{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,18]],"date-time":"2026-06-18T08:21:28Z","timestamp":1781770888280,"version":"3.54.5"},"reference-count":35,"publisher":"Oxford University Press (OUP)","issue":"D1","license":[{"start":{"date-parts":[[2020,11,19]],"date-time":"2020-11-19T00:00:00Z","timestamp":1605744000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"German Federal Ministry of Education and Research","award":["031A539D"],"award-info":[{"award-number":["031A539D"]}]},{"name":"German Federal Ministry of Education and Research","award":["031L0078E"],"award-info":[{"award-number":["031L0078E"]}]},{"name":"German Federal Ministry of Education and Research","award":["031L0078G"],"award-info":[{"award-number":["031L0078G"]}]},{"name":"German Federal Ministry of Education and Research","award":["01KX1235"],"award-info":[{"award-number":["01KX1235"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,1,8]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>The BRENDA enzyme database (https:\/\/www.brenda-enzymes.org), established in 1987, has evolved into the main collection of functional enzyme and metabolism data. In 2018, BRENDA was selected as an ELIXIR Core Data Resource. BRENDA provides reliable data, continuous curation and updates of classified enzymes, and the integration of newly discovered enzymes. The main part contains &amp;gt;5 million data for \u223c90 000 enzymes from \u223c13 000 organisms, manually extracted from \u223c157 000 primary literature references, combined with information of text and data mining, data integration, and prediction algorithms. Supplements comprise disease-related data, protein sequences, 3D structures, genome annotations, ligand information, taxonomic, bibliographic, and kinetic data. BRENDA offers an easy access to enzyme information from quick to advanced searches, text- and structured-based queries for enzyme-ligand interactions, word maps, and visualization of enzyme data. The BRENDA Pathway Maps are completely revised and updated for an enhanced interactive and intuitive usability. The new design of the Enzyme Summary Page provides an improved access to each individual enzyme. A new protein structure 3D viewer was integrated. The prediction of the intracellular localization of eukaryotic enzymes has been implemented. The new EnzymeDetector combines BRENDA enzyme annotations with protein and genome databases for the detection of eukaryotic and prokaryotic enzymes.<\/jats:p>","DOI":"10.1093\/nar\/gkaa1025","type":"journal-article","created":{"date-parts":[[2020,10,26]],"date-time":"2020-10-26T16:47:49Z","timestamp":1603730869000},"page":"D498-D508","source":"Crossref","is-referenced-by-count":759,"title":["BRENDA, the ELIXIR core data resource in 2021: new developments and updates"],"prefix":"10.1093","volume":"49","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2176-8751","authenticated-orcid":false,"given":"Antje","family":"Chang","sequence":"first","affiliation":[{"name":"Technische Universit\u00e4t Braunschweig, Braunschweig Integrated Centre of Systems Biology (BRICS), Rebenring 56, 38106 Braunschweig, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lisa","family":"Jeske","sequence":"additional","affiliation":[{"name":"Technische Universit\u00e4t Braunschweig, Braunschweig Integrated Centre of Systems Biology (BRICS), Rebenring 56, 38106 Braunschweig, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sandra","family":"Ulbrich","sequence":"additional","affiliation":[{"name":"Technische Universit\u00e4t Braunschweig, Braunschweig Integrated Centre of Systems Biology (BRICS), Rebenring 56, 38106 Braunschweig, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Julia","family":"Hofmann","sequence":"additional","affiliation":[{"name":"Technische Universit\u00e4t Braunschweig, Braunschweig Integrated Centre of Systems Biology (BRICS), Rebenring 56, 38106 Braunschweig, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Julia","family":"Koblitz","sequence":"additional","affiliation":[{"name":"Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstrasse 7 B, 38124 Braunschweig, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ida","family":"Schomburg","sequence":"additional","affiliation":[{"name":"Technische Universit\u00e4t Braunschweig, Braunschweig Integrated Centre of Systems Biology (BRICS), Rebenring 56, 38106 Braunschweig, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Meina","family":"Neumann-Schaal","sequence":"additional","affiliation":[{"name":"Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstrasse 7 B, 38124 Braunschweig, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dieter","family":"Jahn","sequence":"additional","affiliation":[{"name":"Technische Universit\u00e4t Braunschweig, Braunschweig Integrated Centre of Systems Biology (BRICS), Rebenring 56, 38106 Braunschweig, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dietmar","family":"Schomburg","sequence":"additional","affiliation":[{"name":"Technische Universit\u00e4t Braunschweig, Braunschweig Integrated Centre of Systems Biology (BRICS), Rebenring 56, 38106 Braunschweig, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2020,11,19]]},"reference":[{"key":"2021010313123096500_B1","volume-title":"Springer