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611: CASP10 Refinement Puzzle: TR752
Status: Closed

Summary

Name: 611: CASP10 Refinement Puzzle: TR752
Status: Closed
Created: 08/02/2012
Points: 100
Expired: 08/10/2012 - 15:00
Difficulty: Intermediate
Description: This is the twenty-first CASP10 Refinement Target. This model was the best server prediction for target T0752, generated by the BAKER-ROSETTASERVER (using Rosetta@home). We've been told that ~90% of this model matches the native! So (for once) you won't need to change the starting model much. In addition, the organizers have given us "Special attention regions: 41-50, 100-110, 125-128." These are highlighted in Note Mode.
Categories: CASP10, Overall, Prediction

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beta_helix's picture
User offline. Last seen 6 hours 14 min ago. Offline
Joined: 05/09/2008
Groups: None
More info here:

Please look at the Notes for this puzzle (by pressing 3 in the Original Interface, or pressing 1 in the Selection Interface).

We recommend focusing your work on these 3 regions.

************

This is the page for this CASP10 refinement target:
http://predictioncenter.org/casp10/target.cgi?id=203

The CASP10 organizers gave us this hint:

"Starting model GDT_TS=90. Special attention regions: 41-50, 100-110, 125-128."

GDT_TS=90 essentially means that 90% 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 80-81, 94, 114-115, 123 & 134 are highly predicted to be part of a sheet. However, the Valines at residues 45, 52 & 103 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
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