FlexDock specifications

Information


Unique identifier OMICS_23900
Name FlexDock
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainers


  • person_outline Daniel Zaidman <>
  • person_outline Dina Schneidman-Duhovny <>
  • person_outline Haim Wolfson <>

Publications for FlexDock

FlexDock in publications

 (3)
PMCID: 5870628
PMID: 28881968
DOI: 10.1093/bioinformatics/btx233

[…] additional scenarios, including protein flexibility. below we describe an automated docking protocol to account for large scale motions of the proteins backbone. it operates similar to the flexdock algorithm () ()., partition into rigid parts—by applying the hingeprot method () on the given input protein, we detect the rigid parts and the hinge regions connecting them. the method […]

PMCID: 4610727
PMID: 26508871
DOI: 10.4137/GEI.S29821

[…] algorithm is implemented for geometric alignment of the two 3d protein surface patches. compared with the fast fourier transform-based global geometric matching algorithm and other methods, our flexdock system generates much less false-positive docking results, which benefits identification of the complementary candidates. our computational experiments show the advantages of the proposed […]

PMCID: 3002368
PMID: 21092317
DOI: 10.1186/1471-2105-11-575

[…] of a patch if we account for backbone flexibility explicitly. recently there has been progress in modeling backbone flexibility in the initial surface matching stage of docking. for example, in flexdock [,], molecules are decomposed into rigid domains, which are docked separately and then the possible dockings are reconnected using a graph-based algorithm. rosettadock [,] creates a "fold […]


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FlexDock institution(s)
School of Computer Science, Beverly and Raymond Sackler Faculty of Exact Sciences, Tel Aviv University, Tel Aviv, Israel; Basic Research Program, SAIC-Frederick, Inc., Center for Cancer Research Nanobiology Program, NCI - Frederick, Frederick, MD, USA; Department of Human Genetics and Molecular Medicine, Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv, Israel
FlexDock funding source(s)
Supported by Israel Science Foundation; Grant number: 281/05; Grant sponsor: Hermann Minkowski-Minerva Center for Geometry; Grant sponsors: NIAID, NIH; Grant number: 1UC1AI067231; Grant sponsor: Binational US-Israel Science Foundation (BSF); Grant sponsors: National Cancer Institute, National Institutes of Health; Grant number: N01-CO-12400; Grant sponsors: Intramural Research Program of the NIH, National Cancer Institute, Center for Cancer Research.

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