MEROPS: the protease database

• Published in: Nucleic acids research 2002-01, Vol.30 (1), p.343-346
• Main Authors: Rawlings, Neil D, O'Brien, Emmet, Barrett, Alan J
• Format: Article
• Language: English
• Subjects: Amino Acid Sequence; Animals; Base Sequence; Chromosome Mapping; Databases, Protein; Endopeptidases - chemistry; Endopeptidases - genetics; Expressed Sequence Tags; Humans; Information Storage and Retrieval; Internet; Mice; Peptide Hydrolases - chemistry; Peptide Hydrolases - genetics; Protein Structure, Secondary; Protein Structure, Tertiary; Rats; Sequence Alignment; Substrate Specificity
• ISSN: 1362-4962; 0305-1048; 1362-4962
• DOI: 10.1093/nar/30.1.343

The MEROPS database (http://www.merops.ac.uk) has been redesigned to accommodate increased amounts of information still in pages of moderate size that load rapidly. The information on each PepCard, FamCard or ClanCard has been divided between several sub-pages that can be reached by use of navigation buttons in a frame at the top of the screen. Several important additions have also been made to the database. Amongst these are CGI searches that allow the user to find a peptidase by name, its MEROPS identifier or its human or mouse chromosome location. The user may also list all published tertiary structures for a peptidase clan or family, and search for peptidase specificity data by entering either a peptidase name, substrate or bond cleaved. The PepCards, FamCards and ClanCards now have literature pages listing about 10 000 key papers in total, mostly with links to MEDLINE. Many PepCards now include a protein sequence alignment and data table for matching human, mouse or rat expressed sequence tags. FamCards and ClanCards contain Structure pages showing diagrammatic representations of known secondary structures of member peptidases or family type examples, respectively. Many novel peptidases have been added to the database after being discovered in complete genomes, libraries of expressed sequence tags or data from high-throughput genomic sequencing, and we describe the methods by which these were found.