Handbook of Enzymes","author":"Schomburg","year":"2001-2009","edition":"2nd edn"},{"key":"2021010313123096500_B2","doi-asserted-by":"crossref","first-page":"D593","DOI":"10.1093\/nar\/gkn582","article-title":"ExplorEnz: the primary source of the IUBMB enzyme list","volume":"37","author":"McDonald","year":"2009","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B3","doi-asserted-by":"crossref","first-page":"D8","DOI":"10.1093\/nar\/gkx1095","article-title":"Database resources of the National Center for Biotechnology Information","volume":"46","author":"NCBI Resource Coordinators","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B4","doi-asserted-by":"crossref","first-page":"3295","DOI":"10.1186\/1471-2105-12-329","article-title":"Development of a classification scheme for disease-related enzyme information","volume":"12","author":"S\u00f6hngen","year":"2011","journal-title":"BMC Bioinformatics"},{"key":"2021010313123096500_B5","doi-asserted-by":"crossref","first-page":"764","DOI":"10.1093\/nar\/gks1049","article-title":"BRENDA in 2013: integrated reactions, kinetic data, enzyme function data, improved disease classification: New options and contents in BRENDA","volume":"41","author":"Schomburg","year":"2013","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B6","doi-asserted-by":"crossref","first-page":"588","DOI":"10.1093\/nar\/gkn820","article-title":"BRENDA, AMENDA and FRENDA the enzyme information system: new content and tools in 2009","volume":"37","author":"Chang","year":"2009","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B7","doi-asserted-by":"crossref","first-page":"D507","DOI":"10.1093\/nar\/gkq968","article-title":"The BRENDA Tissue Ontology (BTO): the first all-integrating ontology of all organisms for enzyme source","volume":"39","author":"Gremse","year":"2011","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B8","first-page":"526","article-title":"Integration of genomic and medical data into a 3D atlas of human anatomy","volume":"132","author":"Turinsky","year":"2008","journal-title":"Stud. Health Technol. Inform."},{"key":"2021010313123096500_B9","doi-asserted-by":"crossref","first-page":"D439","DOI":"10.1093\/nar\/gku1068","article-title":"BRENDA in 2015: exciting developments in its 25th year of existence","volume":"43","author":"Chang","year":"2015","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B10","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/2041-1480-4-20","article-title":"The Gene Ontology (GO) Cellular Component Ontology: Integration with SAO (Subcellular Anatomy Ontology) and other recent developments","volume":"4","author":"Roncaglia","year":"2013","journal-title":"J. Biomed. Semantics"},{"key":"2021010313123096500_B11","doi-asserted-by":"crossref","first-page":"D136","DOI":"10.1093\/nar\/gkr1178","article-title":"The NCBI Taxonomy database","volume":"40","author":"Federhen","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B12","doi-asserted-by":"crossref","first-page":"348","DOI":"10.1016\/j.jmb.2016.11.023","article-title":"SCOPe: manual curation and artifact removal in the structural classification of proteins - extended database","volume":"429","author":"Chandonia","year":"2017","journal-title":"J. Mol. Biol."},{"key":"2021010313123096500_B13","doi-asserted-by":"crossref","first-page":"D376","DOI":"10.1093\/nar\/gku947","article-title":"CATH: comprehensive structural and functional annotations for genome sequences","volume":"43","author":"Sillitoe","year":"2015","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B14","doi-asserted-by":"crossref","first-page":"D353","DOI":"10.1093\/nar\/gkw1092","article-title":"KEGG: new perspectives on genomes, pathways, diseases and drugs","volume":"45","author":"Kanehisa","year":"2017","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B15","doi-asserted-by":"crossref","first-page":"D633","DOI":"10.1093\/nar\/gkx935","article-title":"The MetaCyc database of metabolic pathways and enzymes","volume":"46","author":"Caspi","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B16","doi-asserted-by":"crossref","first-page":"790","DOI":"10.1093\/nar\/gkr1046","article-title":"SABIO-RK - database for biochemical reaction kinetics","volume":"40","author":"Wittig","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B17","doi-asserted-by":"crossref","first-page":"D506","DOI":"10.1093\/nar\/gky1049","article-title":"UniProt: a worldwide hub of protein knowledge","volume":"47","author":"The UniProt Consortium","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B18","doi-asserted-by":"crossref","first-page":"D464","DOI":"10.1093\/nar\/gky1004","article-title":"RCSB Protein Data Bank: biological macromolecular structures enabling research and education in fundamental biology, biomedicine, biotechnology and energy","volume":"47","author":"Burley","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B19","doi-asserted-by":"crossref","first-page":"D581","DOI":"10.1093\/nar\/gkv983","article-title":"BacDive - the bacterial diversity metadatabase in 2016","volume":"44","author":"S\u00f6hngen","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B20","first-page":"164","article-title":"Medical subject headings in medlars","volume":"52","author":"Sewell","year":"1964","journal-title":"Bull. Med. Libr. Assoc."