{"id":"https://openalex.org/W2999636761","doi":"https://doi.org/10.1093/bioinformatics/btaa018","title":"LigRMSD: a web server for automatic structure matching and RMSD calculations among identical and similar compounds in protein-ligand docking","display_name":"LigRMSD: a web server for automatic structure matching and RMSD calculations among identical and similar compounds in protein-ligand docking","publication_year":2020,"publication_date":"2020-01-07","ids":{"openalex":"https://openalex.org/W2999636761","doi":"https://doi.org/10.1093/bioinformatics/btaa018","mag":"2999636761","pmid":"https://pubmed.ncbi.nlm.nih.gov/31926012"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaa018","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa018","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/9/2912/33181175/btaa018.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/36/9/2912/33181175/btaa018.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5023015068","display_name":"Jos\u00e9 Lu\u00eds Vel\u00e1zquez\u2010Libera","orcid":"https://orcid.org/0000-0002-4941-6619"},"institutions":[{"id":"https://openalex.org/I134695357","display_name":"University of Talca","ror":"https://ror.org/01s4gpq44","country_code":"CL","type":"education","lineage":["https://openalex.org/I134695357"]}],"countries":["CL"],"is_corresponding":false,"raw_author_name":"Jos\u00e9 Luis Vel\u00e1zquez-Libera","raw_affiliation_strings":["Center for Bioinformatics, Simulations and Modelling , , Talca 3460000, Chile","Universidad de Talca , , Talca 3460000, Chile","Center for Bioinformatics, Simulations and Modelling, Universidad de Talca, Talca 3460000, Chile"],"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, Simulations and Modelling , , Talca 3460000, Chile","institution_ids":["https://openalex.org/I134695357"]},{"raw_affiliation_string":"Universidad de Talca , , Talca 3460000, Chile","institution_ids":["https://openalex.org/I134695357"]},{"raw_affiliation_string":"Center for Bioinformatics, Simulations and Modelling, Universidad de Talca, Talca 3460000, Chile","institution_ids":["https://openalex.org/I134695357"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080394352","display_name":"Fabio Dur\u00e1n-Verdugo","orcid":"https://orcid.org/0009-0002-8399-4970"},"institutions":[{"id":"https://openalex.org/I134695357","display_name":"University of Talca","ror":"https://ror.org/01s4gpq44","country_code":"CL","type":"education","lineage":["https://openalex.org/I134695357"]}],"countries":["CL"],"is_corresponding":false,"raw_author_name":"Fabio Dur\u00e1n-Verdugo","raw_affiliation_strings":["Center for Bioinformatics, Simulations and Modelling , , Talca 3460000, Chile","Universidad de Talca , , Talca 3460000, Chile","Center for Bioinformatics, Simulations and Modelling, Universidad de Talca, Talca 3460000, Chile"],"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, Simulations and Modelling , , Talca 3460000, Chile","institution_ids":["https://openalex.org/I134695357"]},{"raw_affiliation_string":"Universidad de Talca , , Talca 3460000, Chile","institution_ids":["https://openalex.org/I134695357"]},{"raw_affiliation_string":"Center for Bioinformatics, Simulations and Modelling, Universidad de Talca, Talca 3460000, Chile","institution_ids":["https://openalex.org/I134695357"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087949527","display_name":"Alejandro Vald\u00e9s-Jim\u00e9nez","orcid":"https://orcid.org/0000-0003-2345-5510"},"institutions":[{"id":"https://openalex.org/I134695357","display_name":"University of Talca","ror":"https://ror.org/01s4gpq44","country_code":"CL","type":"education","lineage":["https://openalex.org/I134695357"]},{"id":"https://openalex.org/I9617848","display_name":"Universitat Polit\u00e8cnica de Catalunya","ror":"https://ror.org/03mb6wj31","country_code":"ES","type":"education","lineage":["https://openalex.org/I9617848"]}],"countries":["CL","ES"],"is_corresponding":false,"raw_author_name":"Alejandro Vald\u00e9s-Jim\u00e9nez","raw_affiliation_strings":["Center for Bioinformatics, Simulations and Modelling , , Talca 3460000, Chile","Computer Architecture Department, Universitat Polit\u00e9cnica de Catalunya , Barcelona 08034, Spain","Universidad de Talca , , Talca 3460000, Chile","Center for Bioinformatics, Simulations and Modelling, Universidad de Talca, Talca 3460000, Chile"],"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, Simulations and Modelling , , Talca 3460000, Chile","institution_ids":["https://openalex.org/I134695357"]},{"raw_affiliation_string":"Computer Architecture Department, Universitat Polit\u00e9cnica de Catalunya , Barcelona 08034, Spain","institution_ids":["https://openalex.org/I9617848"]},{"raw_affiliation_string":"Universidad de Talca , , Talca 3460000, Chile","institution_ids":["https://openalex.org/I134695357"]},{"raw_affiliation_string":"Center for Bioinformatics, Simulations and Modelling, Universidad de Talca, Talca 3460000, Chile","institution_ids":["https://openalex.org/I134695357"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060716874","display_name":"Gabriel