U-G-G-A. Count each base. Does the amount of adenine equal the amount of uracil?

Count each base along the strand:
A=4
U=2
G=3
C=1
Compare the bases that would pair if there were a partner strand:
A=4,U=2
A and U are not equal.
G=3,C=1
G and C are not equal.
State the result:
The amounts do not match.
This strand has no partner, so nothing pairs its bases.
9

So the amounts in a sample tell you something about it: whether or not its bases are paired. Here is a short sequence of cases. Given the percentages, are there two strands or one?

sample%A%T%G%Cdo the amounts match?strands
130302020yes: A = T and G = Ctwo
220352520no: A and T differone
325253020no: G and C differone
415153535yes: A = T and G = Ctwo

matching amounts are what two paired strands always give; unequal amounts can only come from a single strand

Four samples with their base percentages: sample 1 A 30 T 30 G 20 C 20, amounts match, two strands; sample 2 A 20 T 35 G 25 C 20, A and T differ, one strand; sample 3 A 25 T 25 G 30 C 20, G and C differ, one strand; sample 4 A 15 T 15 G 35 C 35, amounts match, two strands
10

Matching amounts, A equal to T and G equal to C, are what two paired strands always give.

11

Unequal amounts can only come from a single strand, because in two paired strands every base has its partner.

12

What you are expected to know You can now say why a single strand’s base amounts need not match, and use the amounts in a sample to tell a single strand from two paired strands.

13
Check q2

A nucleic acid sample is found to be 20% adenine and 35% thymine.

What does this show about the sample?

  1. A. It is two paired strands, since it contains thymine
    Thymine shows only that the sample is DNA; whether it is one strand or two shows in the amounts.
  2. B. It is RNA, since adenine and thymine differ
    RNA has no thymine, and this sample has thymine, so it is DNA.
  3. C. ✓ It is a single strand, since paired bases would be present in equal amounts
  4. D. It is two paired strands, since the two percentages add to 55%
    Adding the two percentages shows nothing about pairing.

Why: In two paired strands every adenine is paired with a thymine, so the two would be equal.
Here they are unequal, so the sample must be a single strand, whose bases have no partners.

baseits partner
AT
TA
GC
CG

the base pairs of DNA

14
Check q3

A nucleic acid sample is 24% adenine, 24% thymine, 26% guanine and 26% cytosine.

Which statement about the sample is correct?

  1. A. ✓ It has equal amounts of A and T, and of G and C, as two paired strands always give
  2. B. It must be a single strand, since the four bases are not each 25% of the total
    There is no rule that the four bases are each 25%; only each base and its partner must match, and here A equals T and G equals C.
  3. C. It could be two paired strands of RNA, since RNA pairs its bases the same way
    The sample contains thymine, which RNA does not have, so it is DNA; and RNA in a cell is a single strand, with no partner strand.
  4. D. It must be a single strand, since adenine and thymine together do not equal guanine and cytosine together
    Adenine and thymine together need not equal guanine and cytosine together; only each base and its partner must match, and here A equals T and G equals C.

Why: The partners match: adenine and thymine are both 24%; guanine and cytosine are both 26%.
Matching amounts are what two paired strands always give.

baseits partner
AT
TA
GC
CG

the base pairs of DNA

15

A virus RNA that is 24% adenine and 32% uracil is a single strand. No partner strand pairs its bases, so nothing forces adenine and uracil to match. Unequal amounts like these can only come from a single strand.

16Mixed practice mixed practice

17
Check q4

The nucleic acid of a virus is analyzed. Its bases include uracil, and it measures 27% adenine and 21% uracil.

Why can adenine and uracil be present in different amounts here?

  1. A. Because uracil pairs with guanine in RNA, not with adenine
    Uracil’s partner is adenine; the amounts differ for a different reason.
  2. B. Because in RNA the bases are never paired with anything
    RNA bases can pair.
    An RNA base pairs with its partner base when a strand carrying that partner lies alongside it.
  3. C. ✓ Because the strand has no partner strand, so its bases are not paired one-to-one
  4. D. Because the percentages in any nucleic acid never need to match
    In two paired strands the partner amounts must match.

Why: Equal amounts come from one-to-one pairing across two strands.
A single strand has no partner strand, so its adenines are not paired with uracils, and the amounts need not match.

18
Check q5

Four nucleic acid samples, W, X, Y and Z, are measured. The percentage of each base in each sample is in the table.

sampleATUGC
W3131–1919
X3119–3119
Y25–252525
Z2228–2822

the percentage of each base in four nucleic acid samples

Four samples and the percentage of each base in each: W has A 31, T 31, G 19, C 19 and no U; X has A 31, T 19, G 31, C 19 and no U; Y has A 25, U 25, G 25, C 25 and no T; Z has A 22, T 28, G 28, C 22 and no U

Which sample gives the amounts that two paired strands of DNA always give?

  1. A. Sample Y
    Sample Y contains uracil, so it is RNA, and RNA is a single strand.
  2. B. Sample X
    In sample X adenine is 31% but thymine is 19%, so the partners do not match.
  3. C. Sample Z
    In sample Z adenine is 22% but thymine is 28%, so the partners do not match.
  4. D. ✓ Sample W

Why: Two paired strands always give A equal to T and G equal to C.
Only sample W has both: A and T at 31%, G and C at 19%.

baseits partner
AT
TA
GC
CG

the base pairs of DNA

19
Practice writing an answer

DNA from a bacterium is analyzed. It is double-stranded, and 24% of its bases are adenine. The nucleic acid of a virus is analyzed too: its sugar is ribose, and its bases are adenine 22%, uracil 30%, guanine 25% and cytosine 23%.

(a) Calculate the percentage of guanine in the bacterium’s DNA. (1 pt)

Answer: 26 %  (tolerance ±0)

Model answer Thymine matches adenine at 24%, so adenine and thymine together are 48%.
That leaves 52% for guanine and cytosine, which are equal.
So the DNA is 26% guanine.
Working
Write down the values in the question:
%A = 24%
Write down the equation:
%A+%T+%G+%C=100%
Simplify using the pairs: T equals A, and C equals G:
2×%A+2×%G=100%
Substitute the values into the equation:
2×%A+2×%G=100%
2×24%+2×%G=100%
2×%G=100%−48%=52%
%G=26%
Rubric
  • Award 1 point for: 26% guanine.
  • Accept: 26% shown as half of the 52% left after adenine and thymine.
  • Do not award: 24%, 52% or 76%.

(b) Explain why the amount of thymine in the bacterium’s DNA must equal the amount of adenine. (1 pt)

Frame Thymine must equal adenine because …

Model answer The DNA is two paired strands.
Every adenine on one strand is paired, by hydrogen bonds, with a thymine on the other strand.
So there is exactly one thymine for every adenine, and thymine must equal adenine.
Rubric
  • Award 1 point for: every adenine is paired one-to-one with a thymine across the two strands.
  • Accept: ‘A pairs with T, so there is one T for each A’.
  • Do not award: ‘because it is DNA’ with no mention of pairing across two strands.

Slip Saying only that A and T are partners, without saying that the pairing is one-to-one across two strands. It is the one-to-one pairing that forces the amounts to be equal.

(c) Evaluate the claim that the virus’s nucleic acid is a single strand, using its base percentages. (1 pt)

Model answer The claim is supported.
In two paired strands every adenine would be paired one-to-one with a uracil and every guanine with a cytosine.
So adenine would equal uracil and guanine would equal cytosine.
Here adenine is 22% but uracil is 30%, and guanine is 25% but cytosine is 23%, so the partners do not match.
Two paired strands never allow that, so the bases cannot all be paired and the nucleic acid must be a single strand.
Rubric
  • Award 1 point for the judgement AND the ground for it: the claim is supported, because the partner amounts are unequal (adenine 22% against uracil 30%, or guanine 25% against cytosine 23%) and two paired strands would force them to be equal, so the sample must be a single strand.
  • Accept: either unequal pair cited, with the reason that pairing across two strands makes partners equal.
  • Do not award: ‘because it is RNA’, ‘because it has ribose’ or ‘because it has uracil’ with no use of the percentages, or a bare statement that it is single-stranded. Being RNA is not the same as being a single strand; the justification is the unequal partner amounts, adenine against uracil or guanine against cytosine.

Slip Arguing from the sugar or from uracil alone: ribose and uracil show it is RNA, but the evidence for a single strand is in the numbers, which two paired strands could not give.

APBIO-U01-L16 Antiparallel strands and the double helix

Topic 1.6 · Nucleic Acids · 40 steps

The two strands of DNA drawn as a flat zipper on the left and as a twisted zipper, the double helix, on the right
The two strands of DNA drawn as a flat zipper on the left and as a twisted zipper, the double helix, on the right

Here are the two strands of DNA drawn two ways. On the left, the way we have drawn them so far: two straight strands side by side, like the two halves of a zipper. On the right, the way they really are in a cell: the two strands twist around each other.

Each strand has a 5 end and a 3 end. Put two strands side by side: do they both run the same way, with their 5 ends at the same end, or do they run opposite ways?

Unit 1 · Chemistry of Life

1Two strands, opposite ways

2

Video: Watch: Antiparallel strands and the double helix

Two paired strands run opposite ways; label either strand’s ends from the other’s; then twist the pair into the double helix.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L16.mp4

3

Every strand has two different ends. Here is a nucleotide with the sugar’s five carbons numbered: the base is on carbon 1, a hydroxyl group, –OH, is on carbon 3, and the phosphate is on carbon 5.

Left: one nucleotide with the sugar's carbons numbered 1 to 5: the base on carbon 1, a hydroxyl group on carbon 3, the phosphate on carbon 5. Right: a strand of three nucleotides, a free phosphate at the 5 end at the top and a free hydroxyl group at the 3 end at the bottom
Left: one nucleotide with the sugar's carbons numbered 1 to 5: the base on carbon 1, a hydroxyl group on carbon 3, the phosphate on carbon 5. Right: a strand of three nucleotides, a free phosphate at the 5 end at the top and a free hydroxyl group at the 3 end at the bottom
4

At one end of a strand the last nucleotide’s phosphate, on carbon 5, is joined to nothing further: this is the 5 end. At the other end the last sugar’s carbon 3 carries a hydroxyl group joined to nothing further: this is the 3 end.

5

Because the two ends differ, a strand has a direction: from its 5 end to its 3 end.

6

One note on notation. Your exam prints these ends as 5′ and 3′ and reads them “five prime” and “three prime”. They are the same ends.

7

Now look at the ends of two paired strands. Where the left strand has its 5 end, at the top, the right strand has its 3 end. Where the left strand has its 3 end, at the bottom, the right strand has its 5 end.

Two paired strands: the left strand runs from its 5 end at the top down to its 3 end; the right strand runs from its 5 end at the bottom up to its 3 end
Two paired strands: the left strand runs from its 5 end at the top down to its 3 end; the right strand runs from its 5 end at the bottom up to its 3 end
8

Follow each strand from its 5 end to its 3 end. The left strand runs downward; the right strand runs upward. The two strands lie side by side but run in opposite directions.

9

When two strands are arranged like this, we say they are : parallel because they lie side by side, anti because they run in opposite directions.

10

DNA only ever pairs this way. Two strands never pair with both 5 ends at the same end, because the paired bases only fit together, with their hydrogen bonds lining up, when the two strands run opposite ways.

11

Here are four drawings of two paired strands, each strand labeled at both ends. Only two of them are possible DNA.

Four drawings of two paired vertical strands. Both strands 3 at the top: not possible. Left strand 3 at the top, right strand 5 at the top: possible. Left strand 5 at the top, right strand 3 at the top: possible. Both strands 5 at the top: not possible
Four drawings of two paired vertical strands. Both strands 3 at the top: not possible. Left strand 3 at the top, right strand 5 at the top: possible. Left strand 5 at the top, right strand 3 at the top: possible. Both strands 5 at the top: not possible
12

Both strands with their 3 end at the top: not possible, because both strands run the same way.

13

Left strand 3 at the top, right strand 5 at the top: possible. Left strand 5 at the top, right strand 3 at the top: possible. In both, the strands run opposite ways.

14

Both strands with their 5 end at the top: not possible, because both strands run the same way again.

15

What you are expected to know You can now say that the two strands of DNA are antiparallel, running in opposite 5 to 3 directions, and tell a possible arrangement of two strands from an impossible one by its end labels.

16
Check q1

Four drawings of two paired strands are lettered W, X, Y and Z, with every end labeled.

Four drawings of two paired vertical strands, lettered W, X, Y and Z, with the ends of every strand labeled 5 or 3
Four drawings of two paired vertical strands, lettered W, X, Y and Z, with the ends of every strand labeled 5 or 3

Which drawing shows a possible piece of DNA?

  1. A. W
    In W both strands run 5 to 3 from top to bottom, the same way.
  2. B. X
    In X both strands run 5 to 3 from bottom to top, the same way.
  3. C. ✓ Y
  4. D. Z
    The right-hand strand in Z is labeled 5 at both ends, and every strand has one 5 end and one 3 end.

Why: In Y the left strand runs 5 to 3 from bottom to top and the right strand runs 5 to 3 from top to bottom: opposite ways, so antiparallel.
In W and X both strands run the same way, and in Z one strand has two 5 ends.

17
Check q2

The drawing below shows double-stranded DNA. The left-hand strand has its 5 end at the top; the right-hand strand’s ends are blank.

Two paired strands; the left strand is labeled 5 end at the top and 3 end at the bottom, the right strand's ends are blank
Two paired strands; the left strand is labeled 5 end at the top and 3 end at the bottom, the right strand's ends are blank

Where is the right-hand strand’s 5 end?

  1. A. At the top, beside the left strand’s 5 end
    Two 5 ends at the same end would mean the strands run the same way, which DNA never does.
  2. B. Halfway down, in the middle of the strand
    A strand’s ends are at its two ends, never in the middle.
  3. C. At the top or the bottom; either one is possible
    DNA only ever pairs antiparallel, so once one strand is labeled the other is fixed.
  4. D. ✓ At the bottom, beside the left strand’s 3 end

Why: The strands are antiparallel, so where one strand has its 5 end, the other has its 3 end.
The right strand’s 5 end is at the bottom, beside the left strand’s 3 end.

18Labeling the ends

19

Here is a double strand with only the left-hand strand’s ends labeled: 5 end at the top, 3 end at the bottom.

Two paired strands; the left strand is labeled 5 end at the top and 3 end at the bottom, the right strand's ends are blank
Two paired strands; the left strand is labeled 5 end at the top and 3 end at the bottom, the right strand's ends are blank
20

The strands are antiparallel, so the right-hand strand’s labels are the other way up: 3 end at the top and 5 end at the bottom.

Two paired strands; the left strand is labeled 5 end at the top and 3 end at the bottom, the right strand 3 end at the top and 5 end at the bottom
Two paired strands; the left strand is labeled 5 end at the top and 3 end at the bottom, the right strand 3 end at the top and 5 end at the bottom
21

A drawing that puts both 5 ends at the top shows two strands running the same way. That is not how DNA pairs, so the drawing is wrong.

22

What you are expected to know You can now label the 5 end and 3 end of the second strand on a drawing of double-stranded DNA, and spot a drawing in which both strands run the same way.

23
Check q3

Here is a double strand. The left-hand strand is labeled 3 end at the top and 5 end at the bottom.

Two paired strands; the left strand is labeled 3 end at the top and 5 end at the bottom, the right strand is not labeled
Two paired strands; the left strand is labeled 3 end at the top and 5 end at the bottom, the right strand is not labeled

Following the left-hand strand from its 5 end to its 3 end, which way do you move on the drawing?

  1. A. ✓ Upward, from the bottom of the drawing to the top
  2. B. Downward, from the top of the drawing to the bottom
    Moving downward on this drawing runs from the 3 end to the 5 end, the reverse of the strand’s direction.
  3. C. Across, from the left-hand strand to the right-hand strand
    A strand’s direction runs along the strand, from one of its ends to the other, not across to its partner.
  4. D. Either way; a strand has no direction of its own
    The two ends of a strand differ, a free phosphate at one and a free hydroxyl group at the other, so every strand has a direction.

Why: A strand runs from its 5 end to its 3 end.
The left-hand strand’s 5 end is at the bottom and its 3 end at the top, so following it means moving upward.

24
Check q4

Here is a drawing of a piece of DNA, with the ends of both strands labeled.

Two paired strands drawn side by side, both labeled 3 end at the top and 5 end at the bottom
Two paired strands drawn side by side, both labeled 3 end at the top and 5 end at the bottom

What, if anything, is wrong with the drawing?

  1. A. Nothing; the two strands of DNA run in the same direction
    Two strands with their 3 ends at the same end run the same way, and DNA never pairs like that.
  2. B. The hydrogen bonds should join the two backbones, not the bases
    Hydrogen bonds join paired bases, which is what the drawing shows.
  3. C. Both strands should be turned over so that their 5 ends sit at the top
    Turning both strands over leaves them still running the same way as each other.
  4. D. ✓ The strands are drawn parallel; the strands of DNA are antiparallel

Why: Both strands are labeled 3 end at the top, so they are drawn running the same way: parallel.
The strands of DNA are antiparallel, so one of them, say the right-hand one, should have its 5 end at the top.

25A zipper, twisted

26

Here are two antiparallel strands drawn in full. Each strand has a backbone of alternating sugars and phosphates, P: the sugar-phosphate backbone.

Two paired strands drawn in full: each backbone alternates a sugar and a phosphate P, the bases hang off the sugars and meet in the middle, held by dashed hydrogen bonds
Two paired strands drawn in full: each backbone alternates a sugar and a phosphate P, the bases hang off the sugars and meet in the middle, held by dashed hydrogen bonds
27

The bases hang off the sugars and point inward. Where two bases face each other, they are held together by hydrogen bonds, the dashed lines. So the two backbones are on the outside, and the paired bases are on the inside, like the two halves of a zipper with its teeth interlocking in the middle.

28

In a cell the two strands are not straight. They twist around each other, like a zipper that has been twisted along its length.

The double helix drawn flat: two backbones twisting around each other on the outside, paired bases on rungs inside
The double helix drawn flat: two backbones twisting around each other on the outside, paired bases on rungs inside
29

When two paired strands twist around each other like this, we call the shape a : a helix is a spiral, and there are two strands in it.

30

Twisting does not change what is where. The two sugar-phosphate backbones stay on the outside, the paired bases stay inside, and the two strands are still antiparallel.

31

What you are expected to know You can now describe the double helix: two antiparallel strands twisted around each other, with the sugar-phosphate backbones on the outside and the paired bases inside.

32
Check q5

In a double helix, which part lies on the outside?

  1. A. The paired bases
    The bases point inward and pair across the middle.
  2. B. ✓ The two sugar-phosphate backbones
  3. C. One backbone outside and the other inside
    The two strands are alike: neither is inside the other.
  4. D. The hydrogen bonds between the bases
    The hydrogen bonds join paired bases, and the pairs are inside.

