Proteins I

Question 1

List the Non-covalent (NC) Intermolecular Forces:

Answer 1

• Protein folding
• Protein-protein interactions
• DNA structure formation
• Protein-DNA interactions
• Enzyme-substrate interactions
• Drug interactions with protein targets

Question 2

Key Noncovalent Interactions

Answer 2

• Ionic interactions
• Hydrogen Bonding
• Van der Waals forces

Question 3

Force between oppositely charged species

Answer 3

Ionic interactions

Question 4

A type of weak noncovalent force of attraction between a H atom attached to a N, O, or F aton and a N, O, or F aton on another molecule (or part of the same molecule)

Answer 4

Hydrogen Bonding

Question 5

Weak interaction between uncharged but polarizable groups

Answer 5

Van der Waals forces

Question 6

A _________can form between residues of opposite charge in protein

Answer 6

salt bridge

Question 7

The balance between attractive and repulsive forces in van der Waals forces determines the optimal _____________

Answer 7

VdW contact distance—“van der Waals radius”

Question 8

_____ is an indirect effect of the high polarity of water

Answer 8

The hydrophobic effect

Question 9

Water is ________ when __________ or groups cluster together

Answer 9

less ordered (entropy is higher); hydrophobic molecules

Question 10

Know as the “helix breaker”

Answer 10

Proline

Question 11

Answer 11

Question 12

Answer 12

Question 13

Answer 13

Question 14

Answer 14

Question 15

Answer 15

Question 16

Answer 16

Question 17

Answer 17

Question 18

Group 1 AAs: Nonpolar, aliphatic R group

Answer 18

• Glycine, Gly, G
• Alanine, Ala, A
• Valine, Val, V
• Leucine, Leu, L
• Isoleucine, Ile, I
• Methionine, Met, M
• Proline, Pro, P

Question 19

Group 2: Aromatic Side Chain

Answer 19

• Phenylalanine, Phe, F
• Tyrosine, Tyr, Y
• Tryptophan, Trp, W

Question 20

Group 3: Polar, uncharged side chain

Answer 20

• Serine, Ser, S
• Threonine, Thr, T
• Asparagine, Asn, N
• Glutamime, Gln, Q
• Cysteine, Cys, C

Question 21

Group 4: Positively charged Side Chain (Basic)

Answer 21

• Lysine, Lys, K
• Arginine, Arg, R
• Histidine, His, H

Question 22

Group 5: Negatively Charged Side Chain (Acidic)

Answer 22

• Aspartate, Asp, D
• Glutamate, Glu, E

Question 23

Has an imino group

Answer 23

Proline

Question 24

Aromatic Side Chain that absorbs the most light

Answer 24

Trp

Question 25

Answer 25