{"id":"https://openalex.org/W3160741489","doi":"https://doi.org/10.1371/journal.pcbi.1008936","title":"Can molecular dynamics simulations improve the structural accuracy and virtual screening performance of GPCR models?","display_name":"Can molecular dynamics simulations improve the structural accuracy and virtual screening performance of GPCR models?","publication_year":2021,"publication_date":"2021-05-13","ids":{"openalex":"https://openalex.org/W3160741489","doi":"https://doi.org/10.1371/journal.pcbi.1008936","mag":"3160741489","pmid":"https://pubmed.ncbi.nlm.nih.gov/33983933"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1008936","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1008936","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1008936&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.1008936&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5053760072","display_name":"Jon Kapla","orcid":"https://orcid.org/0000-0003-3328-1921"},"institutions":[{"id":"https://openalex.org/I123387679","display_name":"Uppsala University","ror":"https://ror.org/048a87296","country_code":"SE","type":"education","lineage":["https://openalex.org/I123387679"]},{"id":"https://openalex.org/I2800139495","display_name":"Science for Life Laboratory","ror":"https://ror.org/04ev03g22","country_code":"SE","type":"facility","lineage":["https://openalex.org/I2800139495"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Jon Kapla","raw_affiliation_strings":["Science for Life Laboratory, Department of Cell and Molecular Biology, Uppsala University, Uppsala, Sweden"],"affiliations":[{"raw_affiliation_string":"Science for Life Laboratory, Department of Cell and Molecular Biology, Uppsala University, Uppsala, Sweden","institution_ids":["https://openalex.org/I2800139495","https://openalex.org/I123387679"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079194779","display_name":"Ismael Rodr\u00edguez\u2010Espigares","orcid":"https://orcid.org/0000-0002-1602-8679"},"institutions":[{"id":"https://openalex.org/I170486558","display_name":"Universitat Pompeu Fabra","ror":"https://ror.org/04n0g0b29","country_code":"ES","type":"education","lineage":["https://openalex.org/I170486558"]},{"id":"https://openalex.org/I4210156109","display_name":"Hospital del Mar Research Institute","ror":"https://ror.org/042nkmz09","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I4210156109","https://openalex.org/I4387153040"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Ismael Rodr\u00edguez-Espigares","raw_affiliation_strings":["Research Programme on Biomedical Informatics (GRIB), Department of Experimental and Health Sciences of Pompeu Fabra University (UPF), Hospital del Mar Medical Research Institute (IMIM), Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"Research Programme on Biomedical Informatics (GRIB), Department of Experimental and Health Sciences of Pompeu Fabra University (UPF), Hospital del Mar Medical Research Institute (IMIM), Barcelona, Spain","institution_ids":["https://openalex.org/I170486558","https://openalex.org/I4210156109"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004266252","display_name":"Flavio Ballante","orcid":"https://orcid.org/0000-0002-4831-3423"},"institutions":[{"id":"https://openalex.org/I123387679","display_name":"Uppsala University","ror":"https://ror.org/048a87296","country_code":"SE","type":"education","lineage":["https://openalex.org/I123387679"]},{"id":"https://openalex.org/I2800139495","display_name":"Science for Life Laboratory","ror":"https://ror.org/04ev03g22","country_code":"SE","type":"facility","lineage":["https://openalex.org/I2800139495"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Flavio Ballante","raw_affiliation_strings":["Science for Life Laboratory, Department of Cell and Molecular Biology, Uppsala University, Uppsala, Sweden"],"affiliations":[{"raw_affiliation_string":"Science for Life Laboratory, Department of Cell and Molecular Biology, Uppsala University, Uppsala, Sweden","institution_ids":["https://openalex.org/I2800139495","https://openalex.org/I123387679"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069377650","display_name":"Jana Selent","orcid":"https://orcid.org/0000-0002-1844-4449"},"institutions":[{"id":"https://openalex.org/I170486558","display_name":"Universitat Pompeu Fabra","ror":"https://ror.org/04n0g0b29","country_code":"ES","type":"education","lineage":["https://openalex.org/I170486558"]},{"id":"https://openalex.org/I4210156109","display_name":"Hospital del Mar Research Institute","ror":"https://ror.org/042nkmz09","country_code":"ES","type":"healthcare","lineage":["https://openalex.org/I4210156109","https://openalex.org/I4387153040"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Jana Selent","raw_affiliation_strings":["Research Programme on Biomedical Informatics (GRIB), Department of Experimental and Health Sciences of Pompeu Fabra University (UPF), Hospital del Mar Medical Research Institute (IMIM), Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"Research Programme on Biomedical Informatics (GRIB), Department of Experimental and Health Sciences of Pompeu Fabra University (UPF), Hospital del Mar Medical Research Institute (IMIM), Barcelona, Spain","institution_ids":["https://openalex.org/I170486558","https://openalex.org/I4210156109"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5075811022","display_name":"Jens Carlsson","orcid":"https://orcid.org/0000-0003-4623-2977"},"institutions":[{"id":"https://openalex.org/I123387679","display_name":"Uppsala University","ror":"https://ror.org/048a87296","country_code":"SE","type":"education","lineage":["https://openalex.org/I123387679"]},{"id":"https://openalex.org/I2800139495","display_name":"Science for Life Laboratory","ror":"https://ror.org/04ev03g22","country_code":"SE","type":"facility","lineage":["https://openalex.org/I2800139495"]}],"countries":["SE"],"is_corresponding":true,"raw_author_name":"Jens Carlsson","raw_affiliation_strings":["Science for Life Laboratory, Department of Cell and Molecular Biology, Uppsala University, Uppsala, Sweden"],"affiliations":[{"raw_affiliation_string":"Science for Life Laboratory, Department of Cell and Molecular Biology, Uppsala University, Uppsala, Sweden","institution_ids":["https://openalex.org/I2800139495","https://openalex.org/I123387679"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5075811022"],"corresponding_institution_ids":["https://openalex.org/I123387679","https://openalex.org/I2800139495"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":2.1143,"has_fulltext":true,"cited_by_count":32,"citation_normalized_percentile":{"value":0.88076882,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"17","issue":"5","first_page":"e1008936","last_page":"e1008936"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11178","display_name":"Receptor Mechanisms and Signaling","score":1.0,"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/T11178","display_name":"Receptor Mechanisms and Signaling","score":1.0,"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/T10814","display_name":"Neuropeptides and Animal Physiology","score":0.9991000294685364,"subfield":{"id":"https://openalex.org/subfields/2804","display_name":"Cellular and Molecular Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10683","display_name":"Mass Spectrometry Techniques and Applications","score":0.9983000159263611,"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/g-protein-coupled-receptor","display_name":"G protein-coupled receptor","score":0.8215977549552917},{"id":"https://openalex.org/keywords/virtual-screening","display_name":"Virtual screening","score":0.8077400922775269},{"id":"https://openalex.org/keywords/molecular-dynamics","display_name":"Molecular dynamics","score":0.6644423007965088},{"id":"https://openalex.org/keywords/docking","display_name":"Docking (animal)","score":0.5997804999351501},{"id":"https://openalex.org/keywords/dock","display_name":"DOCK","score":0.5097514986991882},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.5058000087738037},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4969847500324249},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4742431044578552},{"id":"https://openalex.org/keywords/transmembrane-domain","display_name":"Transmembrane domain","score":0.43085044622421265},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3933406472206116},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.3538665771484375},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.3406265377998352},{"id":"https://openalex.org/keywords/receptor","display_name":"Receptor","score":0.23019516468048096},{"id":"https://openalex.org/keywords/computational-chemistry","display_name":"Computational chemistry","score":0.21651199460029602},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.18862506747245789},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.08371943235397339},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.07621034979820251}],"concepts":[{"id":"https://openalex.org/C135285700","wikidata":"https://www.wikidata.org/wiki/Q38173","display_name":"G protein-coupled receptor","level":3,"score":0.8215977549552917},{"id":"https://openalex.org/C103697762","wikidata":"https://www.wikidata.org/wiki/Q4112105","display_name":"Virtual screening","level":3,"score":0.8077400922775269},{"id":"https://openalex.org/C59593255","wikidata":"https://www.wikidata.org/wiki/Q901663","display_name":"Molecular dynamics","level":2,"score":0.6644423007965088},{"id":"https://openalex.org/C41685203","wikidata":"https://www.wikidata.org/wiki/Q1974042","display_name":"Docking (animal)","level":2,"score":0.5997804999351501},{"id":"https://openalex.org/C93073132","wikidata":"https://www.wikidata.org/wiki/Q24726581","display_name":"DOCK","level":2,"score":0.5097514986991882},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.5058000087738037},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4969847500324249},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4742431044578552},{"id":"https://openalex.org/C118892022","wikidata":"https://www.wikidata.org/wiki/Q7834587","display_name":"Transmembrane