Term
|
Definition
Ala, A
Hydrophobic
[image] |
|
|
Term
|
Definition
|
|
Term
|
Definition
|
|
Term
|
Definition
|
|
Term
|
Definition
Pro, P
Aliphatic - hydrophobic
Ring can put kink in polypeptide backbone, frequently found to be in cis
Only imino acid. |
|
|
Term
|
Definition
Phe, F
Aromatic, less hydrophobic |
|
|
Term
|
Definition
Tyr, Y
Aromatic
Amphipathic - contains hydrophilic OH, but also part hydrophobic |
|
|
Term
|
Definition
Trp, W
Aromatic
Amphipathic - hydrophilic NH, but still some hydrophobic |
|
|
Term
|
Definition
Met, M
Aromatic
Sulfur containing
|
|
|
Term
|
Definition
Asp, D
NEGATIVE charged side chain
pKa = 4 |
|
|
Term
|
Definition
Glu, E
NEGATIVELY charged side chain
pKa = 4 |
|
|
Term
|
Definition
Cys, C
NEGATIVELY charged side chain
pKa = 8.5 |
|
|
Term
|
Definition
His, H
POSITIVELY charged side chain
pKa = 6.5 |
|
|
Term
|
Definition
Lys, K
POSITIVELY charged side chain
pKa = 10
|
|
|
Term
|
Definition
Arg, R
POSITIVELY charged side chain
pKa = 12 |
|
|
Term
| pKa's of terminal amino and carboxyl groups |
|
Definition
[image]pKa = 4
Amino: pKa = 8 |
|
|
Term
|
Definition
Ser, S
Polar uncharged side chain -OH group
pKa ≈16 |
|
|
Term
|
Definition
Thr, T
Polar uncharged side chain -OH group
pKa ≈16 |
|
|
Term
|
Definition
Asn, N
Polar uncharged side chain = Amide |
|
|
Term
|
Definition
Gln, G
Polar uncharged side chain - amide |
|
|
Term
| αlpha-helix stabilizing amino acids |
|
Definition
|
|
Term
| Helix breakers (amino acids that favor β-sheets) |
|
Definition
Medium helix breakers:
Val, Thr, Trp, Phe
They are β-branched and bulky
Also: Ile, Tyr |
|
|
Term
|
Definition
Random coil, not periodic
Often hydrophilic residues |
|
|
Term
|
Definition
1. Electrostatic
2. H-bonding
3. Hydrophobic
4. Van der waals |
|
|
Term
| Strong helix breakers (Reverse β-turn) |
|
Definition
|
|
Term
|
Definition
Heptad repeat:
a-d = hydrophobic
e-g = opposite charges |
|
|
Term
|
Definition
Sequence:
Cys-X-Cys-X-His-X-His-X |
|
|
