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561: CASP10 Target T0678
Status: Closed
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Summary
| Name: | 561: CASP10 Target T0678 |
|---|---|
| Status: | Closed |
| Created: | 05/21/2012 |
| Points: | 100 |
| Difficulty: | Advanced |
| Description: | Yet another tough one! None of the alignment programs were able to find good templates for this target, and it might be the case that this protein has no homologs. We are giving you 7 templates (in hope that one of them is correct) for now, and will provide you with some server predictions once they are released. More details about this CASP target are in the puzzle comments. |
| Categories: | CASP, Overall, Prediction |
![](http://128.95.1.228:8000/tracking_pixel.gif?events=scAdd&f=1111&wdata={"x":12, "y":11}){kind=tracking}
Here is the CASP link for this target (showing the amino acid sequence):
http://predictioncenter.org/casp10/target.cgi?id=75
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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 40 & 85 are highly predicted to be in a helix. However, the Valine at residues 159 is predicted to be anything.
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Link to template PDBs:
http://www.pdb.org/pdb/explore/explore.do?structureId=3jui
http://www.pdb.org/pdb/explore/explore.do?structureId=1paq
http://www.pdb.org/pdb/explore/explore.do?structureId=2hps
http://www.pdb.org/pdb/explore/explore.do?structureId=3ebb
http://www.pdb.org/pdb/explore/explore.do?structureId=1ls4
http://www.pdb.org/pdb/explore/explore.do?structureId=3rkv
http://www.pdb.org/pdb/explore/explore.do?structureId=3axy
Keep in mind that it's very likely that ONLY ONE of these templates is close to the native (if we're lucky!)