The RosettaDock server for local protein-protein docking.

Sergey Lyskov, Jeffrey J. Gray

Research output: Contribution to journalArticlepeer-review

Abstract

The RosettaDock server (http://rosettadock.graylab.jhu.edu) identifies low-energy conformations of a protein-protein interaction near a given starting configuration by optimizing rigid-body orientation and side-chain conformations. The server requires two protein structures as inputs and a starting location for the search. RosettaDock generates 1000 independent structures, and the server returns pictures, coordinate files and detailed scoring information for the 10 top-scoring models. A plot of the total energy of each of the 1000 models created shows the presence or absence of an energetic binding funnel. RosettaDock has been validated on the docking benchmark set and through the Critical Assessment of PRedicted Interactions blind prediction challenge.

Original languageEnglish (US)
Pages (from-to)W233-238
JournalNucleic acids research
Volume36
Issue numberWeb Server issue
DOIs
StatePublished - Jul 1 2008

ASJC Scopus subject areas

  • Genetics

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