The SUPERFAMILY database in 2007: families and functions

The SUPERFAMILY database provides protein domain assignments, at the SCOP ‘superfamily’ level, for the predicted protein sequences in over 400 completed genomes. A superfamily groups together domains of different families which have a common evolutionary ancestor based on structural, functional and sequence data. SUPERFAMILY domain assignments are generated using an expert curated set of profile hidden Markov models. All models and structural assignments are available for browsing and download from http://supfam.org. The web interface includes services such as domain architectures and alignment details for all protein assignments, searchable domain combinations, domain occurrence network visualization, detection of over- or under-represented superfamilies for a given genome by comparison with other genomes, assignment of manually submitted sequences and keyword searches. In this update we describe the SUPERFAMILY database and outline two major developments: (i) incorporation of fa...

• Type: Journal
• Year: 2007
• Where: NAR
• Authors: Derek Wilson, Martin Madera, Christine Vogel, Cyrus Chothia, Julian Gough
• Keywords: Domain Assignments, NAR 2007, Superfamily, SUPERFAMILY Database