Why: In the double helix both sugar-phosphate backbones run on the outside, and the paired bases, held by hydrogen bonds, are stacked inside.

33

The two strands of a double helix run opposite ways: where one has its 5 end, the other has its 3 end. Twisting the strands around each other changes nothing about which way each strand runs.

34Mixed practice mixed practice

35
Check q6

In a cell, the two paired strands of DNA twist around each other into a double helix.

What holds the two strands together in the double helix?

  1. A. Covalent bonds between the paired bases
    The bonds between paired bases are weak hydrogen bonds, the dashed lines in the drawings, not covalent bonds.
  2. B. ✓ Hydrogen bonds between the paired bases
  3. C. Hydrogen bonds between the two sugar-phosphate backbones
    The two backbones run on the outside and do not bond to each other; the bonds between the strands are between their bases.
  4. D. The twist itself; nothing else holds the strands together
    The twist is a shape, not a bond; the two strands are held together whether or not they are twisted.

Why: The double helix is the same two paired strands, twisted along their length.
What holds them together is unchanged: the hydrogen bonds between the paired bases.

36
Check q7

In a piece of double-stranded DNA, the left-hand strand has its 5 end at the top and the right-hand strand has its 5 end at the bottom.

Which statement names this arrangement of the two strands correctly?

  1. A. ✓ Antiparallel: the strands lie side by side and run in opposite 5 to 3 directions
  2. B. Parallel: the strands lie side by side and run in the same 5 to 3 direction
    The two 5 ends are at opposite ends, so the strands run opposite ways; two strands running the same way would be parallel, and DNA never pairs that way.
  3. C. Antiparallel: the strands cross each other instead of lying side by side
    The two strands do lie side by side, along their whole length.
  4. D. Antiparallel: the strands are held apart and never touch each other
    The two strands are held together by hydrogen bonds between their paired bases.

Why: The left strand runs 5 to 3 downward and the right strand runs 5 to 3 upward: side by side, opposite ways.
That is antiparallel: parallel because the two strands lie side by side, anti because they run in opposite directions.

37
Check q8

At one end of a piece of double-stranded DNA, the first strand has its 3 end.

Which end of the second strand lies beside it there?

  1. A. The second strand’s 3 end
    Two 3 ends together would mean the strands run the same way, which DNA never does.
  2. B. Either end, depending on the bases paired there
    DNA only ever pairs antiparallel, so the ends are fixed whatever bases are paired there.
  3. C. The second strand has no ends of its own
    Every strand has a 5 end and a 3 end of its own.
  4. D. ✓ The second strand’s 5 end

Why: The strands are antiparallel, so their ends are the other way round: where the first strand has its 3 end, the second strand has its 5 end.

38
Check q9

Here is a double strand. The left-hand strand is labeled 5 end at the top and 3 end at the bottom; the right-hand strand’s ends are blank.

Two paired strands; the left strand is labeled 5 end at the top and 3 end at the bottom, the right strand's ends are blank
Two paired strands; the left strand is labeled 5 end at the top and 3 end at the bottom, the right strand's ends are blank

Which labels belong on the right-hand strand?

  1. A. 5 end at the top and 3 end at the bottom
    Two strands labeled the same way up run in the same direction, and DNA never pairs like that.
  2. B. Either way up; labeling the left-hand strand does not fix the right-hand strand’s labels
    DNA only ever pairs antiparallel, so once one strand is labeled the other strand’s labels are fixed.
  3. C. ✓ 3 end at the top and 5 end at the bottom
  4. D. It depends on which bases are paired at the top and at the bottom
    The bases do not decide which way a strand runs; its ends are set by its free phosphate and its free hydroxyl group.

Why: The strands are antiparallel, so the right-hand strand is labeled the other way up: 3 end at the top, beside the left strand’s 5 end, and 5 end at the bottom.

39
Check q10

Four drawings of two paired strands are lettered J, K, L and M, with every end labeled.

Four drawings of two paired vertical strands, lettered J, K, L and M, with the ends of every strand labeled 5 or 3
Four drawings of two paired vertical strands, lettered J, K, L and M, with the ends of every strand labeled 5 or 3

Which drawing shows a possible piece of DNA?

  1. A. J
    In J both strands run 5 to 3 from top to bottom, the same way.
  2. B. ✓ K
  3. C. L
    In L both strands run 5 to 3 from bottom to top, the same way.
  4. D. M
    The right-hand strand in M is labeled 3 at both ends, and every strand has one 5 end and one 3 end.

Why: In K the left strand runs 5 to 3 from top to bottom and the right strand runs 5 to 3 from bottom to top: opposite ways, so antiparallel.
In J and L both strands run the same way, and in M one strand has two 3 ends.

Glossary

antiparallel
Describes two strands lying side by side but running in opposite 5 to 3 directions, so that one strand’s 5 end lies beside the other strand’s 3 end.
double helix
The shape of DNA: two paired strands twisted around each other, with the sugar-phosphate backbones on the outside and the paired bases inside.

APBIO-U01-L16A Writing a strand from its 5 end

Topic 1.6 · Nucleic Acids · 23 steps

The same strand of five bases written twice: G-A-T-C-C read from one end, C-C-T-A-G read from the other end
The same strand of five bases written twice: G-A-T-C-C read from one end, C-C-T-A-G read from the other end

Here is one strand of DNA written out as letters, twice.

Read from one end it is G-A-T-C-C. Read from the other end it is C-C-T-A-G. Both rows are the same strand. Anyone reading the letters needs to know which end you started from. So when you write a strand on paper, which end do you start from?

Unit 1 · Chemistry of Life

1Start at the 5 end

2

Video: Watch: Writing a strand from its 5 end

The same strand reads two ways; the rule that settles it, a strand is written from its 5 end; and the partner strand written from its own 5 end.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L16A.mp4

3

The two ends of a strand differ. At the 5 end, the last nucleotide’s phosphate, on carbon 5 of its sugar, is joined to nothing further. At the 3 end, the last sugar’s carbon 3 carries a hydroxyl group, –OH, joined to nothing further.

A strand of four nucleotides drawn left to right: a free phosphate on the left, at the 5 end, and a free hydroxyl group on the right, at the 3 end; each nucleotide is a phosphate, a sugar and a base
A strand of four nucleotides drawn left to right: a free phosphate on the left, at the 5 end, and a free hydroxyl group on the right, at the 3 end; each nucleotide is a phosphate, a sugar and a base
4

So the two ends can always be told apart, and that gives a rule everyone can follow. A strand is always written from its 5 end to its 3 end, with the ends marked.

5

The strand above is written 5-G-A-T-C-C-3. The 5 marks the end you started from, and the 3 marks the end you finished at.

The strand written as letters: a 5 at the left, then G, A, T, C, C, then a 3 at the right
The strand written as letters: a 5 at the left, then G, A, T, C, C, then a 3 at the right
6

Writing the same strand as 5-C-C-T-A-G-3 is wrong: that starts from its 3 end.

7

The point of the rule is this. From 5-G-A-T-C-C-3 alone, you can tell which base sits at which end: the G is at the 5 end, the end with the free phosphate, and the last C is at the 3 end. From the letters alone, you could not.

8

One note on notation. Your exam prints the ends as 5′ and 3′ and reads them “five prime” and “three prime”. 5′-G-A-T-C-C-3′ is the same strand, written the same way.

9

What you are expected to know You can now write a strand from its 5 end to its 3 end with the ends marked, and read from a written strand which base sits at which end.

10
Check q1

A strand is drawn below. Its free phosphate is on the right and its free hydroxyl group is on the left. Reading the bases from left to right gives C, G, A, T.

A strand of four nucleotides drawn left to right with a free hydroxyl group on the left and a free phosphate on the right; the bases read C, G, A, T from left to right
A strand of four nucleotides drawn left to right with a free hydroxyl group on the left and a free phosphate on the right; the bases read C, G, A, T from left to right

Written from its 5 end, the end with the free phosphate, what does this strand read?

  1. A. 5-C-G-A-T-3
    The left-hand end carries the free hydroxyl group, so it is the 3 end; a strand is written from its 5 end.
  2. B. 3-T-A-G-C-5
    The bases are in the right order, but a strand is written starting from its 5 end, and here the 5 end is on the right.
  3. C. 5-G-C-T-A-3
    Replacing each base with its partner gives the other strand, not this one.
  4. D. ✓ 5-T-A-G-C-3

Why: The free phosphate marks the 5 end, and here it is on the right.
A strand is written from its 5 end, so this one is read from the right: T, A, G, C, written 5-T-A-G-C-3.

11The partner strand, from its own 5 end

12

Here is 5-G-A-T-C-C-3 with its partner beneath it. Under each base sits its partner: C under G, T under A, A under T, G under C, G under C.

A strand written from its 5 end at the left to its 3 end at the right, its partner beneath it running the other way, with an arrow from the partner's 5 end on the right
A strand written from its 5 end at the left to its 3 end at the right, its partner beneath it running the other way, with an arrow from the partner's 5 end on the right
13

The partner strand is antiparallel to the first, so its 5 end is on the right.

14

Apply the rule to the partner: start at its 5 end, on the right, and read leftward: G, G, A, T, C. Written out, the partner is 5-G-G-A-T-C-3.

15

Writing 5-C-T-A-G-G-3 is wrong. That reads the partner from left to right, which is from its 3 end.

16

On paper: write the partner of 5-T-T-A-G-C-3 from its own 5 end. Then continue.

17

Check your answer: the partners, left to right, are A, A, T, C, G. The partner’s 5 end is on the right, so from there it reads 5-G-C-T-A-A-3.

18

What you are expected to know You can now write the partner of a given strand from the partner’s own 5 end: pair each base, then read the partner from its 5 end, which is at the other end.

19
Check q2

One strand of a short piece of DNA reads 5-A-G-C-A-3.

Written from its own 5 end, what does the partner strand read?

  1. A. ✓ 5-T-G-C-T-3
  2. B. 5-T-C-G-T-3
    Written left to right under the given strand, the partners start from the partner strand’s 3 end, not its 5 end.
  3. C. 5-U-G-C-U-3
    Uracil belongs to RNA, and this is DNA, so adenine’s partner is thymine.
  4. D. 5-A-G-C-A-3
    Copying the given strand gives the same bases, not each base’s partner.

Why: The bases opposite A-G-C-A are T-C-G-T, but that strand runs the other way, so its 5 end is on the right.
Read from its own 5 end, it is 5-T-G-C-T-3.

20
Check q3

A student is asked for the partner of 5-G-G-T-A-3 and writes 5-C-C-A-T-3.

What is wrong with the student’s answer?

  1. A. Nothing; every base has been replaced by its partner, in order
    The partners are right but the direction is not.
  2. B. The bases should have been copied, not replaced by their partners
    A partner strand carries each base’s partner, not the same base.
  3. C. ✓ The partner has been written from its 3 end
  4. D. Thymine should have been replaced by uracil, giving 5-C-C-A-U-3
    This is DNA, so adenine’s partner is thymine, not uracil.

Why: The partners of G-G-T-A are C-C-A-T, left to right.
But the partner strand is antiparallel, so its 5 end is on the right, and written from its own 5 end it is 5-T-A-C-C-3.

21
Check q4

One strand of a short piece of DNA reads 5-C-C-T-G-3.

Written from its own 5 end, what does the partner strand read?

  1. A. 5-G-G-A-C-3
    Written left to right under the given strand, the partners start from the partner strand’s 3 end, not its 5 end.
  2. B. 5-C-C-T-G-3
    Copying the given strand gives the same bases, not each base’s partner.
  3. C. ✓ 5-C-A-G-G-3
  4. D. 5-G-T-C-C-3
    Reversing the given strand gives the same bases backwards, not each base’s partner.

Why: The bases opposite C-C-T-G are G-G-A-C, but that strand runs the other way, so its 5 end is on the right.
Read from its own 5 end, it is 5-C-A-G-G-3.

22

G-A-T-C-C and C-C-T-A-G are one strand read from each of its ends. Written by the rule, from its 5 end, it is 5-G-A-T-C-C-3; and its partner, written from its own 5 end, is 5-G-G-A-T-C-3.

APBIO-U01-L16B DNA or RNA?

Topic 1.6 · Nucleic Acids · 21 steps

DNA drawn as two paired strands on the left and RNA as a single strand on the right
DNA drawn as two paired strands on the left and RNA as a single strand on the right

Here are the two nucleic acids side by side: DNA on the left, RNA on the right.

Every cell contains both. DNA holds the cell’s instructions, and the cell uses RNA when it puts those instructions to work. DNA and RNA look alike, and three differences tell them apart.

Unit 1 · Chemistry of Life

1Two nucleic acids

2

Video: Watch: DNA or RNA?

The two nucleic acids side by side, and the three differences that tell them apart.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L16B.mp4

3

DNA has a close relative, RNA. DNA and RNA are both nucleic acids: long chains of nucleotides.

A DNA nucleotide and an RNA nucleotide side by side: each is a phosphate group P, a five-carbon sugar and a nitrogenous base
A DNA nucleotide and an RNA nucleotide side by side: each is a phosphate group P, a five-carbon sugar and a nitrogenous base
4

A nucleotide of either one has the same three parts: a phosphate group, marked P, a five-carbon sugar, the pentagon, and a nitrogenous base.

5

Every cell contains both. DNA holds the cell’s instructions; the cell uses RNA when it puts those instructions to work.

6

The two look alike, and they differ in exactly three ways: the sugar, one of the bases, and the number of strands.

7

What you are expected to know You can now say what DNA and RNA have in common: both are nucleic acids, chains of nucleotides, each nucleotide a phosphate group, a five-carbon sugar and a nitrogenous base.

8
Check q1

A DNA molecule and an RNA molecule are compared.

Which of these is the same in both?

  1. A. ✓ The phosphate group
  2. B. The five-carbon sugar
    The sugar differs: deoxyribose in DNA, ribose in RNA.
  3. C. The set of four bases
    DNA has thymine where RNA has uracil, so the sets of four bases differ.
  4. D. The number of strands
    DNA is two paired strands and RNA is usually one.

Why: Every nucleotide of DNA and of RNA carries the same phosphate group.
The sugar, one base and the number of strands are the three things that differ.

9Three differences

10

1. The sugar. In DNA the sugar is deoxyribose; in RNA it is ribose. The two differ at carbon 2: ribose carries a hydroxyl group, –OH, there, and deoxyribose carries only a hydrogen. That is what “deoxy” means: one oxygen atom fewer.

The sugar: deoxyribose in DNA carries a hydrogen on carbon 2; ribose in RNA carries a hydroxyl group, OH, on carbon 2
The sugar: deoxyribose in DNA carries a hydrogen on carbon 2; ribose in RNA carries a hydroxyl group, OH, on carbon 2
11

2. The bases. DNA uses adenine, thymine, guanine and cytosine: A, T, G, C. RNA has no thymine; in its place is uracil, U, so RNA uses A, U, G, C.

The bases: DNA uses A, T, G and C; RNA uses A, U, G and C, with uracil in place of thymine
The bases: DNA uses A, T, G and C; RNA uses A, U, G and C, with uracil in place of thymine
12

3. The strands. DNA in a cell is two strands, paired along their whole length and twisted into a double helix. RNA is usually a single strand: one backbone with bases along it, and no partner strand.

The number of strands: DNA is two paired strands, RNA is usually a single strand
The number of strands: DNA is two paired strands, RNA is usually a single strand
13

Because a single strand has no partner, its bases are not paired one to one, so its amounts of A and U need not match, and nor need its amounts of G and C.

14

Here are the three differences in one table.

Table of the three differences. Sugar: deoxyribose in DNA, ribose in RNA. Bases: A, T, G, C in DNA; A, U, G, C in RNA. Strands: two, paired, in DNA; usually one in RNA
Table of the three differences. Sugar: deoxyribose in DNA, ribose in RNA. Bases: A, T, G, C in DNA; A, U, G, C in RNA. Strands: two, paired, in DNA; usually one in RNA
15

The three go together. A nucleic acid whose sugar is ribose is RNA, so it contains uracil and is usually a single strand. A nucleic acid that contains thymine is DNA, so its sugar is deoxyribose and it is two paired strands.

16

What you are expected to know You can now tell DNA from RNA by any one of three differences: deoxyribose or ribose, thymine or uracil, two paired strands or a single strand.

17
Check q2

A nucleic acid taken from a cell is found to be two strands paired along their whole length.

Is it DNA or RNA, and why?

  1. A. RNA, because RNA is the nucleic acid with paired strands
    It is DNA, not RNA, that is two paired strands.
  2. B. Either one; the number of strands does not tell DNA from RNA
    The number of strands is one of the three differences between them.
  3. C. RNA, because two paired strands mean the bases are A, U, G and C
    Uracil marks RNA, and RNA is usually a single strand.
  4. D. ✓ DNA, because DNA is two paired strands and RNA is usually one

Why: DNA in a cell is two strands paired along their whole length; RNA is usually a single strand.
Two paired strands from a cell mean DNA.

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Check q3

An unknown nucleic acid is broken down, and the five-carbon sugar released is ribose.

What else is true of this molecule?

  1. A. It contains thymine and is two paired strands
    Ribose is the sugar of RNA, and thymine and two paired strands belong to DNA.
  2. B. ✓ It contains uracil and is usually a single strand
  3. C. It contains thymine and is usually a single strand
    RNA has no thymine.
  4. D. It contains uracil and is two paired strands
    RNA is usually a single strand, not two.

Why: Ribose is the sugar of RNA.
RNA has uracil in place of thymine and is usually a single strand.

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Check q4

A student finds thymine in a nucleic acid sample and concludes: “Thymine means RNA, so the sugar must be ribose.”

What is wrong with this?

  1. A. Nothing; thymine is the base that marks RNA
    RNA has no thymine; uracil takes its place.
  2. B. Thymine is in both DNA and RNA, so it tells you nothing
    Only DNA contains thymine; RNA has uracil in its place.
  3. C. ✓ Thymine marks DNA, so the sugar is deoxyribose
  4. D. Thymine does mark DNA, but the sugar could still be ribose
    The three differences go together: a nucleic acid with thymine is DNA, and DNA’s sugar is always deoxyribose.

Why: Thymine is found in DNA, not RNA, so the sample is DNA, and DNA’s sugar is deoxyribose.
The three differences go together.

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DNA and RNA can be told apart by their sugar, by one base, and by their number of strands.

APBIO-U01-L16C Reading a model of DNA

Topic 1.6 · Nucleic Acids · 23 steps

A model of six base pairs of DNA: two backbones of alternating five-sided sugars and round phosphates, six paired bases between them
A model of six base pairs of DNA: two backbones of alternating five-sided sugars and round phosphates, six paired bases between them

Here is a model of a short piece of DNA, six base pairs long, drawn in full.

