{"id":"https://openalex.org/W2157005437","doi":"https://doi.org/10.1093/bioinformatics/btr129","title":"Rigid substructure search","display_name":"Rigid substructure search","publication_year":2011,"publication_date":"2011-04-01","ids":{"openalex":"https://openalex.org/W2157005437","doi":"https://doi.org/10.1093/bioinformatics/btr129","mag":"2157005437","pmid":"https://pubmed.ncbi.nlm.nih.gov/21460026"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btr129","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btr129","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/27/9/1327/48867967/bioinformatics_27_9_1327.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/27/9/1327/48867967/bioinformatics_27_9_1327.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5018082751","display_name":"David Shirvanyants","orcid":null},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]},{"id":"https://openalex.org/I114027177","display_name":"University of North Carolina at Chapel Hill","ror":"https://ror.org/0130frc33","country_code":"US","type":"education","lineage":["https://openalex.org/I114027177"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"David Shirvanyants","raw_affiliation_strings":["1 Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill, NC 27599-7260 and 2Department Chemistry and Biochemistry, University of California at Los Angeles, CA 90095-1569, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill, NC 27599-7260 and 2Department Chemistry and Biochemistry, University of California at Los Angeles, CA 90095-1569, USA","institution_ids":["https://openalex.org/I114027177","https://openalex.org/I161318765"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000151397","display_name":"Anastassia N. Alexandrova","orcid":"https://orcid.org/0000-0002-3003-1911"},"institutions":[{"id":"https://openalex.org/I114027177","display_name":"University of North Carolina at Chapel Hill","ror":"https://ror.org/0130frc33","country_code":"US","type":"education","lineage":["https://openalex.org/I114027177"]},{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Anastassia N. Alexandrova","raw_affiliation_strings":["1 Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill, NC 27599-7260 and 2Department Chemistry and Biochemistry, University of California at Los Angeles, CA 90095-1569, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill, NC 27599-7260 and 2Department Chemistry and Biochemistry, University of California at Los Angeles, CA 90095-1569, USA","institution_ids":["https://openalex.org/I114027177","https://openalex.org/I161318765"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5033490428","display_name":"Nikolay V. Dokholyan","orcid":"https://orcid.org/0000-0002-8225-4025"},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]},{"id":"https://openalex.org/I114027177","display_name":"University of North Carolina at Chapel Hill","ror":"https://ror.org/0130frc33","country_code":"US","type":"education","lineage":["https://openalex.org/I114027177"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nikolay V. Dokholyan","raw_affiliation_strings":["1 Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill, NC 27599-7260 and 2Department Chemistry and Biochemistry, University of California at Los Angeles, CA 90095-1569, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill, NC 27599-7260 and 2Department Chemistry and Biochemistry, University of California at Los Angeles, CA 90095-1569, USA","institution_ids":["https://openalex.org/I114027177","https://openalex.org/I161318765"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5018082751"],"corresponding_institution_ids":["https://openalex.org/I114027177","https://openalex.org/I161318765"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":2.9082,"has_fulltext":true,"cited_by_count":32,"citation_normalized_percentile":{"value":0.91206701,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"27","issue":"9","first_page":"1327","last_page":"1329"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9991000294685364,"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/T10908","display_name":"Analytical Chemistry and Chromatography","score":0.9944000244140625,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/substructure","display_name":"Substructure","score":0.9221926927566528},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5214085578918457},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.497639924287796},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.4694608747959137},{"id":"https://openalex.org/keywords/variance","display_name":"Variance (accounting)","score":0.4682669937610626},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.44092434644699097},{"id":"https://openalex.org/keywords/range","display_name":"Range (aeronautics)","score":0.4408533573150635},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.37141335010528564},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.36652839183807373},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3633084297180176},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3380523920059204},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.33060288429260254},{"id":"https://openalex.org/keywords/materials-science","display_name":"Materials science","score":0.22667211294174194},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.16086268424987793},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.13984179496765137},{"id":"https://openalex.org/keywords/structural-engineering","display_name":"Structural engineering","score":0.09925311803817749}],"concepts":[{"id":"https://openalex.org/C99679407","wikidata":"https://www.wikidata.org/wiki/Q56761637","display_name":"Substructure","level":2,"score":0.9221926927566528},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5214085578918457},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.497639924287796},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.4694608747959137},{"id":"https://openalex.org/C196083921","wikidata":"https://www.wikidata.org/wiki/Q7915758","display_name":"Variance (accounting)","level":2,"score":0.4682669937610626},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.44092434644699097},{"id":"https://openalex.org/C204323151","wikidata":"https://www.wikidata.org/wiki/Q905424","display_name":"Range (aeronautics)","level":2,"score":0.4408533573150635},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.37141335010528564},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.36652839183807373},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3633084297180176},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3380523920059204},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.33060288429260254},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.22667211294174194},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.16086268424987793},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.13984179496765137},{"id":"https://openalex.org/C66938386","wikidata":"https://www.wikidata.org/wiki/Q633538","display_name":"Structural engineering","level":1,"score":0.09925311803817749},{"id":"https://openalex.org/C121955636","wikidata":"https://www.wikidata.org/wiki/Q4116214","display_name":"Accounting","level":1,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C159985019","wikidata":"https://www.wikidata.org/wiki/Q181790","display_name":"Composite material","level":1,"score":0.0},{"id":"https://openalex.org/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"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":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","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":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btr129","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btr129","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/27/9/1327/48867967/bioinformatics_27_9_1327.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:21460026","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21460026","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:pubmedcentral.nih.gov:3138080","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3138080","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btr129","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btr129","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/27/9/1327/48867967/bioinformatics_27_9_1327.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":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.4399999976158142}],"awards":[{"id":"https://openalex.org/G2773311527","display_name":null,"funder_award_id":"GM066940-06S1","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3611247453","display_name":null,"funder_award_id":"R01GM","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5609243208","display_name":null,"funder_award_id":"R01GM080742","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7769797363","display_name":null,"funder_award_id":"GM080742","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8410997315","display_name":null,"funder_award_id":"GM080742-03S1","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2157005437.pdf","grobid_xml":"https://content.openalex.org/works/W2157005437.grobid-xml"},"referenced_works_count":9,"referenced_works":["https://openalex.org/W1978397363","https://openalex.org/W2067175937","https://openalex.org/W2092904196","https://openalex.org/W2105525514","https://openalex.org/W2126359798","https://openalex.org/W2132395520","https://openalex.org/W2132653593","https://openalex.org/W2138770756","https://openalex.org/W2149856864"],"related_works":["https://openalex.org/W2586331662","https://openalex.org/W4248817909","https://openalex.org/W4367048510","https://openalex.org/W1530057402","https://openalex.org/W1843568132","https://openalex.org/W2386767533","https://openalex.org/W1821644090","https://openalex.org/W2394308601","https://openalex.org/W2520725797","https://openalex.org/W2355215981"],"abstract_inverted_index":{"We":[0],"provide":[1],"this":[2],"service":[3],"through":[4],"a":[5],"web":[6],"server":[7],"at":[8],"http://erebus.dokhlab.org.":[9]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":6},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":1},{"year":2016,"cited_by_count":5},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":4}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
