Structural fragments in protein model refinement.
We survey a method that uses patterns of residue packing in known protein structures to refine structural models. The method can be used to refine models that include only one coordinate point per residue (C(alpha)) and is not dependent on homology. We demonstrate that the method improves both decoy and CASP7 target models.
Hollup
S M
SM
Department of Informatics, University of Bergen, PB. 7803, N-5020 Bergen, Norway. sivh@ii.uib.no
Taylor
W R
WR
Jonassen
I
I
D000465:Algorithms; D019295:Computational Biology / Q000379:methods; D003198:Computer Simulation; D030562:Databases, Protein; D008958:Models, Molecular; D011487:Protein Conformation; D011506:Proteins / Q000737:chemistry*; D016415:Sequence Alignment; D020539:Sequence Analysis, Protein / Q000379:methods*
D011506:Proteins