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

Bioinformatics. 2005 Mar;21(6):827-8. doi: 10.1093/bioinformatics/bti098. Epub 2004 Oct 28.


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).

Publication types

  • Evaluation Study
  • Research Support, N.I.H., Extramural
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Database Management Systems*
  • Databases, Protein*
  • Information Storage and Retrieval / methods*
  • Membrane Proteins / chemistry*
  • Membrane Proteins / metabolism*
  • Natural Language Processing
  • Periodicals as Topic*
  • Protein Interaction Mapping / methods*
  • Protein Structure, Tertiary
  • User-Computer Interface*
  • Vocabulary, Controlled


  • Membrane Proteins