N\u00fa\u00f1ez","orcid":"https://orcid.org/0000-0002-2858-1789"},"institutions":[{"id":"https://openalex.org/I134695357","display_name":"University of Talca","ror":"https://ror.org/01s4gpq44","country_code":"CL","type":"education","lineage":["https://openalex.org/I134695357"]}],"countries":["CL"],"is_corresponding":true,"raw_author_name":"Gabriel N\u00fa\u00f1ez-Vivanco","raw_affiliation_strings":["Center for Bioinformatics, Simulations and Modelling , , Talca 3460000, Chile","Universidad de Talca , , Talca 3460000, Chile","Center for Bioinformatics, Simulations and Modelling, Universidad de Talca, Talca 3460000, Chile"],"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, Simulations and Modelling , , Talca 3460000, Chile","institution_ids":["https://openalex.org/I134695357"]},{"raw_affiliation_string":"Universidad de Talca , , Talca 3460000, Chile","institution_ids":["https://openalex.org/I134695357"]},{"raw_affiliation_string":"Center for Bioinformatics, Simulations and Modelling, Universidad de Talca, Talca 3460000, Chile","institution_ids":["https://openalex.org/I134695357"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5086197164","display_name":"Julio Caballero","orcid":"https://orcid.org/0000-0003-0182-1444"},"institutions":[{"id":"https://openalex.org/I134695357","display_name":"University of Talca","ror":"https://ror.org/01s4gpq44","country_code":"CL","type":"education","lineage":["https://openalex.org/I134695357"]}],"countries":["CL"],"is_corresponding":true,"raw_author_name":"Julio Caballero","raw_affiliation_strings":["Center for Bioinformatics, Simulations and Modelling , , Talca 3460000, Chile","Universidad de Talca , , Talca 3460000, Chile","Center for Bioinformatics, Simulations and Modelling, Universidad de Talca, Talca 3460000, Chile"],"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, Simulations and Modelling , , Talca 3460000, Chile","institution_ids":["https://openalex.org/I134695357"]},{"raw_affiliation_string":"Universidad de Talca , , Talca 3460000, Chile","institution_ids":["https://openalex.org/I134695357"]},{"raw_affiliation_string":"Center for Bioinformatics, Simulations and Modelling, Universidad de Talca, Talca 3460000, Chile","institution_ids":["https://openalex.org/I134695357"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5060716874","https://openalex.org/A5086197164"],"corresponding_institution_ids":["https://openalex.org/I134695357"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":14.1632,"has_fulltext":false,"cited_by_count":173,"citation_normalized_percentile":{"value":0.99102453,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"36","issue":"9","first_page":"2912","last_page":"2914"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9998999834060669,"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":0.9998999834060669,"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":0.9995999932289124,"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/T11162","display_name":"Enzyme Structure and Function","score":0.9990000128746033,"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/docking","display_name":"Docking (animal)","score":0.6953635215759277},{"id":"https://openalex.org/keywords/equivalence","display_name":"Equivalence (formal languages)","score":0.6355019211769104},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.621076226234436},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.6169648766517639},{"id":"https://openalex.org/keywords/protein\u2013ligand-docking","display_name":"Protein\u2013ligand docking","score":0.49796414375305176},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4212169945240021},{"id":"https://openalex.org/keywords/matching","display_name":"Matching (statistics)","score":0.41417834162712097},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.3167722225189209},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.23760098218917847},{"id":"https://openalex.org/keywords/computational-chemistry","display_name":"Computational chemistry","score":0.21148964762687683},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1704983115196228},{"id":"https://openalex.org/keywords/virtual-screening","display_name":"Virtual screening","score":0.13945922255516052},{"id":"https://openalex.org/keywords/molecular-dynamics","display_name":"Molecular dynamics","score":0.123028963804245},{"id":"https://openalex.org/keywords/discrete-mathematics","display_name":"Discrete mathematics","score":0.11637264490127563},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.0995478630065918},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.07264140248298645}],"concepts":[{"id":"https://openalex.org/C41685203","wikidata":"https://www.wikidata.org/wiki/Q1974042","display_name":"Docking (animal)","level":2,"score":0.6953635215759277},{"id":"https://openalex.org/C2780069185","wikidata":"https://www.wikidata.org/wiki/Q7977945","display_name":"Equivalence (formal