title: iPfam: a database of protein family and domain interactions found in the Protein Data Bank.
abstract: The database iPfam, available at http://ipfam.org, catalogues Pfam domain interactions based on known 3D structures that are found in the Protein Data Bank, providing interaction data at the molecular level. Previously, the iPfam domain-domain interaction data was integrated within the Pfam database and website, but it has now been migrated to a separate database. This allows for independent development, improving data access and giving clearer separation between the protein family and interactions datasets. In addition to domain-domain interactions, iPfam has been expanded to include interaction data for domain bound small molecule ligands. Functional annotations are provided from source databases, supplemented by the incorporation of Wikipedia articles where available. iPfam (version 1.0) contains >9500 domain-domain and 15 500 domain-ligand interactions. The new website provides access to this data in a variety of ways, including interactive visualizations of the interaction data.
authors.affiliation: HHMI Janelia Farm Research Campus, 19700 Helix Drive, Ashburn VA 20147 USA and European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
authors.forename: Robert D
authors.initials: RD
authors.lastname: Finn
authors.forename: Benjamin L
authors.initials: BL
authors.lastname: Miller
authors.forename: Jody
authors.initials: J
authors.lastname: Clements
authors.forename: Alex
authors.initials: A
authors.lastname: Bateman
mesh_terms: D030562:Databases, Protein; D020407:Internet; D008024:Ligands; D054730:Protein Interaction Domains and Motifs; D025941:Protein Interaction Mapping; D060066:Protein Interaction Maps; D011506:Proteins / Q000145:classification; D012984:Software
chemical_list: D008024:Ligands; D011506:Proteins