Every part of it has come up before: two sugar-phosphate backbones, bases paired between them, and two ends to each strand. A drawing like this is how DNA is shown on the exam, so take it one part at a time.

Unit 1 · Chemistry of Life

1The model, one part at a time

2

Video: Watch: Reading a model of DNA

A six-base-pair model annotated part by part: phosphate, sugar, base, the two kinds of bond, and the ends.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L16C.mp4

3

Here is the model: six base pairs, both backbones drawn in full, one nucleotide boxed on the left strand, and the left strand’s ends labeled.

A model of six base pairs: two backbones of phosphate circles marked P and sugar pentagons, paired bases between them held by dashed lines, one nucleotide boxed, the left strand labeled 5 end at the top and 3 end at the bottom, the right strand's ends blank
A model of six base pairs: two backbones of phosphate circles marked P and sugar pentagons, paired bases between them held by dashed lines, one nucleotide boxed, the left strand labeled 5 end at the top and 3 end at the bottom, the right strand's ends blank
4

Start with the boxed nucleotide. The circle marked P is the phosphate group.

Two base pairs of the model with the phosphate group of the top-left nucleotide ringed and labeled
Two base pairs of the model with the phosphate group of the top-left nucleotide ringed and labeled
5

The five-sided ring is the five-carbon sugar. In DNA it is deoxyribose.

Two base pairs of the model with the five-carbon sugar of the top-left nucleotide ringed and labeled
Two base pairs of the model with the five-carbon sugar of the top-left nucleotide ringed and labeled
6

The six-sided ring with a letter is the nitrogenous base. In the boxed nucleotide it is A, adenine.

Two base pairs of the model with the nitrogenous base of the top-left nucleotide ringed and labeled
Two base pairs of the model with the nitrogenous base of the top-left nucleotide ringed and labeled
7

Now the bonds. Along each backbone the solid lines are covalent bonds: sugar to phosphate to sugar, all the way down the strand.

Two base pairs of the model. The solid lines along each backbone, sugar to phosphate to sugar, are covalent bonds; the dashed lines between the paired bases are hydrogen bonds
Two base pairs of the model. The solid lines along each backbone, sugar to phosphate to sugar, are covalent bonds; the dashed lines between the paired bases are hydrogen bonds
8

Between the two strands the dashed lines are hydrogen bonds. They join paired bases, A with T and G with C, and they are the only bonds between the strands.

9

Now the ends. The left strand’s 5 end is at the top and its 3 end at the bottom. The strands are antiparallel, so the right strand’s 3 end is at the top and its 5 end at the bottom.

The six-pair model with both strands' ends labeled: left strand 5 end at the top and 3 end at the bottom, right strand 3 end at the top and 5 end at the bottom, with an arrow up the right strand from its 5 end
The six-pair model with both strands' ends labeled: left strand 5 end at the top and 3 end at the bottom, right strand 3 end at the top and 5 end at the bottom, with an arrow up the right strand from its 5 end
10

Read the left strand from its 5 end at the top: 5-T-G-A-C-C-A-3. The right strand’s bases, top to bottom, are its partners: A, C, T, G, G, T.

11

Read the right strand from its own 5 end, at the bottom, and it is 5-T-G-G-T-C-A-3.

12

Every base has one partner, so the left strand alone fixes every base of the right strand. The information is held in the order of the bases along a strand.

13

What you are expected to know You can now read a model of DNA: name the phosphate group, five-carbon sugar and nitrogenous base of any nucleotide, tell the covalent bonds along a backbone from the hydrogen bonds between paired bases, label the second strand’s ends, and write the second strand from its 5 end.

14Reading the model

15

Here is the model again, with the right strand’s ends blank and no labels on its parts.

16

What you are expected to know You can now answer questions about a model like this one with nothing marked on it: name the parts of a nucleotide, tell the two kinds of bond apart, label the second strand’s ends and write it from its 5 end.

17
Check q1

Inside the dashed box, on the left-hand strand, is one nucleotide.

A model of six base pairs: two backbones of phosphate circles marked P and sugar pentagons, paired bases between them held by dashed lines, one nucleotide boxed, the left strand labeled 5 end at the top and 3 end at the bottom and reading T G A C C A, the right strand's ends blank
A model of six base pairs: two backbones of phosphate circles marked P and sugar pentagons, paired bases between them held by dashed lines, one nucleotide boxed, the left strand labeled 5 end at the top and 3 end at the bottom and reading T G A C C A, the right strand's ends blank

What are its three parts, from left to right?

  1. A. ✓ phosphate group, five-carbon sugar, nitrogenous base
  2. B. nitrogenous base, five-carbon sugar, phosphate group
    On the left-hand strand the phosphate group, the circle marked P, is on the left; the base, the six-sided ring, is on the right.
  3. C. phosphate group, nitrogenous base, five-carbon sugar
    The five-sided ring, in the middle, is the sugar and the six-sided ring, on the right, is the base.
  4. D. phosphate group, five-carbon sugar, and a pair of bases
    The box holds one nucleotide with one base; the base it pairs with belongs to the nucleotide on the other strand.

Why: The circle marked P is the phosphate group, the five-sided ring is the five-carbon sugar, and the six-sided ring is the nitrogenous base.

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Check q2

The model shows solid lines along each backbone and dashed lines between the two strands.

A model of six base pairs: two backbones of phosphate circles marked P and sugar pentagons, paired bases between them held by dashed lines, one nucleotide boxed, the left strand labeled 5 end at the top and 3 end at the bottom and reading T G A C C A, the right strand's ends blank
A model of six base pairs: two backbones of phosphate circles marked P and sugar pentagons, paired bases between them held by dashed lines, one nucleotide boxed, the left strand labeled 5 end at the top and 3 end at the bottom and reading T G A C C A, the right strand's ends blank

Which kind of bond is which?

  1. A. Both the solid and the dashed lines are covalent bonds
    There are no covalent bonds between the two strands; only hydrogen bonds join the paired bases.
  2. B. Solid: hydrogen bonds; dashed: covalent bonds
    Covalent bonds run along the backbones; hydrogen bonds join the paired bases.
  3. C. ✓ Solid: covalent bonds; dashed: hydrogen bonds
  4. D. Both the solid and the dashed lines are hydrogen bonds
    The nucleotides along a backbone are joined by covalent bonds, not hydrogen bonds.

Why: Covalent bonds join the nucleotides along each backbone; hydrogen bonds hold the paired bases together between the strands.

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Check q3

The left-hand strand reads 5-T-G-A-C-C-A-3 from top to bottom.

A model of six base pairs: two backbones of phosphate circles marked P and sugar pentagons, paired bases between them held by dashed lines, one nucleotide boxed, the left strand labeled 5 end at the top and 3 end at the bottom and reading T G A C C A, the right strand's ends blank
A model of six base pairs: two backbones of phosphate circles marked P and sugar pentagons, paired bases between them held by dashed lines, one nucleotide boxed, the left strand labeled 5 end at the top and 3 end at the bottom and reading T G A C C A, the right strand's ends blank

Where is the right-hand strand’s 5 end, and what does it read from that end?

  1. A. At the top; 5-A-C-T-G-G-T-3
    Two 5 ends at the top would have the strands running the same way.
  2. B. ✓ At the bottom; 5-T-G-G-T-C-A-3
  3. C. At the top; 5-T-G-G-T-C-A-3
    That sequence places the 5 end at the top but then reads the strand from the bottom.
  4. D. At the bottom; 5-A-C-T-G-G-T-3
    That sequence places the 5 end correctly, at the bottom, but then reads the strand from the top.

Why: The strands are antiparallel, so the right strand’s 5 end is at the bottom.
The bases opposite T-G-A-C-C-A are A-C-T-G-G-T from top to bottom; read from the bottom, the right strand is 5-T-G-G-T-C-A-3.

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Check q4

The right-hand strand’s bases can be filled in using the left-hand strand alone.

A model of six base pairs: two backbones of phosphate circles marked P and sugar pentagons, paired bases between them held by dashed lines, one nucleotide boxed, the left strand labeled 5 end at the top and 3 end at the bottom and reading T G A C C A, the right strand's ends blank
A model of six base pairs: two backbones of phosphate circles marked P and sugar pentagons, paired bases between them held by dashed lines, one nucleotide boxed, the left strand labeled 5 end at the top and 3 end at the bottom and reading T G A C C A, the right strand's ends blank

Why is that possible?

  1. A. Because the two strands carry the same bases in the same order
    The right strand carries each base’s partner, not the same base.
  2. B. Because the two strands are antiparallel
    Antiparallel tells you which way to read the right strand, not which base goes where.
  3. C. Because the two backbones are identical
    The backbones are the same in every strand and carry no information about the bases.
  4. D. ✓ Because each base pairs with only one partner

Why: Each base has exactly one partner: A with T, G with C.
So the order of bases on the left strand fixes the order on the right, base by base.
The direction only tells you which way to read it.

21
Practice writing an answer

The model shows a piece of double-stranded DNA five nucleotides long. Solid lines join the nucleotides along each backbone; dashed lines join the paired bases. The left strand’s ends are labeled, and it reads 5-C-A-T-G-G-3 from top to bottom. The right strand’s bases are blank, and its ends are marked M (top) and N (bottom).

A model of five base pairs: two backbones, paired bases held by dashed lines, the left strand labeled 5 end at the top and 3 end at the bottom and reading C A T G G, the right strand's bases blank and its ends marked M at the top and N at the bottom
A model of five base pairs: two backbones, paired bases held by dashed lines, the left strand labeled 5 end at the top and 3 end at the bottom and reading C A T G G, the right strand's bases blank and its ends marked M at the top and N at the bottom

(a) Describe the two kinds of bond in the model: the bonds shown by the solid lines along each backbone, and the bonds shown by the dashed lines. (1 pt)

Frame Along each backbone the nucleotides are joined by …; the dashed lines are …

Model answer Along each backbone the nucleotides are joined by covalent bonds, sugar to phosphate to sugar.
The dashed lines are hydrogen bonds between the paired bases, which hold the two strands together.
Rubric
  • Award 1 point for: covalent bonds along each backbone and hydrogen bonds between the paired bases.
  • Accept: ‘strong bonds along the backbone, weak attractions between the bases’ if both kinds are also named.
  • Do not award: covalent bonds between the strands, or hydrogen bonds along the backbone.

Slip Swapping the two, or joining the strands with covalent bonds. The strands are held together by many weak hydrogen bonds; the covalent bonds run along each backbone.

(b) Identify which of M and N is the right strand’s 5 end, and write the right strand’s sequence from that end. (1 pt)

Model answer The strands are antiparallel, so N is the right strand’s 5 end.
The bases opposite C-A-T-G-G are G-T-A-C-C from top to bottom.
So read from N upward the right strand is 5-C-C-A-T-G-3.
Rubric
  • Award 1 point for: N as the 5 end, with the right strand written 5-C-C-A-T-G-3.
  • Both parts are needed for the point: the correct end, N, and the correct sequence written from it. Either one alone does not score.
  • Accept: the right strand written top to bottom as 3-G-T-A-C-C-5 with N labeled as the 5 end.
  • Do not award: 5-G-T-A-C-C-3 (right bases, wrong direction), M as the 5 end, or any uracil.

Slip Writing the partners in the same top-to-bottom order as the left strand. The right strand runs the other way, so its own 5 to 3 reading is reversed.

(c) Explain why a student who has only the left strand can fill in every base of the right strand. (1 pt)

Model answer Each base pairs with only one partner, A with T and G with C.
So the order of bases on the left strand fixes the order on the right strand base by base.
The information is held in that order of bases.
Rubric
  • Award 1 point for: each base pairs with only one partner, so the order on one strand fixes the order on the other.
  • Accept: the pairing rules stated using the word complementary.
  • Do not award: ‘because the strands are antiparallel’ alone, or ‘because DNA is a double helix’.

Slip Answering with the shape (antiparallel, double helix) instead of the pairing. The direction tells you which way to read; the pairing rule tells you which base goes where.

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This model of DNA is two antiparallel strands held together by hydrogen bonds between paired bases, and every part of it is now something you can name.

APBIO-U01-P16 Practice questions: Topic 1.6

Topic 1.6 · Nucleic Acids · 10 MCQ · 2 FRQ · for APBIO-U01-T16

Answer every question. For each multiple-choice question choose one answer 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. Use a hint if you are stuck, then open the full-credit answer and score your own work against it.

Video: Watch first: nucleic acids, summed up

The nucleotide and its three parts, the strand and its two ends, the second strand and its pairing rules, antiparallel strands, and DNA against RNA.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-T16-summary.mp4

Q1 P16-q01

The drawing shows one RNA nucleotide as three joined shapes. X is a small circle, Y is a five-sided shape and Z is a six-sided shape.

One RNA nucleotide drawn as three joined shapes: a small circle X, a five-sided shape Y and a six-sided shape Z.
One RNA nucleotide drawn as three joined shapes: a small circle X, a five-sided shape Y and a six-sided shape Z.

Which part is the nitrogenous base, the part that gives the nucleotide its letter?

  1. A. X, the small circle
    The small circle is the phosphate group, which is the same in every nucleotide.
  2. B. Y, the five-sided shape
    The five-sided shape is the five-carbon sugar, ribose in RNA, which is the same in every nucleotide of the strand.
  3. C. ✓ Z, the six-sided shape
  4. D. X and Y together
    The phosphate and the sugar are the two parts that repeat unchanged along a strand.

Why: Every nucleotide has a phosphate group (the circle), a five-carbon sugar (the five-sided shape) and a nitrogenous base (the six-sided shape).
The base is the only part that changes from one nucleotide to the next, so it carries the letter: A, U, G or C in RNA.

Q2 P16-q02

A single strand of RNA is 75 nucleotides long. Nucleotide 20 and nucleotide 21 sit next to each other along the strand.

Which bond joins nucleotide 20 to nucleotide 21?

  1. A. A hydrogen bond between their two bases
    Along a single strand the nucleotides are joined by covalent bonds; hydrogen bonds hold paired bases between two strands.
  2. B. ✓ A covalent bond between the sugar of one and the phosphate of the next
  3. C. A covalent bond directly between their two bases
    Bases hang off the backbone and are not bonded to each other; neighbors along a strand are joined through the backbone.
  4. D. A covalent bond from the sugar of one to the sugar of the next
    Sugars and phosphates alternate along the backbone, so the bond runs from a sugar to the next phosphate, not sugar to sugar.

Why: Nucleotides join into a strand by a covalent bond from the sugar of one to the phosphate of the next, so sugars and phosphates alternate along the sugar-phosphate backbone, with a base hanging off each sugar.

Q3 P16-q03

One end of a single DNA strand has a free hydroxyl group, –OH, on its last sugar, joined to nothing further.

Which end of the strand is this?

  1. A. The 5′ end
    The 5′ end is the end that carries a free phosphate joined to nothing further, not a free hydroxyl group.
  2. B. Either end; both ends carry a free hydroxyl group
    The two ends differ: one carries a free phosphate, the other a free hydroxyl group.
  3. C. ✓ The 3′ end
  4. D. The middle; a free hydroxyl group marks a break in the strand
    A free hydroxyl group on the 3′ carbon of the last sugar marks an end of the strand, not a break in it.

Why: The 3′ end is where the last sugar’s 3′ carbon carries a free hydroxyl group; the 5′ end is where the last sugar’s 5′ carbon carries a free phosphate.
Because the two ends differ, the strand has a direction.

Q4 P16-q04

A DNA strand is being built one nucleotide at a time. A new nucleotide is about to be joined on.

Which group on the growing strand does the incoming nucleotide’s phosphate bond to?

  1. A. ✓ The free hydroxyl group on the 3′ carbon at the strand’s 3′ end
  2. B. The free phosphate at the strand’s 5′ end
    The 5′ end never gains a nucleotide.
  3. C. The base of the last nucleotide on the growing strand
    Bases hang off the backbone and take no part in the join.
  4. D. The hydroxyl group on the sugar at the strand’s 5′ end
    The sugar at the 5′ end carries the strand’s free phosphate, not a free hydroxyl group.

Why: Each new nucleotide is added at the 3′ end: a covalent bond forms between the hydroxyl group on the strand’s 3′ carbon and the incoming nucleotide’s phosphate.
A strand only ever grows in the 5′ to 3′ direction.

Q5 P16-q05

Two short RNA strands are made from the same pool of nucleotides. One reads 5′-U-C-A-G-3′. The other reads 5′-G-A-C-U-3′.

Do the two strands carry the same information?

  1. A. Yes; they contain the same four bases in the same amounts
    The same bases in the same amounts are not the same information; the information is in the order along the strand.
  2. B. Yes; one is the other read from the opposite end, so the message is the same
    A strand is read from its 5′ end to its 3′ end, never from the other end, and read that way the two orders differ.
  3. C. No; only one of the two strands has a 5′ end
    Every strand has one 5′ end and one 3′ end; the strands differ in the order of their bases.
  4. D. ✓ No; the order of bases read 5′ to 3′ differs, and the information is in that order

Why: The information in a nucleic acid is held in the order of the bases along the strand, read from the 5′ end to the 3′ end.
U-C-A-G and G-A-C-U contain the same bases in different orders, so they carry different information.

Q6 P16-q06

The two strands of a double-stranded DNA sample are separated at room temperature. Each separated strand is still a complete, unbroken chain of nucleotides.

Which attraction was overcome?

  1. A. ✓ The hydrogen bonds between the paired bases
  2. B. The covalent bonds along each sugar-phosphate backbone
    If the covalent bonds along a backbone had broken, each strand would have come away in pieces, not as one whole chain.
  3. C. The covalent bonds that join the bases of one strand to the bases of the other
    There are no covalent bonds between the two strands; covalent bonds run along each backbone.
  4. D. The bonds that hold each base onto its sugar
    The strands came away complete, bases included, so the bases stayed on their sugars.

Why: The two strands of DNA are held to each other by hydrogen bonds between paired bases, weak one at a time but strong in number.
Those were overcome; the covalent bonds along each backbone held, so each strand came away whole.

Q7 P16-q07

One stretch of a DNA strand reads C–A–G–T–T–C. The partner strand lies directly beneath it, base for base.

Written position by position beneath the given strand, what does the partner strand read?

  1. A. C–A–G–T–T–C
    Copying the strand gives the same bases; the partner strand carries each base’s partner, not the base itself.
  2. B. G–U–C–A–A–G
    Uracil belongs to RNA; this partner strand is DNA, so adenine’s partner is thymine.
  3. C. ✓ G–T–C–A–A–G
  4. D. G–T–G–A–A–G
    The third base is left unchanged; every base is replaced by its partner, and opposite G is C.

Why: Take each base and write its partner: C gives G, A gives T, G gives C, T gives A, T gives A, C gives G.
So the partner strand reads G–T–C–A–A–G.

