Journal Article

ProtorP: a protein–protein interaction analysis server

Christopher Reynolds, David Damerell and Susan Jones

in Bioinformatics

Volume 25, issue 3, pages 413-414
Published in print February 2009 | ISSN: 1367-4803
Published online November 2008 | e-ISSN: 1460-2059 | DOI: https://dx.doi.org/10.1093/bioinformatics/btn584
ProtorP: a protein–protein interaction analysis server

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Summary: The PROTORP server analyses protein–protein associations in 3D structures. The server calculates a series of physical and chemical parameters of the protein interaction sites that contribute to the binding energy of the association. These parameters include, size and shape, intermolecular bonding, residue and atom composition and secondary structure contributions. The server is flexible, in that it allows users to analyse individual protein associations or large datasets of associations deposited in the PDB, or upload and analyse proprietary files. The properties calculated can be compared with parameter distributions for non-homologous datasets of different classes of protein associations provided on the server website. The server provides an efficient way of characterizing protein–protein associations of new or existing proteins, and a means of putting these values in the context of previously observed associations.

Availability: http://www.bioinformatics.sussex.ac.uk/protorp

Contact: s.jones@sussex.ac.uk

Journal Article.  1253 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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