{"id":"https://openalex.org/W2065401585","doi":"https://doi.org/10.1371/journal.pcbi.1000514","title":"A Computational Analysis of ATP Binding of SV40 Large Tumor Antigen Helicase Motor","display_name":"A Computational Analysis of ATP Binding of SV40 Large Tumor Antigen Helicase Motor","publication_year":2009,"publication_date":"2009-09-25","ids":{"openalex":"https://openalex.org/W2065401585","doi":"https://doi.org/10.1371/journal.pcbi.1000514","mag":"2065401585","pmid":"https://pubmed.ncbi.nlm.nih.gov/19779548"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1000514","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1000514","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000514&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.1000514&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5089756124","display_name":"Yemin Shi","orcid":null},"institutions":[{"id":"https://openalex.org/I1174212","display_name":"University of Southern California","ror":"https://ror.org/03taz7m60","country_code":"US","type":"education","lineage":["https://openalex.org/I1174212"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yemin Shi","raw_affiliation_strings":["Molecular and Computational Biology, University of Southern California, Los Angeles, California, USA","Molecular and Computational Biology, University of Southern California, Los Angeles, California, United States of America"],"affiliations":[{"raw_affiliation_string":"Molecular and Computational Biology, University of Southern California, Los Angeles, California, USA","institution_ids":["https://openalex.org/I1174212"]},{"raw_affiliation_string":"Molecular and Computational Biology, University of Southern California, Los Angeles, California, United States of America","institution_ids":["https://openalex.org/I1174212"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087785745","display_name":"Hanbin Liu","orcid":"https://orcid.org/0000-0002-2141-796X"},"institutions":[{"id":"https://openalex.org/I1174212","display_name":"University of Southern California","ror":"https://ror.org/03taz7m60","country_code":"US","type":"education","lineage":["https://openalex.org/I1174212"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hanbin Liu","raw_affiliation_strings":["Chemistry Department, University of Southern California, Los Angeles, California, United States of America"],"affiliations":[{"raw_affiliation_string":"Chemistry Department, University of Southern California, Los Angeles, California, United States of America","institution_ids":["https://openalex.org/I1174212"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071601431","display_name":"Dahai Gai","orcid":null},"institutions":[{"id":"https://openalex.org/I1174212","display_name":"University of Southern California","ror":"https://ror.org/03taz7m60","country_code":"US","type":"education","lineage":["https://openalex.org/I1174212"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dahai Gai","raw_affiliation_strings":["Molecular and Computational Biology, University of Southern California, Los Angeles, California, United States of America"],"affiliations":[{"raw_affiliation_string":"Molecular and Computational Biology, University of Southern California, Los Angeles, California, United States of America","institution_ids":["https://openalex.org/I1174212"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076174923","display_name":"Jianpeng Ma","orcid":"https://orcid.org/0000-0003-2943-0779"},"institutions":[{"id":"https://openalex.org/I181547552","display_name":"Baylor College of Medicine","ror":"https://ror.org/02pttbw34","country_code":"US","type":"education","lineage":["https://openalex.org/I181547552","https://openalex.org/I2801539370"]},{"id":"https://openalex.org/I74775410","display_name":"Rice University","ror":"https://ror.org/008zs3103","country_code":"US","type":"education","lineage":["https://openalex.org/I74775410"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jianpeng Ma","raw_affiliation_strings":["Department of Bioengineering, Rice University, Houston, Texas, United States of America","Verna and Marrs McLean Department of Biochemistry and Molecular Biology, Baylor College of Medicine, Houston, Texas, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, Rice University, Houston, Texas, United States of America","institution_ids":["https://openalex.org/I74775410"]},{"raw_affiliation_string":"Verna and Marrs McLean Department of Biochemistry and Molecular Biology, Baylor College of Medicine, Houston, Texas, United States of America","institution_ids":["https://openalex.org/I181547552"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5009539262","display_name":"Xiaojiang S. Chen","orcid":"https://orcid.org/0000-0001-9574-0551"},"institutions":[{"id":"https://openalex.org/I1174212","display_name":"University of Southern California","ror":"https://ror.org/03taz7m60","country_code":"US","type":"education","lineage":["https://openalex.org/I1174212"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Xiaojiang S. Chen","raw_affiliation_strings":["Chemistry Department, University of Southern California, Los Angeles, California, United States of America","Molecular and Computational Biology, University of Southern California, Los Angeles, California, United States of America"],"affiliations":[{"raw_affiliation_string":"Chemistry Department, University of Southern California, Los Angeles, California, United States of America","institution_ids":["https://openalex.org/I1174212"]},{"raw_affiliation_string":"Molecular and Computational Biology, University of Southern California, Los Angeles, California, United States of America","institution_ids":["https://openalex.org/I1174212"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5009539262"],"corresponding_institution_ids":["https://openalex.org/I1174212"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":0.4044,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.6343678,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"5","issue":"9","first_page":"e1000514","last_page":"e1000514"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.9998000264167786,"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/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.9998000264167786,"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/T10725","display_name":"RNA