{"id":"https://openalex.org/W2155467263","doi":"https://doi.org/10.1080/07391102.2010.10508587","title":"Electrostatic Interactions between Arginines and the Minor Groove in the Nucleosome","display_name":"Electrostatic Interactions between Arginines and the Minor Groove in the Nucleosome","publication_year":2010,"publication_date":"2010-06-01","ids":{"openalex":"https://openalex.org/W2155467263","doi":"https://doi.org/10.1080/07391102.2010.10508587","mag":"2155467263","pmid":"https://pubmed.ncbi.nlm.nih.gov/20232938","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/2946858"},"language":"en","primary_location":{"id":"doi:10.1080/07391102.2010.10508587","doi":"https://doi.org/10.1080/07391102.2010.10508587","is_oa":true,"landing_page_url":"https://doi.org/10.1080/07391102.2010.10508587","pdf_url":"https://www.tandfonline.com/doi/pdf/10.1080/07391102.2010.10508587?needAccess=true","source":{"id":"https://openalex.org/S178711970","display_name":"Journal of Biomolecular Structure and Dynamics","issn_l":"0739-1102","issn":["0739-1102","1538-0254"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-d","jufo-1","ki-jl-1","medline","norway-1","poland-70","russia-white-list-1"],"host_organization":"https://openalex.org/P4310320547","host_organization_name":"Taylor & Francis","host_organization_lineage":["https://openalex.org/P4310320547","https://openalex.org/P4310320449"],"host_organization_lineage_names":["Taylor & Francis","Informa"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biomolecular Structure and Dynamics","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://www.tandfonline.com/doi/pdf/10.1080/07391102.2010.10508587?needAccess=true","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5047942590","display_name":"Sean M. West","orcid":"https://orcid.org/0000-0003-1038-0222","observed_orcids":["https://orcid.org/0000-0003-1038-0222"]},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sean M. West","raw_affiliation_strings":["Howard Hughes Medical Institute, Center for Computational Biology and Bioinformatics, Department of Biochemistry and Molecular Biophysics, Columbia University, 1130 St. Nicholas Avenue, New York, NY 10032, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Howard Hughes Medical Institute, Center for Computational Biology and Bioinformatics, Department of Biochemistry and Molecular Biophysics, Columbia University, 1130 St. Nicholas Avenue, New York, NY 10032, USA","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019996279","display_name":"Remo Rohs","orcid":"https://orcid.org/0000-0003-1752-1884","observed_orcids":["https://orcid.org/0000-0003-1752-1884"]},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Remo Rohs","raw_affiliation_strings":["Howard Hughes Medical Institute Center for Computational Biology and Bioinformatics, Department of Biochemistry and Molecular Biophysics Columbia University, 1130 St. Nicholas Avenue, New York, NY, 10032, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Howard Hughes Medical Institute Center for Computational Biology and Bioinformatics, Department of Biochemistry and Molecular Biophysics Columbia University, 1130 St. Nicholas Avenue, New York, NY, 10032, USA","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I78577930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022956981","display_name":"Richard S. Mann","orcid":"https://orcid.org/0000-0002-4749-2765","observed_orcids":["https://orcid.org/0000-0002-4749-2765"]},"institutions":[{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Richard S. Mann","raw_affiliation_strings":["Department of Biochemistry and Molecular Biophysics, Columbia University, 701 West 168th Street HHSC 1104, New York, NY, 10032, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biophysics, Columbia University, 701 West 168th Street HHSC 1104, New York, NY, 10032, USA","institution_ids":["https://openalex.org/I78577930"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5036654109","display_name":"Barry H. Honig","orcid":"https://orcid.org/0000-0002-1835-1031","observed_orcids":["https://orcid.org/0000-0002-1835-1031","https://orcid.org/0000-0002-2480-6696"]},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I78577930","display_name":"Columbia University","ror":"https://ror.org/00hj8s172","country_code":"US","type":"education","lineage":["https://openalex.org/I78577930"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Barry Honig","raw_affiliation_strings":["Howard Hughes Medical Institute Center for Computational Biology and Bioinformatics, Department of Biochemistry and Molecular Biophysics Columbia University, 1130 St. Nicholas Avenue, New York, NY, 10032, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Howard Hughes Medical Institute Center for Computational Biology and Bioinformatics, Department of Biochemistry and Molecular Biophysics Columbia University, 1130 St. Nicholas Avenue, New York, NY, 10032, USA","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I78577930"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":2.6911,"has_fulltext":false,"cited_by_count":82,"citation_normalized_percentile":{"value":0.91290432,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":95,"max":99},"biblio":{"volume":"27","issue":"6","first_page":"861","last_page":"866"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.5116999745368958,"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":0.5116999745368958,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.40549999475479126,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.04580000042915344,"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/nucleosome","display_name":"nucleosome","score":0.9380000233650208},{"id":"https://openalex.org/keywords/dna-minor-groove","display_name":"DNA minor groove","score":0.8889999985694885},{"id":"https://openalex.org/keywords/electrostatic-potential","display_name":"electrostatic potential","score":0.878000020980835},{"id":"https://openalex.org/keywords/histone-core","display_name":"histone core","score":0.6489999890327454},{"id":"https://openalex.org/keywords/dna-deformation","display_name":"DNA deformation","score":0.47999998927116394},{"id":"https://openalex.org/keywords/protein-dna-recognition","display_name":"protein-DNA recognition","score":0.6320000290870667},{"id":"https://openalex.org/keywords/groove-geometry","display_name":"groove geometry","score":0.8379999995231628}],"concepts":[{"id":"https://openalex.org/C3019303373","wikidata":"https://www.wikidata.org/wiki/Q60535862","display_name":"Minor