PDZBase: a protein--protein interaction database for PDZ-domains

Authors:
Thijs Beuming;Lucy Skrabanek;Masha Y. Niv;Piali Mukherjee;Harel Weinstein
Affiliations:
Department of Physiology and Biophysics, Weill Medical College of Cornell University 1300 York Ave., New York, NY 10021, USA;Department of Physiology and Biophysics, Weill Medical College of Cornell University 1300 York Ave., New York, NY 10021, USA;Department of Physiology and Biophysics, Weill Medical College of Cornell University 1300 York Ave., New York, NY 10021, USA;Institute for Computational Biomedicine, Weill Medical College of Cornell University 1300 York Ave., New York, NY 10021, USA;Department of Physiology and Biophysics, Weill Medical College of Cornell University 1300 York Ave., New York, NY 10021, USA
Venue:
Bioinformatics
Year:
2005

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Abstract

Summary: PDZBase is a database that aims to contain all known PDZ-domain-mediated protein--protein interactions. Currently, PDZBase contains approximately 300 such interactions, which have been manually extracted from 200 articles. The database can be queried through both sequence motif and keyword-based searches, and the sequences of interacting proteins can be visually inspected through alignments (for the comparison of several interactions), or as residue-based diagrams including schematic secondary structure information (for individual complexes). Availability:http://icb.med.cornell.edu/services/pdz/start. Contact:pdzbase@med.cornell.edu.