title: GRAMM-X public web server for protein-protein docking.
abstract: Protein docking software GRAMM-X and its web interface (http://vakser.bioinformatics.ku.edu/resources/gramm/grammx) extend the original GRAMM Fast Fourier Transformation methodology by employing smoothed potentials, refinement stage, and knowledge-based scoring. The web server frees users from complex installation of database-dependent parallel software and maintaining large hardware resources needed for protein docking simulations. Docking problems submitted to GRAMM-X server are processed by a 320 processor Linux cluster. The server was extensively tested by benchmarking, several months of public use, and participation in the CAPRI server track.
authors.affiliation: Center for Bioinformatics, The University of Kansas, 2030 Becker Drive, Lawrence, KS 66047, USA. andrey@ku.edu
authors.forename: Andrey
authors.initials: A
authors.lastname: Tovchigrechko
authors.forename: Ilya A
authors.initials: IA
authors.lastname: Vakser
mesh_terms: D001665:Binding Sites; D019295:Computational Biology; D020407:Internet; D008024:Ligands; D008958:Models, Molecular; D046912:Multiprotein Complexes / Q000737:chemistry* / Q000378:metabolism; D012984:Software; D014584:User-Computer Interface
chemical_list: D008024:Ligands; D046912:Multiprotein Complexes