Amino acid characteristics

Question 1

There are many of ways to characterize the
properties of amino acids.

Answer 1

-Hydrophobicity

-Size

-Charge

-Secondary structure preference

-Alcoholicity

-Aromaticity

Question 2

Some special characteristics like bridge…

Answer 2

forming by
cysteines, rigidity of prolines, titrating at physiological
pH of histidine, flexibility of glycines, etc

Question 3

Hydrophobicity is the most important characteristic of…

Answer 3

amino
acids. It is the hydrophobic effect that drives proteins
towards folding.

Question 4

Water does not like….

Answer 4

hydrophobic surfaces. When a protein folds, exposed
hydrophobic side chains get buried,and release water
of its sad duty to sit against the hydrophobic surfaces of
these side chains

Question 5

Water is very happy in…

Answer 5

bulk water because there it has on
average 3.6 H-bonds and about six degrees of freedom.

Question 6

hydrophobic effect Definition:

Answer 6

whenever we discuss protein structure, folding, and
stability, it is mostly the entropy of water

Question 7

Secondary Structure Preference

Answer 7

• Amino acids form chains, the sequence or primary structure.
• These chains fold in (a)-helices, (B)-strands, (B)-turns, and loops
  (AKA short, helix, strand, turn, loop), the secondary structure.
• Secondary structure elements fold further to make whole
  proteins
• There are relations between the physico-chemical characters
  of the amino acids and their secondary structure preference. i.e. (B)-banched residues (Ile, Thr, Val) like to sit in (B)-strands