Q8 P16-q08

Double-stranded DNA from a beetle is analyzed. Guanine makes up 21% of its bases.

What percentage of the beetle’s bases is adenine?

  1. A. 21%
    Guanine matches cytosine, not adenine; adenine and thymine share what is left.
  2. B. ✓ 29%
  3. C. 58%
    58% is the share left for adenine and thymine together, and they are equal, so adenine is half of it.
  4. D. 79%
    Subtracting guanine from the whole leaves the other three bases together, not adenine alone.

Why: Cytosine pairs with guanine, so cytosine is also 21%.
Adenine and thymine share the remaining 58% equally.
So adenine is 29%, as the working shows.

Q9 P16-q09

The drawing shows a piece of double-stranded DNA. The left strand is labeled 5′ at the top and 3′ at the bottom. The right strand’s top end is marked with a question mark.

A piece of double-stranded DNA. The left strand’s ends are labeled 5′ at the top and 3′ at the bottom. The right strand’s top end is marked with a question mark and its bottom end is blank. Dashed lines join the paired bases.
A piece of double-stranded DNA. The left strand’s ends are labeled 5′ at the top and 3′ at the bottom. The right strand’s top end is marked with a question mark and its bottom end is blank. Dashed lines join the paired bases.

Which label belongs at the question mark?

  1. A. ✓ 3′, because the strands are antiparallel
  2. B. 5′, because paired strands run the same way
    The two strands of DNA run in opposite directions, never the same way.
  3. C. 3′, because a strand is always read from the top
    Strands have no top or bottom of their own; which end sits at the top is fixed by the other strand.
  4. D. 5′, because every strand is drawn with its 5′ end at the top
    There is no rule that a strand is drawn with its 5′ end at the top; the label is fixed by the other strand.

Why: The two strands of DNA are antiparallel: they run in opposite 5′ to 3′ directions.
The left strand’s 5′ end is at the top, so the right strand’s 3′ end sits beside it at the top, and its 5′ end is at the bottom.

Q10 P16-q10

One strand of a short piece of DNA reads 5′-C-A-T-T-G-3′.

Read from its own 5′ end, what does the partner strand read?

  1. A. 5′-G-T-A-A-C-3′
    Written left to right under the given strand, the partners start from the partner strand’s 3′ end, not its 5′ end.
  2. B. 5′-C-A-T-T-G-3′
    Copying the given strand gives the same bases, not each base’s partner.
  3. C. 5′-C-A-A-U-G-3′
    Uracil belongs to RNA; this is DNA, so adenine’s partner is thymine.
  4. D. ✓ 5′-C-A-A-T-G-3′

Why: The bases opposite C-A-T-T-G are G-T-A-A-C, but that strand runs the other way, so its 5′ end is on the right.
Read from its own 5′ end it is 5′-C-A-A-T-G-3′.

FRQ 1 P16-frq1 · Conceptual Analysis scaffolded

A short strand of DNA, strand 1, reads 5′-A-C-G-T-T-A-3′. It pairs along its whole length with a second strand, strand 2. The paired strands are then heated to 95 °C and separate again.

(a) Identify the three parts that make up any nucleotide, and state which part differs from one nucleotide to the next. (1 pt)

Frame Each nucleotide has a …, a … and a …; only the … differs from one nucleotide to the next.

Hint Which parts of a nucleotide repeat unchanged along the whole strand?

Model answer Every nucleotide has a phosphate group, a five-carbon sugar (deoxyribose in DNA) and a nitrogenous base; only the base differs from one nucleotide to the next.
Rubric
  • Award 1 point for: phosphate group, five-carbon sugar and nitrogenous base, with the base as the part that differs.
  • Accept: ‘deoxyribose’ for the sugar; letters A, C, G, T for the bases.
  • Do not award: a list missing one part, or the sugar named as the part that differs.

Slip Naming the sugar as the part that changes. The sugar and the phosphate repeat unchanged; the base is the only part that differs.

(b) Describe the bond that joins one nucleotide to the next along strand 1, and the bonds that hold strand 1 to strand 2. (1 pt)

Frame Along the strand, a … joins the … of one nucleotide to the … of the next; the two strands will be held together by … between …

Hint One kind of bond runs along a backbone; the other kind runs between the two strands.

Model answer Along the strand, a covalent bond joins the sugar of one nucleotide to the phosphate of the next, making the sugar-phosphate backbone; the two strands are held together by hydrogen bonds between paired bases, weak one at a time but strong in number.
Rubric
  • Award 1 point for: covalent bonds sugar to phosphate along the backbone, and hydrogen bonds between paired bases holding the two strands together.
  • Accept: ‘strong bonds along the backbone, weak attractions between the bases’ if both kinds are also named.
  • Do not award: covalent bonds between the strands, or hydrogen bonds along the backbone.

Slip Joining the two strands with covalent bonds. The strands are held by many weak hydrogen bonds; the covalent bonds run along each backbone.

(c) Write the bases of strand 2, position by position beneath strand 1. (1 pt)

Frame Beneath A-C-G-T-T-A, strand 2 reads …-…-…-…-…-…

Hint Which base is each of A, C, G and T always found opposite in DNA?

Model answer Beneath A-C-G-T-T-A, strand 2 reads T-G-C-A-A-T.
Rubric
  • Award 1 point for: T-G-C-A-A-T written beneath strand 1, position by position.
  • Do not award: any uracil, or a base left unchanged.

Slip Using uracil opposite adenine. Strand 2 is DNA, so adenine pairs with thymine.

(d) Describe the order of the bases in strand 2 when it is written from its own 5′ end, and explain why it comes out in that order. (1 pt)

Frame From its own 5′ end, strand 2 reads 5′-…-3′, because the two strands are …, so strand 2’s 5′ end lies …

Hint How do the directions of the two strands in double-stranded DNA compare?

Model answer From its own 5′ end, strand 2 reads 5′-T-A-A-C-G-T-3′, because the two strands are antiparallel, so strand 2’s 5′ end lies beneath strand 1’s 3′ end, at the right, and reading from there gives the partners in reverse order.
Rubric
  • Award 1 point for: 5′-T-A-A-C-G-T-3′, with the order explained by the strands being antiparallel (running in opposite 5′ to 3′ directions).
  • Accept: ‘strand 2’s 5′ end is at the other end, so you read it the other way’.
  • Do not award: 5′-T-G-C-A-A-T-3′ (right bases, wrong direction), or the order with no reason.

Slip Writing the partners in the same left-to-right order as strand 1. Strand 2 runs the other way, so from its own 5′ end the order is reversed.

(e) The paired strands are heated to 95 °C and separate. Predict what each strand looks like afterward, and justify your prediction from the two kinds of bond. (1 pt)

Frame After heating, each strand is …, because the heat broke only the … while the … along each backbone held.

Hint Compare the strength of one hydrogen bond with the strength of a covalent bond.

Model answer After heating, each strand is a complete, unbroken chain of six nucleotides, because the heat broke only the hydrogen bonds between the paired bases, which are weak, while the covalent bonds along each backbone, which are far stronger, held.
Rubric
  • Award 1 point for: each strand stays whole; heat breaks the weak hydrogen bonds between bases but leaves the strong covalent bonds of the backbones intact.
  • Accept: ‘the strands unzip but do not break’ with both bonds named.
  • Do not award: strands broken into nucleotides, or the strands staying paired.

Slip Predicting that the strands fall apart into nucleotides. The heat is enough to break hydrogen bonds, which hold the strands together, but far short of what a covalent backbone bond needs.

FRQ 2 P16-frq2 · Analyze Data

A virus that infects cattle carries its instructions in RNA. Most RNA is a single strand, but this virus is different: careful tests show that its RNA is two strands paired along their whole length. Its bases are adenine 22%, uracil 22%, guanine 28% and cytosine 28%.

(a) Identify the sugar in this virus’s RNA, and describe two ways in which RNA differs in structure from typical DNA. (1 pt)

Frame The sugar is …; unlike typical DNA, RNA has … rather than …, and it is usually …

Model answer The sugar is ribose.
Unlike typical DNA, RNA has the base uracil rather than thymine, and it is usually a single strand where DNA is two paired strands; its sugar, ribose, also differs from DNA’s deoxyribose.
Rubric
  • Award 1 point for: ribose, together with any two of: uracil in place of thymine; ribose in place of deoxyribose; usually a single strand where DNA is two paired strands.
  • Accept: ‘this virus’s RNA is unusual in having two strands’ as an extra remark; the two structural differences must still be given.
  • Do not award: deoxyribose, or only one difference.

Slip Naming deoxyribose because the molecule is double-stranded. The sugar of RNA is ribose however many strands it has; the number of strands is what makes this virus unusual.

(b) Evaluate the claim that this virus’s RNA is two paired strands, using its base percentages. (1 pt)

Model answer The claim is supported by the percentages.
In two paired strands every base is paired one-to-one with its partner: adenine with uracil and guanine with cytosine.
So adenine must equal uracil and guanine must equal cytosine.
Here adenine and uracil are both 22%, and guanine and cytosine are both 28%, so the data fit two paired strands.
A single strand has no partner, so its bases would not have to match.
Rubric
  • Award 1 point for the judgement AND the ground for it: the claim is supported, because one-to-one pairing across two strands (A with U, G with C) forces the paired bases to be equal, and the data show A = U (22%) and G = C (28%).
  • Accept: ‘every A on one strand is matched by a U on the other, so the amounts are equal’.
  • Do not award: the judgement with no ground; the percentages read as adding to 100%; or equal amounts explained with no pairing.

Slip Saying the claim is supported because the percentages ‘add up correctly’. Any set of four percentages adds to 100%; the ground is that the two partners in each pair are equal.

(c) A different virus also carries double-stranded RNA. In its RNA, guanine makes up 30% of the bases. Calculate the percentage of adenine. (1 pt)

Model answer In this second virus, cytosine equals guanine, so cytosine is 30% and the two together are 60%.
That leaves 40% for adenine and uracil, which are equal, so adenine is 20%.
Working
Write down the values in the question:
guanine = 30%
Write down the equation:
tex: \text{cytosine} = \text{guanine}
tex: \text{adenine} = \text{uracil} = \frac{100\% - \text{guanine} - \text{cytosine}}{2}
Substitute the values into the equation:
tex: \text{cytosine} = \text{guanine}
tex: \text{cytosine} = 30\%
tex: \text{adenine} = \text{uracil} = \frac{100\% - \text{guanine} - \text{cytosine}}{2}
tex: \text{adenine} = \frac{100\% - 30\% - 30\%}{2}
tex: \text{adenine} = \frac{40\%}{2}
tex: \text{adenine} = 20\%
Rubric
  • Award 1 point for: 20% adenine, from cytosine = 30% and the remaining 40% shared equally by adenine and uracil.
  • Accept: 20% shown as half of the 40% left after guanine and cytosine.
  • Do not award: 30%, 40% or 70%.

Slip Stopping at 40%. That is adenine and uracil together; they are equal, so adenine is half of it.

(d) One stretch of one strand of the first virus’s RNA reads 5′-A-G-U-C-3′. Write the partner strand from its own 5′ end, and justify the order you wrote it in. (1 pt)

Model answer The bases opposite A-G-U-C are U-C-A-G, but the two strands are antiparallel, so the partner’s 5′ end lies beneath the given strand’s 3′ end.
Read from its own 5′ end the partner is 5′-G-A-C-U-3′.
Rubric
  • Award 1 point for: 5′-G-A-C-U-3′, with the reversal justified by the strands running in opposite directions (antiparallel).
  • Accept: the partner written 3′-U-C-A-G-5′ beneath the given strand, with its 5′ end marked at the right.
  • Do not award: 5′-U-C-A-G-3′ (right bases, wrong direction), or any thymine.

Slip Using thymine opposite adenine, or writing the partners in the same left-to-right order. This is RNA, so adenine pairs with uracil, and the partner runs the other way.

APBIO-U01-T16 End-of-topic test: Nucleic Acids

Topic 1.6 · Nucleic Acids · 18 MCQ · 2 FRQ

Answer every question. Check each multiple-choice answer as you go; 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.

Q1 T16-q01

The figure shows one nucleotide drawn as three joined shapes, marked 1, 2 and 3. The five-carbon sugar is the middle shape. The shape marked 1 is a group attached to one side of the sugar. The shape marked 3 is a six-sided ring attached to the other side of the sugar.

One nucleotide, drawn as three joined shapes marked 1, 2 and 3.
One nucleotide, drawn as three joined shapes marked 1, 2 and 3.

What are the shapes marked 1 and 3?

  1. A. 1 is a nitrogenous base; 3 is a phosphate group
    The phosphate group is the small group on one side of the sugar, and the base is the flat six-sided ring on the other.
  2. B. 1 is a fatty acid; 3 is a nitrogenous base
    Fatty acids belong to lipids, not to nucleotides.
  3. C. ✓ 1 is a phosphate group; 3 is a nitrogenous base
  4. D. 1 is a phosphate group; 3 is an amino acid
    Amino acids are the units of proteins, not parts of a nucleotide.

Why: Every nucleotide is a five-carbon sugar with a phosphate group on one side and a nitrogenous base on the other.
The small circle, marked 1, is the phosphate group; the flat ring, marked 3, is the base.

Q2 T16-q02

Two nucleotides are taken from different places along the same DNA strand and compared side by side.

Which part of the two nucleotides might be different?

  1. A. The phosphate group
    The phosphate group is the same in every nucleotide.
  2. B. ✓ The nitrogenous base
  3. C. The five-carbon sugar
    In a DNA strand every sugar is deoxyribose, so the sugar is the same in every nucleotide.
  4. D. All three parts
    Two of the three parts, the sugar and the phosphate, repeat unchanged along the strand, so only one part can differ.

Why: The sugar and the phosphate group repeat unchanged along a strand; the base is the only part that changes from one nucleotide to the next, which is why the base is the part that can carry information.

Q3 T16-q03

A single DNA strand is cut into two shorter pieces. Each piece is still an unbroken chain of nucleotides.

Which bond was broken?

  1. A. ✓ A covalent bond between a sugar and the next phosphate
  2. B. A hydrogen bond between two neighboring bases
    Bases along a strand are not bonded to one another; each hangs off its own sugar.
  3. C. The bond that holds a base onto its own sugar
    Breaking a base off its sugar would leave the backbone whole, so the strand would still be one piece.
  4. D. The attraction between the strand and the surrounding water
    Water does not hold a strand together; the nucleotides are joined to one another by covalent bonds.

Why: Along a single strand, each nucleotide is joined to the next by a covalent bond from its sugar to the next nucleotide's phosphate.
That sugar-phosphate backbone is the only link between neighboring nucleotides, so cutting the strand in two means breaking one of those covalent bonds.

Q4 T16-q04

One end of a short single strand of RNA carries a free phosphate group.

What can be said about that end?

  1. A. It is the 3′ end
    The 3′ end is the end whose sugar carries a free hydroxyl group, not a phosphate.
  2. B. Either end could carry the phosphate
    The two ends of a strand differ, and only one of them carries a free phosphate.
  3. C. It is an end where a sugar has broken off
    A free phosphate at the end is the normal 5′ end, not damage.
  4. D. ✓ It is the 5′ end

Why: The phosphate group of a nucleotide is attached to the 5′ carbon of its sugar.
At one end of a strand that phosphate is free, so that end is the 5′ end.
The other end has a sugar whose 3′ carbon carries a free hydroxyl group, so it is the 3′ end.

Q5 T16-q05

The figure shows a single strand of four nucleotides. Phosphate groups are drawn as circles and five-carbon sugars as pentagons. The two ends are marked X and Y.

A single strand of four nucleotides. X and Y mark its two ends.
A single strand of four nucleotides. X and Y mark its two ends.

Which end is the 3′ end?

  1. A. ✓ Y, because its sugar carries a free hydroxyl group
  2. B. X, because its sugar carries a free hydroxyl group
    End X ends in a phosphate group, drawn as a circle, not in a hydroxyl group.
  3. C. X, because it carries the free phosphate group
    A free phosphate group marks the 5′ end, not the 3′ end.
  4. D. Y, because a strand is read from left to right
    Left and right on a page tell you nothing about the ends; what the last sugar carries does.

Why: End X ends in a free phosphate group, so X is the 5′ end.
End Y ends in a sugar carrying a free hydroxyl group, written OH, so Y is the 3′ end.

Q6 T16-q06

A new DNA strand grows from its first nucleotide until it is 500 nucleotides long.

Where is that first nucleotide now?

  1. A. At the 3′ end, where the new nucleotides are added
    The 3′ end is where new nucleotides are added, so it keeps moving away from the first nucleotide.
  2. B. In the middle, because both ends grow equally
    Nucleotides are added at one end only, the 3′ end; the 5′ end never grows.
  3. C. ✓ At the 5′ end, which never gains new nucleotides
  4. D. Outside the strand, pushed off as it grew
    Nucleotides are joined by covalent bonds and stay in the strand; growth adds to the end and pushes nothing off.

Why: New nucleotides join only at the 3′ end, so the 5′ end stays exactly as it started.
The first nucleotide is left at the 5′ end, and the strand grows away from it in the 5′ to 3′ direction.

Q7 T16-q07

A drug binds tightly to the free hydroxyl group at the 3′ end of a growing DNA strand and blocks it.

What happens to that strand?

  1. A. It keeps growing, but from the 5′ end instead
    A strand never grows at its 5′ end, so it cannot switch ends.
  2. B. ✓ It stops growing; no new nucleotide can be joined on
  3. C. It grows faster, because the blocked end holds units in place
    The blocked group is exactly where the next bond would form, so the block cannot help growth.
  4. D. It falls apart into separate nucleotides
    The covalent bonds already made along the backbone are unaffected; the strand simply cannot get longer.

Why: Each new nucleotide is joined by a covalent bond between the strand's 3′ hydroxyl group and the incoming nucleotide's phosphate.
With the 3′ hydroxyl blocked, that bond cannot form, and because nucleotides are never added at the 5′ end, growth stops.

Q8 T16-q08

A student copies the sequence of a short DNA strand as C-T-T-A-G but forgets to mark which end is the 5′ end. A classmate says the same five bases are there either way, so the mark can be skipped.

Does the missing mark matter, and why?

  1. A. It does not matter; the same bases in the same amounts carry the same information
    The same bases in the same amounts are not the same information; the information is in the order along the strand, which depends on which end you start from.
  2. B. It does not matter; a strand can be read from either end and means the same thing either way
    A strand has a direction and is read 5′ to 3′; read from the other end, C-T-T-A-G becomes G-A-T-T-C, a different order.
  3. C. It matters only because the 5′ end is the end that carries the free phosphate
    The free phosphate is not why the mark matters here; the mark matters because the order of the bases is read from that end.
  4. D. ✓ It matters; the information is the order of the bases from the 5′ end, and from the other end that order differs

Why: The information in a nucleic acid is held in the order of the bases along the strand, read 5′ to 3′.
Without the 5′ mark the strand could be C-T-T-A-G or G-A-T-T-C.
Those are different orders carrying different information, even though the same bases are present in the same amounts.

