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643: CASP ROLL Target R0021
Status: Closed
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Soloists
226 | moonrise 46 1458 | | 7,690 | 1 | 227 | kmb8383 46 1458 | | 7,688 | 1 | 228 | screenshot 46 1458 | | 7,674 | 1 | 229 | Quixoticowl 46 1458 | Nerdfighters | 7,673 | 1 | 230 | Schnecke 46 1458 | | 7,670 | 1 | 231 | alegra 46 1458 | | 7,653 | 1 | 232 | unravelingthread 46 1458 | | 7,625 | 1 | 233 | Alagos 46 1458 | | 7,621 | 1 | 234 | 10096 46 1458 | | 7,616 | 1 | 235 | RedTraitor 46 1458 | Russian team | 7,560 | 1 | 236 | foldingmaster1337 46 1458 | | 7,555 | 1 | 237 | joe_swan29 46 1458 | | 7,551 | 1 | 238 | k4t0n1 46 1458 | | 7,551 | 1 | 239 | merjantakamus 46 1458 | | 7,545 | 1 | 240 | user 46 1458 | | 7,543 | 1 | 241 | ygnobl 46 1458 | | 7,543 | 1 | 242 | Wisdomfighter 46 1458 | | 7,542 | 1 | 243 | birdy_ssr 46 1458 | | 7,538 | 1 | 244 | brainhack 46 1458 | | 7,534 | 1 | 245 | ZeroLeak7 46 97 | 7Monkeys | 7,526 | 1 | 246 | GenericSubprocess 46 1458 | | 7,526 | 1 | 247 | KingCookie 46 1458 | | 7,526 | 1 | 248 | greepski 46 1458 | Gargleblasters | 7,526 | 1 | 249 | inuyasha10121 46 1458 | | 7,526 | 1 | 250 | Rosac 46 1458 | | 7,525 | 1 | Need this puzzle? Log in to download.
Comments
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Here is the CASP link for this target (showing the amino acid sequence):
http://predictioncenter.org/casproll/target.cgi?id=64
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=34067
For more info on that: http://en.wikipedia.org/wiki/Signal_peptide
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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 1, 42 & 83 are highly predicted to be part of a sheet. However, the Valines at residues 9, 10 & 100 are not predicted to be anything!
The above predictions are already on the starting model (based on the horizontal lines in the above figure).
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Link to template PDBs:
http://www.pdb.org/pdb/explore/explore.do?structureId=3dxe http://www.pdb.org/pdb/explore/explore.do?structureId=2jgb http://www.pdb.org/pdb/explore/explore.do?structureId=3na2