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551: Pre-CASP blind Alignment Puzzle 3

Closed since almost 14 years ago

Advanced Overall Prediction

Summary

Created
April 29, 2012
Expires
Max points
100
Description

Here is another blind Template-Based Modeling target to work on. This target is 153 residues and we are again giving you the top-predicted template from 3 different alignment programs (you'll notice that two of them are identical templates, but slightly different alignments) The secondary structure predictions will be posted in the puzzle comments soon.

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Comments

beta_helix Staff Lv 1

The SAM-T08 server had a power failure last Thursday and hasn't recovered yet.
I will post them as soon as SAM-T08 is back up and running.

beta_helix Staff Lv 1

Here are some other secondary structure predictions (that are sadly not as easy to look at):

H = helix
E = sheet
C = loop (or coil)

The higher the number at the top of each position, the higher the probability of that specific secondary structure for that amino acid.

For example, the Phenylalanine at residue 10 is mostly predicted to be part of a helix (an H with a 8 above it). However, the Phenylalanine at residue 55 is predicted to be in a sheet (an E with a 9 above it).

beta_helix Staff Lv 1

Here is the sequence logo predicted by the SAM server.

H = helix
E = sheet
C = loop (or coil)

The taller the letter at each position, the higher the probability of that specific secondary structure for that amino acid.

For example, the Valine at residue 88 is highly predicted to be part of a helix. However, the Valine at residue 32 is predicted to be anything.