Q9 T16-q09

Two DNA strands are made from the same pool of nucleotides. One reads 5′-G-A-T-T-C-3′. The other reads 5′-C-T-T-A-G-3′.

How do the two strands compare?

  1. A. ✓ Different; the bases sit in a different order read 5′ to 3′
  2. B. The same; they are built from the same bases in the same amounts
    The same bases in the same amounts is not the same information; what matters is the order along the strand.
  3. C. The same; one is just the other read backwards
    A strand is read in one direction only, 5′ to 3′, so reading one strand backwards does not turn it into the other.
  4. D. Different; only one of the two strands has a 3′ end
    Every strand has both a 5′ end and a 3′ end.

Why: Both strands are written 5′ to 3′, and in that direction the orders G-A-T-T-C and C-T-T-A-G are different, so the two strands carry different information.
Because a strand has a direction, reversing one does not make it the other.

Q10 T16-q10

A DNA sample is warmed to about 90 °C. The two strands come apart, but each separated strand is still a complete, unbroken chain of nucleotides.

Which bonds did the heat break?

  1. A. The covalent bonds along each backbone
    If the covalent bonds along a backbone had broken, each strand would have come away in fragments, not as a whole chain.
  2. B. ✓ The hydrogen bonds between paired bases
  3. C. Covalent bonds joining the bases of the two strands
    The two strands are not joined by covalent bonds; paired bases are held together by hydrogen bonds.
  4. D. Both the covalent bonds and the hydrogen bonds
    The backbones stayed whole, so their covalent bonds did not break; only the link between the strands gave way.

Why: Covalent bonds run along each backbone and hold a strand together; the two strands are held to each other only by hydrogen bonds between paired bases.
Gentle heating breaks the many weak hydrogen bonds and leaves each covalently bonded strand whole.

Q11 T16-q11

A single strand of RNA folds back on itself so that two stretches of its bases pair up, held by hydrogen bonds. One base lies opposite an adenine.

Which base is it?

  1. A. Thymine
    RNA contains no thymine; uracil takes its place.
  2. B. Guanine
    Guanine’s partner is cytosine, in DNA and in RNA alike.
  3. C. Adenine
    A base does not pair with a copy of itself.
  4. D. ✓ Uracil

Why: In RNA, adenine pairs with uracil, because RNA has uracil where DNA has thymine.
Guanine pairs with cytosine in both nucleic acids.

Q12 T16-q12

One stretch of a DNA strand reads G–C–A–T–T. The partner strand lies directly beneath it, base for base.

Written position by position beneath the given strand, what does the partner strand read?

  1. A. G–C–A–T–T
    This is a copy of the given strand, and the partner strand carries the base that pairs with each base, not the same base.
  2. B. C–G–U–A–A
    Uracil belongs to RNA; in DNA, adenine’s partner is thymine.
  3. C. ✓ C–G–T–A–A
  4. D. T–A–G–C–C
    Guanine pairs with cytosine and adenine with thymine, not guanine with thymine or cytosine with adenine.

Why: Take each base in turn and write its partner: G gives C, C gives G, A gives T, T gives A, T gives A.
So, position by position, the partner strand reads C–G–T–A–A.

Q13 T16-q13

The table below gives the percentage of each base measured in three nucleic-acid samples, W, X and Y.

The percentage of each base in three nucleic-acid samples. A dash means the base was not present.
The percentage of each base in three nucleic-acid samples. A dash means the base was not present.

Which sample or samples could be double-stranded, with every base paired with its partner?

  1. A. X only
    In sample X adenine (28%) and thymine (22%) are not equal, so not every adenine can have a thymine partner.
  2. B. ✓ W only
  3. C. W and X
    Sample W fits, but in sample X adenine (28%) and thymine (22%) do not match, so its bases cannot all be paired.
  4. D. W and Y
    Sample W fits, but in sample Y adenine (22%) and uracil (28%) do not match, so its bases cannot all be paired.

Why: When every base is paired, each adenine has a thymine (or uracil) partner and each guanine a cytosine partner.
So paired bases are present in equal amounts.
Only sample W shows A = T and G = C.
In X and Y the pairs do not match, so some bases are unpaired.

Q14 T16-q14

A double-stranded DNA sample from a lake microbe is analyzed. Adenine makes up 32% of the bases and cytosine 18%.

What percentage of the bases is thymine?

  1. A. ✓ 32%
  2. B. 18%
    Thymine pairs with adenine, not with cytosine; cytosine’s 18% is matched by guanine.
  3. C. 50%
    Thymine is not simply everything left over; guanine also has to be present, matching cytosine at 18%.
  4. D. It cannot be worked out from this
    In double-stranded DNA the amounts of adenine and thymine must be equal, so thymine can be worked out from adenine.

Why: In double-stranded DNA every adenine on one strand is paired with a thymine on the other, so adenine and thymine are present in equal amounts: 32% thymine.
Likewise guanine matches cytosine at 18%, and the four add to 100%.

Q15 T16-q15

The figure shows a short stretch of DNA drawn untwisted, so that the two strands lie side by side. The ends of both strands are labeled.

A short stretch of DNA drawn untwisted, with the ends of both strands labeled.
A short stretch of DNA drawn untwisted, with the ends of both strands labeled.

How are its parts arranged?

  1. A. Backbones outside, bases inside, strands run the same way
    The two strands of DNA are antiparallel: they run in opposite 5′ to 3′ directions.
  2. B. Backbones inside, bases outside, strands run opposite ways
    The sugar-phosphate backbones are on the outside of the helix and the paired bases are inside.
  3. C. Backbones inside, bases outside, strands run the same way
    The sugar-phosphate backbones run along the outside with the paired bases inside, and the two strands run in opposite directions.
  4. D. ✓ Backbones outside, bases inside, strands run opposite ways

Why: In the double helix the two sugar-phosphate backbones run along the outside and the paired bases are stacked inside.
The strands are antiparallel: where one strand's 5′ end sits, the other strand's 3′ end sits beside it.

Q16 T16-q16

The figure shows a drawing of a piece of double-stranded DNA, with the ends of both strands labeled and the paired bases joined by dashed lines.

A drawing of a piece of double-stranded DNA with the ends of both strands labeled.
A drawing of a piece of double-stranded DNA with the ends of both strands labeled.

What, if anything, is wrong with the drawing?

  1. A. Nothing; both strands of DNA run the same way
    Two 5′ ends at the same end of the molecule means the strands run the same way, and the strands of DNA never do.
  2. B. ✓ The strands are drawn parallel; the strands of DNA are antiparallel
  3. C. Both strands should be turned over so that their 3′ ends are at the top
    Turning both strands over leaves them still running the same way as each other, so it fixes nothing.
  4. D. The dashed lines should be solid; covalent bonds join the two strands
    The two strands are held to each other by hydrogen bonds between paired bases; covalent bonds run along each backbone, not across between the strands.

Why: Both strands are labeled 5′ at the top, so they are drawn running the same way: parallel.
DNA strands are antiparallel: one strand’s 5′ end sits beside the other’s 3′ end.
With the left strand’s 5′ end at the top, the right strand’s 3′ end must be at the top.

Q17 T16-q17

One strand of a short piece of DNA reads 5′-T-T-G-C-A-3′.

Read from its own 5′ end, what does the partner strand read?

  1. A. 5′-A-A-C-G-T-3′
    Opposite T-T-G-C-A sit A-A-C-G-T, but that partner strand runs 3′ to 5′, so read from its own 5′ end the order is T-G-C-A-A.
  2. B. 5′-A-C-G-T-T-3′
    Each position on the partner strand carries the pairing base, so opposite T sits A and opposite G sits C; the partner of T-T-G-C-A cannot be its own bases reversed.
  3. C. ✓ 5′-T-G-C-A-A-3′
  4. D. 5′-U-G-C-A-A-3′
    Uracil belongs to RNA; in DNA the partner of adenine is thymine.

Why: Opposite T-T-G-C-A sit A-A-C-G-T, so the partner runs 3′-A-A-C-G-T-5′.
Because the two strands are antiparallel, reading the partner from its own 5′ end reverses the order: 5′-T-G-C-A-A-3′.

Q18 T16-q18

An unknown nucleic acid is broken down, and the five-carbon sugar released is ribose.

What else should be true of this nucleic acid?

  1. A. ✓ It contains uracil and is typically single-stranded
  2. B. It contains thymine and is typically double-stranded
    Thymine and a double strand belong to DNA, and DNA's sugar is deoxyribose, not ribose.
  3. C. It contains uracil and is typically double-stranded
    RNA is typically a single strand; DNA is the double-stranded one.
  4. D. It contains thymine and is typically single-stranded
    RNA has uracil in place of thymine.

Why: Ribose is the sugar of RNA.
RNA differs from DNA in three ways: ribose instead of deoxyribose, uracil in place of thymine, and typically a single strand instead of two.

FRQ 1 T16-frq1 · Analyze Model or Visual Representation

The figure is a schematic of a piece of double-stranded DNA, six nucleotides long. Each nucleotide is drawn as three joined shapes: a small circle, a five-sided shape and a rectangle. Along each strand the circles and five-sided shapes alternate to form the backbone, and each rectangle hangs off a five-sided shape and faces the other strand. In the boxed nucleotide the three shapes are marked: 1 is the circle, 2 is the five-sided shape, and 3 is the rectangle. The bases of the top strand are written as letters, and the top strand's ends are labeled: it reads 5′-A-T-G-C-C-A-3′. The bottom strand's ends are marked X (beneath the top strand's 5′ end) and Y (beneath the top strand's 3′ end), and its bases are left blank. Dashed lines between the rectangles mark where the two strands are held together.

A piece of double-stranded DNA, six nucleotides long. The top strand reads 5′-A-T-G-C-C-A-3′. The bottom strand's ends are marked X (left) and Y (right) and its bases are left blank. One nucleotide is boxed, with its three parts marked 1, 2 and 3.
A piece of double-stranded DNA, six nucleotides long. The top strand reads 5′-A-T-G-C-C-A-3′. The bottom strand's ends are marked X (left) and Y (right) and its bases are left blank. One nucleotide is boxed, with its three parts marked 1, 2 and 3.

(a) Identify the parts of the boxed nucleotide marked 1, 2 and 3. (1 pt)

Model answer 1 is the phosphate group, 2 is the five-carbon sugar (deoxyribose), and 3 is the nitrogenous base, here guanine.
Rubric
  • Award 1 point for identifying all three: 1 = phosphate group; 2 = five-carbon sugar (deoxyribose); 3 = nitrogenous base (guanine).
  • Accept: 'sugar' without naming deoxyribose; 'base' or 'G' for the shape marked 3. Working the parts out from their places (the shape that hangs off toward the other strand is the base; the backbone alternates phosphate and sugar; the shape joined to both is the sugar) is the intended route.
  • Do not award the point if any part is misidentified (for example, 1 as a base or 3 as an amino acid).

Slip Reading the three parts in the wrong order, or calling the base an amino acid. Phosphate, then sugar, then base.

(b) Describe the two different kinds of bond in the model: the bonds that join one nucleotide to the next along a strand, and the bonds shown by the dashed lines. (1 pt)

Model answer Along a strand, the sugar of one nucleotide is joined to the phosphate of the next by covalent bonds, forming the sugar-phosphate backbone.
The dashed lines are hydrogen bonds between paired bases, and they hold the two strands together.
Rubric
  • Award 1 point for stating BOTH: nucleotides along a strand are joined by covalent bonds (sugar of one nucleotide to phosphate of the next, forming the sugar-phosphate backbone), AND the dashed lines are hydrogen bonds between paired bases that hold the two strands together.
  • Accept: "weak attractions like those between water molecules" for hydrogen bonds if named as hydrogen bonds somewhere in the answer.
  • Do not award the point for saying the two strands are joined by covalent bonds, or for naming only one kind of bond.

Slip Joining the two strands with covalent bonds. Between the strands there are only hydrogen bonds; the covalent bonds run along each backbone.

(c) Represent the bottom strand: write the sequence of its bases reading from its own 5′ end, and mark which of X and Y is that 5′ end. (1 pt)

Model answer Y is the bottom strand’s 5′ end, because the strands are antiparallel.
Read from Y, the bottom strand is 5′-T-G-G-C-A-T-3′.
Rubric
  • Award 1 point for the bottom strand written 5′-T-G-G-C-A-T-3′ with Y marked as its 5′ end (so X is the 3′ end; the strands are antiparallel). The end labels and the sequence are one representation: the point is earned when the sequence is written in the direction the labels give.
  • Accept: the bottom strand written position by position beneath the top strand as 3′-T-A-C-G-G-T-5′, with its ends labeled to match.
  • Do not award the point for 5′-T-A-C-G-G-T-3′ (right bases, wrong direction), for any uracil, or for X marked as the 5′ end.

Slip Writing the partner bases in the same left-to-right order as the top strand, 5′-T-A-C-G-G-T-3′. The bottom strand runs the other way, so its own 5′ to 3′ reading is reversed.

(d) Explain how this model shows that the sequence of one strand carries all the information needed to build the other strand. (1 pt)

Model answer Each base pairs with only one partner, A with T and G with C, so the order of bases on one strand fixes the order on the other.
The bottom strand can be filled in from the top strand alone, base by base; the information is held in that order.
Rubric
  • Award 1 point for explaining that each base pairs with only one partner (A with T, G with C), so the order of bases on one strand fixes the order of bases on the other; the information is held in that order of bases.
  • Accept: "the bottom strand could be filled in from the top strand alone, base by base" together with a reference to the pairing rules.
  • Do not award the point for statements about copying or how a cell makes a new strand; the point is for the pairing argument.

Slip Describing how a cell copies its DNA. The point is the pairing argument: one partner per base, so one strand fixes the other.

FRQ 2 T16-frq2 · Conceptual Analysis

A laboratory isolates the nucleic acid from a virus. Tests show that it is a single strand, that its sugar is ribose, and that its bases are adenine, uracil, guanine and cytosine. The DNA of the cells the virus infects is double-stranded. The percentage of each base in the virus's strand and in the cells' DNA is in the table.

Percentage of each base in the virus's strand and in the cells' DNA
Percentage of each base in the virus's strand and in the cells' DNA

(a) Identify the kind of nucleic acid the virus carries. Then describe two structural differences between it and the cells' DNA, naming what each of the two has. (1 pt)

Model answer The viral nucleic acid is RNA.
It has ribose as its sugar where DNA has deoxyribose, and it has the base uracil where DNA has thymine.
It is also a single strand, where the cells' DNA is two strands paired together.
Rubric
  • Award 1 point for: RNA, together with any two of: ribose where DNA has deoxyribose; uracil where DNA has thymine; a single strand where DNA is double-stranded; each difference stated for both molecules.
  • Accept: 'the sugar differs (ribose in RNA, deoxyribose in DNA)' and 'the base differs (uracil in RNA, thymine in DNA)' in any wording that names both sides.
  • Do not award the point for RNA alone, for differences in base percentages (those are amounts, not structure), or for two differences with the DNA side missing.

Slip Listing the viral features from the description with nothing on the DNA side, or giving the percentage differences. Name the nucleic acid and, for each difference, what DNA has instead.

(b) Explain why the cells' DNA has equal amounts of adenine and thymine and equal amounts of guanine and cytosine, but the virus's strand shows no such matching. (1 pt)

Model answer In double-stranded DNA every adenine is paired across the two strands with a thymine and every guanine with a cytosine, held by hydrogen bonds, so the paired bases must be present in equal amounts.
The viral strand is single, so its bases have no partners and no such matching is required.
Rubric
  • Award 1 point for explaining that in double-stranded DNA every adenine is paired with a thymine and every guanine with a cytosine across the two strands (held by hydrogen bonds), so the paired bases must be present in equal amounts, whereas the viral strand is single and its bases are not paired with a partner strand, so no such constraint applies.
  • Accept: "one-to-one pairing" or "every A has a T opposite it" as the mechanism.
  • Do not award the point for restating the percentages without the pairing argument.

Slip Restating the percentages. The point is the one-to-one pairing across two strands, and its absence in a single strand.

(c) A cell makes a strand of RNA whose bases pair one to one with the bases of the virus's strand along its whole length. Predict the percentage of each base in this new strand. (1 pt)

Model answer Adenine 21%, uracil 27%, guanine 23%, cytosine 29%: each base in the new strand is the partner of the base opposite it in the viral nucleic acid, so it takes that base’s percentage.
Rubric
  • Award 1 point for: adenine 21%, uracil 27%, guanine 23%, cytosine 29%.
  • Accept: the same values described in words (uracil takes adenine’s 27%, adenine takes uracil’s 21%, cytosine takes guanine’s 29%, guanine takes cytosine’s 23%).
  • Do not award the point for any answer containing thymine, or for repeating the viral nucleic acid’s own percentages.

Slip Repeating the viral nucleic acid’s own percentages, or bringing in thymine. The new strand is RNA, and each of its bases is the partner of the base opposite.

(d) A student claims that the new strand in part (c) would be an exact copy of the virus's strand. Evaluate the student's claim: judge whether the student is right about the sequence and whether the new strand carries the information needed to rebuild the original strand, and give the ground for each judgement. (1 pt)

Model answer The student is not right about the sequence.
Each position in the new strand holds the partner base: U opposite A, A opposite U, C opposite G, G opposite C.
So the new strand is complementary, not identical.
The student is right about the information.
Each base has only one partner, so the original strand can be read off from the new one, base by base.
Rubric
  • Award 1 point for a response that gives BOTH judgements with their grounds: (1) the sequence is NOT identical, because each position on the new strand holds the partner base (U opposite A, A opposite U, C opposite G, G opposite C); AND (2) the new strand DOES carry the information needed to rebuild the original, because each base pairs with only one partner, so the original sequence can be read off from the new strand base by base.
  • Accept: 'complementary, not identical' for the sequence, together with the rebuild reasoning resting on one base pairing with only one partner.
  • Accept as an addition, not required: the two strands would run in opposite 5′ to 3′ directions (antiparallel).
  • Do not award the point for accepting that the two sequences are identical, or for a judgement about the information with no ground from base pairing.

Slip Accepting that the two strands are identical, or judging the information claim with no ground. The ground is that each base pairs with only one partner: the sequences differ, yet either strand fixes the other.

APBIO-U01-L21 Where the atoms in you come from

Topic 1.2 · Elements of Life · 47 steps

An apple, a glass of water and the air: where the atoms in you come from
An apple, a glass of water and the air: where the atoms in you come from

Here are an apple, a glass of water and the air around them.

