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577: CASP10 Refinement Puzzle: TR688

Closed since almost 14 years ago

Intermediate Overall Prediction

Summary

Created
June 15, 2012
Expires
Max points
100
Description

This target was originally 196 residues, but has been trimmed down to 185. We have been told that almost 78% of this model matches the native, so we are giving you the 3 templates that were used to generate this model. Maybe by moving the alignment around using the Alignment Tool you'll be able to completely match the native. More info in the puzzle comments.

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Comments

beta_helix Staff Lv 1

Here is the CASP link for this Refinement target:
http://predictioncenter.org/casp10/target.cgi?id=116&view=refinement
__________________

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.
____________________

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 Staff Lv 1

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