languages)","level":2,"score":0.6355019211769104},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.621076226234436},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.6169648766517639},{"id":"https://openalex.org/C77319485","wikidata":"https://www.wikidata.org/wiki/Q7251520","display_name":"Protein\u2013ligand docking","level":4,"score":0.49796414375305176},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4212169945240021},{"id":"https://openalex.org/C165064840","wikidata":"https://www.wikidata.org/wiki/Q1321061","display_name":"Matching (statistics)","level":2,"score":0.41417834162712097},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.3167722225189209},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.23760098218917847},{"id":"https://openalex.org/C147597530","wikidata":"https://www.wikidata.org/wiki/Q369472","display_name":"Computational chemistry","level":1,"score":0.21148964762687683},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1704983115196228},{"id":"https://openalex.org/C103697762","wikidata":"https://www.wikidata.org/wiki/Q4112105","display_name":"Virtual screening","level":3,"score":0.13945922255516052},{"id":"https://openalex.org/C59593255","wikidata":"https://www.wikidata.org/wiki/Q901663","display_name":"Molecular dynamics","level":2,"score":0.123028963804245},{"id":"https://openalex.org/C118615104","wikidata":"https://www.wikidata.org/wiki/Q121416","display_name":"Discrete mathematics","level":1,"score":0.11637264490127563},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.0995478630065918},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.07264140248298645},{"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":"D003201","descriptor_name":"Computers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003201","descriptor_name":"Computers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003201","descriptor_name":"Computers","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":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008968","descriptor_name":"Molecular Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008968","descriptor_name":"Molecular Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008968","descriptor_name":"Molecular Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btaa018","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa018","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/9/2912/33181175/btaa018.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:31926012","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31926012","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}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaa018","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa018","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/9/2912/33181175/btaa018.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":"Partnerships for the goals","id":"https://metadata.un.org/sdg/17","score":0.4000000059604645}],"awards":[{"id":"https://openalex.org/G3309662383","display_name":null,"funder_award_id":"1170662","funder_id":"https://openalex.org/F4320338073","funder_display_name":"Fondo Nacional de Desarrollo Cient\u00edfico y Tecnol\u00f3gico"},{"id":"https://openalex.org/G4426175204","display_name":null,"funder_award_id":"CONICYT-FONDEQUIP-EQM160063","funder_id":"https://openalex.org/F4320338073","funder_display_name":"Fondo Nacional de Desarrollo Cient\u00edfico y Tecnol\u00f3gico"},{"id":"https://openalex.org/G8838987425","display_name":null,"funder_award_id":"1170718","funder_id":"https://openalex.org/F4320338073","funder_display_name":"Fondo Nacional de Desarrollo Cient\u00edfico y Tecnol\u00f3gico"}],"funders":[{"id":"https://openalex.org/F4320338073","display_name":"Fondo Nacional de Desarrollo Cient\u00edfico y Tecnol\u00f3gico","ror":"https://ror.org/02ap3w078"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2999636761.pdf","grobid_xml":"https://content.openalex.org/works/W2999636761.grobid-xml"},"referenced_works_count":10,"referenced_works":["https://openalex.org/W255996521","https://openalex.org/W1981021420","https://openalex.org/W2029667189","https://openalex.org/W2145546477","https://openalex.org/W2170203299","https://openalex.org/W2173733785","https://openalex.org/W2558444510","https://openalex.org/W2606116231","https://openalex.org/W2792556869","https://openalex.org/W2920214740"],"related_works":["https://openalex.org/W1581147483","https://openalex.org/W4310018788","https://openalex.org/W4398796548","https://openalex.org/W2329052364","https://openalex.org/W2162967120","https://openalex.org/W1567411871","https://openalex.org/W2553094381","https://openalex.org/W2072180710","https://openalex.org/W2794807012","https://openalex.org/W2131900949"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":13},{"year":2025,"cited_by_count":33},{"year":2024,"cited_by_count":29},{"year":2023,"cited_by_count":31},{"year":2022,"cited_by_count":24},{"year":2021,"cited_by_count":34},{"year":2020,"cited_by_count":9}],"updated_date":"2026-04-11T08:14:18.477133","created_date":"2025-10-10T00:00:00"}
