@article{af7f8ed118a144c8869d089b52dee250,
title = "FiberDock: A web server for flexible induced-fit backbone refinement in molecular docking",
abstract = "Protein-protein docking algorithms aim to predict the structure of a complex given the atomic structures of the proteins that assemble it. The docking procedure usually consists of two main steps: docking candidate generation and their refinement. The refinement stage aims to improve the accuracy of the candidate solutions and to identify nearnative solutions among them. During protein-protein interaction, both side chains and backbone change their conformation. Refinement methods should model these conformational changes in order to obtain a more accurate model of the complex. Handling protein backbone flexibility is a major challenge for docking methodologies, since backbone flexibility adds a huge number of degrees of freedom to the search space. FiberDock is the first docking refinement web server, which accounts for both backbone and side-chain flexibility. Given a set of up to 100 potential docking candidates, FiberDock models the backbone and side-chain movements that occur during the interaction, refines the structures and scores them according to an energy function. The FiberDock web server is free and available with no login requirementat http://bioinfo3d.cs.tau.ac.il/FiberDock/.",
author = "Efrat Mashiach and Ruth Nussinov and Wolfson, {Haim J.}",
note = "Funding Information: Adams fellowship of the Israel Academy of Sciences and Humanities (to E.M., in part); Israel Science Foundation (grant no. 1403/09, to H.J.W., in part); Hermann Minkowski Minerva Geometry Center; National Cancer Institute, National Institutes of Health (Federal funds, contract number HHSN261200800001E). Intramural Research Program of the NIH, National Cancer Institute, Center for Cancer Research (in part). Funding for open access charge: National Institutes of Health (contract number HHSN261200800001E).",
year = "2010",
month = may,
day = "11",
doi = "10.1093/nar/gkq373",
language = "אנגלית",
volume = "38",
pages = "W457--W461",
journal = "Nucleic Acids Research",
issn = "0305-1048",
publisher = "Oxford University Press",
number = "SUPPL. 2",
}