{"id":"https://openalex.org/W2029457788","doi":"https://doi.org/10.1093/nar/gkv335","title":"webSDA: a web server to simulate macromolecular diffusional association","display_name":"webSDA: a web server to simulate macromolecular diffusional association","publication_year":2015,"publication_date":"2015-04-16","ids":{"openalex":"https://openalex.org/W2029457788","doi":"https://doi.org/10.1093/nar/gkv335","mag":"2029457788","pmid":"https://pubmed.ncbi.nlm.nih.gov/25883142"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkv335","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkv335","pdf_url":"https://academic.oup.com/nar/article-pdf/43/W1/W220/7476052/gkv335.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/article-pdf/43/W1/W220/7476052/gkv335.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5028680526","display_name":"Xiaofeng Yu","orcid":"https://orcid.org/0000-0001-6742-3591"},"institutions":[{"id":"https://openalex.org/I71030271","display_name":"Heidelberg Institute for Theoretical Studies","ror":"https://ror.org/01f7bcy98","country_code":"DE","type":"facility","lineage":["https://openalex.org/I71030271"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Xiaofeng Yu","raw_affiliation_strings":["Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany Rebecca.Wade@h-its.org","Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany"],"affiliations":[{"raw_affiliation_string":"Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany Rebecca.Wade@h-its.org","institution_ids":["https://openalex.org/I71030271"]},{"raw_affiliation_string":"Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany","institution_ids":["https://openalex.org/I71030271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103889889","display_name":"Michael Martinez","orcid":null},"institutions":[{"id":"https://openalex.org/I71030271","display_name":"Heidelberg Institute for Theoretical Studies","ror":"https://ror.org/01f7bcy98","country_code":"DE","type":"facility","lineage":["https://openalex.org/I71030271"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Michael Martinez","raw_affiliation_strings":["Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany"],"affiliations":[{"raw_affiliation_string":"Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany","institution_ids":["https://openalex.org/I71030271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010825633","display_name":"Annika L. Gable","orcid":"https://orcid.org/0000-0002-8965-0848"},"institutions":[{"id":"https://openalex.org/I71030271","display_name":"Heidelberg Institute for Theoretical Studies","ror":"https://ror.org/01f7bcy98","country_code":"DE","type":"facility","lineage":["https://openalex.org/I71030271"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Annika L. Gable","raw_affiliation_strings":["Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany"],"affiliations":[{"raw_affiliation_string":"Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany","institution_ids":["https://openalex.org/I71030271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013288837","display_name":"Jonathan C. Fuller","orcid":"https://orcid.org/0000-0001-8801-149X"},"institutions":[{"id":"https://openalex.org/I71030271","display_name":"Heidelberg Institute for Theoretical Studies","ror":"https://ror.org/01f7bcy98","country_code":"DE","type":"facility","lineage":["https://openalex.org/I71030271"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Jonathan C. Fuller","raw_affiliation_strings":["Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany"],"affiliations":[{"raw_affiliation_string":"Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany","institution_ids":["https://openalex.org/I71030271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010979477","display_name":"Neil J. Bruce","orcid":"https://orcid.org/0000-0002-2735-3215"},"institutions":[{"id":"https://openalex.org/I71030271","display_name":"Heidelberg Institute for Theoretical Studies","ror":"https://ror.org/01f7bcy98","country_code":"DE","type":"facility","lineage":["https://openalex.org/I71030271"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Neil J. Bruce","raw_affiliation_strings":["Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany"],"affiliations":[{"raw_affiliation_string":"Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany","institution_ids":["https://openalex.org/I71030271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055274857","display_name":"Stefan Richter","orcid":"https://orcid.org/0000-0001-5373-8381"},"institutions":[{"id":"https://openalex.org/I71030271","display_name":"Heidelberg Institute for Theoretical