Publication details

CATH: increased structural coverage of functional space

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 HUTAŘOVÁ VAŘEKOVÁ Ivana SVOBODOVÁ Radka LEES Jon ORENGO Christine A.

Year of publication 2021
Type Article in Periodical
Magazine / Source Nucleic Acids Research
MU Faculty or unit

Central European Institute of Technology

Citation
Web https://doi.org/10.1093/nar/gkaa1079
Doi http://dx.doi.org/10.1093/nar/gkaa1079
Keywords protein structures; CATH
Description 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.
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