{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,9]],"date-time":"2026-03-09T18:36:59Z","timestamp":1773081419935,"version":"3.50.1"},"reference-count":25,"publisher":"Oxford University Press (OUP)","issue":"D1","license":[{"start":{"date-parts":[[2016,11,9]],"date-time":"2016-11-09T00:00:00Z","timestamp":1478649600000},"content-version":"vor","delay-in-days":720,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2015,1,28]]},"DOI":"10.1093\/nar\/gku1041","type":"journal-article","created":{"date-parts":[[2014,11,20]],"date-time":"2014-11-20T21:24:42Z","timestamp":1416518682000},"page":"D227-D233","source":"Crossref","is-referenced-by-count":77,"title":["The SUPERFAMILY 1.75 database in 2014: a doubling of data"],"prefix":"10.1093","volume":"43","author":[{"given":"Matt E.","family":"Oates","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jonathan","family":"Stahlhacke","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dimitrios V.","family":"Vavoulis","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9508-8065","authenticated-orcid":false,"given":"Ben","family":"Smithers","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Owen J.L.","family":"Rackham","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6912-6125","authenticated-orcid":false,"given":"Adam J.","family":"Sardar","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3289-4590","authenticated-orcid":false,"given":"Jan","family":"Zaucha","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1007-0286","authenticated-orcid":false,"given":"Natalie","family":"Thurlby","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Hai","family":"Fang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Julian","family":"Gough","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2014,11,20]]},"reference":[{"key":"key\n\t\t\t\t20171011205947_B1","doi-asserted-by":"crossref","first-page":"903","DOI":"10.1006\/jmbi.2001.5080","article-title":"Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure","volume":"313","author":"Gough","year":"2001","journal-title":"J. Mol. Biol."},{"key":"key\n\t\t\t\t20171011205947_B2","doi-asserted-by":"crossref","first-page":"536","DOI":"10.1016\/S0022-2836(05)80134-2","article-title":"SCOP: a structural classification of proteins database for the investigation of sequences and structures","volume":"247","author":"Murzin","year":"1995","journal-title":"J. Mol. Biol."},{"key":"key\n\t\t\t\t20171011205947_B3","doi-asserted-by":"crossref","first-page":"3625","DOI":"10.1093\/nar\/gkl484","article-title":"Genomic scale sub-family assignment of protein domains","volume":"34","author":"Gough","year":"2006","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171011205947_B4","doi-asserted-by":"crossref","first-page":"D235","DOI":"10.1093\/nar\/gkh117","article-title":"The SUPERFAMILY database in 2004: additions and improvements","volume":"32","author":"Madera","year":"2004","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171011205947_B5","doi-asserted-by":"crossref","first-page":"27","DOI":"10.1186\/1472-6807-12-27","article-title":"Evolutionarily consistent families in SCOP: sequence, structure and function","volume":"12","author":"Pethica","year":"2012","journal-title":"BMC Struct. Biol."},{"key":"key\n\t\t\t\t20171011205947_B6","doi-asserted-by":"crossref","DOI":"10.1038\/srep02015","article-title":"A daily-updated tree of (sequenced) life as a reference for genome research","volume":"3","author":"Fang","year":"2013","journal-title":"Sci. Rep."},{"key":"key\n\t\t\t\t20171011205947_B7","doi-asserted-by":"crossref","first-page":"D308","DOI":"10.1093\/nar\/gkl910","article-title":"The SUPERFAMILY database in 2007: families and functions","volume":"35","author":"Wilson","year":"2007","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171011205947_B8","doi-asserted-by":"crossref","first-page":"D380","DOI":"10.1093\/nar\/gkn762","article-title":"SUPERFAMILY\u2013sophisticated comparative genomics, data mining, visualization and phylogeny","volume":"37","author":"Wilson","year":"2009","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171011205947_B9","doi-asserted-by":"crossref","first-page":"D536","DOI":"10.1093\/nar\/gks1080","article-title":"dcGO: database of domain-centric ontologies on functions, phenotypes, diseases and more","volume":"41","author":"Fang","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171011205947_B10","doi-asserted-by":"crossref","first-page":"D427","DOI":"10.1093\/nar\/gkq1130","article-title":"SUPERFAMILY 1.75 including a domain-centric gene ontology method","volume":"39","author":"De Lima Morais","year":"2011","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171011205947_B11","doi-asserted-by":"crossref","first-page":"D310","DOI":"10.1093\/nar\/gkt1242","article-title":"SCOP2 prototype: a new approach to protein structure