domain","level":3,"score":0.43085044622421265},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3933406472206116},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.3538665771484375},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.3406265377998352},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.23019516468048096},{"id":"https://openalex.org/C147597530","wikidata":"https://www.wikidata.org/wiki/Q369472","display_name":"Computational chemistry","level":1,"score":0.21651199460029602},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.18862506747245789},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.08371943235397339},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.07621034979820251},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C159110408","wikidata":"https://www.wikidata.org/wiki/Q121176","display_name":"Nursing","level":1,"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":"D008024","descriptor_name":"Ligands","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":"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":"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":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D043562","descriptor_name":"Receptors, G-Protein-Coupled","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D043562","descriptor_name":"Receptors, G-Protein-Coupled","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D043562","descriptor_name":"Receptors, G-Protein-Coupled","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D043562","descriptor_name":"Receptors, G-Protein-Coupled","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D043562","descriptor_name":"Receptors, G-Protein-Coupled","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D043562","descriptor_name":"Receptors, G-Protein-Coupled","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D043562","descriptor_name":"Receptors, G-Protein-Coupled","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D043562","descriptor_name":"Receptors, G-Protein-Coupled","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1371/journal.pcbi.1008936","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1008936","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1008936&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:33983933","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33983933","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:repositori.upf.edu:10230/47782","is_oa":true,"landing_page_url":"http://hdl.handle.net/10230/47782","pdf_url":"http://hdl.handle.net/10230/47782","source":{"id":"https://openalex.org/S4306402615","display_name":"Repositori digital de la UPF (Universitat Pompeu Fabra)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I170486558","host_organization_name":"Universitat Pompeu Fabra","host_organization_lineage":["https://openalex.org/I170486558"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:DiVA.org:uu-451593","is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-451593","pdf_url":null,"source":{"id":"https://openalex.org/S4306401559","display_name":"KTH Publication Database DiVA (KTH Royal Institute of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article in journal"},{"id":"pmh:oai:doaj.org/article:d723d0eb02b44b689478863194ed2051","is_oa":true,"landing_page_url":"https://doaj.org/article/d723d0eb02b44b689478863194ed2051","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 17, Iss 5, p e1008936 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8186765","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8186765","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1008936","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1008936","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1008936&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":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.47999998927116394}],"awards":[{"id":"https://openalex.org/G1056949144","display_name":null,"funder_award_id":"PI15/00460","funder_id":"https://openalex.org/F4320334923","funder_display_name":"Instituto de Salud Carlos III"},{"id":"https://openalex.org/G1493112890","display_name":null,"funder_award_id":"PI18/00094","funder_id":"https://openalex.org/F4320334923","funder_display_name":"Instituto de Salud Carlos III"},{"id":"https://openalex.org/G1781690321","display_name":null,"funder_award_id":"FEDER","funder_id":"https://openalex.org/F4320326262","funder_display_name":"Ministerio de Asuntos Econ\u00f3micos y Transformaci\u00f3n Digital, Gobierno de Espa\u00f1a"},{"id":"https://openalex.org/G2640613998","display_name":null,"funder_award_id":"2017-04676","funder_id":"https://openalex.org/F4320322581","funder_display_name":"Vetenskapsr\u00e5det"},{"id":"https://openalex.org/G2714047790","display_name":null,"funder_award_id":"C18/00030","funder_id":"https://openalex.org/F4320334923","funder_display_name":"Instituto