RosettaBackrub--a web server for flexible backbone protein structure modeling and design.
The RosettaBackrub server (http://kortemmelab.ucsf.edu/backrub) implements the Backrub method, derived from observations of alternative conformations in high-resolution protein crystal structures, for flexible backbone protein modeling. Backrub modeling is applied to three related applications using the Rosetta program for structure prediction and design: (I) modeling of structures of point mutations, (II) generating protein conformational ensembles and designing sequences consistent with these conformations and (III) predicting tolerated sequences at protein-protein interfaces. The three protocols have been validated on experimental data. Starting from a user-provided single input protein structure in PDB format, the server generates near-native conformational ensembles. The predicted conformations and sequences can be used for different applications, such as to guide mutagenesis experiments, for ensemble-docking approaches or to generate sequence libraries for protein design.
Lauck
Florian
F
Department of Bioengineering and Therapeutic Sciences, University of California at San Francisco, 1700 4th Street, San Francisco, CA 94158, USA.
Smith
Colin A
CA
Friedland
Gregory F
GF
Humphris
Elisabeth L
EL
Kortemme
Tanja
T
D020407:Internet; D008958:Models, Molecular; D017354:Point Mutation; D011487:Protein Conformation; D025941:Protein Interaction Mapping; D011506:Proteins / Q000235:genetics; D020539:Sequence Analysis, Protein; D012984:Software; D014584:User-Computer Interface
D011506:Proteins
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