{"id":"https://openalex.org/W4368357429","doi":"https://doi.org/10.1093/nar/gkad327","title":"The LightDock Server: Artificial Intelligence-powered modeling of macromolecular interactions","display_name":"The LightDock Server: Artificial Intelligence-powered modeling of macromolecular interactions","publication_year":2023,"publication_date":"2023-05-04","ids":{"openalex":"https://openalex.org/W4368357429","doi":"https://doi.org/10.1093/nar/gkad327","pmid":"https://pubmed.ncbi.nlm.nih.gov/37140054"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkad327","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkad327","pdf_url":"https://academic.oup.com/nar/advance-article-pdf/doi/10.1093/nar/gkad327/50211444/gkad327.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/advance-article-pdf/doi/10.1093/nar/gkad327/50211444/gkad327.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5012374366","display_name":"Brian Jim\u00e9nez\u2010Garc\u00eda","orcid":"https://orcid.org/0000-0001-7786-2109"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Brian Jim\u00e9nez-Garc\u00eda","raw_affiliation_strings":["Zymvol Biomodeling , Pau Claris 94 3B , 08010 , Barcelona , Spain"],"raw_orcid":"https://orcid.org/0000-0001-7786-2109","affiliations":[{"raw_affiliation_string":"Zymvol Biomodeling , Pau Claris 94 3B , 08010 , Barcelona , Spain","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086790564","display_name":"Jorge Roel\u2010Touris","orcid":"https://orcid.org/0000-0002-6588-624X"},"institutions":[{"id":"https://openalex.org/I4210166526","display_name":"Institut de Biologia Molecular de Barcelona","ror":"https://ror.org/05t8khn72","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210166526"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Jorge Roel-Touris","raw_affiliation_strings":["Protein Design and Modeling Lab, Department of Structural Biology, Molecular Biology Institute of Barcelona (IBMB-CSIC) , Baldiri Reixac 15 , 08028 Barcelona , Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Protein Design and Modeling Lab, Department of Structural Biology, Molecular Biology Institute of Barcelona (IBMB-CSIC) , Baldiri Reixac 15 , 08028 Barcelona , Spain","institution_ids":["https://openalex.org/I4210166526"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023132821","display_name":"Didier Barradas\u2010Bautista","orcid":"https://orcid.org/0000-0002-6464-6607"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":false,"raw_author_name":"Didier Barradas-Bautista","raw_affiliation_strings":["Kaust Visualization Lab, Core lab Division, King Abdullah University of Science and Technology (KAUST) , 23955-6900 , Thuwal , Saudi Arabia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Kaust Visualization Lab, Core lab Division, King Abdullah University of Science and Technology (KAUST) , 23955-6900 , Thuwal , Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5012374366"],"corresponding_institution_ids":[],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":4.094,"has_fulltext":true,"cited_by_count":44,"citation_normalized_percentile":{"value":0.95430743,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"51","issue":"W1","first_page":"W298","last_page":"W304"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9988999962806702,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9988999962806702,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9828000068664551,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9825000166893005,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.9057730436325073},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.46065235137939453}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.9057730436325073},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.46065235137939453}],"mesh":[{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000295","qualifier_name":"instrumentation","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000295","qualifier_name":"instrumentation","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000295","qualifier_name":"instrumentation","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000295","qualifier_name":"instrumentation","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","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":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","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":false},{"descriptor_ui":"D046911","descriptor_name":"Macromolecular Substances","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D046911","descriptor_name":"Macromolecular Substances","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D046911","descriptor_name":"Macromolecular Substances","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D046911","descriptor_name":"Macromolecular Substances","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1093/nar/gkad327","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkad327","pdf_url":"https://academic.oup.com/nar/advance-article-pdf/doi/10.1093/nar/gkad327/50211444/gkad327.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:37140054","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37140054","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:10320125","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10320125","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10320125/pdf/gkad327.