601: CASP10 Refinement Puzzle: TR723

Summary

Name:

Status:

Closed

Created:

07/14/2012

Points:

100

Difficulty:

Beginner

Description:

This is the twelfth CASP10 Refinement Target. This model was the best server prediction for target T0723, generated by the Matrix server. We've been told that ~85% of this model matches the native, so you just need to find which 15% to refine! More info in the puzzle comments.

Categories:

CASP, Overall, Prediction

Rank

Group

Score

Points

Contenders

11,297

100

11,206

11,204

11,174

11,167

Rank

Player

Group

Score

Points

gitwut 7 10

Contenders

11,297

100

11,295

11,293

11,284

11,272

Rank

Player

Group

Score

Points

doug.ehlert 134 324

Contenders

11,266

100

Hanto_FZ140E_4G 44 58

11,230

11,206

11,174

11,167

Sun, 07/15/2012 - 01:10

beta_helix 139 3186

Offline

Joined: 05/09/2008

Groups: None

More info here:

This is the page for this CASP10 refinement target:
http://predictioncenter.org/casp10/target.cgi?id=173

Note that the organizers gave us this hint:

"Starting model GDT_TS=85."

GDT_TS=85 essentially means that 85% of the model superimposes correctly onto the native structure:
http://en.wikipedia.org/wiki/Global_distance_test

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 42, 67, 86, 99, 103 & 122 are highly predicted to be part of a helix. However, the Valines at residues 17 & 94 are predicted to be anything.