{"id":"https://openalex.org/W2150306348","doi":"https://doi.org/10.1093/bioinformatics/bti082","title":"PDBML: the representation of archival macromolecular structure data in XML","display_name":"PDBML: the representation of archival macromolecular structure data in XML","publication_year":2004,"publication_date":"2004-10-27","ids":{"openalex":"https://openalex.org/W2150306348","doi":"https://doi.org/10.1093/bioinformatics/bti082","mag":"2150306348","pmid":"https://pubmed.ncbi.nlm.nih.gov/15509603"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bti082","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bti082","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/21/7/988/48967252/bioinformatics_21_7_988.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/21/7/988/48967252/bioinformatics_21_7_988.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5043891987","display_name":"John Westbrook","orcid":"https://orcid.org/0000-0002-6686-5475"},"institutions":[{"id":"https://openalex.org/I102322142","display_name":"Rutgers, The State University of New Jersey","ror":"https://ror.org/05vt9qd57","country_code":"US","type":"education","lineage":["https://openalex.org/I102322142"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"John Westbrook","raw_affiliation_strings":["Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB), Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey 610 Taylor Road, Piscataway, NJ 08854, USA. jwest@rcsb.rutgers.edu","Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB), Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey 610 Taylor Road, Pisca ...#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB), Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey 610 Taylor Road, Piscataway, NJ 08854, USA. jwest@rcsb.rutgers.edu","institution_ids":["https://openalex.org/I102322142"]},{"raw_affiliation_string":"Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB), Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey 610 Taylor Road, Pisca ...#TAB#","institution_ids":["https://openalex.org/I102322142"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101438175","display_name":"Nobutoshi Ito","orcid":"https://orcid.org/0000-0003-0839-0384"},"institutions":[{"id":"https://openalex.org/I125602781","display_name":"Tokyo Medical and Dental University","ror":"https://ror.org/051k3eh31","country_code":"JP","type":"education","lineage":["https://openalex.org/I125602781"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Nobutoshi Ito","raw_affiliation_strings":["Protein Data Bank Japan (PDBj), School of Medical Science, Tokyo Medical and Dental University 1-5-45 Yushima, Bunkyo-ku, Tokyo 113-8510, Japan#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Protein Data Bank Japan (PDBj), School of Medical Science, Tokyo Medical and Dental University 1-5-45 Yushima, Bunkyo-ku, Tokyo 113-8510, Japan#TAB#","institution_ids":["https://openalex.org/I125602781"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035143113","display_name":"Haruki Nakamura","orcid":"https://orcid.org/0000-0001-6690-5863"},"institutions":[{"id":"https://openalex.org/I98285908","display_name":"The University of Osaka","ror":"https://ror.org/035t8zc32","country_code":"JP","type":"education","lineage":["https://openalex.org/I98285908"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Haruki Nakamura","raw_affiliation_strings":["Protein Data Bank Japan (PDBj), Institute for Protein Research, Osaka University 3-2 Yamadaoka, Suita, Osaka 565-0871, Japan#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Protein Data Bank Japan (PDBj), Institute for Protein Research, Osaka University 3-2 Yamadaoka, Suita, Osaka 565-0871, Japan#TAB#","institution_ids":["https://openalex.org/I98285908"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108447954","display_name":"Kim Henrick","orcid":null},"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"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Kim Henrick","raw_affiliation_strings":["EMBL Outstation-The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"EMBL Outstation-The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5071896859","display_name":"Helen M. Berman","orcid":"https://orcid.org/0000-0002-3337-0660"},"institutions":[{"id":"https://openalex.org/I102322142","display_name":"Rutgers, The State University of New Jersey","ror":"https://ror.org/05vt9qd57","country_code":"US","type":"education","lineage":["https://openalex.org/I102322142"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Helen M. Berman","raw_affiliation_strings":["Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB), Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey 610 Taylor Road, Pisca ...#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB), Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey 610 Taylor Road, Pisca ...