You are rebuilt, atom by atom, from what you eat, drink and breathe. The carbon in the glucose your cells are using right now was in the air as carbon dioxide not long ago.

Unit 1 · Chemistry of Life

1Every atom in you came in from outside

2

Video: Watch first: Elements of life

An apple, a glass of water and the air: where every atom in you came from.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-T12-intro.mp4

3

Video: Watch: Where the atoms in you come from

A tree doubles its mass; the atoms came from the air and water. Then which elements build which classes of molecule.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-L21.mp4

4

A young tree can double its mass in one summer.

5

Every atom it adds came from outside the tree: carbon dioxide from the air, water, and small amounts of other substances dissolved in the soil water.

6

The tree cannot make atoms, and neither can any other organism. Sunlight is energy, not matter; it cannot become carbon.

7

So every new molecule an organism builds is made from atoms it took in from its surroundings, as food, water and air.

Atoms taken in as food, water and air are built into the four classes of biological molecule
Atoms taken in as food, water and air are built into the four classes of biological molecule
8

That is as true of you as of the tree. The atoms in the muscle you built this year arrived as food, water and air.

9

What you are expected to know You can now explain that an organism builds every new molecule from atoms it takes in as food, water and air, because it cannot make atoms.

10
Check q1

Over one summer a young tree roughly doubles in mass.

Where did the atoms in all that new material come from?

  1. A. ✓ The atoms were taken in from the tree’s surroundings: air, water and soil.
  2. B. The tree turned sunlight into new atoms.
    Sunlight is energy, and energy cannot become an atom.
  3. C. The atoms were recycled from molecules the tree already had, so nothing entered.
    Rearranging atoms the tree already had cannot add mass.
  4. D. The tree made them from the sugar it already had.
    Sugar is itself made of atoms that were taken in, and rearranging them adds no mass.

Why: An organism cannot make atoms.
Every atom the tree added came in from its surroundings: carbon dioxide from the air, water, and substances dissolved in the soil water.

11Carbon, hydrogen and oxygen: the common core

12

Glucose is C₆H₁₂O₆: six carbon atoms, twelve hydrogen atoms and six oxygen atoms, and nothing else.

13

A fatty acid’s tail is carbon and hydrogen; the rest of a fat adds oxygen.

14

Carbon, hydrogen and oxygen: each is one kind of atom, an .

15

These three are the most common elements in all four classes of biological molecule: carbohydrates, lipids, proteins and nucleic acids.

Carbohydrates, lipids, proteins and nucleic acids are all built mainly from carbon, hydrogen and oxygen
Carbohydrates, lipids, proteins and nucleic acids are all built mainly from carbon, hydrogen and oxygen
16

Why carbon? A carbon atom can form four covalent bonds, so carbons link into long chains and rings. Carbohydrates, lipids, proteins and nucleic acids are all built around chains of carbon. You will not be tested on this reason.

A carbon atom forms four bonds, so carbons link into chains
A carbon atom forms four bonds, so carbons link into chains
17

What you are expected to know You can now name carbon, hydrogen and oxygen as the most common elements in carbohydrates, lipids, proteins and nucleic acids.

18
Check q2

Which three elements are the most common in all four classes of biological molecule?

  1. A. carbon, hydrogen, nitrogen
    Nitrogen is not in every class: the carbohydrates in this unit contain only C, H and O, and a fat has no nitrogen.
  2. B. ✓ carbon, hydrogen, oxygen
  3. C. carbon, oxygen, nitrogen
    Hydrogen is in every class and nitrogen is not.
  4. D. hydrogen, oxygen, phosphorus
    Every class is built around carbon, and phosphorus is needed by only two of the classes.

Why: Carbon, hydrogen and oxygen are the most common elements in carbohydrates, lipids, proteins and nucleic acids alike.

19Sulfur, phosphorus and nitrogen: which classes need them

20

Three more elements are needed to build particular classes: sulfur, phosphorus and nitrogen.

21

Sulfur is used to build proteins: it sits in the R groups of some amino acids, two of which can link in a disulfide bridge.

Sulfur sits in the R groups of some amino acids, where two can link in a disulfide bridge
Sulfur sits in the R groups of some amino acids, where two can link in a disulfide bridge
22

Phosphorus is used to build two classes: phospholipids, in the phosphate group of the head, and nucleic acids, in the phosphate group of every nucleotide.

Phosphorus builds the phosphate group of a nucleotide and the head of a phospholipid
Phosphorus builds the phosphate group of a nucleotide and the head of a phospholipid
23

Nitrogen is used to build nucleic acids: every nitrogenous base contains nitrogen.

Nitrogen is in every nitrogenous base of a nucleic acid and in the amine group of every amino acid
Nitrogen is in every nitrogenous base of a nucleic acid and in the amine group of every amino acid
24

Nitrogen is also in every protein: every amino acid carries an amine group, –NH₂.

25

Carbon, hydrogen and oxygen in every class; sulfur for proteins; phosphorus for phospholipids and nucleic acids; nitrogen for nucleic acids and for proteins.

Carbon, hydrogen and oxygen are in every class; the carbohydrates in this unit contain only those three, and sulfur, phosphorus and nitrogen are needed by particular classes
Carbon, hydrogen and oxygen are in every class; the carbohydrates in this unit contain only those three, and sulfur, phosphorus and nitrogen are needed by particular classes
26

What you are expected to know You can now say which classes of molecule need sulfur, phosphorus and nitrogen.

27
Check q3

Which of these requires nitrogen to be built?

  1. A. carbohydrates
    The carbohydrates in this unit contain only carbon, hydrogen and oxygen.
  2. B. ✓ nucleic acids
  3. C. fats
    A fat is glycerol and fatty acids: carbon, hydrogen and oxygen, with no nitrogen.
  4. D. steroids
    A steroid is a lipid built from carbon, hydrogen and oxygen only.

Why: Every nitrogenous base contains nitrogen, so nucleic acids need it in every nucleotide.
Proteins need nitrogen too, in every amine group; the carbohydrates in this unit, and fats, contain only carbon, hydrogen and oxygen.

28
Check q4

Which class of biological molecule is sulfur used to build?

  1. A. carbohydrates
    The carbohydrates in this unit contain only carbon, hydrogen and oxygen.
  2. B. lipids
    Lipids are mostly carbon, hydrogen and oxygen, and phospholipids add phosphorus, not sulfur.
  3. C. ✓ proteins
  4. D. nucleic acids
    A nucleotide’s extra elements are nitrogen, in its base, and phosphorus, in its phosphate group.

Why: Sulfur sits in the R groups of some amino acids, so it is proteins that need sulfur.

29
Check q5

Phosphorus is used to build which two of these?

  1. A. carbohydrates and proteins
    Neither carbohydrates nor proteins need phosphorus.
  2. B. proteins and nucleic acids
    Proteins need nitrogen, and sulfur in some R groups, but no phosphorus.
  3. C. carbohydrates and phospholipids
    The carbohydrates in this unit contain only carbon, hydrogen and oxygen.
  4. D. ✓ phospholipids and nucleic acids

Why: Phosphorus is in the phosphate group of every phospholipid head and in the phosphate group of every nucleotide.

30
Check q6

A student writes: “Nitrogen is only found in nucleic acids.”

Which fact shows this is wrong?

  1. A. ✓ Every amino acid has an amine group, –NH₂.
  2. B. Every fatty acid tail is carbon and hydrogen.
    A fatty-acid tail has no nitrogen, so it cannot show another place nitrogen is found.
  3. C. Every glucose molecule is C₆H₁₂O₆.
    Glucose contains no nitrogen, so it cannot show another place nitrogen is found.
  4. D. Every nucleotide has a phosphate group.
    That fact is about phosphorus, not nitrogen.

Why: Every amino acid carries an amine group, –NH₂, so every protein contains nitrogen, not only nucleic acids.

31Predict what a missing element stops a cell building

32

Yeast cells grown in a solution with everything they need grow and divide. Move them to a solution with everything except nitrogen.

33

Without nitrogen they cannot build new amino acids or new nitrogenous bases, so no new proteins and no new nucleic acids. The cells stop growing.

34

They can still build carbohydrates and fats, which need no nitrogen.

35

Some phospholipid heads carry nitrogen as well, but lipids as a class do not need it: a fat has none. What every phospholipid needs is phosphorus.

36

The reasoning is always the same: find where the missing element is used. No nitrogen means no new proteins and no new nucleic acids. No phosphorus means no new phospholipids and no new nucleic acids. Some amino acids carry sulfur in their R groups, so no sulfur means no new proteins.

37

Here is the same thing as a drawing, a flow model: an arrow runs from each source to every class it helps build. Plants take in nitrogen, phosphorus and sulfur dissolved in soil water, as nitrate, phosphate and sulfate.

A flow model: carbon dioxide and water supply carbon, hydrogen and oxygen to all four classes; nitrate supplies nitrogen to proteins and nucleic acids, phosphate supplies phosphorus to phospholipids and nucleic acids, and sulfate supplies sulfur to proteins
A flow model: carbon dioxide and water supply carbon, hydrogen and oxygen to all four classes; nitrate supplies nitrogen to proteins and nucleic acids, phosphate supplies phosphorus to phospholipids and nucleic acids, and sulfate supplies sulfur to proteins
38

Carbon dioxide and water supply carbon, hydrogen and oxygen to carbohydrates, lipids, proteins and nucleic acids. Nitrate supplies nitrogen to nucleic acids and proteins; phosphate supplies phosphorus to phospholipids and nucleic acids; sulfate supplies sulfur to proteins.

39

On paper: a plant is grown in water containing everything it needs except sulfur. Predict which of the four classes it can no longer build, and justify your answer from where sulfur is used.

40

A model answer: sulfur is used to build proteins, in the R groups of some amino acids. So the plant can no longer build new proteins. Carbohydrates, lipids and nucleic acids do not need sulfur, so it can still build those.

41

What you are expected to know You can now predict which classes of molecule a cell can no longer build when a named element is missing, justify it from where that element is used, and read the same answers off a flow model.

42
Check q7

A plant builds new proteins, and some of their amino acids carry sulfur in their R groups.

Where does the plant get that sulfur?

  1. A. from the carbon dioxide it takes in from the air
    Carbon dioxide is carbon and oxygen only; it carries no sulfur.
  2. B. ✓ from sulfate dissolved in the soil water
  3. C. from the water it takes up, which contains sulfur
    A water molecule is two hydrogens and one oxygen; it contains no sulfur.
  4. D. from sulfur atoms it makes out of carbon and oxygen
    No organism can make atoms; every sulfur atom in a plant was taken in from outside.

Why: A plant takes in sulfur as sulfate dissolved in the soil water, along with nitrate for its nitrogen and phosphate for its phosphorus.
Carbon dioxide and water supply carbon, hydrogen and oxygen, and no organism can make an atom it did not take in.

43
Check q8

Here is the flow model again, with the arrows from nitrate left out.

The same flow model with the arrows from nitrate left blank
The same flow model with the arrows from nitrate left blank

Which arrows should be drawn from nitrate?

  1. A. to nucleic acids only
    Nitrogen is in every amine group as well as every nitrogenous base, so proteins need it too.
  2. B. to proteins only
    Every nitrogenous base contains nitrogen, so nucleic acids need it too.
  3. C. ✓ to nucleic acids and to proteins
  4. D. to all four classes
    The carbohydrates in this unit contain only carbon, hydrogen and oxygen, and a fat has no nitrogen.

Why: Nitrate supplies nitrogen, and nitrogen is needed for every nitrogenous base and every amine group, so the arrows go to nucleic acids and to proteins.

44
Practice writing an answer

Water plants grow in a glass tank in bright light. The water supplies nitrogen, phosphorus, sulfur and everything else they need. Then the air pumped over the tank is passed through a filter that removes all of its carbon dioxide, and the carbon dioxide dissolved in the water is removed too. Within days the plants stop growing.

(a) Identify where the carbon in a plant’s molecules comes from, and explain why it has to come from there. (1 pt)

Frame The carbon in a plant’s molecules comes from …, because a plant …

Model answer A plant, like every organism, cannot make atoms; every atom in a new molecule was taken in from the surroundings.
So the carbon in a plant’s molecules comes from the carbon dioxide it takes in.
Rubric
  • Award 1 point for: the carbon comes from carbon dioxide taken in from the surroundings, because an organism cannot make atoms.
  • Accept: ‘atoms are never created or destroyed, so every carbon atom came in from outside’.
  • Do not award: carbon made from sunlight, or ‘from the soil or water’ with no source of carbon named.

Slip Saying the plant makes carbon from sunlight. Sunlight is energy, not matter; it cannot become an atom.

(b) Determine what happens to the plants’ building of each of the four classes of biological molecule, and state the reasoning your decision rests on. (1 pt)

Model answer Net building of carbohydrates, lipids, proteins and nucleic acids stops.
Every molecule of all four classes is built on a skeleton of carbon atoms.
So with no new carbon entering, the plants cannot add to their stock of any class.
For a while they can still rearrange carbon they already hold, in stored sugars and starch, into other molecules, but no class can grow.
Rubric
  • Award 1 point for the decision AND the reasoning it rests on: net building of all four classes stops, because every class is built around carbon and no new carbon is entering.
  • Accept: the four classes named individually, each with carbon as the reason.
  • Accept: answers that say stored reserves (sugar, starch) can still be rearranged into other molecules for a while, provided they conclude that every class is limited by carbon and none can grow.
  • Do not award: ‘only carbohydrates stop’, or an answer that names a class as unaffected by the loss of carbon.

Slip Stopping at carbohydrates because sugar is the molecule made from carbon dioxide. Carbon is in every class; lipids, proteins and nucleic acids need it just as much.

(c) Explain what light supplies to the plants, and why that is a different thing from what the missing carbon dioxide supplied. (1 pt)

Model answer Light supplies energy, and carbon dioxide supplied matter: carbon atoms.
Energy cannot become an atom.
So however much energy the plants take in from the light, they have no carbon atoms to build new molecules with, and growth stops.
Rubric
  • Award 1 point for: light supplies energy while carbon dioxide supplied carbon atoms (matter), and energy cannot become an atom, so growth, which needs those atoms, stops.
  • Accept: ‘energy cannot become carbon’ with the link to building new molecules.
  • Do not award: ‘light is the plant’s food’, or ‘the plants use up their energy’.

Slip Treating light as the plant’s food. Light is the energy supply; the carbon dioxide was the supply of carbon atoms, and atoms are what new molecules are built from.

45

When an element is missing, a cell can no longer build the molecules that use it. No nitrogen: no new proteins and no new nucleic acids. No phosphorus: no new phospholipids and no new nucleic acids. No sulfur: no new proteins. No carbon: no new carbohydrates, lipids, proteins or nucleic acids.

46

Every carbohydrate, lipid, protein and nucleic acid you have seen is assembled from a short list of elements that all came in as food, water and air.

Glossary

element
A substance made of only one kind of atom, such as carbon or oxygen.

APBIO-U01-P12 Practice questions: Topic 1.2

Topic 1.2 · Elements of Life · 9 MCQ · 2 FRQ · for APBIO-U01-T12

Answer every question. For each multiple-choice question choose one answer 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. Use a hint if you are stuck, then open the full-credit answer and score your own work against it.

Video: Watch first: elements of life, summed up

Every atom in you came in as food, water and air; carbon, hydrogen and oxygen in every class; sulfur, phosphorus and nitrogen for particular classes; and what a missing element stops a cell building.

File: /Users/jamesmoore/Documents/AP Biology/course_preview/media/APBIO-U01-T12-summary.mp4

Q1 P12-q01

A fungus grows on a fallen log in the dark beneath a thick layer of dead leaves. Over a year the fungus gains 400 g of new material, and the log loses more than 400 g of its dry mass.

Where did the atoms in the fungus’s new material come from?

  1. A. ✓ From the molecules of the log, which the fungus took in as its food
  2. B. From the energy in the small amount of light reaching the log
    Light is energy; it cannot become a carbon atom, and this fungus grows in the dark.
  3. C. From atoms the fungus made for itself as it grew
    An organism cannot make atoms; every atom it builds into a new molecule came in from its surroundings.
  4. D. From the air alone, since a fungus takes in carbon dioxide to build its molecules
    A fungus does not build its molecules from carbon dioxide as a plant does; the log lost mass as the fungus gained it, so the log’s molecules were its food.

Why: An organism cannot make atoms, so every atom in the fungus’s new material came in from outside it.
The log lost the mass the fungus gained, and more: the fungus took the log’s molecules in as food and built its own molecules from those atoms.

Q2 P12-q02

A caterpillar eats 2.0 g of dry leaf material in a week and gains 0.5 g of new body mass. A student says the other 1.5 g of atoms were destroyed as the caterpillar used them up.

What happened to the atoms in the other 1.5 g?

  1. A. They were destroyed, as the student says; used-up atoms disappear
    Atoms are never destroyed; the missing mass left the caterpillar as molecules.
  2. B. ✓ They left the caterpillar in its droppings and in the carbon dioxide it gave off
  3. C. They were turned into the energy the caterpillar used to move
    The caterpillar releases energy by rearranging atoms into new molecules; the atoms themselves stay atoms and leave in those molecules.
  4. D. They are still in the caterpillar, packed more tightly into the 0.5 g
    Mass is the atoms themselves; 2.0 g of atoms cannot be held in 0.5 g of body.

Why: Atoms are rearranged, never created or destroyed.
The caterpillar built 0.5 g of the leaf’s atoms into its own molecules; the rest of the atoms left it again, in its droppings and in the carbon dioxide and water it gave off.

Q3 P12-q03

A student burns dried samples of four foods, each rich in one class of biological molecule: pasta (carbohydrate), olive oil (lipid), egg white (protein) and a yeast extract rich in nucleic acids. She lists the elements in each.

Which elements should appear on every one of her four lists?

  1. A. Carbon and hydrogen only
    Oxygen is in every class too: glucose is C₆H₁₂O₆, a fat has oxygen in its glycerol and carboxyl groups, and every amino acid and nucleotide contains oxygen.
  2. B. Carbon, hydrogen and nitrogen
    Nitrogen is in proteins and nucleic acids, but a carbohydrate and a fat have none.
  3. C. ✓ Carbon, hydrogen and oxygen
  4. D. Carbon, hydrogen, oxygen and phosphorus
    Phosphorus is in nucleic acids and phospholipids only; pasta, olive oil and egg white have almost none.

Why: Carbon, hydrogen and oxygen are the most common elements in all four classes: carbohydrates, lipids, proteins and nucleic acids.
Nitrogen, phosphorus and sulfur are each needed by only some classes.

Q4 P12-q04

A soil bacterium takes in sulfate, a source of sulfur, and builds the sulfur into its own molecules.

Where in the bacterium’s molecules does the sulfur end up?

