{"id":"https://openalex.org/W2044444984","doi":"https://doi.org/10.1371/journal.pcbi.1003571","title":"rDock: A Fast, Versatile and Open Source Program for Docking Ligands to Proteins and Nucleic Acids","display_name":"rDock: A Fast, Versatile and Open Source Program for Docking Ligands to Proteins and Nucleic Acids","publication_year":2014,"publication_date":"2014-04-10","ids":{"openalex":"https://openalex.org/W2044444984","doi":"https://doi.org/10.1371/journal.pcbi.1003571","mag":"2044444984","pmid":"https://pubmed.ncbi.nlm.nih.gov/24722481"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1003571","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1003571","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003571&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003571&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5065798757","display_name":"Sergio Ruiz\u2010Carmona","orcid":"https://orcid.org/0000-0003-4920-5915"},"institutions":[{"id":"https://openalex.org/I71999127","display_name":"Universitat de Barcelona","ror":"https://ror.org/021018s57","country_code":"ES","type":"education","lineage":["https://openalex.org/I71999127"]},{"id":"https://openalex.org/I4388891874","display_name":"Institut de Biomedicina de la Universitat de Barcelona","ror":"https://ror.org/01y43zx14","country_code":null,"type":"education","lineage":["https://openalex.org/I4388891874","https://openalex.org/I71999127"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Sergio Ruiz-Carmona","raw_affiliation_strings":["Departament de Fisicoqu\u00edmica, Facultat de Farm\u00e0cia, Universitat de Barcelona, Barcelona, Spain; Institut de Biomedicina de la Universitat de Barcelona (IBUB), Barcelona, Spain","Institut de Biomedicina de la Universitat de Barcelona (IBUB), Barcelona, Spain","Departament de Fisicoqu\u00edmica, Facultat de Farm\u00e0cia, Universitat de Barcelona, Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"Departament de Fisicoqu\u00edmica, Facultat de Farm\u00e0cia, Universitat de Barcelona, Barcelona, Spain; Institut de Biomedicina de la Universitat de Barcelona (IBUB), Barcelona, Spain","institution_ids":[]},{"raw_affiliation_string":"Institut de Biomedicina de la Universitat de Barcelona (IBUB), Barcelona, Spain","institution_ids":["https://openalex.org/I71999127","https://openalex.org/I4388891874"]},{"raw_affiliation_string":"Departament de Fisicoqu\u00edmica, Facultat de Farm\u00e0cia, Universitat de Barcelona, Barcelona, Spain","institution_ids":["https://openalex.org/I71999127"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004496357","display_name":"Daniel \u00c1lvarez-Garc\u00eda","orcid":"https://orcid.org/0000-0002-2867-5005"},"institutions":[{"id":"https://openalex.org/I71999127","display_name":"Universitat de Barcelona","ror":"https://ror.org/021018s57","country_code":"ES","type":"education","lineage":["https://openalex.org/I71999127"]},{"id":"https://openalex.org/I4388891874","display_name":"Institut de Biomedicina de la Universitat de Barcelona","ror":"https://ror.org/01y43zx14","country_code":null,"type":"education","lineage":["https://openalex.org/I4388891874","https://openalex.org/I71999127"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Daniel Alvarez-Garcia","raw_affiliation_strings":["Departament de Fisicoqu\u00edmica, Facultat de Farm\u00e0cia, Universitat de Barcelona, Barcelona, Spain; Institut de Biomedicina de la Universitat de Barcelona (IBUB), Barcelona, Spain","Institut de Biomedicina de la Universitat de Barcelona (IBUB), Barcelona, Spain","Departament de Fisicoqu\u00edmica, Facultat de Farm\u00e0cia, Universitat de Barcelona, Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"Departament de Fisicoqu\u00edmica, Facultat de Farm\u00e0cia, Universitat de Barcelona, Barcelona, Spain; Institut de Biomedicina de la Universitat de Barcelona (IBUB), Barcelona, Spain","institution_ids":[]},{"raw_affiliation_string":"Institut de Biomedicina de la Universitat de Barcelona (IBUB), Barcelona, Spain","institution_ids":["https://openalex.org/I71999127","https://openalex.org/I4388891874"]},{"raw_affiliation_string":"Departament de Fisicoqu\u00edmica, Facultat de Farm\u00e0cia, Universitat de Barcelona, Barcelona, Spain","institution_ids":["https://openalex.org/I71999127"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086200893","display_name":"Nicolas Foloppe","orcid":null},"institutions":[{"id":"https://openalex.org/I4210110691","display_name":"Granta Design (United