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653: CASP ROLL Target R0025
Status: Closed


Name: 653: CASP ROLL Target R0025
Status: Closed
Created: 11/13/2012
Points: 100
Expired: 11/23/2012 - 13:00
Difficulty: Intermediate
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.
Categories: CASP ROLL, Overall, Prediction

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beta_helix's picture
User offline. Last seen 2 weeks 1 day ago. Offline
Joined: 05/09/2008
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Additional info about this CASP Roll target

Here is the CASP link for this target (showing the amino acid sequence):

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:

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

Joined: 04/19/2009
I *hope* this is CASP Roll 0025

Since R0023 is due on the 16th?

beta_helix's picture
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Joined: 05/09/2008
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Nice catch

Thanks auntdeen, indeed this is R0025 (and the links in the first comment are all correct)

w1ll's picture
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Joined: 11/16/2012
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how do u play

how the heck do u play the game?

beta_helix's picture
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Joined: 05/09/2008
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just press the button:

"Click here to start playing"

that is above the list of puzzles:

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