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Bioinformatics. 2012 Nov 15;28(22):2998-9. doi: 10.1093/bioinformatics/bts539. Epub 2012 Sep 6.

SAPIN: a framework for the structural analysis of protein interaction networks.

Author information

1
EMBL/CRG, Design of Biological Systems, Systems Biology Research Unit, Centre for Genomic Regulation-CRG, UPF, 08003 Barcelona, Spain. jae-seong.yang@crg.eu

Abstract

SUMMARY:

Protein interaction networks are widely used to depict the relationships between proteins. These networks often lack the information on physical binary interactions, and they do not inform whether there is incompatibility of structure between binding partners. Here, we introduce SAPIN, a framework dedicated to the structural analysis of protein interaction networks. SAPIN first identifies the protein parts that could be involved in the interaction and provides template structures. Next, SAPIN performs structural superimpositions to identify compatible and mutually exclusive interactions. Finally, the results are displayed using Cytoscape Web.

AVAILABILITY:

The SAPIN server is available at http://sapin.crg.es.

CONTACT:

jae-seong.yang@crg.eu or christina.kiel@crg.eu.

SUPPLEMENTARY INFORMATION:

Supplementary data are available at Bioinformatics Online.

PMID:
22954630
DOI:
10.1093/bioinformatics/bts539
[Indexed for MEDLINE]

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