Kingdom)","ror":"https://ror.org/01x5y8335","country_code":"GB","type":"company","lineage":["https://openalex.org/I4210110691"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Nicolas Foloppe","raw_affiliation_strings":["Vernalis (R&D) Ltd, Granta Park, Cambridge, United Kingdom"],"affiliations":[{"raw_affiliation_string":"Vernalis (R&D) Ltd, Granta Park, Cambridge, United Kingdom","institution_ids":["https://openalex.org/I4210110691"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5032021313","display_name":"A. Beatriz Garmendia-Doval","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"A. Beatriz Garmendia-Doval","raw_affiliation_strings":["Amper Programas, Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"Amper Programas, Madrid, Spain","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071796340","display_name":"Szilveszter Juhos","orcid":"https://orcid.org/0000-0001-6280-4643"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Szilveszter Juhos","raw_affiliation_strings":["Omixon Biocomputing, Budapest, Hungary"],"affiliations":[{"raw_affiliation_string":"Omixon Biocomputing, Budapest, Hungary","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035587835","display_name":"Peter Schmidtke","orcid":"https://orcid.org/0000-0003-3172-3669"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Peter Schmidtke","raw_affiliation_strings":["Discngine, Paris, France"],"affiliations":[{"raw_affiliation_string":"Discngine, Paris, France","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037789245","display_name":"Xavier Barril","orcid":"https://orcid.org/0000-0002-0281-1347"},"institutions":[{"id":"https://openalex.org/I71999127","display_name":"Universitat de Barcelona","ror":"https://ror.org/021018s57","country_code":"ES","type":"education","lineage":["https://openalex.org/I71999127"]},{"id":"https://openalex.org/I4388891874","display_name":"Institut de Biomedicina de la Universitat de Barcelona","ror":"https://ror.org/01y43zx14","country_code":null,"type":"education","lineage":["https://openalex.org/I4388891874","https://openalex.org/I71999127"]},{"id":"https://openalex.org/I11932220","display_name":"Instituci\u00f3 Catalana de Recerca i Estudis Avan\u00e7ats","ror":"https://ror.org/0371hy230","country_code":"ES","type":"nonprofit","lineage":["https://openalex.org/I11932220"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Xavier Barril","raw_affiliation_strings":["Departament de Fisicoqu\u00edmica, Facultat de Farm\u00e0cia, Universitat de Barcelona, Barcelona, Spain; Institut de Biomedicina de la Universitat de Barcelona (IBUB), Barcelona, Spain; Catalan Institution for Research and Advanced Studies (ICREA), Barcelona, Spain","Departament de Fisicoqu\u00edmica, Facultat de Farm\u00e0cia, Universitat de Barcelona, Barcelona, Spain","Catalan Institution for Research and Advanced Studies (ICREA), Barcelona, Spain","Institut de Biomedicina de la Universitat de Barcelona (IBUB), Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"Departament de Fisicoqu\u00edmica, Facultat de Farm\u00e0cia, Universitat de Barcelona, Barcelona, Spain; Institut de Biomedicina de la Universitat de Barcelona (IBUB), Barcelona, Spain; Catalan Institution for Research and Advanced Studies (ICREA), Barcelona, Spain","institution_ids":[]},{"raw_affiliation_string":"Departament de Fisicoqu\u00edmica, Facultat de Farm\u00e0cia, Universitat de Barcelona, Barcelona, Spain","institution_ids":["https://openalex.org/I71999127"]},{"raw_affiliation_string":"Catalan Institution for Research and Advanced Studies (ICREA), Barcelona, Spain","institution_ids":["https://openalex.org/I11932220"]},{"raw_affiliation_string":"Institut de Biomedicina de la Universitat de Barcelona (IBUB), Barcelona, Spain","institution_ids":["https://openalex.org/I71999127","https://openalex.org/I4388891874"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074334005","display_name":"Roderick E. Hubbard","orcid":"https://orcid.org/0000-0002-8233-7461"},"institutions":[{"id":"https://openalex.org/I52099693","display_name":"University of York","ror":"https://ror.org/04m01e293","country_code":"GB","type":"education","lineage":["https://openalex.org/I52099693"]},{"id":"https://openalex.org/I4210110691","display_name":"Granta Design (United Kingdom)","ror":"https://ror.org/01x5y8335","country_code":"GB","type":"company","lineage":["https://openalex.org/I4210110691"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Roderick E. Hubbard","raw_affiliation_strings":["Vernalis (R&D) Ltd, Granta Park, Cambridge, United Kingdom; YSBL, University of