{"id":"https://openalex.org/W2983485154","doi":"https://doi.org/10.1093/nar/gkz967","title":"Genome3D: integrating a collaborative data pipeline to expand the depth and breadth of consensus protein structure annotation","display_name":"Genome3D: integrating a collaborative data pipeline to expand the depth and breadth of consensus protein structure annotation","publication_year":2019,"publication_date":"2019-11-07","ids":{"openalex":"https://openalex.org/W2983485154","doi":"https://doi.org/10.1093/nar/gkz967","mag":"2983485154","pmid":"https://pubmed.ncbi.nlm.nih.gov/31733063"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkz967","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkz967","pdf_url":null,"source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1093/nar/gkz967","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5036351252","display_name":"Ian Sillitoe","orcid":"https://orcid.org/0000-0003-1091-9144"},"institutions":[{"id":"https://openalex.org/I4210157240","display_name":"Institute of Structural and Molecular Biology","ror":"https://ror.org/05wsetc54","country_code":"GB","type":"facility","lineage":["https://openalex.org/I124357947","https://openalex.org/I124357947","https://openalex.org/I4210157240","https://openalex.org/I45129253","https://openalex.org/I98259816"]},{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Ian Sillitoe","raw_affiliation_strings":["Institute of Structural and Molecular Biology, UCL, Gower Street, London WC1E 6BT, UK"],"affiliations":[{"raw_affiliation_string":"Institute of Structural and Molecular Biology, UCL, Gower Street, London WC1E 6BT, UK","institution_ids":["https://openalex.org/I4210157240","https://openalex.org/I45129253"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003886572","display_name":"Antonina Andreeva","orcid":"https://orcid.org/0000-0002-0450-0091"},"institutions":[{"id":"https://openalex.org/I170203145","display_name":"MRC Laboratory of Molecular Biology","ror":"https://ror.org/00tw3jy02","country_code":"GB","type":"facility","lineage":["https://openalex.org/I170203145","https://openalex.org/I4210087105","https://openalex.org/I90344618"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Antonina Andreeva","raw_affiliation_strings":["MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK"],"affiliations":[{"raw_affiliation_string":"MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK","institution_ids":["https://openalex.org/I170203145"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001029093","display_name":"Tom L. Blundell","orcid":"https://orcid.org/0000-0002-2708-8992"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Tom L Blundell","raw_affiliation_strings":["Department of Biochemistry, University of Cambridge, Old Addenbrooke\u2019s Site, 80 Tennis Court Road, Cambridge CB2 0QH, UK","Department of Biochemistry, University of Cambridge, Old Addenbrooke's Site, 80 Tennis Court Road, Cambridge CB2 0QH, UK"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry, University of Cambridge, Old Addenbrooke\u2019s Site, 80 Tennis Court Road, Cambridge CB2 0QH, UK","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"Department of Biochemistry, University of Cambridge, Old Addenbrooke's Site, 80 Tennis Court Road, Cambridge CB2 0QH, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087098726","display_name":"Daniel Buchan","orcid":"https://orcid.org/0000-0001-7391-4696"},"institutions":[{"id":"https://openalex.org/I2801081054","display_name":"The Francis Crick Institute","ror":"https://ror.org/04tnbqb63","country_code":"GB","type":"facility","lineage":["https://openalex.org/I2801081054"]},{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Daniel W A Buchan","raw_affiliation_strings":["Department of Computer Science, UCL, Gower Street, London WC1E 6BT, UK","The Francis Crick Institute, 1 Midland Rd, London NW1 1AT, UK"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, UCL, Gower Street, London WC1E 6BT, UK","institution_ids":["https://openalex.org/I45129253"]},{"raw_affiliation_string":"The Francis Crick Institute, 1 Midland Rd, London NW1 1AT, UK","institution_ids":["https://openalex.org/I2801081054"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5104045098","display_name":"ROBERT FINN","orcid":"https://orcid.org/0000-0001-8626-2148"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I87048295","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I87048295"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Robert D Finn","raw_affiliation_strings":["European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK"],"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064008781","display_name":"Julian Gough","orcid":null},"institutions":[{"id":"https://openalex.org/I170203145","display_name":"MRC Laboratory of Molecular Biology","ror":"https://ror.org/00tw3jy02","country_code":"GB","type":"facility","lineage":["https://openalex.org/I170203145","https://openalex.org/I4210087105","https://openalex.org/I90344618"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Julian Gough","raw_affiliation_strings":["MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK"],"affiliations":[{"raw_affiliation_string":"MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK","institution_ids":["https://openalex.org/I170203145"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068654082","display_name":"David