Domain databases
From BITS wiki
Databases discussed during the training
Interpro: a composite databases combining data from several domain databases
Prosite: the best curated domain database
Other domain databases that represent domains by PSMs
HAMAP: a database containing domains from well conserved protein families, represented by PSMs that are manually created by expert curators
PRINTS: a database focussed on describing protein families and specialized in hierarchical definitions from superfamily down to subfamily in order to pin-point specific functions
Other domain databases that represent domains by HMMs
- Pfam: database containing more divergent domains and motifs
- SMART
- PANTHER: tool for characterizing list of proteins with underlying domain database of HMMs based on the divergence of function within protein families
- PIRSF: domain database of HMMs over full length of proteins meaning that they only use protein families of which members have similar lengths
- TIGRFAMs: domain database of HMMs based on sets of proteins with the same function
- Gene3D: domain database of HMMs based on 3D structure using SCOP superfamilies
- SUPERFAMILY: domain database of HMMs based on 3D structure using CATH superfamilies
