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612: Quick CASP10 Refinement Puzzle: TR722
Status: Closed

Summary

Name: 612: Quick CASP10 Refinement Puzzle: TR722
Status: Closed
Created: 08/02/2012
Points: 70
Expired: 08/09/2012 - 17:00
Difficulty: Intermediate
Description: As mentioned in Puzzle 608: this Rosetta model was the best server prediction for target T0722, but only ~58% of this model matches the solved structure. We are giving you this model without symmetry, in case it folds up as a monomer. This quick puzzle is worth 70 global points. More info in the puzzle comments.
Categories: CASP10, Overall, Prediction

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Comments

beta_helix's picture
User offline. Last seen 3 days 15 hours ago. Offline
Joined: 05/09/2008
Groups: None
More info:

This is the page for this CASP10 refinement target:
http://predictioncenter.org/casp10/target.cgi?id=195

Note that the organizers gave us this hint:

"Starting model GDT_TS=58."

GDT_TS=58 essentially means that ONLY 58% 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, 55, 85, 94, 112 & 115 are highly predicted to be part of a helix. However, the Valine at residue 34 is not predicted to be 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