T. Jones","orcid":"https://orcid.org/0000-0001-8626-3765"},"institutions":[{"id":"https://openalex.org/I2801081054","display_name":"The Francis Crick Institute","ror":"https://ror.org/04tnbqb63","country_code":"GB","type":"facility","lineage":["https://openalex.org/I2801081054"]},{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"David Jones","raw_affiliation_strings":["Department of Computer Science, UCL, Gower Street, London WC1E 6BT, UK","The Francis Crick Institute, 1 Midland Rd, London NW1 1AT, UK"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, UCL, Gower Street, London WC1E 6BT, UK","institution_ids":["https://openalex.org/I45129253"]},{"raw_affiliation_string":"The Francis Crick Institute, 1 Midland Rd, London NW1 1AT, UK","institution_ids":["https://openalex.org/I2801081054"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000287650","display_name":"Lawrence A. Kelley","orcid":"https://orcid.org/0000-0002-3210-2656"},"institutions":[{"id":"https://openalex.org/I47508984","display_name":"Imperial College London","ror":"https://ror.org/041kmwe10","country_code":"GB","type":"education","lineage":["https://openalex.org/I47508984"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Lawrence A Kelley","raw_affiliation_strings":["Centre for Bioinformatics, Department of Life Sciences, Imperial College London, London, SW7 2AZ, UK"],"affiliations":[{"raw_affiliation_string":"Centre for Bioinformatics, Department of Life Sciences, Imperial College London, London, SW7 2AZ, UK","institution_ids":["https://openalex.org/I47508984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007486142","display_name":"Typhaine Paysan\u2010Lafosse","orcid":"https://orcid.org/0000-0001-5663-0894"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I87048295","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I87048295"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Typhaine Paysan-Lafosse","raw_affiliation_strings":["European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK"],"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091080633","display_name":"Su Datt Lam","orcid":"https://orcid.org/0000-0003-4772-7656"},"institutions":[{"id":"https://openalex.org/I4210157240","display_name":"Institute of Structural and Molecular Biology","ror":"https://ror.org/05wsetc54","country_code":"GB","type":"facility","lineage":["https://openalex.org/I124357947","https://openalex.org/I124357947","https://openalex.org/I4210157240","https://openalex.org/I45129253","https://openalex.org/I98259816"]},{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]},{"id":"https://openalex.org/I885383172","display_name":"National University of Malaysia","ror":"https://ror.org/00bw8d226","country_code":"MY","type":"education","lineage":["https://openalex.org/I885383172"]}],"countries":["GB","MY"],"is_corresponding":false,"raw_author_name":"Su Datt Lam","raw_affiliation_strings":["Faculty of Science and Technology, Universiti Kebangsaan Malaysia, Bangi, Selangor 43600, Malaysia","Institute of Structural and Molecular Biology, UCL, Gower Street, London WC1E 6BT, UK"],"affiliations":[{"raw_affiliation_string":"Faculty of Science and Technology, Universiti Kebangsaan Malaysia, Bangi, Selangor 43600, Malaysia","institution_ids":["https://openalex.org/I885383172"]},{"raw_affiliation_string":"Institute of Structural and Molecular Biology, UCL, Gower Street, London WC1E 6BT, UK","institution_ids":["https://openalex.org/I4210157240","https://openalex.org/I45129253"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025834882","display_name":"Alexey G. Murzin","orcid":null},"institutions":[{"id":"https://openalex.org/I170203145","display_name":"MRC Laboratory of Molecular Biology","ror":"https://ror.org/00tw3jy02","country_code":"GB","type":"facility","lineage":["https://openalex.org/I170203145","https://openalex.org/I4210087105","https://openalex.org/I90344618"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Alexey G Murzin","raw_affiliation_strings":["MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK"],"affiliations":[{"raw_affiliation_string":"MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK","institution_ids":["https://openalex.org/I170203145"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031310983","display_name":"Arun Prasad Pandurangan","orcid":"https://orcid.org/0000-0001-7168-7143"},"institutions":[{"id":"https://openalex.org/I170203145","display_name":"MRC Laboratory of Molecular Biology","ror":"https://ror.org/00tw3jy02","country_code":"GB","type":"facility","lineage":["https://openalex.org/I170203145","https://openalex.org/I4210087105","https://openalex.org/I90344618"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Arun Prasad Pandurangan","raw_affiliation_strings":["MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK"],"affiliations":[{"raw_affiliation_string":"MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK","institution_ids":["https://openalex.org/I170203145"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019704465","display_name":"Gustavo A Salazar","orcid":"https://orcid.org/0000-0001-9208-4966"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I87048295","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I87048295"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Gustavo A