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653: CASP ROLL Target R0025

Closed since over 13 years ago

Intermediate Overall Prediction CASP ROLL

Summary

Created
November 14, 2012
Expires
Max points
100
Description

Here is the next CASP ROLL target. We are again providing you with 3 templates for now, and will give you with some 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/casproll/target.cgi?id=69

You'll notice that the sequence we have given you has been trimmed (compared to the one on the CASP ROLL website). This is because the N-terminus is predicted to be a signal peptide by the Rosetta Server:
http://rosettaserver.bakerlab.org/results.jsp?id=34809

For more info on that: http://en.wikipedia.org/wiki/Signal_peptide
__________________

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 Valine at residue 104 is highly predicted to be part of a loop. However, the Valine at residue 47 is not predicted to be anything!

The above predictions are already on the starting model (based on the horizontal lines in the above figure).
__________________

Link to template PDBs:

http://www.pdb.org/pdb/explore/explore.do?structureId=1sr3 http://www.pdb.org/pdb/explore/explore.do?structureId=4ex5 http://www.pdb.org/pdb/explore/explore.do?structureId=1qzg