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550: Pre-CASP blind Alignment Puzzle 2
Status: Closed

Summary

Name: 550: Pre-CASP blind Alignment Puzzle 2
Status: Closed
Created: 04/27/2012
Points: 100
Expired: 05/07/2012 - 04:00
Difficulty: Intermediate
Description: To prepare for CASP 10 (which begins on May 1st) we want to practice for the Template-Based Modeling category by giving you some blind targets to work on. This template-based target is 102 residues and we are again giving you the top-predicted template from 3 different alignment programs (you'll notice that 2 of them are identical templates, but have different alignments) The secondary structure predictions are posted in the puzzle comments.
Categories: Overall, Prediction

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Comments

beta_helix's picture
User offline. Last seen 3 days 16 hours ago. Offline
Joined: 05/09/2008
Groups: None
Here are the secondary structure predictions:

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 Phenylalanine at residue 25 is mostly predicted to be part of a sheet. However, the Phenylalanine at residue 51 is predicted to be anything.

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Developed by: UW Center for Game Science, UW Institute for Protein Design, Northeastern University, Vanderbilt University Meiler Lab, UC Davis
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