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608: Symmetric CASP10 Refinement Puzzle: TR722

Closed since over 13 years ago

Intermediate Overall Prediction Symmetry

Summary

Created
July 28, 2012
Expires
Max points
100
Description

This is the eighteenth CASP10 Refinement Target. This model was the best server prediction for target T0722, generated by the BAKER-ROSETTASERVER (using Rosetta@home). Despite being the prediction closest to the native, almost half of the model is incorrect: only ~58% of this model matches the solved structure. We believe that one possible reason is that this protein folds up as a dimer, so we are giving you the model with symmetry. Please read the puzzle comments for additional details.

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Comments

beta_helix Staff Lv 1

NOTE: The Cut Tool IS available for this symmetry puzzle, but only in the Developer Preview.
(If you want to try it out, please read "How do I try out the Foldit Developer Preview?" in the FAQ: http://fold.it/portal/info/faq )
Once the next update posts (early next week) the Cut Tool will be available in main.
__________________

This is the page for this CASP10 refinement target:
http://predictioncenter.org/casp10/target.cgi?id=195

Note that the organizers gave us this hint:

"Starting model GDT_TS=58."

GDT_TS=58 essentially means that ONLY 58% of the model superimposes correctly onto the native structure:

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 23, 55, 85, 94, 112 & 115 are highly predicted to be part of a helix. However, the Valine at residue 34 is not predicted to be anything.

beta_helix Staff Lv 1

These were some of the possible templates for T0722:


This doesn't mean that TR722 folds up as a coiled-coil, but it might be a topology worth exploring.

We will try to post another Foldit Puzzle for TR722 where we give you just the starting model as a monomer (in case that it how the native folds up). It will likely be a very short puzzle.