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566: CASP10 Target T0691

Closed since almost 14 years ago

Intermediate Overall Prediction

Summary

Created
May 30, 2012
Expires
Max points
100
Description

The seventh CASP10 target is not an easy one, as it's 163 residues and we don't have any alignments for the first 18 residues. We are providing you with 5 different templates, but all of them have a similar topology (that we hope is the correct one!). We will provide you with server predictions once they are released. More details about this CASP target are in the puzzle comments.

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Comments

beta_helix Staff Lv 1

Here is the CASP link for this target (showing the amino acid sequence):
http://predictioncenter.org/casp10/target.cgi?id=92
__________________

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 10, 14 & 15 are highly predicted to be in a helix. However, the Leucines at residues 62, 115, 125 & 127 are predicted to be sheets.
__________________

Link to template PDBs:

http://www.pdb.org/pdb/explore/explore.do?structureId=1gt1
http://www.pdb.org/pdb/explore/explore.do?structureId=1ew3
http://www.pdb.org/pdb/explore/explore.do?structureId=1pm1
http://www.pdb.org/pdb/explore/explore.do?structureId=1gm6
http://www.pdb.org/pdb/explore/explore.do?structureId=3qzk

beta_helix Staff Lv 1

The N-terminal region of this CASP10 target is unaligned to any of the 5 templates we have given you, but it is predicted to be helical.

Here is a hint to easily make a helix (if that is what you want to attempt):

The rebuild tool takes structure assignment into account, so you can set the secondary structure to helix and then Rebuild. Foldit will then make a helix out of that region.