beta_helix's picture
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More info here:

This is the page for this CASP10 refinement target:
http://predictioncenter.org/casp10/target.cgi?id=132

Note that the organizers gave us this hint:

"Starting model GDT_TS=87."

GDT_TS=87 essentially means that 87% of the model superimposes correctly onto the native structure:
http://en.wikipedia.org/wiki/Global_distance_test

We believe that Jiang_Fold_TS1.pdb is identical to the refinement model.

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 34, 49, 54, 57, 66, 71 & 183 are highly predicted to be in sheets. However, the Valines at residues 3, 107, 137 & 144 are predicted to be anything.

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6-7 minutes to run fuse

Just a note - on an ok machine (i7-720QM) with 8GB RAM, foldit and a browser running it is taking 6-7 minutes to run Blue Fuse.

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