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614: CASP10 Refinement Puzzle: TR724
Status: Closed

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beta_helix's picture
User offline. Last seen 17 hours 36 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=209

The CASP10 organizers gave us this hint:

"Starting model GDT_TS=60."

GDT_TS=60 essentially means that 60% 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 35, 44, 53, 63 & 87 are highly predicted to be part of a sheet. However, the Alanines at residues 11 & 49-50 are predicted to be in anything.

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