Studies","ror":"https://ror.org/01f7bcy98","country_code":"DE","type":"facility","lineage":["https://openalex.org/I71030271"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Stefan Richter","raw_affiliation_strings":["Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany"],"affiliations":[{"raw_affiliation_string":"Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany","institution_ids":["https://openalex.org/I71030271"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5005498993","display_name":"Rebecca C. Wade","orcid":"https://orcid.org/0000-0001-5951-8670"},"institutions":[{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]},{"id":"https://openalex.org/I71030271","display_name":"Heidelberg Institute for Theoretical Studies","ror":"https://ror.org/01f7bcy98","country_code":"DE","type":"facility","lineage":["https://openalex.org/I71030271"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Rebecca C. Wade","raw_affiliation_strings":["Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany Center for Molecular Biology (ZMBH), DKFZ-ZMBH Alliance, Heidelberg University, Heidelberg, Baden-W\u00fcrttemberg, Germany Interdisciplinary Center for Scientific Computing (IWR), Heidelberg University, Heidelberg, Baden-W\u00fcrttemberg, Germany Rebecca.Wade@h-its.org","1Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany","3Interdisciplinary Center for Scientific Computing (IWR), Heidelberg University, Heidelberg, Baden-W\u00fcrttemberg, Germany","2Center for Molecular Biology (ZMBH), DKFZ-ZMBH Alliance, Heidelberg University, Heidelberg, Baden-W\u00fcrttemberg, Germany"],"affiliations":[{"raw_affiliation_string":"Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany Center for Molecular Biology (ZMBH), DKFZ-ZMBH Alliance, Heidelberg University, Heidelberg, Baden-W\u00fcrttemberg, Germany Interdisciplinary Center for Scientific Computing (IWR), Heidelberg University, Heidelberg, Baden-W\u00fcrttemberg, Germany Rebecca.Wade@h-its.org","institution_ids":["https://openalex.org/I223822909","https://openalex.org/I71030271"]},{"raw_affiliation_string":"1Molecular and Cellular Modeling group, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Baden-W\u00fcrttemberg, Germany","institution_ids":["https://openalex.org/I71030271"]},{"raw_affiliation_string":"3Interdisciplinary Center for Scientific Computing (IWR), Heidelberg University, Heidelberg, Baden-W\u00fcrttemberg, Germany","institution_ids":["https://openalex.org/I223822909"]},{"raw_affiliation_string":"2Center for Molecular Biology (ZMBH), DKFZ-ZMBH Alliance, Heidelberg University, Heidelberg, Baden-W\u00fcrttemberg, Germany","institution_ids":["https://openalex.org/I223822909"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5028680526"],"corresponding_institution_ids":["https://openalex.org/I71030271"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":0.7545,"has_fulltext":true,"cited_by_count":14,"citation_normalized_percentile":{"value":0.71777147,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"43","issue":"W1","first_page":"W220","last_page":"W224"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.998199999332428,"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":0.998199999332428,"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":0.9952999949455261,"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"}},{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9890999794006348,"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":0.8966718316078186},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4768691956996918},{"id":"https://openalex.org/keywords/association","display_name":"Association (psychology)","score":0.4523303806781769},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.44028735160827637},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.3359088599681854},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3306584060192108},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3046360909938812},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.18913185596466064}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.8966718316078186},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4768691956996918},{"id":"https://openalex.org/C142853389","wikidata":"https://www.wikidata.org/wiki/Q744778","display_name":"Association (psychology)","level":2,"score":0.4523303806781769},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.44028735160827637},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.3359088599681854},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3306584060192108},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3046360909938812},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.18913185596466064},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"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},{"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":"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":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/nar/gkv335","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkv335","pdf_url":"https://academic.oup.com/nar/article-pdf/43/W1/W220/7476052/gkv335.