  1. A. In the phosphate groups of its nucleotides
    A phosphate group is a phosphorus atom bonded to four oxygens; it contains no sulfur.
  2. B. ✓ In the R groups of some of the amino acids in its proteins
  3. C. In the –OH groups of the sugar units in its carbohydrates
    Carbohydrates are built from carbon, hydrogen and oxygen only.
  4. D. In the hydrocarbon tails of its fatty acids
    A fatty-acid tail is carbon and hydrogen only, so it has no sulfur.

Why: Sulfur is used to build proteins: it sits in the R groups of two amino acids, and two cysteine R groups can link in a disulfide bridge.
Carbohydrates, lipids and nucleic acids need no sulfur.

Q5 P12-q05

A growing yeast cell is fed phosphate containing a radioactive form of phosphorus, and the cell builds that phosphorus into new molecules. Afterward each class of molecule is tested for radioactivity.

Which molecules will be radioactive?

  1. A. Its proteins only
    Proteins have no phosphate group.
  2. B. Its proteins and its nucleic acids
    Beyond carbon, hydrogen and oxygen a protein needs nitrogen and sulfur; it has no phosphate group.
  3. C. Its glucose stores and its fats
    Carbohydrates and fats are built from carbon, hydrogen and oxygen only.
  4. D. ✓ Its phospholipids and its nucleic acids

Why: Phosphorus is used to build two classes: phospholipids, in the phosphate group of the head, and nucleic acids, in the phosphate group of every nucleotide.
New molecules of both classes will carry the radioactive phosphorus.

Q6 P12-q06

A cell has plenty of carbon, hydrogen, oxygen and sulfur. Its supply of nitrogen is used up. The cell tries to build a new amino acid.

Which part of the amino acid needs the missing element?

  1. A. The central carbon
    Carbon is plentiful; the central carbon needs no nitrogen.
  2. B. The carboxyl group, –COOH
    The carboxyl group is a carbon bonded to two oxygens, one carrying a hydrogen; it contains no nitrogen.
  3. C. ✓ The amine group, –NH₂
  4. D. The hydrogen atom on the central carbon
    Hydrogen is plentiful; the hydrogen atom needs no nitrogen.

Why: Every amino acid carries an amine group, –NH₂, a nitrogen bonded to two hydrogens.
With no nitrogen the cell cannot make that group, so it cannot make new amino acids or the proteins built from them.

Q7 P12-q07

Sheep’s wool is made of keratin, a protein whose chains are held in shape by many disulfide bridges. Sheep grazing a pasture whose soil contains very little sulfur grow wool slowly, and the wool is weak.

Why does a shortage of sulfur slow the growth of wool?

  1. A. ✓ Sulfur is used to build proteins, in the R groups of some amino acids, so the sheep can build less new keratin
  2. B. Sulfur is used to build the phosphate groups that hold the wool’s protein chains together in bridges
    A phosphate group is phosphorus and oxygen; the wool’s chains are held by disulfide bridges, which are sulfur to sulfur.
  3. C. Sulfur is used to build the sugar units that the wool’s chains are made of, so fewer chains form
    Keratin is a protein, built from amino acids, not from sugar units.
  4. D. Sulfur supplies the energy that the sheep’s cells use to build wool, so with less sulfur they build less
    Sulfur is matter that the sheep builds into R groups; the energy comes from the reactions of its food.

Why: Sulfur sits in the R group of cysteine, and two cysteine R groups can link in a disulfide bridge.
With little sulfur the sheep can build less cysteine.
So it makes less keratin, with fewer of the bridges that strengthen the wool.

Q8 P12-q08

A microbe is moved into water that supplies every element it needs except nitrogen. It goes on taking in sugar.

Which two classes of molecule does the microbe stop building?

  1. A. Proteins and carbohydrates
    A sugar is carbon, hydrogen and oxygen only, so the microbe can still build carbohydrates.
  2. B. Proteins and lipids
    A fat has no nitrogen, so lipids as a class do not stop.
  3. C. ✓ Proteins and nucleic acids
  4. D. Nucleic acids and carbohydrates
    Every amino acid has an amine group, so proteins need nitrogen, while a sugar is carbon, hydrogen and oxygen only.

Why: Nitrogen is in every nitrogenous base of a nucleic acid and in the amine group of every amino acid.
With no nitrogen the microbe can build neither new nucleic acids nor new proteins.
Carbohydrates and fats need no nitrogen, so it can still build those.

Q9 P12-q09

A growing cell is to be fed one element in a radioactive form so that every class of biological molecule the cell builds becomes radioactive.

Which element should be chosen?

  1. A. Nitrogen
    Nitrogen reaches proteins and nucleic acids, but carbohydrates and fats have none.
  2. B. Phosphorus
    Phosphorus reaches phospholipids and nucleic acids only.
  3. C. Sulfur
    Sulfur reaches proteins only.
  4. D. ✓ Carbon

Why: Carbon, hydrogen and oxygen are the most common elements in all four classes.
Radioactive carbon would be built into carbohydrates, lipids, proteins and nucleic acids alike; the other three elements each reach only some classes.

FRQ 1 P12-frq1 · Conceptual Analysis scaffolded

Lettuce plants are grown with their roots in tanks of water instead of soil. Tank 1 supplies every element the plants need. Tank 2 is identical except that it supplies no nitrogen. Both tanks receive the same light and the same carbon dioxide. Within two weeks the plants in Tank 2 have stopped growing and their new leaves are pale, while the plants in Tank 1 are still adding leaves. After nitrate, a source of nitrogen, enters Tank 2, its plants begin growing again.

(a) Identify the three elements that make up most of the atoms in all four classes of biological molecule. (1 pt)

Frame The three most common elements in carbohydrates, lipids, proteins and nucleic acids are …, … and …

Hint Think of what a sugar and a fatty-acid tail are built from.

Model answer The three most common elements in carbohydrates, lipids, proteins and nucleic acids are carbon, hydrogen and oxygen.
Rubric
  • Award 1 point for: carbon, hydrogen and oxygen.
  • Do not award: a list that adds nitrogen or phosphorus to the three, or a list of two.

Slip Adding nitrogen because proteins and nucleic acids need it. Nitrogen is missing from carbohydrates and fats, so it is not one of the three that every class shares.

(b) Describe where the lettuce gets the atoms it builds into new leaves, and state why it must get them there. (1 pt)

Frame The lettuce takes its atoms in from …, as …, because a plant …

Hint Where were the atoms in a new leaf a month ago?

Model answer The lettuce takes its atoms in from its surroundings, as carbon dioxide from the air and as water and dissolved substances from the tank, because a plant, like every organism, cannot make atoms.
Rubric
  • Award 1 point for: the atoms come in from the surroundings (air and the tank water), because an organism cannot make atoms.
  • Accept: ‘atoms are never created, so every atom in a new leaf was taken in’.
  • Do not award: atoms made from light, or ‘from the tank’ with no reason given.

Slip Saying the plant makes its new material from sunlight. Light is energy, not matter; it cannot become a carbon or a nitrogen atom.

(c) Identify the two classes of biological molecule that need nitrogen, and state where the nitrogen sits in the monomer of each. (1 pt)

Frame Nitrogen is needed to build …, where it sits in the … of every …, and …, where it sits in the … of every …

Hint Picture an amino acid and a nucleotide: which group in each holds the nitrogen?

Model answer Nitrogen is needed to build proteins, where it sits in the amine group (–NH₂) of every amino acid, and nucleic acids, where it sits in the nitrogenous base of every nucleotide.
Rubric
  • Award 1 point for: proteins (nitrogen in the amine group of every amino acid) and nucleic acids (nitrogen in every nitrogenous base).
  • Accept: ‘–NH₂’ for the amine group; ‘the bases A, T, G, C and U’ for the nitrogenous bases.
  • Do not award: nucleic acids alone, or lipids or carbohydrates named as needing nitrogen.

Slip Naming nucleic acids only. Every amino acid carries an amine group, so every protein contains nitrogen too.

(d) Determine which classes of biological molecule the Tank 2 plants can still build while nitrogen is missing, and state what your decision rests on. (1 pt)

Frame The Tank 2 plants can still build … and …, because …

Hint What are the molecules of each class built from?

Model answer The Tank 2 plants can still build carbohydrates and fats.
Those molecules are built from carbon, hydrogen and oxygen only.
Carbon dioxide and water still supply all three, so the plants can still build them.
Rubric
  • Award 1 point for the decision AND the reasoning it rests on: carbohydrates and lipids (fats), because they are built from carbon, hydrogen and oxygen only and need no nitrogen.
  • Accept: ‘sugars, starch and cellulose, and fats’ with the reason.
  • Do not award: the classes named with no reasoning; proteins or nucleic acids named as still buildable; or ‘nothing’.

Slip Deciding that all building stops, or naming the two classes with no reason. Carbon dioxide and water still supply carbon, hydrogen and oxygen, so the two classes made only from those keep being built.

(e) Explain why the Tank 2 plants stop growing even though they can still build some classes of molecule, and why adding nitrate restarts growth. (1 pt)

Frame A new leaf needs new … and new …, which the plants cannot build without nitrogen, so …; nitrate supplies …, so …

Hint What must a plant build before it can add a single new cell to a leaf?

Model answer A new leaf is made of new cells, and every new cell needs new proteins and new nucleic acids, which the plants cannot build while nitrogen is missing.
Sugar and fat alone cannot make a cell, so growth stops.
Nitrate supplies nitrogen, so the plants can again build amine groups and nitrogenous bases, and new proteins and nucleic acids, and new cells, are built.
Rubric
  • Award 1 point for: new cells need proteins and nucleic acids, which need nitrogen, so growth stops; nitrate restores the nitrogen, so those classes, and growth, resume.
  • Accept: ‘no new proteins or DNA means no new cells’ with the nitrate link.
  • Do not award: ‘the plants have used up their energy’, or nitrate described as food that is burned.

Slip Treating nitrate as the plant’s food or energy supply. Nitrate supplies an element, nitrogen, that two classes of molecule are built from; the energy comes from light.

FRQ 2 P12-frq2 · Conceptual Analysis

Bread mold is a fungus. Spores land on a slice of bread, which is mostly starch with some protein, and within days a gray mat of mold covers it. A student grows the same mold on two plates. Plate 1 holds a slice of bread. Plate 2 holds a block of pure cellulose, a polymer of glucose, moistened with water that contains no other substances. This mold can break cellulose down into free glucose and take the glucose in. Both plates sit in the same warm, dark cupboard. The mold spreads across Plate 1 but barely grows on Plate 2.

(a) Describe where the mold on Plate 1 gets the atoms it builds into new mold, and explain why those atoms had to come from there. (1 pt)

Frame The mold gets its atoms from …, because …

Model answer The mold gets its atoms from the bread, whose molecules it takes in as food, and from the water.
They had to come from there because an organism cannot make atoms: every atom in a new molecule was taken in from the surroundings.
Rubric
  • Award 1 point for: the atoms come from the bread (and water) taken in as food, because an organism cannot make atoms.
  • Accept: ‘every atom in the mold was in the bread or the water first’.
  • Do not award: atoms from light or from the air alone, or ‘from the bread’ with no reason.

Slip Saying the mold makes its own material as it grows. Growth is new molecules, and every atom in them was taken in.

(b) New mold is built from all four classes of biological molecule. Identify the elements, beyond carbon, hydrogen and oxygen, that its proteins and its nucleic acids need, and name the part of each monomer that holds each element. (1 pt)

Model answer Proteins need nitrogen, in the amine group of every amino acid, and sulfur, in the R groups of some amino acids.
Nucleic acids need nitrogen, in every nitrogenous base, and phosphorus, in the phosphate group of every nucleotide.
Rubric
  • Award 1 point for: any two correct element–part pairs from: nitrogen in the amine group of every amino acid (proteins); sulfur in the R groups of some amino acids (proteins); nitrogen in the nitrogenous base of every nucleotide (nucleic acids); phosphorus in the phosphate group of every nucleotide (nucleic acids).
  • Accept: all four pairs; two correct pairs earn the point even if the others are not given.
  • Do not award: an element placed in the wrong class or part (phosphorus in proteins, sulfur in nucleic acids), or elements named with no part of the monomer.

Slip Giving nitrogen to nucleic acids only. Every amino acid has an amine group, so proteins need nitrogen too.

(c) Predict which classes of molecule the mold on Plate 2 can build from cellulose and water, and which classes it stops building. (1 pt)

Model answer From cellulose and water the mold receives carbon, hydrogen and oxygen only.
It can build carbohydrates and fats, which need nothing else, but it cannot build new proteins or new nucleic acids, which need nitrogen, and sulfur or phosphorus as well.
Rubric
  • Award 1 point for: carbohydrates and lipids can be built; proteins and nucleic acids cannot, for lack of nitrogen (and sulfur, phosphorus).
  • Accept: ‘only the classes made of carbon, hydrogen and oxygen’ for the first half, provided proteins and nucleic acids are named as the ones that cannot be built.
  • Do not award: ‘nothing can be built’, or proteins named as buildable.

Slip Predicting that the mold can build nothing at all. Cellulose supplies carbon, hydrogen and oxygen, which is enough for carbohydrates and fats.

(d) Explain why the mold barely grows on Plate 2 even though it takes in glucose from the cellulose. (1 pt)

Model answer A growing mold makes new cells.
Every new cell needs new proteins and new nucleic acids as well as carbohydrates and lipids.
The glucose from the cellulose supplies carbon, hydrogen and oxygen.
Plate 2 supplies no nitrogen, phosphorus or sulfur, so the mold cannot build proteins or nucleic acids.
With no new proteins or nucleic acids, the mold cannot make new cells, so it barely grows.
Rubric
  • Award 1 point for: new cells need proteins and nucleic acids, which need elements Plate 2 lacks, so the mold cannot make new cells even with glucose available.
  • Accept: ‘a cell needs all four classes, and two of them cannot be built here’.
  • Do not award: ‘cellulose is too hard to digest’ (the mold breaks cellulose into glucose and takes it in, as the description states), or ‘the mold has no energy’.

Slip Answering that the mold starves for energy. Glucose is available; what is missing is the nitrogen, phosphorus and sulfur that two of the four classes are built from.

APBIO-U01-T12 End-of-topic test: Elements of Life

Topic 1.2 · Elements of Life · 18 MCQ · 2 FRQ

Answer every question. For each multiple-choice question, pick one answer and press Check; the feedback gives the reasoning. For each free-response question, 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. Write the steps in the box, then open the scoring guide and mark your own work against it.

Q1 T12-q01

Over one summer a young oak roughly doubles in mass, adding new wood, leaves and roots.

Where did the carbon atoms in the new wood come from?

  1. A. ✓ Carbon dioxide the tree took in from the air.
  2. B. The tree made them using the energy in sunlight.
    Sunlight supplies energy, not atoms; no living thing can make an atom.
  3. C. Atoms the tree already had, rearranged; no new atoms entered.
    Rearranging atoms it already had could not add mass; doubling in mass means new atoms came in.
  4. D. The water the tree drew up through its roots.
    Water brings hydrogen and oxygen atoms into the tree, but water contains no carbon.

Why: A living thing cannot make atoms, so every atom in new material is taken in from outside.
Carbon enters a plant as carbon dioxide from the air, and the tree builds that carbon into the sugar chains of its wood.

Q2 T12-q02

Over a year of training, an athlete gains 4 kg of muscle. Apart from its water, muscle is built largely of protein.

Where did the nitrogen atoms in that new protein come from?

  1. A. Nitrogen gas in the air the athlete breathed.
    Nitrogen gas makes up most of the air, but an animal’s cells cannot use it.
  2. B. Carbon atoms that muscle cells turned into nitrogen.
    No cell can turn one kind of atom into another.
  3. C. ✓ The protein in the food the athlete ate.
  4. D. The water the athlete drank.
    Water is made of hydrogen and oxygen only; it carries no nitrogen.

Why: An animal builds new protein from amino acids it takes in as food, and every amino acid carries nitrogen in its amine group.
The body cannot make atoms or change one element into another, so the nitrogen had to arrive ready-made in the food.

Q3 T12-q03

Here are the formulas of one molecule from each class of biological molecule. Glucose (a sugar, a carbohydrate): C₆H₁₂O₆. A fatty acid (part of a fat, a lipid): C₁₈H₃₆O₂. One amino acid (a monomer of proteins): C₃H₇NO₂S. One nucleotide (a monomer of nucleic acids): C₁₀H₁₄N₅O₇P.

Which elements appear in every one of the four molecules?

  1. A. Carbon and hydrogen only
    Carbon and hydrogen are in all four, but so is oxygen: every formula has an O in it.
  2. B. ✓ Carbon, hydrogen and oxygen
  3. C. Carbon, nitrogen and phosphorus
    Only the nucleotide contains phosphorus, and only two of the four molecules contain nitrogen.
  4. D. Carbon, hydrogen, oxygen and nitrogen
    Nitrogen is in the amino acid and the nucleotide, but the sugar and the fatty acid have none.

Why: Carbon, hydrogen and oxygen are the most common elements in all four classes of biological molecule, and each formula shows all three.
Nitrogen, sulfur and phosphorus turn up only in particular classes.

Q4 T12-q04

A sample of yeast is dried until all its water is gone, and the kinds of atoms left behind are counted. Most of them are carbon, hydrogen and oxygen; nitrogen, phosphorus and sulfur make up a much smaller share.

What explains this?

  1. A. Nitrogen, phosphorus and sulfur were lost with the water when the sample was dried.
    Drying removes water, which is hydrogen and oxygen only; the nitrogen, phosphorus and sulfur atoms are built into the cell’s molecules and stay behind to be counted.
  2. B. Most of the dry mass is sugar chains, and only sugar chains use those three elements.
    Sugar chains are not the only molecules built from carbon, hydrogen and oxygen; proteins, lipids and nucleic acids are built mainly from them too.
  3. C. Each of nitrogen, phosphorus and sulfur is used in only one class of molecule.
    Nitrogen is used in proteins and nucleic acids, and phosphorus in nucleic acids and phospholipids, so neither is in one class only.
  4. D. ✓ All four classes of biological molecule are built mainly from those three elements.

Why: Carbohydrates, lipids, proteins and nucleic acids are all built mainly from carbon, hydrogen and oxygen, so those three elements dominate the dry mass of any cell.
Nitrogen, phosphorus and sulfur are used in particular classes only.

Q5 T12-q05

Sulfur is one of the six elements that make up almost all of a living cell.

Which class of biological molecule is built using sulfur?

  1. A. Nucleic acids
    A nucleotide is a sugar, a phosphate group and a nitrogenous base, and none of those parts contains sulfur.
  2. B. ✓ Proteins
  3. C. Carbohydrates
    Sugar chains are carbon, hydrogen and oxygen only.
  4. D. Fats
    A fat is fatty acids joined to glycerol, all of them carbon, hydrogen and oxygen.

