Principles & Mechanisms of Protein Interactions

Question 1

What is involved in protein-protein interaction?

Answer 1

• 3-D conformation
• Non-covalent physical interactions - ionic bonds, hydrogen bonds, Van der Waal’s interactions

Question 2

What are the four levels of protein structure?

Answer 2

1) primary
2) secondary
3) tertiary
4) quaternary

Question 3

They cytoplasm is densely packed with ____ which stabilize protein interactions.

Answer 3

macromolecules

Question 4

What is the mechanism of protein-protein interactions influenced by?

Answer 4

• concentrations of components (Km) values
• dynamics of how rapidly the interactions form and break (dissociate and association rates) – Kd

Question 5

List the signaling inputs that can alter the binding of proteins with one another.

Answer 5

1) protein concentration
2) distribution of the protein throughout the cell
3) changes in post-translational modification
4) Assembly of more complicated multifunctional structures

Changes in binding behaviors can transmit information

Question 6

What is an example of a more built of structure which holds substrates in place?

Answer 6

scaffolds

Question 7

What does this represent?

Answer 7

recruitment

Question 8

What is the orange molecule in this picture and what does it do to the active protein?

Answer 8

The molecule is a ligand and it causes a conformational change

Question 9

What are two type of protein-protein interaction surfaces?

Answer 9

a) broad surfaces
b) short, linear peptide sequence with groove

Question 10

What kind of protein interaction surface is this?

Answer 10

broad surface

Question 11

What kind of protein interaction surface is this?

Answer 11

short, linear peptide sequence in groove

SH2 domain-pY

Question 12

Any segment of a polypeptide chain that can fold independently into a compact, stable structure.

Answer 12

protein domain

serves as modular unit