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913: CASP11 T0797: WeFold Docking

Closed since over 11 years ago

Intermediate Overall Prediction CASP11

Summary

Created
June 10, 2014
Expires
Max points
100
Description

This 44 residue CASP11 Target is a little different, because T0797 and T0798 are two parts of the same complex. In this puzzle, we are giving you Robetta's T0797 prediction to model against a frozen server prediction for T0798, which was selected by our WeFold collaborators. The backbone of the larger T0798 region is completely frozen for this puzzle, so your job is to dock the short T0797 model against T0798 as best you can! More details in the puzzle comments.

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Comments

beta_helix Staff Lv 1

This is what the CASP organizers have told us about this protein:

CASP targets T0797 and T0798 are two parts of the PKGII leucine zipper /Rab11b complex comprising two zipper subunits and two Rab11b subunits…
The main modeling task here is to get structure of the leucine zipper in correct conformation with the Rab11b GTPase that remodels upon binding.

http://predictioncenter.org/casp11/target.cgi?id=51

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.

Susume Lv 1

I think you are saying the native contains two helices (which make a leucine zipper) and two blobs, and we have been given one helix and one blob to stick together. The leucines on our helix are supposed to stick to the leucines on the other helix, so they should not be hidden by the blob.