A survey of available tools and web servers for analysis of protein-protein interactions and interfaces

Nurcan Tuncbag, Gozde Kar, Ozlem Keskin, Attila Gursoy, Ruth Nussinov

Research output: Contribution to journalArticlepeer-review

Abstract

The unanimous agreement that cellular processes are (largely) governed by interactions between proteins has led to enormous community efforts culminating in overwhelming information relating to these proteins; to the regulation of their interactions, to the way in which they interact and to the function which is determined by these interactions. These data have been organized in databases and servers. However, to make these really useful, it is essential not only to be aware of these, but in particular to have a working knowledge of which tools to use for a given problem; what are the tool advantages and drawbacks; and no less important how to combine these for a particular goal since usually it is not one tool, but some combination of tool-modules that is needed. This is the goal of this review.

Original languageEnglish
Pages (from-to)217-232
Number of pages16
JournalBriefings in Bioinformatics
Volume10
Issue number3
DOIs
StatePublished - 2009

Keywords

  • Binding site prediction
  • Databases
  • Docking
  • Protein-protein interactions
  • Protein-protein interfaces
  • Web servers

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