Salazar","raw_affiliation_strings":["European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK"],"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057759361","display_name":"Marcin J. Skwark","orcid":"https://orcid.org/0000-0002-2022-6766"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Marcin J Skwark","raw_affiliation_strings":["Department of Biochemistry, University of Cambridge, Old Addenbrooke\u2019s Site, 80 Tennis Court Road, Cambridge CB2 0QH, UK","Department of Biochemistry, University of Cambridge, Old Addenbrooke's Site, 80 Tennis Court Road, Cambridge CB2 0QH, UK"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry, University of Cambridge, Old Addenbrooke\u2019s Site, 80 Tennis Court Road, Cambridge CB2 0QH, UK","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"Department of Biochemistry, University of Cambridge, Old Addenbrooke's Site, 80 Tennis Court Road, Cambridge CB2 0QH, UK","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023619547","display_name":"Michael J.E. Sternberg","orcid":"https://orcid.org/0000-0002-1884-5445"},"institutions":[{"id":"https://openalex.org/I47508984","display_name":"Imperial College London","ror":"https://ror.org/041kmwe10","country_code":"GB","type":"education","lineage":["https://openalex.org/I47508984"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Michael J E Sternberg","raw_affiliation_strings":["Centre for Bioinformatics, Department of Life Sciences, Imperial College London, London, SW7 2AZ, UK"],"affiliations":[{"raw_affiliation_string":"Centre for Bioinformatics, Department of Life Sciences, Imperial College London, London, SW7 2AZ, UK","institution_ids":["https://openalex.org/I47508984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042460017","display_name":"Sameer Velankar","orcid":"https://orcid.org/0000-0002-8439-5964"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I87048295","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I87048295"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Sameer Velankar","raw_affiliation_strings":["European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK"],"affiliations":[{"raw_affiliation_string":"European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I87048295"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5081250379","display_name":"Christine Orengo","orcid":null},"institutions":[{"id":"https://openalex.org/I4210157240","display_name":"Institute of Structural and Molecular Biology","ror":"https://ror.org/05wsetc54","country_code":"GB","type":"facility","lineage":["https://openalex.org/I124357947","https://openalex.org/I124357947","https://openalex.org/I4210157240","https://openalex.org/I45129253","https://openalex.org/I98259816"]},{"id":"https://openalex.org/I45129253","display_name":"University College London","ror":"https://ror.org/02jx3x895","country_code":"GB","type":"education","lineage":["https://openalex.org/I124357947","https://openalex.org/I45129253"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Christine Orengo","raw_affiliation_strings":["Institute of Structural and Molecular Biology, UCL, Gower Street, London WC1E 6BT, UK"],"affiliations":[{"raw_affiliation_string":"Institute of Structural and Molecular Biology, UCL, Gower Street, London WC1E 6BT, UK","institution_ids":["https://openalex.org/I4210157240","https://openalex.org/I45129253"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":17,"corresponding_author_ids":["https://openalex.org/A5036351252"],"corresponding_institution_ids":["https://openalex.org/I4210157240","https://openalex.org/I45129253"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":1.0307,"has_fulltext":false,"cited_by_count":14,"citation_normalized_percentile":{"value":0.76545256,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"48","issue":"D1","first_page":"D314","last_page":"D319"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9980000257492065,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11162","display_name":"Enzyme Structure and Function","score":0.9950000047683716,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/uniprot","display_name":"UniProt","score":0.8377190828323364},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.8024855852127075},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.7356868982315063},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.6115872263908386},{"id":"https://openalex.org/keywords/resource","display_name":"Resource (disambiguation)","score":0.5366999506950378},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5311744809150696},{"id":"https://openalex.org/keywords/proteome","display_name":"Proteome","score":0.47068339586257935},{"id":"https://openalex.org/keywords/protocol","display_name":"Protocol (science)","score":0.46693605184555054},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.445973664522171},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4149044156074524},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3997391164302826},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.35992729663848877},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.23092013597488403},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.09110710024833679}],"concepts":[{"id":"https://openalex.org/C202264299","wikidata":"https://www.wikidata.org/wiki/Q905695","display_name":"UniProt","level":3,"score":0.8377190828323364},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.8024855852127075},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.7356868982315063},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.6115872263908386},{"id":"https://openalex.org/C206345919","wikidata":"https://www.wikidata.org/wiki/Q20380951","display_name":"Resource (disambiguation)","level":2,"score":0.5366999506950378},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5311744809150696},{"id":"https://openalex.org/C104397665","wikidata":"https://www.wikidata.org/wiki/Q860947","display_name":"Proteome","level":2,"score":0.47068339586257935},{"id":"https://openalex.org/C2780385302","wikidata":"https://www.wikidata.org/wiki/Q367158","display_name":"Protocol (science)","level":3,"score":0.46693605184555054},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.445973664522171},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4149044156074524},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3997391164302826},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.35992729663848877},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.23092013597488403},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.09110710024833679},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C204787440","wikidata":"https://www.wikidata.org/wiki/Q188504","display_name":"Alternative medicine","level":2,"score":0.0},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":9,"locations":[{"id":"doi:10.1093/nar/gkz967","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkz967","pdf_url":null,"source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:31733063","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31733063","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:figshare.com:article/11688081","is_oa":true,"landing_page_url":null,"pdf_url":"https://figshare.com/articles/Genome3D_integrating_a_collaborative_data_pipeline_to_expand_the_depth_and_breadth_of_consensus_protein_structure_annotation_/11688081","source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:eprints.ucl.ac.uk.OAI2:10087212","is_oa":false,"landing_page_url":"https://discovery.ucl.ac.uk/id/eprint/10087212/","pdf_url":null,"source":{"id":"https://openalex.org/S4306400024","display_name":"UCL Discovery (University College London)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I45129253","host_organization_name":"University College London","host_organization_lineage":["https://openalex.org/I45129253"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"   Nucleic Acids Research       (2019)     (In press).  ","raw_type":"Article"},{"id":"pmh:oai:europepmc.org:6098824","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7139969","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:spiral.imperial.ac.uk:10044/1/75224","is_oa":true,"landing_page_url":"http://hdl.handle.net/10044/1/75224","pdf_url":null,"source":{"id":"https://openalex.org/S4306401396","display_name":"Spiral (Imperial College London)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I47508984","host_organization_name":"Imperial College London","host_organization_lineage":["https://openalex.org/I47508984"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"D319","raw_type":"Journal Article"},{"id":"pmh:oai:www.repository.cam.ac.uk:1810/318687","is_oa":true,"landing_page_url":"https://www.repository.cam.ac.uk/handle/1810/318687","pdf_url":null,"source":{"id":"https://openalex.org/S4306401777","display_name":"Apollo (University of Cambridge)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I241749","host_organization_name":"University of Cambridge","host_organization_lineage":["https://openalex.org/I241749"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Article"},{"id":"doi:10.17863/cam.65804","is_oa":true,"landing_page_url":"https://doi.org/10.17863/cam.65804","pdf_url":null,"source":{"id":"https://openalex.org/S7407050737","display_name":"Apollo","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"},{"id":"doi:10.25418/crick.11688081.v1","is_oa":true,"landing_page_url":"https://doi.org/10.25418/crick.11688081.v1","pdf_url":null,"source":{"id":"https://openalex.org/S7407051354","display_name":"The Francis Crick Institute","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.1093/nar/gkz967","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkz967","pdf_url":null,"source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1571107029","display_name":null,"funder_award_id":"BB/M011712/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G2420487338","display_name":null,"funder_award_id":"BB/K020013/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G2694030226","display_name":null,"funder_award_id":"BB/S016007/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G3579931265","display_name":null,"funder_award_id":"BB/N019431/2","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G3747384881","display_name":"Enhancing the Phyre2 protein modelling portal for the community","funder_award_id":"BB/M011526/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G387813240","display_name":null,"funder_award_id":"BB/M0","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G4161227313","display_name":"Expanding Genome3D and disseminating the structural annotations via InterPro and