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614: CASP10 Refinement Puzzle: TR724
Status: Closed

Summary

Name: 614: CASP10 Refinement Puzzle: TR724
Status: Closed
Created: 08/03/2012
Points: 100
Expired: 08/13/2012 - 22:00
Difficulty: Intermediate
Description: The twenty-third CASP10 Refinement Target was the best server prediction for target T0724, generated by the slbio server. We've been told that ~60% of this model matches the native, so you'll need to significantly change the starting model. More info in the puzzle comments.
Categories: CASP10, Overall, Prediction

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Comments

beta_helix's picture
User offline. Last seen 4 days 18 hours ago. Offline
Joined: 05/09/2008
Groups: None
More info here:

This is the page for this CASP10 refinement target:
http://predictioncenter.org/casp10/target.cgi?id=209

The CASP10 organizers gave us this hint:

"Starting model GDT_TS=60."

GDT_TS=60 essentially means that 60% of the model superimposes correctly onto the native structure:
http://en.wikipedia.org/wiki/Global_distance_test

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 Valines at residues 35, 44, 53, 63 & 87 are highly predicted to be part of a sheet. However, the Alanines at residues 11 & 49-50 are predicted to be in 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, Amazon, Microsoft, Adobe, RosettaCommons