#TAB#","institution_ids":["https://openalex.org/I102322142"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5043891987"],"corresponding_institution_ids":["https://openalex.org/I102322142"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":3.7121,"has_fulltext":false,"cited_by_count":154,"citation_normalized_percentile":{"value":0.93907956,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"21","issue":"7","first_page":"988","last_page":"992"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9918000102043152,"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":0.9918000102043152,"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/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9897000193595886,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9887999892234802,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/protein-data-bank","display_name":"Protein Data Bank (RCSB PDB)","score":0.9163627624511719},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7271683216094971},{"id":"https://openalex.org/keywords/protein-data-bank","display_name":"Protein Data Bank","score":0.6173959374427795},{"id":"https://openalex.org/keywords/efficient-xml-interchange","display_name":"Efficient XML Interchange","score":0.5641969442367554},{"id":"https://openalex.org/keywords/xml","display_name":"XML","score":0.5481224656105042},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.5385357737541199},{"id":"https://openalex.org/keywords/xml-schema","display_name":"XML Schema (W3C)","score":0.5153290629386902},{"id":"https://openalex.org/keywords/xml-validation","display_name":"XML validation","score":0.5032119154930115},{"id":"https://openalex.org/keywords/streaming-xml","display_name":"Streaming XML","score":0.4850160777568817},{"id":"https://openalex.org/keywords/xml-schema-editor","display_name":"XML Schema Editor","score":0.43615809082984924},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.4332329034805298},{"id":"https://openalex.org/keywords/data-exchange","display_name":"Data exchange","score":0.42578545212745667},{"id":"https://openalex.org/keywords/xml-framework","display_name":"XML framework","score":0.42137300968170166},{"id":"https://openalex.org/keywords/metadata","display_name":"Metadata","score":0.4166552424430847},{"id":"https://openalex.org/keywords/document-structure-description","display_name":"Document Structure Description","score":0.4113766551017761},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3063150644302368},{"id":"https://openalex.org/keywords/xml-encryption","display_name":"XML Encryption","score":0.29891330003738403},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.09953901171684265}],"concepts":[{"id":"https://openalex.org/C65556437","wikidata":"https://www.wikidata.org/wiki/Q766195","display_name":"Protein Data Bank (RCSB PDB)","level":2,"score":0.9163627624511719},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7271683216094971},{"id":"https://openalex.org/C119145174","wikidata":"https://www.wikidata.org/wiki/Q7251429","display_name":"Protein Data Bank","level":3,"score":0.6173959374427795},{"id":"https://openalex.org/C11508877","wikidata":"https://www.wikidata.org/wiki/Q1124477","display_name":"Efficient XML Interchange","level":3,"score":0.5641969442367554},{"id":"https://openalex.org/C8797682","wikidata":"https://www.wikidata.org/wiki/Q2115","display_name":"XML","level":2,"score":0.5481224656105042},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.5385357737541199},{"id":"https://openalex.org/C40713593","wikidata":"https://www.wikidata.org/wiki/Q16342","display_name":"XML Schema (W3C)","level":5,"score":0.5153290629386902},{"id":"https://openalex.org/C55348073","wikidata":"https://www.wikidata.org/wiki/Q595926","display_name":"XML validation","level":3,"score":0.5032119154930115},{"id":"https://openalex.org/C44883583","wikidata":"https://www.wikidata.org/wiki/Q7622687","display_name":"Streaming XML","level":3,"score":0.4850160777568817},{"id":"https://openalex.org/C34716815","wikidata":"https://www.wikidata.org/wiki/Q8042322","display_name":"XML Schema Editor","level":3,"score":0.43615809082984924},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.4332329034805298},{"id":"https://openalex.org/C15845906","wikidata":"https://www.wikidata.org/wiki/Q1172338","display_name":"Data exchange","level":2,"score":0.42578545212745667},{"id":"https://openalex.org/C21761406","wikidata":"https://www.wikidata.org/wiki/Q8042330","display_name":"XML framework","level":3,"score":0.42137300968170166},{"id":"https://openalex.org/C93518851","wikidata":"https://www.wikidata.org/wiki/Q180160","display_name":"Metadata","level":2,"score":0.4166552424430847},{"id":"https://openalex.org/C68699486","wikidata":"https://www.wikidata.org/wiki/Q265904","display_name":"Document Structure