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591: Beginner CASP10 Refinement Puzzle: TR671
Status: Closed

Summary

Name: 591: Beginner CASP10 Refinement Puzzle: TR671
Status: Closed
Created: 07/03/2012
Points: 100
Expired: 07/12/2012 - 07:00
Difficulty: Beginner
Description: This is the tenth CASP10 Refinement Target. This model was the best server prediction for target T0671, generated by the MUFOLD-Server. We've been told that only ~55% of this model matches the native, so (unlike previous CASP10 refinement puzzles) you'll need to significantly change the starting model. Luckily, this is a short target with only 88 residues. More info in the puzzle comments.
Categories: CASP10, Overall, Prediction

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Comments

beta_helix's picture
User offline. Last seen 8 hours 31 min ago. Offline
Joined: 05/09/2008
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More info here:

This is the page for this CASP10 refinement target:
http://predictioncenter.org/casp10/target.cgi?id=152

Note that the organizers gave us this hint:

"Starting model GDT_TS=55."

GDT_TS=55 essentially means that ONLY 55% of the model superimposes correctly onto the native structure:
http://en.wikipedia.org/wiki/Global_distance_test

Secondary Structure Predictions below:

beta_helix's picture
User offline. Last seen 8 hours 31 min ago. Offline
Joined: 05/09/2008
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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 40, 52, 73 & 86 are highly predicted to be part of a sheet. However, the Valine at residue 9 is 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
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