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548: Pre-CASP blind Alignment Puzzle 1
Status: Closed

Summary

Name: 548: Pre-CASP blind Alignment Puzzle 1
Status: Closed
Created: 04/23/2012
Points: 100
Expired: 04/30/2012 - 23:59
Difficulty: Intermediate
Description: To prepare for CASP 10 (which begins next week) we want to practice for the Template-Based Modeling category by giving you some blind targets to work on. This first template-based target is very short (only 36 residues) and we are giving you the top-predicted template from 3 different alignment programs (you'll notice that one of them is very different from the other two!) 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 7 hours 52 min 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 2 is mostly predicted to be part of a sheet. However, the Phenylalanines at residues 24 & 26 are 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
Supported by: DARPA, NSF, NIH, HHMI, Microsoft, Adobe, RosettaCommons