Description","level":3,"score":0.4113766551017761},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3063150644302368},{"id":"https://openalex.org/C173242113","wikidata":"https://www.wikidata.org/wiki/Q607488","display_name":"XML Encryption","level":4,"score":0.29891330003738403},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.09953901171684265},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","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":"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":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D046912","descriptor_name":"Multiprotein Complexes","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D046912","descriptor_name":"Multiprotein Complexes","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D046912","descriptor_name":"Multiprotein Complexes","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D046912","descriptor_name":"Multiprotein Complexes","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D046912","descriptor_name":"Multiprotein Complexes","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D046912","descriptor_name":"Multiprotein Complexes","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D046912","descriptor_name":"Multiprotein Complexes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D046912","descriptor_name":"Multiprotein Complexes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D046912","descriptor_name":"Multiprotein Complexes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/bti082","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bti082","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/21/7/988/48967252/bioinformatics_21_7_988.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:15509603","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15509603","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:alma.01RUT_INST:11665137470004646","is_oa":false,"landing_page_url":"https://scholarship.libraries.rutgers.edu/esploro/outputs/journalArticle/PDBML-the-representation-of-archival-macromolecular/991031665793004646","pdf_url":null,"source":{"id":"https://openalex.org/S4210197018","display_name":"View","issn_l":"2688-268X","issn":["2688-268X","2688-3988"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bti082","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bti082","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/21/7/988/48967252/bioinformatics_21_7_988.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","score":0.5799999833106995,"id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2150306348.pdf"},"referenced_works_count":11,"referenced_works":["https://openalex.org/W85390549","https://openalex.org/W1510498331","https://openalex.org/W1533059251","https://openalex.org/W1759488877","https://openalex.org/W1910105166","https://openalex.org/W1966041739","https://openalex.org/W1995808589","https://openalex.org/W2070942956","https://openalex.org/W2119087770","https://openalex.org/W2130479394","https://openalex.org/W2150852650"],"related_works":["https://openalex.org/W4240797336","https://openalex.org/W2073114375","https://openalex.org/W2184732669","https://openalex.org/W1974050667","https://openalex.org/W2109384629","https://openalex.org/W2007757916","https://openalex.org/W2047342127","https://openalex.org/W1586320753","https://openalex.org/W2752365879","https://openalex.org/W2385975321"],"abstract_inverted_index":{"Abstract":[0],"Summary:":[1],"The":[2,28,47,73],"Protein":[3],"Data":[4],"Bank":[5],"(PDB)":[6],"has":[7],"recently":[8],"released":[9],"versions":[10],"of":[11,31,66],"the":[12,17,38,45,50,54,63,86,98],"PDB":[13,18,51,67,87,99],"Exchange":[14],"dictionary":[15,40,52],"and":[16,53,69,84],"archival":[19],"data":[20,39,70],"files":[21,34,94],"in":[22,42],"XML":[23,33,55,64,77],"format":[24],"collectively":[25],"named":[26],"PDBML.":[27],"automated":[29],"generation":[30],"these":[32],"is":[35,80],"driven":[36],"by":[37],"infrastructure":[41],"use":[43],"at":[44,82,91,103],"PDB.":[46],"correspondences":[48],"between":[49],"schema":[56,78],"metadata":[57],"are":[58,95],"described":[59],"as":[60,62],"well":[61],"representations":[65],"dictionaries":[68],"files.":[71],"Availability:":[72],"current":[74],"software":[75],"translated":[76],"file":[79],"located":[81],"http://deposit.pdb.org/pdbML/pdbx-v1.000.xsd,":[83],"on":[85,97],"mmCIF":[88],"resource":[89],"page":[90],"http://deposit.pdb.org/mmcif/.":[92],"PDBML":[93],"stored":[96],"beta":[100],"ftp":[101],"site":[102],"ftp://beta.rcsb.org/pub/pdb/uniformity/data/XML":[104],"Contact:":[105],"jwest@rcsb.rutgers.edu":[106]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":6},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":10},{"year":2017,"cited_by_count":7},{"year":2016,"cited_by_count":11},{"year":2015,"cited_by_count":6},{"year":2014,"cited_by_count":5},{"year":2013,"cited_by_count":13},{"year":2012,"cited_by_count":10}],"updated_date":"2026-06-15T08:34:33.830935","created_date":"2025-10-10T00:00:00"}