},{"key":"2021010313123096500_B21","doi-asserted-by":"crossref","first-page":"D542","DOI":"10.1093\/nar\/gky1048","article-title":"BRENDA in 2019: a European ELIXIR core data resource","volume":"47","author":"Jeske","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B22","doi-asserted-by":"crossref","first-page":"2636","DOI":"10.1093\/bioinformatics\/btz959","article-title":"The ELIXIR Core Data Resource: fundamental infrastructure for the life sciences","volume":"36","author":"Drysdale","year":"2020","journal-title":"Bioinformatics"},{"key":"2021010313123096500_B23","doi-asserted-by":"crossref","first-page":"D380","DOI":"10.1093\/nar\/gkw952","article-title":"BRENDA in 2017: new perspectives and new tools in BRENDA","volume":"45","author":"Placzek","year":"2017","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B24","first-page":"175","article-title":"A hidden Markov model for predicting trans-membrane helices in protein sequences","volume-title":"Proceedings of the Sixth International Conference on Intelligent Systems for Molecular Biology","author":"Sonnhammer","year":"1998"},{"key":"2021010313123096500_B25","doi-asserted-by":"crossref","first-page":"1005","DOI":"10.1006\/jmbi.2000.3903","article-title":"Predicting subcellular localization of proteins based on their N-terminal amino acid sequence","volume":"300","author":"Emanuelsson","year":"2000","journal-title":"J. Mol. Biol."},{"key":"2021010313123096500_B26","volume-title":"JSmol: an Open-Source Javascript Viewer for Chemical Structures in 3D","author":"JSmol","year":"2020"},{"key":"2021010313123096500_B27","first-page":"D271","article-title":"The RCSB protein data bank: Integrative view of protein, gene and 3D structural information","volume":"45","author":"Rose","year":"2017","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B28","doi-asserted-by":"crossref","first-page":"2498","DOI":"10.1101\/gr.1239303","article-title":"Cytoscape: a software environment for integrated models of biomolecular interaction networks","volume":"11","author":"Shannon","year":"2003","journal-title":"Genome Res."},{"key":"2021010313123096500_B29","doi-asserted-by":"crossref","first-page":"D733","DOI":"10.1093\/nar\/gkv1189","article-title":"Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation","volume":"44","author":"O\u2019Leary","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B30","doi-asserted-by":"crossref","first-page":"403","DOI":"10.1016\/S0022-2836(05)80360-2","article-title":"Basic local alignment search tool","volume":"21","author":"Altschul","year":"1990","journal-title":"J. Mol. Biol."},{"key":"2021010313123096500_B31","doi-asserted-by":"crossref","first-page":"e0182216","DOI":"10.1371\/journal.pone.0182216","article-title":"BrEPS 2.0: optimization of sequence pattern prediction for enzyme annotation","volume":"12","author":"Dudek","year":"2017","journal-title":"PLoS One"},{"key":"2021010313123096500_B32","doi-asserted-by":"crossref","first-page":"D535","DOI":"10.1093\/nar\/gkw1017","article-title":"Improvements to PATRIC, the all-bacterial bioinformatics database and analysis resource center","volume":"45","author":"Wattam","year":"2017","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B33","doi-asserted-by":"crossref","first-page":"245","DOI":"10.1093\/protein\/gzx008","article-title":"An update on the enzyme portal: an integrative approach for exploring enzyme knowledge","volume":"30","author":"Pundir","year":"2017","journal-title":"Protein Eng. Des. Sel.: PEDS"},{"key":"2021010313123096500_B34","doi-asserted-by":"crossref","first-page":"D351","DOI":"10.1093\/nar\/gky1100","article-title":"InterPro in 2019: improving coverage, classification and access to protein sequence annotations","volume":"47","author":"Mitchell","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"2021010313123096500_B35","doi-asserted-by":"crossref","first-page":"33","DOI":"10.1186\/1752-0509-7-33","article-title":"A metabolite-centric view on flux distributions in genome-scale metabolic models","volume":"7","author":"Riemer","year":"2013","journal-title":"BMC Syst. Biol."}],"container-title":["Nucleic Acids Research"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/nar\/article-pdf\/49\/D1\/D498\/35364686\/gkaa1025.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"http:\/\/academic.oup.com\/nar\/article-pdf\/49\/D1\/D498\/35364686\/gkaa1025.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,1,3]],"date-time":"2021-01-03T13:15:59Z","timestamp":1609679759000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/nar\/article\/49\/D1\/D498\/5992283"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2020,11,19]]},"references-count":35,"journal-issue":{"issue":"D1","published-online":{"date-parts":[[2020,11,19]]},"published-print":{"date-parts":[[2021,1,8]]}},"URL":"https:\/\/doi.org\/10.1093\/nar\/gkaa1025","relation":{"is-referenced-by":[{"id-type":"doi","id":"10.7554\/eLife.72884","asserted-by":"object"}]},"ISSN":["0305-1048","1362-4962"],"issn-type":[{"value":"0305-1048","type":"print"},{"value":"1362-4962","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2021,1,8]]},"published":{"date-parts":[[2020,11,19]]}}}