1) It is possible to make some preliminary predictions about protein secondary s

Question

1) It is possible to make some preliminary predictions about protein secondary structure based on the primary sequence and what we know about secondary structure properties. Consider the following amino acid sequence 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 Ile-Ala-His-Thr-Tyr-Gly-Pro-Phe-Glu-Ala-Ala-Met-Cys-Lys-Trp-Glu-Ala-Gln-Pro-Asp-Gly-Met-Glu-Cys-Ala-Phe-His-Arg a) where might be the longest stretch of helix structure? b) Indicate two most likely places where there could be Type turns c) Indicate the most likely place for a Type II turn.

Explanation / Answer

a)Regions which are richer in alanine (A), glutamic acid (E), leucine (L), and methionine (M) and poorer in proline (P), glycine (G), tyrosine (Y), and serine (S) tend to form an helix. proline in the 7th make a break. 9-18 will make the longest alpha helix. the hydrophobic amino acids that are present in between 9-18 will face the interior and the hydrophilic to exterior.

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