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552: CASP10 Target T0644
Status: Closed

Summary

Name: 552: CASP10 Target T0644
Status: Closed
Created: 05/01/2012
Points: 130
Expired: 05/11/2012 - 18:00
Difficulty: Advanced
Description: Here is the first CASP10 target. This target is 166 residues and we are giving you the top-predicted template from 3 different alignment programs (you'll notice that all 3 programs picked the same template, but slightly different alignments). More details about this CASP target are in the puzzle comments.
Categories: CASP10, Overall, Prediction

Top Groups

RankGroupScorePoints
1Go Science12,339130
2Anthropic Dreams12,337105
3L'Alliance Francophone12,31283
4Contenders12,27866
5foldeRNA12,22852

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Comments

beta_helix's picture
User offline. Last seen 3 days 5 hours ago. Offline
Joined: 05/09/2008
Groups: None
Additional info about this CASP target

Here is the CASP link for this target (which has the amino acid sequence):
http://predictioncenter.org/casp10/target.cgi?id=40&view=all

beta_helix's picture
User offline. Last seen 3 days 5 hours ago. Offline
Joined: 05/09/2008
Groups: None
until the SAM-T08 server comes back...

Here are some other secondary structure predictions (that are sadly not as easy to look at):

H = helix
E = sheet
C = loop (or coil)

The higher the number at the top of each position, the higher the probability of that specific secondary structure for that amino acid.

For example, the Phenylalanines at residue 19 & 21 are highly predicted to be part of a helix (an H with a 9 & 8 above it). However, the Phenylalanine at residue 77 is predicted to be in a sheet (an E with a 9 above it).

beta_helix's picture
User offline. Last seen 3 days 5 hours ago. Offline
Joined: 05/09/2008
Groups: None
Here are the secondary structure predictions FINALLY:

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 12, 16, 18 & 99 are highly predicted to be part of a helix. However, the Valines at residues 62, 74, 130-131 & 139 are highly predicted to be in sheets.

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Developed by: UW Center for Game Science, UW Institute for Protein Design, Northeastern University, Vanderbilt University Meiler Lab, UC Davis
Supported by: DARPA, NSF, NIH, HHMI, Amazon, Microsoft, Adobe, RosettaCommons