3. Shown below is a typical hydropathy plot for bacteriorhodopsin as described i

Question

3. Shown below is a typical hydropathy plot for bacteriorhodopsin as described in question 2 a) Draw a horizontal bar over each transmembrane segment. (2pts) Average hydropathy index € . : : 0 20 40 60 80 100 120 140 160 180 200 220 240 Amino acid number b) How long is the average transmembrane segment as determined from the plot? (2 pts) c) How well does the plot agree with your answers to both questions 2b and c? Explain, especially what you learned from the hydropathy plot that wasn't apparent from the info, in question 2. (3 pts) 4. Hydrophobicity (as described in question #3) is typically measured as the free energy change (AG') for the transfer of a given amino acid from a nonpolar (hydrophobic) solution to water. (4 pts) a) Match the 4 amino acids listed below with their most likely hydrophobicity value from the 4 listed. Hydrophobicity values (kcal/mol): -3.71, 3.81, -1.12, 0,46 serine arginine isoleucine glycine b) The hydrophobicity value for aspartic acid changes from -3.64 kcal/mol to -0.43 kcal/mol when the pH is changed from 7 to 1. Explain this observation (you should include the structure of Gy in your answer). (3pts)

Explanation / Answer

The transmembrane segments of the polypeptide chain will have hydrophobic amino acids which have a positive hydrophobicity value. higher the positive value higher the hydrophobicity.

average length of transmembrane segment is 20 amino acids.

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