Detection of peptide-binding sites on protein surfaces using the peptimap server

Tanggis Bohnuud, George Jones, Ora Schueler-Furman*, Dima Kozakov

*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceedingChapterpeer-review

6 Scopus citations

Abstract

Peptide-mediated interactions are of primordial importance to the cell, and the structure of such interaction provides an important starting point for their further characterization. In many cases, the structure of the peptide-protein complex has not been solved by experiment, and modeling tools need to be applied to generate structural models of the interaction. PeptiMap is a protocol that identifies the peptide-binding site when only the structure of the receptor is known, but no information about where the peptide binds is available. This is achieved by mapping the surface for solvents to identify ligand-binding sites, similar in approach to ANCHORMAP in which amino acids are mapped. Peptimap is a free open access web-based server. It can be accessed at http://peptimap.cluspro.org.

Original languageAmerican English
Title of host publicationMethods in Molecular Biology
PublisherHumana Press Inc.
Pages11-20
Number of pages10
DOIs
StatePublished - 2017

Publication series

NameMethods in Molecular Biology
Volume1561
ISSN (Print)1064-3745

Bibliographical note

Publisher Copyright:
© Springer Science+Business Media LLC 2017.

Keywords

  • Binding site prediction
  • Peptide mapping
  • Peptide-protein interactions
  • Solvent mapping

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