Interference and Gene Delivery","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/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9941999912261963,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/helicase","display_name":"Helicase","score":0.7076420783996582},{"id":"https://openalex.org/keywords/motor-protein","display_name":"Motor protein","score":0.4472167491912842},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.43346452713012695},{"id":"https://openalex.org/keywords/plasma-protein-binding","display_name":"Plasma protein binding","score":0.4238305985927582},{"id":"https://openalex.org/keywords/molecular-motor","display_name":"Molecular motor","score":0.41717779636383057},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3710445165634155},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.35935866832733154},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.34143775701522827},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.24674120545387268},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.12816837430000305},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.10580044984817505}],"concepts":[{"id":"https://openalex.org/C161223559","wikidata":"https://www.wikidata.org/wiki/Q138864","display_name":"Helicase","level":4,"score":0.7076420783996582},{"id":"https://openalex.org/C93126451","wikidata":"https://www.wikidata.org/wiki/Q2383767","display_name":"Motor protein","level":3,"score":0.4472167491912842},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.43346452713012695},{"id":"https://openalex.org/C51639874","wikidata":"https://www.wikidata.org/wiki/Q167149","display_name":"Plasma protein binding","level":2,"score":0.4238305985927582},{"id":"https://openalex.org/C160408235","wikidata":"https://www.wikidata.org/wiki/Q423905","display_name":"Molecular motor","level":2,"score":0.41717779636383057},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3710445165634155},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.35935866832733154},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.34143775701522827},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.24674120545387268},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.12816837430000305},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10580044984817505},{"id":"https://openalex.org/C20418707","wikidata":"https://www.wikidata.org/wiki/Q189933","display_name":"Microtubule","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000255","descriptor_name":"Adenosine Triphosphate","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000255","descriptor_name":"Adenosine Triphosphate","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000255","descriptor_name":"Adenosine Triphosphate","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000255","descriptor_name":"Adenosine Triphosphate","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000255","descriptor_name":"Adenosine Triphosphate","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000255","descriptor_name":"Adenosine Triphosphate","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000952","descriptor_name":"Antigens, Polyomavirus Transforming","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000952","descriptor_name":"Antigens, Polyomavirus Transforming","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000952","descriptor_name":"Antigens, Polyomavirus Transforming","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000952","descriptor_name":"Antigens, Polyomavirus Transforming","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000952","descriptor_name":"Antigens, Polyomavirus Transforming","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000952","descriptor_name":"Antigens, Polyomavirus Transforming","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004265","descriptor_name":"DNA Helicases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004265","descriptor_name":"DNA Helicases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004265","descriptor_name":"DNA Helicases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004265","descriptor_name":"DNA Helicases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004265","descriptor_name":"DNA Helicases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004265","descriptor_name":"DNA Helicases","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D006860","descriptor_name":"Hydrogen Bonding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006860","descriptor_name":"Hydrogen Bonding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006860","descriptor_name":"Hydrogen Bonding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008274","descriptor_name":"Magnesium","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008274","descriptor_name":"Magnesium","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008274","descriptor_name":"Magnesium","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","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":"D013539","descriptor_name":"Simian virus 40","qualifier_ui":"Q000201","qualifier_name":"enzymology","is_major_topic":false},{"descriptor_ui":"D013539","descriptor_name":"Simian virus 40","qualifier_ui":"Q000201","qualifier_name":"enzymology","is_major_topic":false},{"descriptor_ui":"D013539","descriptor_name":"Simian virus 40","qualifier_ui":"Q000201","qualifier_name":"enzymology","is_major_topic":false},{"descriptor_ui":"D013539","descriptor_name":"Simian virus 40","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D013539","descriptor_name":"Simian virus 40","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D013539","descriptor_name":"Simian virus 40","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D013539","descriptor_name":"Simian virus 