York, Heslington, York, United Kingdom","YSBL, University of York, Heslington, York, United Kingdom","Vernalis (R&D) Ltd, Granta Park, Cambridge, United Kingdom"],"affiliations":[{"raw_affiliation_string":"Vernalis (R&D) Ltd, Granta Park, Cambridge, United Kingdom; YSBL, University of York, Heslington, York, United Kingdom","institution_ids":[]},{"raw_affiliation_string":"YSBL, University of York, Heslington, York, United Kingdom","institution_ids":["https://openalex.org/I52099693"]},{"raw_affiliation_string":"Vernalis (R&D) Ltd, Granta Park, Cambridge, United Kingdom","institution_ids":["https://openalex.org/I4210110691"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5087527797","display_name":"Sam Morley","orcid":"https://orcid.org/0000-0001-5971-7418"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"S. David Morley","raw_affiliation_strings":["Enspiral Discovery Limited, Cambridge, United Kingdom; Ariana Pharma, Paris, France","Ariana Pharma, Paris, France","Enspiral Discovery Limited, Cambridge, United Kingdom"],"affiliations":[{"raw_affiliation_string":"Enspiral Discovery Limited, Cambridge, United Kingdom; Ariana Pharma, Paris, France","institution_ids":[]},{"raw_affiliation_string":"Ariana Pharma, Paris, France","institution_ids":[]},{"raw_affiliation_string":"Enspiral Discovery Limited, Cambridge, United Kingdom","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5037789245","https://openalex.org/A5074334005","https://openalex.org/A5087527797"],"corresponding_institution_ids":["https://openalex.org/I11932220","https://openalex.org/I4210110691","https://openalex.org/I4388891874","https://openalex.org/I52099693","https://openalex.org/I71999127"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":540,"currency":"EUR","value_usd":582},"fwci":23.3969,"has_fulltext":true,"cited_by_count":643,"citation_normalized_percentile":{"value":0.99729024,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"10","issue":"4","first_page":"e1003571","last_page":"e1003571"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":1.0,"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":1.0,"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":0.9869999885559082,"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/T10252","display_name":"Microbial Natural Products and Biosynthesis","score":0.9478999972343445,"subfield":{"id":"https://openalex.org/subfields/2736","display_name":"Pharmacology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/docking","display_name":"Docking (animal)","score":0.6738857626914978},{"id":"https://openalex.org/keywords/virtual-screening","display_name":"Virtual screening","score":0.6538583040237427},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5918022394180298},{"id":"https://openalex.org/keywords/pharmacophore","display_name":"Pharmacophore","score":0.5210477709770203},{"id":"https://openalex.org/keywords/mit-license","display_name":"MIT License","score":0.5134037733078003},{"id":"https://openalex.org/keywords/complementarity","display_name":"Complementarity (molecular biology)","score":0.5034870505332947},{"id":"https://openalex.org/keywords/open-source","display_name":"Open source","score":0.4570349454879761},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4559813141822815},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.4477173089981079},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.4154098927974701},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.3463500142097473},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.26005977392196655},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.21473532915115356},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.21062198281288147}],"concepts":[{"id":"https://openalex.org/C41685203","wikidata":"https://www.wikidata.org/wiki/Q1974042","display_name":"Docking (animal)","level":2,"score":0.6738857626914978},{"id":"https://openalex.org/C103697762","wikidata":"https://www.wikidata.org/wiki/Q4112105","display_name":"Virtual screening","level":3,"score":0.6538583040237427},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5918022394180298},{"id":"https://openalex.org/C56173144","wikidata":"https://www.wikidata.org/wiki/Q1539893","display_name":"Pharmacophore","level":2,"score":0.5210477709770203},{"id":"https://openalex.org/C174183944","wikidata":"https://www.wikidata.org/wiki/Q334661","display_name":"MIT License","level":3,"score":0.5134037733078003},{"id":"https://openalex.org/C202269582","wikidata":"https://www.wikidata.org/wiki/Q2644277","display_name":"Complementarity (molecular biology)","level":2,"score":0.5034870505332947},{"id":"https://openalex.org/C3018397939","wikidata":"https://www.wikidata.org/wiki/Q3644502","display_name":"Open source","level":3,"score":0.4570349454879761},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4559813141822815},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.4477173089981079},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.4154098927974701},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.3463500142097473},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.26005977392196655},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.21473532915115356},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.21062198281288147},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0},{"id":"https://openalex.org/C159110408","wikidata":"https://www.wikidata.org/wiki/Q121176","display_name":"Nursing","level":1,"score":0.0},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009696","descriptor_name":"Nucleic Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D009696","descriptor_name":"Nucleic Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D009696","descriptor_name":"Nucleic Acids","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":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":9,"locations":[{"id":"doi:10.1371/journal.pcbi.1003571","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1003571","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003571&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},{"id":"pmid:24722481","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24722481","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:diposit.ub.edu:2445/59149","is_oa":true,"landing_page_url":"https://hdl.handle.net/2445/59149","pdf_url":null,"source":{"id":"https://openalex.org/S4306401653","display_name":"Dip\u00f2sit Digital de la Universitat de Barcelona (Universitat de Barcelona)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I71999127","host_organization_name":"Universitat de Barcelona","host_organization_lineage":["https://openalex.org/I71999127"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Articles publicats en revistes (Farm\u00e0cia, Tecnologia Farmac\u00e8utica i Fisicoqu\u00edmica)","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.773.8198","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.773.8198","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/1d/14/pcbi.1003571.PMC3983074.pdf","raw_type":"text"},{"id":"pmh:oai:RePEc:plo:pcbi00:1003571","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1003571","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},{"id":"pmh:oai:doaj.org/article:a4a2e35c91c844d59cf4bcfbb1abf811","is_oa":true,"landing_page_url":"https://doaj.org/article/a4a2e35c91c844d59cf4bcfbb1abf811","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 10, Iss 4, p e1003571 (2014)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:2966318","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3983074","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:figshare.com:article/994873","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/_rDock_A_Fast_Versatile_and_Open_Source_Program_for_Docking_Ligands_to_Proteins_and_Nucleic_Acids_/994873","pdf_url":null,"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":"Dataset"},{"id":"pmh:oai:www.recercat.cat:2072/265269","is_oa":true,"landing_page_url":"http://hdl.handle.net/2445/59149","pdf_url":null,"source":{"id":"https://openalex.org/S4306402147","display_name":"RECERCAT (Consorci de Serveis Universitaris de Catalunya)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210090028","host_organization_name":"Consorci de Serveis Universitaris de Catalunya","host_organization_lineage":["https://openalex.org/I4210090028"],"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":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1003571","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1003571","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003571&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.47999998927116394,"id":"https://metadata.un.org/sdg/17","display_name":"Partnerships for the