beta_helix's picture
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Joined: 05/09/2008
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Additional info about this CASP10 Refinement target

Here is the CASP link for this Refinement target:
http://predictioncenter.org/casp10/target.cgi?id=116&view=refinement
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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 Leucines at residues 87 & 110-11 are highly predicted to be in a sheet. However, the Leucine at residue 20 is predicted to be anything.
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Note that we are giving you over 7 days to work on this one.
It's a large protein you have 3 templates to work with, so we hope that you will try changing the alignments on each of them.

beta_helix's picture
User offline. Last seen 53 min 37 sec ago. Offline
Joined: 05/09/2008
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Enjoy beta_helix's favorite topology!

I hope you enjoy the structure of this protein.

I just wanted to add that like Puzzle 576, the starting model is not the one CASP gave us (which was another RosettaServer model). We have given you the closest non-Rosetta server model (it's only 1.12 Angstroms RMSD away from the model chosen by the CASP organizers) so that you will be able to find high-scoring solutions that are slightly different than the ~78% correct starting structure.

You can read more about the motivation for this here:
http://fold.it/portal/node/992952#comment-18289

Joined: 08/30/2011
favourite topology

indeed very very very cool!

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