de Salud Carlos III"},{"id":"https://openalex.org/G321373530","display_name":null,"funder_award_id":"AC18/00030","funder_id":"https://openalex.org/F4320326262","funder_display_name":"Ministerio de Asuntos Econ\u00f3micos y Transformaci\u00f3n Digital, Gobierno de Espa\u00f1a"},{"id":"https://openalex.org/G3534674485","display_name":null,"funder_award_id":"FO2019-0299","funder_id":"https://openalex.org/F4320322168","funder_display_name":"Hj\u00e4rnfonden"},{"id":"https://openalex.org/G4492361206","display_name":null,"funder_award_id":"AC18/00030","funder_id":"https://openalex.org/F4320334923","funder_display_name":"Instituto de Salud Carlos III"},{"id":"https://openalex.org/G5964422145","display_name":null,"funder_award_id":"18/00","funder_id":"https://openalex.org/F4320334923","funder_display_name":"Instituto de Salud Carlos III"},{"id":"https://openalex.org/G7779868532","display_name":null,"funder_award_id":"FEDER","funder_id":"https://openalex.org/F4320334923","funder_display_name":"Instituto de Salud Carlos III"},{"id":"https://openalex.org/G8579082264","display_name":null,"funder_award_id":"PI15/00460 and PI18/00094","funder_id":"https://openalex.org/F4320334923","funder_display_name":"Instituto de Salud Carlos III"}],"funders":[{"id":"https://openalex.org/F4320321505","display_name":"Generalitat de Catalunya","ror":"https://ror.org/01bg62x04"},{"id":"https://openalex.org/F4320322168","display_name":"Hj\u00e4rnfonden","ror":"https://ror.org/014btj409"},{"id":"https://openalex.org/F4320322581","display_name":"Vetenskapsr\u00e5det","ror":"https://ror.org/03zttf063"},{"id":"https://openalex.org/F4320325677","display_name":"Science for Life Laboratory","ror":"https://ror.org/04ev03g22"},{"id":"https://openalex.org/F4320326262","display_name":"Ministerio de Asuntos Econ\u00f3micos y Transformaci\u00f3n Digital, Gobierno de Espa\u00f1a","ror":"https://ror.org/03sv46s19"},{"id":"https://openalex.org/F4320334923","display_name":"Instituto de Salud Carlos III","ror":"https://ror.org/00ca2c886"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3160741489.pdf","grobid_xml":"https://content.openalex.org/works/W3160741489.grobid-xml"},"referenced_works_count":125,"referenced_works":["https://openalex.org/W1031578623","https://openalex.org/W1491824558","https://openalex.org/W1785767033","https://openalex.org/W1946310148","https://openalex.org/W1968319881","https://openalex.org/W1969709762","https://openalex.org/W1974030600","https://openalex.org/W1976499671","https://openalex.org/W1977482735","https://openalex.org/W1981021420","https://openalex.org/W1984030577","https://openalex.org/W1984457039","https://openalex.org/W1984493861","https://openalex.org/W1997340548","https://openalex.org/W1997772366","https://openalex.org/W1999613945","https://openalex.org/W2000350990","https://openalex.org/W2003970044","https://openalex.org/W2012969029","https://openalex.org/W2021750784","https://openalex.org/W2026501736","https://openalex.org/W2027408247","https://openalex.org/W2031101869","https://openalex.org/W2035266068","https://openalex.org/W2035687084","https://openalex.org/W2037159954","https://openalex.org/W2042992947","https://openalex.org/W2043209972","https://openalex.org/W2046769137","https://openalex.org/W2047281933","https://openalex.org/W2049617698","https://openalex.org/W2051150502","https://openalex.org/W2051820228","https://openalex.org/W2053020402","https://openalex.org/W2054881399","https://openalex.org/W2057477511","https://openalex.org/W2058835307","https://openalex.org/W2059013803","https://openalex.org/W2060433756","https://openalex.org/W2060872117","https://openalex.org/W2065283382","https://openalex.org/W2066414494","https://openalex.org/W2067174909","https://openalex.org/W2067236515","https://openalex.org/W2067455153","https://openalex.org/W2070753604","https://openalex.org/W2076481851","https://openalex.org/W2077343574","https://openalex.org/W2081260116","https://openalex.org/W2081693079","https://openalex.org/W2082586732","https://openalex.org/W2084367350","https://openalex.org/W2094879588","https://openalex.org/W2097775366","https://openalex.org/W2099565782","https://openalex.org/W2100251789","https://openalex.org/W2101234009","https://openalex.org/W2103945336","https://openalex.org/W2104961861","https://openalex.org/W2105668062","https://openalex.org/W2107998520","https://openalex.org/W2125399699","https://openalex.org/W2125677968","https://openalex.org/W2128572087","https://openalex.org/W2128824543","https://openalex.org/W2130479394","https://openalex.org/W2135735638","https://openalex.org/W2142319132","https://openalex.org/W2149442325","https://openalex.org/W2153856953","https://openalex.org/W2154714625","https://openalex.org/W2162751934","https://openalex.org/W2164997453","https://openalex.org/W2167086539","https://openalex.org/W2168966210