{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,3]],"date-time":"2026-03-03T06:25:48Z","timestamp":1772519148578,"version":"3.50.1"},"reference-count":65,"publisher":"Oxford University Press (OUP)","issue":"8","license":[{"start":{"date-parts":[[2020,12,10]],"date-time":"2020-12-10T00:00:00Z","timestamp":1607558400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/501100000268","name":"Biological Sciences Research Council","doi-asserted-by":"crossref","award":["BB\/P023940\/1"],"award-info":[{"award-number":["BB\/P023940\/1"]}],"id":[{"id":"10.13039\/501100000268","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/100010269","name":"Wellcome Trust","doi-asserted-by":"publisher","award":["203780\/Z\/16\/A"],"award-info":[{"award-number":["203780\/Z\/16\/A"]}],"id":[{"id":"10.13039\/100010269","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000268","name":"BBSRC","doi-asserted-by":"publisher","award":["BB\/S020144\/1"],"award-info":[{"award-number":["BB\/S020144\/1"]}],"id":[{"id":"10.13039\/501100000268","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,5,23]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>Identification of functional sites in proteins is essential for functional characterization, variant interpretation and drug design. Several methods are available for predicting either a generic functional site, or specific types of functional site. Here, we present FunSite, a machine learning predictor that identifies catalytic, ligand-binding and protein\u2013protein interaction functional sites using features derived from protein sequence and structure, and evolutionary data from CATH functional families (FunFams).<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>FunSite\u2019s prediction performance was rigorously benchmarked using cross-validation and a holdout dataset. FunSite outperformed other publicly available functional site prediction methods. We show that conserved residues in FunFams are enriched in functional sites. We found FunSite\u2019s performance depends greatly on the quality of functional site annotations and the information content of FunFams in the training data. Finally, we analyze which structural and evolutionary features are most predictive for functional sites.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availabilityand implementation<\/jats:title>\n                    <jats:p>https:\/\/github.com\/UCL\/cath-funsite-predictor.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Supplementary information<\/jats:title>\n                    <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btaa937","type":"journal-article","created":{"date-parts":[[2020,10,28]],"date-time":"2020-10-28T00:20:54Z","timestamp":1603844454000},"page":"1099-1106","source":"Crossref","is-referenced-by-count":25,"title":["CATH functional families predict functional sites in proteins"],"prefix":"10.1093","volume":"37","author":[{"given":"Sayoni","family":"Das","sequence":"first","affiliation":[{"name":"PrecisionLife Ltd., Long Hanborough , OX29 8LJ Oxford, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4745-4854","authenticated-orcid":false,"given":"Harry M","family":"Scholes","sequence":"additional","affiliation":[{"name":"Institute of Structural and Molecular Biology, University College London , WC1E 6BT, London, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3324-5755","authenticated-orcid":false,"given":"Neeladri","family":"Sen","sequence":"additional","affiliation":[{"name":"Institute of Structural and Molecular Biology, University College London , WC1E 6BT, London, UK"}]},{"given":"Christine","family":"Orengo","sequence":"additional","affiliation":[{"name":"Institute of Structural and Molecular Biology, University College London , WC1E 6BT, London, UK"}]}],"member":"286","published-online":{"date-parts":[[2020,12,10]]},"reference":[{"key":"2023051612082066600_btaa937-B1","doi-asserted-by":"crossref","first-page":"5013","DOI":"10.1016\/j.bmc.2005.05.037","article-title":"Protein oligomerization: how and why","volume":"13","author":"Ali","year":"2005","journal-title":"Bioorg. 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