Why: Some R groups contain sulfur, and two of them can form the disulfide bridge that helps hold a protein's shape.
Proteins are the class a cell needs sulfur to build.

Q6 T12-q06

A phosphate group is a phosphorus atom bonded to four oxygens.

Which two kinds of molecule does a cell build using phosphate groups?

  1. A. ✓ Phospholipids and nucleic acids
  2. B. Proteins and nucleic acids
    The amino acids of proteins contain nitrogen and, in some, sulfur, with no phosphate group.
  3. C. Phospholipids and proteins
    The amino acids of proteins have no phosphate group.
  4. D. Carbohydrates and fats
    Sugar chains and fats are carbon, hydrogen and oxygen only.

Why: The phosphate group sits in the head of every phospholipid and in every nucleotide of a nucleic acid.
Those are the two kinds of molecule a cell needs phosphorus to build.

Q7 T12-q07

Every amino acid, whatever its R group, contains a nitrogen atom in the same place.

Which group carries that nitrogen?

  1. A. The carboxyl group (–COOH)
    The carboxyl group is a carbon bonded to two oxygens; it has no nitrogen.
  2. B. The R group
    Some R groups contain nitrogen, but many do not, so the R group is not where every amino acid carries nitrogen.
  3. C. ✓ The amine group (–NH₂)
  4. D. The central carbon
    The central carbon is a carbon atom; the nitrogen is in one of the groups bonded to it.

Why: The amine group, –NH₂, is a nitrogen bonded to two hydrogens, and every amino acid has one.
This is why a cell needs nitrogen to build proteins as well as nucleic acids.

Q8 T12-q08

The figure shows the three parts of one nucleotide. A cell has plenty of carbon, hydrogen, oxygen and phosphorus. Its supply of nitrogen is used up.

The three parts of one nucleotide.
The three parts of one nucleotide.

Which part of a new nucleotide is held up by the shortage?

  1. A. The phosphate group
    A phosphate group is phosphorus and oxygen, and both are available.
  2. B. The sugar
    The five-carbon sugar is carbon, hydrogen and oxygen, all available.
  3. C. The sugar and the phosphate group
    The sugar and the phosphate group are built from carbon, hydrogen, oxygen and phosphorus, all available, so the cell can still build both.
  4. D. ✓ The base

Why: Every base in a nucleotide is a nitrogenous base: nitrogen is part of its structure.
With no nitrogen the cell cannot make bases, so it cannot make new nucleotides.
The sugar and the phosphate group need only carbon, hydrogen, oxygen and phosphorus.

Q9 T12-q09

A fat is three fatty acids joined to one glycerol.

Atoms of which elements does a cell need to build a fat?

  1. A. ✓ Carbon, hydrogen and oxygen only
  2. B. Carbon, hydrogen, oxygen and phosphorus
    Phosphorus is in the head of a phospholipid, but a fat has no phosphate group.
  3. C. Carbon, hydrogen, oxygen and nitrogen
    Nitrogen is used to build proteins and nucleic acids; fatty acids and glycerol contain none.
  4. D. Carbon, hydrogen, oxygen, nitrogen and sulfur
    Nitrogen and sulfur are used to build proteins, not fats.

Why: A fatty acid is a hydrocarbon tail with a carboxyl group at one end, and glycerol is a small three-carbon molecule with –OH groups; both are made of carbon, hydrogen and oxygen only, so a fat needs nothing else.

Q10 T12-q10

In a famous experiment, a willow shoot with a mass of about 2 kilograms was planted in a pot holding 90 kilograms of dried soil. For five years it received only rainwater. The tree then had a mass of about 76 kilograms, while the soil, dried again, had lost only about 60 grams.

What do these results show about where the tree's new atoms came from?

  1. A. The tree made most of its new atoms itself, using the energy in sunlight
    Sunlight supplies energy, not atoms; no living thing can make an atom.
  2. B. ✓ Most of the tree's new atoms came in from the water and the air
  3. C. Most of the tree's new atoms came from the soil, which rain kept topping up
    The soil lost only about 60 grams while the tree gained over 70 kilograms, so the soil cannot be where most of the new atoms came from.
  4. D. The tree gained mass without gaining atoms, by packing its atoms more tightly
    Mass is atoms; a tree that has gained 70 kilograms has gained atoms, and packing atoms more closely would not change its mass.

Why: A living thing cannot make atoms, so every atom in new material is taken in from outside.
The soil barely changed, so the tree's new atoms came in almost entirely from the water it took up and the carbon dioxide it took from the air.

Q11 T12-q11

Yeast cells are moved into a new solution. The solution contains no phosphorus. Every other element the yeast need is plentiful.

Which of these can the yeast still build?

  1. A. A new strand of DNA for a new cell
    Every nucleotide has a phosphate group, so with no phosphorus there can be no new DNA.
  2. B. New phospholipids for its membranes
    The head of every phospholipid contains a phosphate group.
  3. C. None of them; every class needs phosphorus
    Of the four classes, only nucleic acids and the phospholipids among the lipids are built with phosphate groups; sugar chains and fats are not.
  4. D. ✓ A chain of glucose units as a food store

Why: Glucose is carbon, hydrogen and oxygen, and joining glucose units into a chain needs no phosphorus.
New DNA and new phospholipids both need phosphate groups, so those the yeast cannot build.

Q12 T12-q12

Two cultures of yeast are grown. One culture's supply of nitrogen is used up. The other culture's supply of phosphorus is used up. Every other element is plentiful in both.

Which class of molecule stops being built in both cultures?

  1. A. Proteins
    Proteins need nitrogen but no phosphorus, so the culture lacking phosphorus can still build them.
  2. B. Fats
    A fat is carbon, hydrogen and oxygen only, so both cultures can build fats.
  3. C. ✓ Nucleic acids
  4. D. Carbohydrates
    Sugar chains are carbon, hydrogen and oxygen only, so both cultures can build them.

Why: A nucleotide needs nitrogen for its base and phosphorus for its phosphate group.
The culture without nitrogen cannot make bases, and the culture without phosphorus cannot make phosphate groups, so neither can build new nucleic acids.

Q13 T12-q13

A farmer adds a fertilizer that supplies nitrogen to a field, and the crop plants grow larger than plants in an untreated field.

Which molecules did the extra nitrogen let the plants build more of?

  1. A. ✓ Proteins and nucleic acids
  2. B. Starch and cellulose
    Starch and cellulose are chains of glucose, which is carbon, hydrogen and oxygen; they need no nitrogen.
  3. C. Fats and oils
    Fats and oils are carbon, hydrogen and oxygen only.
  4. D. Glucose, because fertilizer is plant food
    A plant makes its own glucose from carbon dioxide and water, and glucose contains no nitrogen at all, so fertilizer is not food for it.

Why: Nitrogen is in the amine group of every amino acid and in every nitrogenous base, so it is needed to build proteins and nucleic acids.
More nitrogen lets the plant make more of both, and so more new cells.

Q14 T12-q14

Yeast cells in a phosphorus-free solution stop dividing, although they still take in sugar.

Why does the lack of phosphorus stop cell division?

  1. A. Phosphorus is needed to build the sugar chains the cell uses as food.
    Sugar chains are carbon, hydrogen and oxygen only; the yeast can still build and use them.
  2. B. ✓ A dividing cell must build new DNA and new membrane, and both need phosphorus.
  3. C. Without phosphorus the cell cannot build the proteins it divides with.
    Amino acids contain nitrogen and, in some, sulfur, but no phosphorus, so a shortage of phosphorus does not show up in the protein itself.
  4. D. Phosphorus supplies the nitrogen the cell needs for new bases.
    No cell can turn one element into another; nitrogen must be taken in as nitrogen.

Why: To divide, a cell must copy its DNA and make new plasma membrane for two cells.
Every nucleotide and every phospholipid head contains a phosphate group, so with no phosphorus neither can be built and division stops.

Q15 T12-q15

A student’s summary table is shown below.

A student’s summary table.
A student’s summary table.

Which row needs correcting, and how?

  1. A. Sulfur: add nucleic acids, because bases contain sulfur.
    Nitrogenous bases contain nitrogen, not sulfur; of the four classes, only proteins are built with sulfur, in some of their R groups.
  2. B. Phosphorus: remove phospholipids; only nucleic acids use it.
    The head of every phospholipid contains a phosphate group, so the phosphorus row is right as written.
  3. C. ✓ Nitrogen: add proteins, because every amino acid has an amine group.
  4. D. No row needs correcting; the table is right as written.
    One row is wrong: every amino acid contains nitrogen in its amine group, so proteins need nitrogen too.

Why: Nitrogen is in every nitrogenous base and in the amine group of every amino acid, so a cell uses it to build both nucleic acids and proteins.
The other two rows are correct.

Q16 T12-q16

A cell is short of one element. Its building of new plasma membrane stops, while it goes on building new proteins.

Which element is it short of?

  1. A. Nitrogen
    Nitrogen is in every amino acid, so a shortage would stop protein building as well.
  2. B. Sulfur
    Sulfur is used in proteins, not in the phospholipids of a membrane; a shortage would hit proteins, not the membrane.
  3. C. Carbon
    Carbon is in every class of biological molecule; a shortage would stop everything.
  4. D. ✓ Phosphorus

Why: The plasma membrane is built from phospholipids, whose heads contain a phosphate group, so it needs phosphorus.
Proteins are built from amino acids, which need nitrogen and sometimes sulfur but no phosphorus.

Q17 T12-q17

A sealed glass jar containing water, air and a small water plant is weighed. It is left in sunlight for a month, during which the plant doubles in mass, and then weighed again.

How does the total mass of the jar and everything inside it compare with the first weighing?

  1. A. It increased by the plant's gain, because sunlight added matter.
    Sunlight brings energy into the jar, not atoms; nothing with mass entered.
  2. B. ✓ It stayed the same; the plant's new atoms came from the jar's water and air.
  3. C. It increased, because the plant made new atoms as it grew.
    No living thing can make atoms; the plant grew by rearranging atoms already inside the jar.
  4. D. It decreased, because the plant used up some of the air and water.
    The air and water the plant used did not vanish; their atoms are now part of the plant.

Why: The jar is sealed, so no atoms enter or leave.
The plant built its new molecules from carbon dioxide and water already inside the jar, so the total mass is unchanged; only where the atoms sit has changed.

Q18 T12-q18

A cell has plenty of carbon, hydrogen, oxygen and sulfur, but no nitrogen and no phosphorus.

Which classes of molecule can this cell still build?

  1. A. None; every class needs nitrogen or phosphorus
    Carbohydrates and fats are built from carbon, hydrogen and oxygen only, so both can still be made.
  2. B. Carbohydrates only
    A fat is fatty acids joined to glycerol, all carbon, hydrogen and oxygen, so fats can still be built; it is the phospholipids among the lipids that need phosphorus.
  3. C. ✓ Carbohydrates and fats
  4. D. Proteins and carbohydrates
    Every amino acid carries nitrogen in its amine group, so with no nitrogen no new protein can be built.

Why: Carbohydrates and fats are made of carbon, hydrogen and oxygen only, so a cell with those three elements can still build them.
Proteins need nitrogen (the amine group), nucleic acids need nitrogen and phosphorus (base and phosphate group), and phospholipids need phosphorus (the phosphate head).

FRQ 1 T12-frq1 · Conceptual Analysis

Yeast cells grown in a solution that supplies every element they need take in sugar and other nutrients, grow, and divide about once an hour. Before it can divide, a cell must build a full second set of the molecules a cell is made of. An identical culture is set up in a solution that is the same in every way except that it contains no phosphorus. The cells in this second culture take in sugar but soon stop dividing.

(a) Identify the elements that make up most of the atoms in every one of the four classes of biological molecule that the yeast build. (1 pt)

Model answer The most common elements in all four classes are carbon, hydrogen and oxygen: carbohydrates, lipids, proteins and nucleic acids are all built mostly from these three.
Rubric
  • Award 1 point for: naming carbon, hydrogen and oxygen (all three) as the most common elements in carbohydrates, lipids, proteins and nucleic acids.
  • Accept: the symbols C, H and O. A response that also lists nitrogen, phosphorus or sulfur as elements used in particular classes still earns the point, provided carbon, hydrogen and oxygen are named as the most common.
  • Do not award the point for naming only one or two of the three, or for listing nitrogen, phosphorus or sulfur as the most common elements.

Slip Adding nitrogen or phosphorus to the common three. Those are needed by particular classes; carbon, hydrogen and oxygen are the three found in every class.

(b) Explain why the yeast must take these elements in from the solution rather than making them. (1 pt)

Model answer No living thing can make an atom or turn one element into another, so the yeast build every new molecule from atoms they take in from the solution.
Rubric
  • Award 1 point for: a cell builds every new molecule from atoms it takes in from its surroundings because no living thing can make an atom or change one element into another.
  • Accept: atoms are neither created nor destroyed, so every atom in a new molecule came in from outside as food, water or air.

Slip Saying the yeast make the elements from sugar or from energy. Sugar is itself made of atoms that came in from outside, and energy cannot become an atom.

(c) Make a claim about which kinds of molecule the yeast can build only while phosphorus is supplied. Name each kind. (1 pt)

Model answer The yeast can build new nucleic acids (DNA and RNA) and new phospholipids only while phosphorus is supplied.
Rubric
  • Award 1 point for the claim: new nucleic acids (DNA and RNA) and new phospholipids, both kinds named. The point is for the assertion; the reasoning is scored in (d).
  • Accept: DNA or RNA for nucleic acids; membrane lipids or 'the lipids of the membrane' for phospholipids. 'Lipids' alone is not enough, because fats and steroids need no phosphorus.
  • Do not award a response that names proteins or carbohydrates, or that names only one of the two kinds.

Slip Answering ‘lipids’ in general, or adding proteins. Fats and steroids need no phosphorus, and proteins need none either; the phosphate group sits in every nucleotide and in every phospholipid head.

(d) Support your claim by explaining why the phosphorus-free culture stops dividing while the complete culture keeps dividing. (1 pt)

Model answer To divide, a cell must build a second copy of its DNA and enough new plasma membrane for two cells.
Every nucleotide and every phospholipid head contains a phosphate group.
So with no phosphorus the cell can build neither, and it cannot divide.
The culture supplied with phosphorus can build both, so it keeps dividing.
Rubric
  • Award 1 point for the evidence AND the reasoning that links it to the claim: dividing requires new DNA and new plasma membrane, and every nucleotide and every phospholipid head contains a phosphate group (the evidence), so without phosphorus the cell cannot make them and cannot divide, while a cell supplied with phosphorus can (the reasoning).
  • Accept: reasoning from either DNA or the membrane alone, provided it names the phosphate group (or phosphorus in the structure) as the reason that class cannot be built.
  • Do not award: the claim restated with no evidence, or ‘the cells lack energy’.

Slip Saying the cells lack energy. The block is a missing atom: without phosphorus there is no phosphate group to build a nucleotide or a phospholipid head from.

FRQ 2 T12-frq2 · Analyze Model or Visual Representation

The model shows where a living cell gets the atoms it builds its molecules from. The boxes on the left are sources in the cell's surroundings: carbon dioxide and water (which supply carbon, hydrogen and oxygen), nitrogen-containing compounds, sulfur-containing compounds, and phosphate. The boxes on the right are the four classes of biological molecule: carbohydrates, lipids (including phospholipids), proteins and nucleic acids. An arrow means that atoms from that source are built into that class. The arrows from the phosphate box have been left off.

Sources of atoms (left): carbon dioxide and water, nitrogen-containing compounds, sulfur-containing compounds, phosphate. A living cell (center). The four classes of biological molecule it builds (right). The arrows from phosphate are missing.
Sources of atoms (left): carbon dioxide and water, nitrogen-containing compounds, sulfur-containing compounds, phosphate. A living cell (center). The four classes of biological molecule it builds (right). The arrows from phosphate are missing.

(a) Describe where the arrows from the carbon dioxide and water box go, and explain why they go there. (1 pt)

Model answer The arrows from carbon dioxide and water reach all four classes, because carbon, hydrogen and oxygen are the most common elements in every carbohydrate, lipid, protein and nucleic acid, and carbon dioxide and water are where those three elements come from.
Rubric
  • Award 1 point for: the arrows from carbon dioxide and water reach all four classes, because carbon, hydrogen and oxygen are the most common elements in every class of biological molecule.
  • Accept: 'C, H and O go into every class' with all four classes named or 'all four' stated, and the reason given.
  • Do not award the point for arrows to some classes only, or for 'all four' with no reason from the elements every class is built from.

Slip Sending carbon only to carbohydrates. Carbon, hydrogen and oxygen go into lipids, proteins and nucleic acids too, so the arrows reach all four.

(b) State the two classes the arrows from the phosphate box should reach, writing each as ‘phosphate → (class)’. (1 pt)

Model answer phosphate → nucleic acids, and phosphate → lipids (the phospholipids).
Rubric
  • Award 1 point for: phosphate → nucleic acids AND phosphate → lipids (the phospholipids).
  • Accept: 'phospholipids' or 'membranes' for the lipid arrow. Do not award if an arrow is written to proteins or to carbohydrates, or if only one of the two arrows is given.

Slip Naming only the arrow to nucleic acids. The phosphate group also sits in the head of every phospholipid, so the lipid class needs phosphorus too.

(c) Explain why the arrows from nitrogen-containing compounds reach both proteins and nucleic acids. (1 pt)

Model answer Every nitrogenous base in a nucleic acid contains nitrogen, and every amino acid in a protein carries an amine group, –NH₂, so a cell needs nitrogen to build both classes.
Rubric
  • Award 1 point for: nitrogen is part of every nitrogenous base in a nucleic acid and part of the amine group of every amino acid in a protein, so a cell needs nitrogen to build both.
  • Accept: 'bases contain nitrogen' and 'amino acids contain nitrogen' in plain words; the response must give a reason for each class.

Slip Giving a reason for one class only. The point needs nitrogen placed in the base of a nucleotide and in the amine group of an amino acid.

(d) Explain how this model relates to the fact that a growing cell, or a growing tree, gains mass. (1 pt)

Model answer A living thing cannot make atoms.
So every atom in its new molecules came in from the surroundings as food, water or air.
A growing cell or tree takes in matter and builds it into the four classes, so its mass rises.
Sunlight supplies energy, not atoms.
Rubric
  • Award 1 point for: every atom in the new molecules came in from the surroundings (as food, water or air), because a living thing cannot make atoms; gaining mass therefore means taking in matter and building it into the four classes.
  • Accept: 'the tree's new mass is atoms from carbon dioxide, water and the soil, rearranged into its molecules'; sunlight supplies energy, not atoms.

Slip Saying the tree’s new mass comes from sunlight. Light is energy; the atoms come from carbon dioxide, water and the soil.