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Nucleic Acids Research, 2001, Vol. 29, No. 1 133-136
© 2001 Oxford University Press

VIDA: a virus database system for the organization of animal virus genome open reading frames

M. Mar Albà, David Lee1,3, Frances M. G. Pearl1, Adrian J. Shepherd1, Nigel Martin2, Christine A. Orengo1 and Paul Kellam*

Wohl Virion Centre, Department of Immunology and Molecular Pathology, Windeyer Institute of Medical Sciences and 1Biomolecular Structure and Modelling Unit, Department of Biochemistry and Molecular Biology, University College London, London, UK, 2Department of Computer Science and 3Department of Crystallography, Birkbeck College, University of London, London, UK

VIDA is a new virus database that organizes open reading frames (ORFs) from partial and complete genomic sequences from animal viruses. Currently VIDA includes all sequences from GenBank for Herpesviridae, Coronaviridae and Arteriviridae. The ORFs are organized into homologous protein families, which are identified on the basis of sequence similarity relationships. Conserved sequence regions of potential functional importance are identified and can be retrieved as sequence alignments. We use a controlled taxonomical and functional classification for all the proteins and protein families in the database. When available, protein structures that are related to the families have also been included. The database is available for online search and sequence information retrieval at http://www.biochem.ucl.ac.uk/bsm/virus_database/VIDA.html.

* To whom correspondence should be addressed at: Wohl Virion Centre, Department of Immunology and Molecular Pathology, Windeyer Institute of Medical Sciences, University College London, 46 Cleveland Street, London W1T 4JF, UK. Tel: +44 20 7679 9559; Fax: +44 20 7679 9555; Email: p.kellam{at}ucl.ac.uk


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