","https://openalex.org/W2169678694","https://openalex.org/W2170711116","https://openalex.org/W2171107240","https://openalex.org/W2171234651","https://openalex.org/W2171268876","https://openalex.org/W2180229411","https://openalex.org/W2220647489","https://openalex.org/W2233260369","https://openalex.org/W2260580338","https://openalex.org/W2274656763","https://openalex.org/W2296686360","https://openalex.org/W2333852036","https://openalex.org/W2359290780","https://openalex.org/W2422751523","https://openalex.org/W2510475640","https://openalex.org/W2555870966","https://openalex.org/W2558217333","https://openalex.org/W2738131613","https://openalex.org/W2744410780","https://openalex.org/W2748384357","https://openalex.org/W2748633757","https://openalex.org/W2763525793","https://openalex.org/W2765153686","https://openalex.org/W2766793957","https://openalex.org/W2768177014","https://openalex.org/W2770064729","https://openalex.org/W2785010403","https://openalex.org/W2800667170","https://openalex.org/W2806111497","https://openalex.org/W2910692907","https://openalex.org/W2912171584","https://openalex.org/W2912800843","https://openalex.org/W2938466933","https://openalex.org/W2944347827","https://openalex.org/W2944825169","https://openalex.org/W2963212560","https://openalex.org/W2964644761","https://openalex.org/W2968494487","https://openalex.org/W2988991745","https://openalex.org/W3003965164","https://openalex.org/W3011342203","https://openalex.org/W3034675470","https://openalex.org/W3042198040","https://openalex.org/W3081528324","https://openalex.org/W3097936550","https://openalex.org/W3129160401","https://openalex.org/W3136918052","https://openalex.org/W4234686211","https://openalex.org/W4289016612","https://openalex.org/W6675354045"],"related_works":["https://openalex.org/W4393853640","https://openalex.org/W4282913408","https://openalex.org/W2100436540","https://openalex.org/W2300502530","https://openalex.org/W3201417569","https://openalex.org/W2070163817","https://openalex.org/W2395175315","https://openalex.org/W1938743025","https://openalex.org/W2102475066","https://openalex.org/W3193731429"],"abstract_inverted_index":{"The":[0,166],"determination":[1],"of":[2,14,22,35,74,78,88,103,118,161,182,198,212,226,241,246],"G":[3],"protein-coupled":[4],"receptor":[5,107,141],"(GPCR)":[6],"structures":[7,28,40,186],"at":[8],"atomic":[9],"resolution":[10],"has":[11],"improved":[12,170,188,224],"understanding":[13],"cellular":[15],"signaling":[16],"and":[17,41,123,200,231,249],"will":[18],"accelerate":[19],"the":[20,36,72,104,124,137,140,148,159,162,173,183,207,216,220,227],"development":[21],"new":[23],"drug":[24],"candidates.":[25],"However,":[26,152],"experimental":[27],"still":[29],"remain":[30],"unavailable":[31],"for":[32,179,239,251],"a":[33,85,132,180],"majority":[34,181],"GPCR":[37,39,89],"family.":[38],"their":[42],"interactions":[43],"with":[44,111,172,187],"ligands":[45,199],"can":[46],"also":[47,203],"be":[48,68,204],"modelled":[49],"computationally,":[50],"but":[51],"such":[52],"predictions":[53,225],"have":[54],"limited":[55],"accuracy.":[56],"In":[57,136],"this":[58],"work,":[59],"we":[60],"explored":[61],"if":[62],"molecular":[63,196],"dynamics":[64],"(MD)":[65],"simulations":[66,222],"could":[67,202],"used":[69,98],"to":[70,84,99,115,131,157,215],"refine":[71,100],"accuracy":[73,160],"in":[75,109,219,244],"silico":[76],"models":[77,102,128,142],"receptor-ligand":[79],"complexes":[80,248],"that":[81],"were":[82,97,129],"submitted":[83],"community-wide":[86],"assessment":[87],"structure":[90,150],"prediction":[91,245],"(GPCR":[92],"Dock).":[93],"Two":[94],"simulation":[95,119],"protocols":[96],"30":[101],"D3":[105],"dopamine":[106],"(D3R)":[108],"complex":[110],"an":[112],"antagonist.":[113],"Close":[114],"60":[116],"\u03bcs":[117],"time":[120],"was":[121,155,193],"generated":[122],"resulting":[125],"MD":[126,138,153,208,221,242],"refined":[127,209],"compared":[130],"D3R":[133],"crystal":[134,149],"structure.":[135],"simulations,":[139],"generally":[143],"drifted":[144],"further":[145,223,252],"away":[146],"from":[147],"conformation.":[151],"refinement":[154,168,243],"able":[156],"improve":[158],"ligand":[163,176,228],"binding":[164,177,229],"mode.":[165],"best":[167],"protocol":[169],"agreement":[171],"experimentally":[174],"observed":[175],"mode":[178,230],"models.":[184,210],"Receptor":[185],"virtual":[189],"screening":[190],"performance,":[191],"which":[192],"assessed":[194],"by":[195],"docking":[197],"decoys,":[201],"identified":[205],"among":[206],"Application":[211],"weak":[213],"restraints":[214],"transmembrane":[217],"helixes":[218],"second":[232],"extracellular":[233],"loop.":[234],"These":[235],"results":[236],"provide":[237],"guidelines":[238],"application":[240],"GPCR-ligand":[247],"directions":[250],"method":[253],"development.":[254]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":10},{"year":2023,"cited_by_count":11},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