PDBe","funder_award_id":"BB/N019172/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G4208526110","display_name":null,"funder_award_id":"BB/I024984/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G4241994203","display_name":null,"funder_award_id":"BB/I024917/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G4454833240","display_name":null,"funder_award_id":"RG91317","funder_id":"https://openalex.org/F4320326958","funder_display_name":"Fondation Botnar"},{"id":"https://openalex.org/G4872250844","display_name":null,"funder_award_id":"BB/M011526/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G5395998029","display_name":"SUPERFAMILY","funder_award_id":"BB/N019431/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G6772423914","display_name":null,"funder_award_id":"BB/N019172/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G7478329427","display_name":"Expansion and Further Development of the PSIPRED Protein Structure and Function Bioinformatics Workbench","funder_award_id":"BB/M011712/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G7674564319","display_name":null,"funder_award_id":"BB/S020144/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G8201163633","display_name":null,"funder_award_id":"BB/N019431/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G8904207333","display_name":"An Greatly Expanded CATH-Gene3D with Functional Fingerprints to Characterise Proteins","funder_award_id":"BB/K020013/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320320286","display_name":"University College London","ror":"https://ror.org/02jx3x895"},{"id":"https://openalex.org/F4320326958","display_name":"Fondation Botnar","ror":"https://ror.org/033ztm745"},{"id":"https://openalex.org/F4320332167","display_name":"Directorate for Biological Sciences","ror":"https://ror.org/001xhss06"},{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":17,"referenced_works":["https://openalex.org/W1803102843","https://openalex.org/W1978594833","https://openalex.org/W2004228538","https://openalex.org/W2085277871","https://openalex.org/W2100301244","https://openalex.org/W2109872885","https://openalex.org/W2147645629","https://openalex.org/W2154139219","https://openalex.org/W2558272290","https://openalex.org/W2593184757","https://openalex.org/W2767957539","https://openalex.org/W2770307029","https://openalex.org/W2900359059","https://openalex.org/W2900701906","https://openalex.org/W4210702584","https://openalex.org/W4231925057","https://openalex.org/W4250359879"],"related_works":["https://openalex.org/W2102027645","https://openalex.org/W2107785922","https://openalex.org/W2035528219","https://openalex.org/W2288906059","https://openalex.org/W2402478170","https://openalex.org/W4376862128","https://openalex.org/W4296966554","https://openalex.org/W2946410450","https://openalex.org/W2030530458","https://openalex.org/W2993777277"],"abstract_inverted_index":{"Genome3D":[0,121,136,202,224],"(https://www.genome3d.eu)":[1],"is":[2],"a":[3,18,50,75],"freely":[4],"available":[5,155],"resource":[6,65],"that":[7,196],"provides":[8],"consensus":[9],"structural":[10,61,106],"annotations":[11,39,107,200],"for":[12],"representative":[13],"protein":[14],"sequences":[15,142],"taken":[16],"from":[17,191],"selection":[19],"of":[20,32,77,84,104,112,135,141,160,168,199,223,232],"model":[21],"organisms.":[22],"Since":[23],"the":[24,30,44,64,88,102,132,138,151,172,188,197,207,221,230,234],"last":[25,208],"NAR":[26,209],"update":[27,210],"in":[28,156,201],"2015,":[29],"method":[31],"data":[33,85,225,236],"submission":[34,72,103],"has":[35,147,194,203,215],"been":[36,148,166,217],"overhauled,":[37],"with":[38,185],"now":[40,55],"being":[41,122],"'pushed'":[42],"to":[43,57,90,100,125,171,187,219],"database":[45],"via":[46],"an":[47,109],"API.":[48],"As":[49],"result,":[51],"contributing":[52,192],"groups":[53],"are":[54],"able":[56],"manage":[58],"their":[59],"own":[60],"annotations,":[62],"making":[63],"more":[66],"flexible":[67],"and":[68,86,129,179,237],"maintainable.":[69],"The":[70,212],"new":[71,126,161,213],"protocol":[73],"brings":[74],"number":[76,159,198],"additional":[78],"benefits":[79],"including:":[80],"providing":[81],"instant":[82],"validation":[83],"avoiding":[87],"requirement":[89],"synchronise":[91],"releases":[92],"between":[93],"resources.":[94],"It":[95],"also":[96,165,216],"makes":[97],"it":[98],"possible":[99],"implement":[101],"these":[105,118],"as":[108,144],"automated":[110],"part":[111],"existing":[113],"internal":[114],"workflows.":[115],"In":[116],"turn,":[117],"improvements":[119,186],"facilitate":[120,220],"opened":[123],"up":[124],"prediction":[127,145],"algorithms":[128],"groups.":[130],"For":[131],"latest":[133,152],"release":[134],"(v2.1),":[137],"underlying":[139,189],"dataset":[140],"used":[143,218],"targets":[146],"updated":[149],"using":[150],"reference":[153,162],"proteomes":[154,163],"UniProtKB.":[157],"A":[158],"have":[164],"added":[167],"particular":[169],"interest":[170],"wider":[173],"scientific":[174],"community:":[175],"cow,":[176],"pig,":[177],"wheat":[178],"mycobacterium":[180],"tuberculosis.":[181],"These":[182],"additions,":[183],"along":[184],"predictions":[190],"resources,":[193],"ensured":[195],"nearly":[204],"doubled":[205],"since":[206],"article.":[211],"API":[214],"dissemination":[222],"into":[226],"InterPro,":[227],"thereby":[228],"widening":[229],"visibility":[231],"both":[233],"annotation":[235,238],"algorithms.":[239]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":4}],"updated_date":"2026-04-14T08:04:32.555800","created_date":"2025-10-10T00:00:00"}