mining","volume":"42","author":"Andreeva","year":"2014","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171011205947_B12","doi-asserted-by":"crossref","first-page":"D756","DOI":"10.1093\/nar\/gkt1114","article-title":"RefSeq: an update on mammalian reference sequences","volume":"42","author":"Pruitt","year":"2014","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171011205947_B13","doi-asserted-by":"crossref","first-page":"D749","DOI":"10.1093\/nar\/gkt1196","article-title":"Ensembl 2014","volume":"42","author":"Flicek","year":"2014","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171011205947_B14","doi-asserted-by":"crossref","first-page":"D191","DOI":"10.1093\/nar\/gku469","article-title":"Activities at the Universal Protein Resource (UniProt)","volume":"42","author":"The UniProt Consortium","year":"2014","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171011205947_B15","article-title":"About viral and phage genome processing and tools","volume-title":"The NCBI Handbook","author":"Bao","year":"2013"},{"key":"key\n\t\t\t\t20171011205947_B16","doi-asserted-by":"crossref","first-page":"D1178","DOI":"10.1093\/nar\/gkr944","article-title":"Phytozome: a comparative platform for green plant genomics","volume":"40","author":"Goodstein","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171011205947_B17","doi-asserted-by":"crossref","first-page":"e8934","DOI":"10.1371\/journal.pone.0008934","article-title":"TreeVector: scalable, interactive, phylogenetic trees for the web","volume":"5","author":"Pethica","year":"2010","journal-title":"PLoS ONE"},{"key":"key\n\t\t\t\t20171011205947_B18","doi-asserted-by":"crossref","first-page":"77","DOI":"10.1093\/sysbio\/26.1.77","article-title":"Phylogenetic analysis under Dollo's law","volume":"26","author":"Farris","year":"1977","journal-title":"Syst. Biol."},{"key":"key\n\t\t\t\t20171011205947_B19","doi-asserted-by":"crossref","first-page":"1464","DOI":"10.1093\/bioinformatics\/bti204","article-title":"Convergent evolution of domain architectures (is rare)","volume":"21","author":"Gough","year":"2005","journal-title":"Bioinformatics"},{"key":"key\n\t\t\t\t20171011205947_B20","doi-asserted-by":"crossref","first-page":"221","DOI":"10.1038\/nmeth.2340","article-title":"A large-scale evaluation of computational protein function prediction","volume":"10","author":"Radivojac","year":"2013","journal-title":"Nat. Methods"},{"issue":"Suppl 3","key":"key\n\t\t\t\t20171011205947_B21","doi-asserted-by":"crossref","first-page":"S9","DOI":"10.1186\/1471-2105-14-S3-S9","article-title":"A domain-centric solution to functional genomics via dcGO Predictor","volume":"14","author":"Fang","year":"2013","journal-title":"BMC Bioinformat."},{"key":"key\n\t\t\t\t20171011205947_B22","doi-asserted-by":"crossref","first-page":"D499","DOI":"10.1093\/nar\/gks1266","article-title":"Genome3D: a UK collaborative project to annotate genomic sequences with predicted 3D structures based on SCOP and CATH domains","volume":"41","author":"Lewis","year":"2013","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171011205947_B23","doi-asserted-by":"crossref","first-page":"D490","DOI":"10.1093\/nar\/gks1211","article-title":"New functional families (FunFams) in CATH to improve the mapping of conserved functional sites to 3D structures","volume":"41","author":"Sillitoe","year":"2013","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20171011205947_B24","doi-asserted-by":"crossref","first-page":"5.6.1","DOI":"10.1002\/0471250953.bi0506s47","article-title":"Comparative protein structure modeling using MODELLER","volume":"47","author":"Webb","year":"2014","journal-title":"Curr. Protoc. Bioinformat."},{"key":"key\n\t\t\t\t20171011205947_B25","doi-asserted-by":"crossref","first-page":"D508","DOI":"10.1093\/nar\/gks1226","article-title":"D2P2: database of disordered protein predictions","volume":"41","author":"Oates","year":"2013","journal-title":"Nucleic Acids Res."}],"container-title":["Nucleic Acids Research"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/nar\/article-pdf\/43\/D1\/D227\/17435998\/gku1041.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,8,17]],"date-time":"2019-08-17T12:58:34Z","timestamp":1566046714000},"score":1,"resource":{"primary":{"URL":"http:\/\/academic.oup.com\/nar\/article\/43\/D1\/D227\/2435866\/The-SUPERFAMILY-175-database-in-2014-a-doubling-of"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2014,11,20]]},"references-count":25,"journal-issue":{"issue":"D1","published-online":{"date-parts":[[2014,11,20]]},"published-print":{"date-parts":[[2015,1,28]]}},"URL":"https:\/\/doi.org\/10.1093\/nar\/gku1041","relation":{},"ISSN":["1362-4962","0305-1048"],"issn-type":[{"value":"1362-4962","type":"electronic"},{"value":"0305-1048","type":"print"}],"subject":[],"published-other":{"date-parts":[[2015,1,28]]},"published":{"date-parts":[[2014,11,20]]}}}