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:25883142","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25883142","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:CiteSeerX.psu:10.1.1.780.6546","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.780.6546","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/45/94/gkv335.PMC4489311.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.982.2480","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.982.2480","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://nar.oxfordjournals.org/content/43/W1/W220.full.pdf","raw_type":"text"},{"id":"pmh:oai:europepmc.org:3458216","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4489311","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"}],"best_oa_location":{"id":"doi:10.1093/nar/gkv335","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkv335","pdf_url":"https://academic.oup.com/nar/article-pdf/43/W1/W220/7476052/gkv335.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":[],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320321114","display_name":"Bundesministerium f\u00fcr Bildung und Forschung","ror":"https://ror.org/04pz7b180"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2029457788.pdf","grobid_xml":"https://content.openalex.org/works/W2029457788.grobid-xml"},"referenced_works_count":27,"referenced_works":["https://openalex.org/W1963486355","https://openalex.org/W1964797389","https://openalex.org/W1985398034","https://openalex.org/W2003128923","https://openalex.org/W2015039690","https://openalex.org/W2023387870","https://openalex.org/W2029582401","https://openalex.org/W2032937791","https://openalex.org/W2039461517","https://openalex.org/W2047399603","https://openalex.org/W2053538195","https://openalex.org/W2066601429","https://openalex.org/W2078818508","https://openalex.org/W2079057962","https://openalex.org/W2084833598","https://openalex.org/W2085934556","https://openalex.org/W2094950254","https://openalex.org/W2106210646","https://openalex.org/W2136777954","https://openalex.org/W2137935432","https://openalex.org/W2140522686","https://openalex.org/W2144020793","https://openalex.org/W2158417515","https://openalex.org/W2165565773","https://openalex.org/W2170421654","https://openalex.org/W2170564629","https://openalex.org/W2333692917"],"related_works":["https://openalex.org/W2352440174","https://openalex.org/W2065457896","https://openalex.org/W4309440960","https://openalex.org/W3173234801","https://openalex.org/W2167984027","https://openalex.org/W3021302227","https://openalex.org/W10630519","https://openalex.org/W1919377569","https://openalex.org/W3144288563","https://openalex.org/W2062168445"],"abstract_inverted_index":{"Macromolecular":[0],"interactions":[1,30],"play":[2],"a":[3,15],"crucial":[4],"role":[5],"in":[6],"biological":[7,35],"systems.":[8],"Simulation":[9],"of":[10,76,84,96,101,122,124],"diffusional":[11,98,109],"association":[12,50,57,110],"(SDA)":[13],"is":[14,127,135,140],"software":[16],"for":[17],"carrying":[18],"out":[19],"Brownian":[20,42],"dynamics":[21,43],"simulations":[22,44],"that":[23],"can":[24],"be":[25],"used":[26],"to":[27,40,47,55,61,93,106,117,130],"study":[28,48],"the":[29,74,77,97,119],"between":[31],"two":[32,102],"or":[33],"more":[34],"macromolecules.":[36,125],"webSDA":[37,70,86,126,139],"allows":[38],"users":[39,132],"run":[41],"with":[45],"SDA":[46,78],"bimolecular":[49,108],"and":[51,60,72,80,113,133],"encounter":[52,99],"complex":[53],"formation,":[54],"compute":[56],"rate":[58,111],"constants,":[59,112],"investigate":[62],"macromolecular":[63,68],"crowding":[64],"using":[65],"atomically":[66],"detailed":[67],"structures.":[69],"facilitates":[71],"automates":[73],"use":[75],"software,":[79],"offers":[81],"user-friendly":[82],"visualization":[83],"results.":[85],"currently":[87],"has":[88],"three":[89],"modules:":[90],"'SDA":[91,104,114],"docking'":[92],"generate":[94],"structures":[95],"complexes":[100],"macromolecules,":[103],"association'":[105],"calculate":[107],"multiple":[115],"molecules'":[116],"simulate":[118],"diffusive":[120],"motion":[121],"hundreds":[123],"freely":[128],"available":[129,141],"all":[131],"there":[134],"no":[136],"login":[137],"requirement.":[138],"at":[142],"http://mcm.h-its.org/webSDA/.":[143]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":2}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
