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Nucleic Acids Research Advance Access published online on October 2, 2007
Nucleic Acids Research, doi:10.1093/nar/gkm761
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© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Database Issue

DOMINE: a database of protein domain interactions

Balaji Raghavachari1, Asba Tasneem2, Teresa M. Przytycka3 and Raja Jothi3,*

1Department of Computer Science, University of Texas at Dallas, Richardson, TX 75083, USA 210401 Grosvenor Pl, Rockville Pike, MD 20852, USA and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA

*To whom correspondence should be addressed. Tel: +1 301 402 8221; Fax: +1 301 480 4637; Email: jothi{at}mail.nih.gov

Received August 1, 2007. Revised August 27, 2007. Accepted September 11, 2007.

DOMINE is a database of known and predicted protein domain interactions compiled from a variety of sources. The database contains domain–domain interactions observed in PDB entries, and those that were predicted by eight different computational approaches. DOMINE contains a total of 20 513 unique domain–domain interactions among 4036 Pfam domains, out of which 4349 are inferred from PDB entries and 17 781 were predicted by at least one computational approach. This database will serve as a valuable resource to those working in the field of protein and domain interactions. DOMINE may not only serve as a reference to experimentalists who test for new protein and domain interactions, but also offers a consolidated dataset for analysis by bioinformaticians who seek to test ideas regarding the underlying factors that control the topological structure of interaction networks. DOMINE is freely available at http://domine.utdallas.edu.


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