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"Nucleic Acids Res","raw_type":"Text"},{"id":"pmh:oai:digital.csic.es:10261/341636","is_oa":true,"landing_page_url":"http://hdl.handle.net/10261/341636","pdf_url":null,"source":{"id":"https://openalex.org/S4306400616","display_name":"DIGITAL.CSIC (Spanish National Research Council (CSIC))","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I134820265","host_organization_name":"Consejo Superior de Investigaciones Cient\u00edficas","host_organization_lineage":["https://openalex.org/I134820265"],"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":"art\u00edculo"},{"id":"pmh:oai:repository.kaust.edu.sa:10754/691541","is_oa":true,"landing_page_url":"http://hdl.handle.net/10754/691541","pdf_url":null,"source":{"id":"https://openalex.org/S4306401596","display_name":"King Abdullah University of Science and Technology Repository (King Abdullah University of Science and Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I71920554","host_organization_name":"King Abdullah University of Science and Technology","host_organization_lineage":["https://openalex.org/I71920554"],"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":"Article"}],"best_oa_location":{"id":"doi:10.1093/nar/gkad327","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkad327","pdf_url":"https://academic.oup.com/nar/advance-article-pdf/doi/10.1093/nar/gkad327/50211444/gkad327.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3850294894","display_name":null,"funder_award_id":"ALTF 145-2021","funder_id":"https://openalex.org/F4320307844","funder_display_name":"European Molecular Biology Organization"},{"id":"https://openalex.org/G5314698565","display_name":null,"funder_award_id":"801342","funder_id":"https://openalex.org/F4320321505","funder_display_name":"Generalitat de Catalunya"},{"id":"https://openalex.org/G5997161511","display_name":null,"funder_award_id":"801342","funder_id":"https://openalex.org/F4320323714","funder_display_name":"Ag\u00e8ncia per a la Competitivitat de l\u2019Empresa"},{"id":"https://openalex.org/G6193758499","display_name":"ACCI\u00d3 programme to foster mobility of researchers with a focus in applied research and technology transfer","funder_award_id":"801342","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G912489172","display_name":null,"funder_award_id":"801342","funder_id":"https://openalex.org/F4320332999","funder_display_name":"Horizon 2020 Framework Programme"}],"funders":[{"id":"https://openalex.org/F4320307844","display_name":"European Molecular Biology Organization","ror":"https://ror.org/04wfr2810"},{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320321505","display_name":"Generalitat de Catalunya","ror":"https://ror.org/01bg62x04"},{"id":"https://openalex.org/F4320322320","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38"},{"id":"https://openalex.org/F4320323714","display_name":"Ag\u00e8ncia per a la Competitivitat de l\u2019Empresa","ror":"https://ror.org/01xhc9d78"},{"id":"https://openalex.org/F4320332999","display_name":"Horizon 2020 Framework Programme","ror":"https://ror.org/00k4n6c32"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4368357429.pdf"},"referenced_works_count":34,"referenced_works":["https://openalex.org/W1982679430","https://openalex.org/W1990976905","https://openalex.org/W2054394841","https://openalex.org/W2080876451","https://openalex.org/W2082947088","https://openalex.org/W2136777954","https://openalex.org/W2154019529","https://openalex.org/W2158412800","https://openalex.org/W2163194931","https://openalex.org/W2170564629","https://openalex.org/W2304188484","https://openalex.org/W2572080171","https://openalex.org/W2753374271","https://openalex.org/W2799682268","https://openalex.org/W2806399642","https://openalex.org/W2901361432","https://openalex.org/W2949223833","https://openalex.org/W2968836630","https://openalex.org/W2983012520","https://openalex.org/W3015438624","https://openalex.org/W3107420460","https://openalex.org/W3158075195","https://openalex.org/W3159719254","https://openalex.org/W3177828909","https://openalex.org/W3186179742","https://openalex.org/W3202105508","https://openalex.org/W4223573531","https://openalex.org/W4229892776","https://openalex.org/W4281790889","https://openalex.org/W4309908854","https://openalex.org/W4321015020","https://openalex.org/W4321354559","https://openalex.org/W4387930985","https://openalex.org/W6802033083"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2082860237","https://openalex.org/W2119695867","https://openalex.org/W2130076355","https://openalex.org/W1990804418","https://openalex.org/W1993764875","https://openalex.org/W2046158694","https://openalex.org/W2788277189","https://openalex.org/W2013243191","https://openalex.org/W1971568933"],"abstract_inverted_index":{"Computational":[0],"docking":[1,79],"is":[2],"an":[3],"instrumental":[4],"method":[5],"of":[6,38,63],"the":[7,53,60,76,108],"structural":[8,26,109],"biology":[9,27,110],"toolbox.":[10],"Specifically,":[11],"integrative":[12,61],"modeling":[13,62,86],"software,":[14],"such":[15],"as":[16,19],"LightDock,":[17],"arise":[18],"complementary":[20],"and":[21,30,40,112],"synergetic":[22],"methods":[23],"to":[24,35,41,107],"experimental":[25],"techniques.":[28],"Ubiquitousness":[29],"accessibility":[31],"are":[32],"fundamental":[33],"features":[34],"promote":[36],"ease":[37],"use":[39],"improve":[42],"user":[43],"experience.":[44],"With":[45],"this":[46,99],"goal":[47],"in":[48],"mind,":[49],"we":[50],"have":[51],"developed":[52],"LightDock":[54,77],"Server,":[55],"a":[56,104],"web":[57],"server":[58,73],"for":[59,85],"macromolecular":[64,78],"interactions,":[65,91],"along":[66],"with":[67],"several":[68],"dedicated":[69],"usage":[70],"modes.":[71],"The":[72],"builds":[74],"upon":[75],"framework,":[80],"which":[81],"has":[82],"proved":[83],"useful":[84],"medium-to-high":[87],"flexible":[88],"complexes,":[89],"antibody-antigen":[90],"or":[92],"membrane-associated":[93],"protein":[94],"assemblies.":[95],"We":[96],"believe":[97],"that":[98],"free-to-use":[100],"resource":[101],"will":[102],"be":[103,114],"valuable":[105],"addition":[106],"community":[111],"can":[113],"accessed":[115],"online":[116],"at:":[117],"https://server.lightdock.org/.":[118]},"counts_by_year":[{"year":2026,"cited_by_count":15},{"year":2025,"cited_by_count":14},{"year":2024,"cited_by_count":13},{"year":2023,"cited_by_count":2}],"updated_date":"2026-07-30T17:31:21.811387","created_date":"2025-10-10T00:00:00"}