40","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D013539","descriptor_name":"Simian virus 40","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D013539","descriptor_name":"Simian virus 40","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014867","descriptor_name":"Water","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014867","descriptor_name":"Water","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014867","descriptor_name":"Water","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1371/journal.pcbi.1000514","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1000514","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000514&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:19779548","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19779548","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:CiteSeerX.psu:10.1.1.815.254","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.815.254","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/b9/33/pcbi.1000514.PMC2739275.pdf","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:6ab5c0b29a0249d6b6263dd552198ee9","is_oa":true,"landing_page_url":"https://doaj.org/article/6ab5c0b29a0249d6b6263dd552198ee9","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 5, Iss 9, p e1000514 (2009)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2739275","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2739275","pdf_url":null,"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":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1000514","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1000514","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000514&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.8700000047683716,"display_name":"Affordable and clean energy","id":"https://metadata.un.org/sdg/7"}],"awards":[{"id":"https://openalex.org/G235486525","display_name":null,"funder_award_id":"AI055926","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2065401585.pdf","grobid_xml":"https://content.openalex.org/works/W2065401585.grobid-xml"},"referenced_works_count":35,"referenced_works":["https://openalex.org/W255996521","https://openalex.org/W1967751997","https://openalex.org/W1969154573","https://openalex.org/W1976499671","https://openalex.org/W1980145808","https://openalex.org/W1989396934","https://openalex.org/W2002484456","https://openalex.org/W2002767842","https://openalex.org/W2015654948","https://openalex.org/W2023472866","https://openalex.org/W2024811959","https://openalex.org/W2027408247","https://openalex.org/W2028702957","https://openalex.org/W2029667189","https://openalex.org/W2031972197","https://openalex.org/W2036173433","https://openalex.org/W2036842869","https://openalex.org/W2039694230","https://openalex.org/W2041614216","https://openalex.org/W2064553470","https://openalex.org/W2070424720","https://openalex.org/W2071480462","https://openalex.org/W2079609481","https://openalex.org/W2082798563","https://openalex.org/W2087318188","https://openalex.org/W2092348814","https://openalex.org/W2101936319","https://openalex.org/W2105439835","https://openalex.org/W2106140689","https://openalex.org/W2123550762","https://openalex.org/W2144757830","https://openalex.org/W2147374970","https://openalex.org/W2162166182","https://openalex.org/W2164021415","https://openalex.org/W6609701964"],"related_works":["https://openalex.org/W2103182829","https://openalex.org/W2036547507","https://openalex.org/W2531115716","https://openalex.org/W2048734312","https://openalex.org/W1599251874","https://openalex.org/W1994188047","https://openalex.org/W2068239511","https://openalex.org/W2611070079","https://openalex.org/W2166454051","https://openalex.org/W2914821937"],"abstract_inverted_index":{"Simian":[0],"virus":[1],"40":[2],"large":[3,179],"tumor":[4],"antigen":[5],"(LTag)":[6],"is":[7,24,125,143,175],"an":[8,40,193],"efficient":[9],"helicase":[10,53],"motor":[11],"that":[12,213],"unwinds":[13],"and":[14,20,29,76,195],"translocates":[15],"DNA.":[16],"The":[17,98,156],"DNA":[18],"unwinding":[19],"translocation":[21],"of":[22,39,47,51,65,89,131,163,182,187,203],"LTag":[23,41,52,194],"powered":[25],"by":[26,128,177],"ATP":[27,67,107,124,140,172,189],"binding":[28,57,68,108,117,141,147,190],"hydrolysis":[30],"at":[31,118],"the":[32,45,66,71,78,83,90,106,110,114,119,135,146,152,168,178,188,196,201],"nucleotide":[33,56,120],"pocket":[34],"between":[35],"two":[36],"adjacent":[37],"subunits":[38],"hexamer.":[42],"Based":[43],"on":[44],"set":[46],"high-resolution":[48],"hexameric":[49,154],"structures":[50],"in":[54,122,200],"different":[55],"states,":[58],"we":[59],"simulated":[60],"a":[61,102,138,160,204,208],"conformational":[62,180,198],"transition":[63,161],"pathway":[64],"process":[69,104,142,191],"using":[70,82],"targeted":[72],"molecular":[73],"dynamics":[74],"method":[75,96],"calculated":[77],"corresponding":[79],"energy":[80],"profile":[81],"linear":[84],"response":[85],"approximation":[86],"(LRA)":[87],"version":[88],"semi-macroscopic":[91],"Protein":[92],"Dipoles":[93,95],"Langevin":[94],"(PDLD/S).":[97],"simulation":[99,157,185],"results":[100],"suggest":[101],"three-step":[103],"for":[105,151],"from":[109],"initial":[111],"interaction":[112],"to":[113,145,166,192,207],"final":[115],"tight":[116],"pocket,":[121],"which":[123,174],"eventually":[126],"\"locked\"":[127],"three":[129],"pairs":[130],"charge-charge":[132],"interactions":[133],"across":[134],"pocket.":[136],"Such":[137],"\"cross-locking\"":[139],"similar":[144],"zipper":[148],"model":[149,212],"reported":[150],"F1-ATPase":[153],"motor.":[155],"also":[158],"shows":[159],"mechanism":[162],"Mg2+":[164],"coordination":[165],"form":[167],"Mg-ATP":[169],"complex":[170],"during":[171],"binding,":[173],"accompanied":[176],"changes":[181,199],"LTag.":[183],"This":[184],"study":[186],"accompanying":[197],"context":[202],"hexamer":[205],"leads":[206],"refined":[209],"cooperative":[210],"iris":[211],"has":[214],"been":[215],"proposed":[216],"previously.":[217]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
