CATH: increased structural coverage of functional space. Issue Volume 49:Issue D1(2021) (25th November 2020)

• Record Type: Journal Article
• Authors: Sillitoe, Ian; Bordin, Nicola; Dawson, Natalie; Waman, Vaishali P; Ashford, Paul; Scholes, Harry M; Pang, Camilla S M; Woodridge, Laurel; Rauer, Clemens; Sen, Neeladri; Abbasian, Mahnaz; Le Cornu, Sean; Lam, Su Datt; Berka, Karel; Varekova, Ivana Hutařová; Svobodova, Radka; Lees, Jon; Orengo, Christine A
• Is Part Of: Nucleic acids research. Volume 49:Issue D1(2021)
• Page Start: D266
• Page End: D273
• Publication Date: 2020-11-25
• Subjects: Nucleic acids -- Periodicals; Molecular biology -- Periodicals; 572.805
• DOI: 10.1093/nar/gkaa1079
• Languages: English
• ISSNs: 0305-1048

Abstract

Abstract: CATH (https://www.cathdb.info ) identifies domains in protein structures from wwPDB and classifies these into evolutionary superfamilies, thereby providing structural and functional annotations. There are two levels: CATH-B, a daily snapshot of the latest domain structures and superfamily assignments, and CATH+, with additional derived data, such as predicted sequence domains, and functionally coherent sequence subsets (Functional Families or FunFams). The latest CATH+ release, version 4.3, significantly increases coverage of structural and sequence data, with an addition of 65, 351 fully-classified domains structures (+15%), providing 500 238 structural domains, and 151 million predicted sequence domains (+59%) assigned to 5481 superfamilies. The FunFam generation pipeline has been re-engineered to cope with the increased influx of data. Three times more sequences are captured in FunFams, with a concomitant increase in functional purity, information content and structural coverage. FunFam expansion increases the structural annotations provided for experimental GO terms (+59%). We also present CATH-FunVar web-pages displaying variations in protein sequences and their proximity to known or predicted functional sites. We present two case studies (1) putative cancer drivers and (2) SARS-CoV-2 proteins. Finally, we have improved links to and from CATH including SCOP, InterPro, Aquaria and 2DProt.