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604: CASP10 Refinement Puzzle: TR698
Status: Closed

Summary

Name: 604: CASP10 Refinement Puzzle: TR698
Status: Closed
Created: 07/22/2012
Points: 100
Expired: 08/02/2012 - 06:00
Difficulty: Intermediate
Description: This is the fourteenth CASP10 Refinement Target. This model was the best server prediction for target T0698, generated by the PMS server. We've been told that ~65% of this model matches the native, so you'll need to significantly change the starting model. Luckily, they have told us which regions require special attention: residues 17-35 & 90-100. These regions are shown in Note Mode. More info in the puzzle comments.
Categories: CASP10, Overall, Prediction

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Comments

beta_helix's picture
User offline. Last seen 3 hours 24 min ago. Offline
Joined: 05/09/2008
Groups: None
More info here:

Please note that the Cut Tool is available on this puzzle!

This is the page for this CASP10 refinement target:
http://predictioncenter.org/casp10/target.cgi?id=188

The CASP10 organizers gave us this hint:

"Starting model GDT_TS=65. Regions 17-35 and 90-100 need special attention."

GDT_TS=65 essentially means that 65% 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 23-25 & 104 are highly predicted to be part of a helix. However, the Valines at residues 91 & 95 are predicted to be in anything.

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