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615: CASP10 Refinement Puzzle: TR754
Status: Closed

Summary

Name: 615: CASP10 Refinement Puzzle: TR754
Status: Closed
Created: 08/06/2012
Points: 100
Expired: 08/14/2012 - 23:59
Difficulty: Beginner
Description: This is the twenty-fourth and final CASP10 Refinement Target. This model was the best server prediction for target T0754, generated by the Zhang Server. We've been told that ~77% of this model matches the native, so you'll need to refine ~23% of the structure. Luckily, this target only has 68 residues. More info in the puzzle comments.
Categories: CASP10, Overall, Prediction

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Comments

beta_helix's picture
User offline. Last seen 1 day 6 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=211

Note that the organizers gave us this hint:

"Starting model's GDT_TS=77."

GDT_TS=77 essentially means that ONLY 77% 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 Valine at residue 58 is highly predicted to be part of a helix. However, the Valine at residue 2 is predicted to be in a sheet.

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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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