goals"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320311904","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2044444984.pdf","grobid_xml":"https://content.openalex.org/works/W2044444984.grobid-xml"},"referenced_works_count":29,"referenced_works":["https://openalex.org/W1583712901","https://openalex.org/W1968319881","https://openalex.org/W1973974137","https://openalex.org/W1983194490","https://openalex.org/W1985588649","https://openalex.org/W1988821199","https://openalex.org/W1993961204","https://openalex.org/W2005459694","https://openalex.org/W2012789367","https://openalex.org/W2022885475","https://openalex.org/W2040446474","https://openalex.org/W2050273205","https://openalex.org/W2056399835","https://openalex.org/W2063535987","https://openalex.org/W2069554486","https://openalex.org/W2074978477","https://openalex.org/W2084485490","https://openalex.org/W2087689461","https://openalex.org/W2093787075","https://openalex.org/W2110283222","https://openalex.org/W2127760066","https://openalex.org/W2134967712","https://openalex.org/W2143223762","https://openalex.org/W2145682943","https://openalex.org/W2165088901","https://openalex.org/W2169678694","https://openalex.org/W2176516200","https://openalex.org/W2318777851","https://openalex.org/W4285719527"],"related_works":["https://openalex.org/W2000397010","https://openalex.org/W2115078847","https://openalex.org/W2062768126","https://openalex.org/W2969563261","https://openalex.org/W2061401330","https://openalex.org/W2055137136","https://openalex.org/W3041915240","https://openalex.org/W2077097504","https://openalex.org/W2586171341","https://openalex.org/W2167386965"],"abstract_inverted_index":{"Identification":[0],"of":[1,22,41,53,68,132,155,183,209],"chemical":[2,14,39],"compounds":[3,69],"with":[4,44,229],"specific":[5],"biological":[6],"activities":[7],"is":[8,26,30,78,104,161,185,214,223],"an":[9,130],"important":[10],"step":[11],"in":[12,59,202],"both":[13],"biology":[15],"and":[16,101,111,119,136,138,149,165,174,206,222,234],"drug":[17],"discovery.":[18],"When":[19],"the":[20,23,38,45,94,113,133,217,230,235],"structure":[21,135],"intended":[24],"target":[25],"available,":[27],"one":[28],"approach":[29],"to":[31,36,63,71,74,106,115,124,141,167,178,192],"use":[32],"molecular":[33,80],"docking":[34,81],"programs":[35],"assess":[37],"complementarity":[40],"small":[42],"molecules":[43],"target;":[46],"such":[47],"calculations":[48],"provide":[49],"a":[50,66,79,122],"qualitative":[51],"measure":[52],"affinity":[54],"that":[55,203],"can":[56,96],"be":[57,75,97,107],"used":[58,98],"virtual":[60],"screening":[61],"(VS)":[62],"rank":[64],"order":[65],"list":[67],"according":[70],"their":[72],"potential":[73],"active.":[76],"rDock":[77,140,160,173,184,205],"program":[82,95,134,213],"developed":[83],"at":[84,239],"Vernalis":[85],"for":[86,158,194,226],"high-throughput":[87],"VS":[88,181],"(HTVS)":[89],"applications.":[90],"Evolved":[91],"from":[92],"RiboDock,":[93],"against":[99],"proteins":[100],"nucleic":[102],"acids,":[103],"designed":[105],"computationally":[108],"very":[109],"efficient":[110],"allows":[112],"user":[114],"incorporate":[116],"additional":[117],"constraints":[118,199],"information":[120],"as":[121],"bias":[123],"guide":[125],"docking.":[126],"This":[127],"article":[128],"provides":[129],"overview":[131],"features":[137],"compares":[139],"two":[142],"reference":[143],"programs,":[144],"AutoDock":[145],"Vina":[146,164,175],"(open":[147],"source)":[148],"Schr\u00f6dinger's":[150],"Glide":[151,193,207],"(commercial).":[152],"In":[153],"terms":[154],"computational":[156],"speed":[157],"VS,":[159],"faster":[162],"than":[163,188],"comparable":[166],"Glide.":[168,179],"For":[169],"binding":[170],"mode":[171],"prediction,":[172],"are":[176,200,208],"superior":[177],"The":[180,212],"performance":[182],"significantly":[186],"better":[187],"Vina,":[189],"but":[190],"inferior":[191],"most":[195],"systems":[196],"unless":[197],"pharmacophore":[198],"used;":[201],"case":[204],"equal":[210],"performance.":[211],"released":[215],"under":[216],"Lesser":[218],"General":[219],"Public":[220],"License":[221],"freely":[224],"available":[225],"download,":[227],"together":[228],"manuals,":[231],"example":[232],"files":[233],"complete":[236],"test":[237],"sets,":[238],"http://rdock.sourceforge.net/":[240]},"counts_by_year":[{"year":2026,"cited_by_count":23},{"year":2025,"cited_by_count":84},{"year":2024,"cited_by_count":91},{"year":2023,"cited_by_count":72},{"year":2022,"cited_by_count":77},{"year":2021,"cited_by_count":80},{"year":2020,"cited_by_count":61},{"year":2019,"cited_by_count":46},{"year":2018,"cited_by_count":45},{"year":2017,"cited_by_count":27},{"year":2016,"cited_by_count":17},{"year":2015,"cited_by_count":17},{"year":2014,"cited_by_count":3}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
