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Protein Structure
1.) For the sequence below, give a consensus motif. Use the table of consensus abbreviations
from Smith and Xue (1998) where appropriate:
2.) Amino acids are joined by peptide bonds, the formation of which is accompanied by the loss of
water. Is the dipeptide alanylglycine the same as the dipeptide glycylalanine? Why or why not?
(Note that the peptides are always written with the amino-terminal residue on the left.)
3.) In the following two diagrams identify:
4.) Consider the stretch of amino acids below that is predicted in the CFSSP software to form an
alpha helix. Predict the effects of the following substitutions on the stability of the helix.
a) Substitution of V3 with D
b) Substitution of V3 with K
c) Substitution of L2 with V
d) Substitution of L2 with R
BIOLOGY 309 Fall 2016
5.) For the sequences below, give a consensus motif. Use the table of consensus abbreviations
from Smith and Xue (1998) where appropriate:
A)
B)