groove","level":3,"score":0.8936627507209778},{"id":"https://openalex.org/C84772758","wikidata":"https://www.wikidata.org/wiki/Q271794","display_name":"Nucleosome","level":4,"score":0.8504317998886108},{"id":"https://openalex.org/C2779472054","wikidata":"https://www.wikidata.org/wiki/Q2377973","display_name":"Groove (engineering)","level":2,"score":0.7109987735748291},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.7028143405914307},{"id":"https://openalex.org/C64927066","wikidata":"https://www.wikidata.org/wiki/Q36293","display_name":"Histone","level":3,"score":0.6133109331130981},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.5944668650627136},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.5168202519416809},{"id":"https://openalex.org/C193646685","wikidata":"https://www.wikidata.org/wiki/Q1826830","display_name":"Linker DNA","level":5,"score":0.472855806350708},{"id":"https://openalex.org/C173681060","wikidata":"https://www.wikidata.org/wiki/Q5773169","display_name":"Histone octamer","level":5,"score":0.4662927985191345},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.46254608035087585},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4385787844657898},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3598918914794922},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.12438991665840149},{"id":"https://openalex.org/C191897082","wikidata":"https://www.wikidata.org/wiki/Q11467","display_name":"Metallurgy","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001120","descriptor_name":"Arginine","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004331","descriptor_name":"Drosophila melanogaster","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":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":true},{"descriptor_ui":"D009707","descriptor_name":"Nucleosomes","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D009707","descriptor_name":"Nucleosomes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D009707","descriptor_name":"Nucleosomes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012492","descriptor_name":"Salts","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D014982","descriptor_name":"Xenopus laevis","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D055672","descriptor_name":"Static Electricity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1080/07391102.2010.10508587","doi":"https://doi.org/10.1080/07391102.2010.10508587","is_oa":true,"landing_page_url":"https://doi.org/10.1080/07391102.2010.10508587","pdf_url":"https://www.tandfonline.com/doi/pdf/10.1080/07391102.2010.10508587?needAccess=true","source":{"id":"https://openalex.org/S178711970","display_name":"Journal of Biomolecular Structure and Dynamics","issn_l":"0739-1102","issn":["0739-1102","1538-0254"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-d","jufo-1","ki-jl-1","medline","norway-1","poland-70","russia-white-list-1"],"host_organization":"https://openalex.org/P4310320547","host_organization_name":"Taylor & Francis","host_organization_lineage":["https://openalex.org/P4310320547","https://openalex.org/P4310320449"],"host_organization_lineage_names":["Taylor & Francis","Informa"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biomolecular Structure and Dynamics","raw_type":"journal-article"},{"id":"pmid:20232938","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20232938","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,"listed_in":[],"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":"Journal of biomolecular structure & dynamics","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2946858","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2946858","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,"listed_in":[],"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":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"J Biomol Struct Dyn","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1080/07391102.2010.10508587","doi":"https://doi.org/10.1080/07391102.2010.10508587","is_oa":true,"landing_page_url":"https://doi.org/10.1080/07391102.2010.10508587","pdf_url":"https://www.tandfonline.com/doi/pdf/10.1080/07391102.2010.10508587?needAccess=true","source":{"id":"https://openalex.org/S178711970","display_name":"Journal of Biomolecular Structure and Dynamics","issn_l":"0739-1102","issn":["0739-1102","1538-0254"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-d","jufo-1","ki-jl-1","medline","norway-1","poland-70","russia-white-list-1"],"host_organization":"https://openalex.org/P4310320547","host_organization_name":"Taylor & Francis","host_organization_lineage":["https://openalex.org/P4310320547","https://openalex.org/P4310320449"],"host_organization_lineage_names":["Taylor & Francis","Informa"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biomolecular Structure and Dynamics","raw_type":"journal-article"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G129295307","display_name":"National Center: Multiscale Analysis of Genomic and Cellular Networks (MAGNet)","funder_award_id":"U54CA121852","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G5686871975","display_name":"Molecular Genetics of Segment Identity","funder_award_id":"R01GM054510","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2155467263.pdf"},"referenced_works_count":28,"referenced_works":["https://openalex.org/W655500139","https://openalex.org/W1488985680","https://openalex.org/W1921958512","https://openalex.org/W1933777541","https://openalex.org/W1965609229","https://openalex.org/W1974903866","https://openalex.org/W1980722147","https://openalex.org/W2002659345","https://openalex.org/W2007071268","https://openalex.org/W2012627860","https://openalex.org/W2021534482","https://openalex.org/W2033820310","https://openalex.org/W2036681286","https://openalex.org/W2039859086","https://openalex.org/W2057664120","https://openalex.org/W2061111901","https://openalex.org/W2067301744","https://openalex.org/W2071063546","https://openalex.org/W2072502054","https://openalex.org/W2091190427","https://openalex.org/W2110562802","https://openalex.org/W2122199548","https://openalex.org/W2129020471","https://openalex.org/W2145399521","https://openalex.org/W2151553287","https://openalex.org/W2155844132","https://openalex.org/W2166755632","https://openalex.org/W2531373448"],"related_works":["https://openalex.org/W2012627860","https://openalex.org/W2252765273","https://openalex.org/W2105463149","https://openalex.org/W2976802732","https://openalex.org/W2038074953","https://openalex.org/W2415003028","https://openalex.org/W1991485444","https://openalex.org/W2072502054","https://openalex.org/W2059199126","https://openalex.org/W2323161552"],"abstract_inverted_index":{"Proteins":[0],"rely":[1],"on":[2,53],"a":[3,17,21,64,71],"variety":[4],"of":[5,20,46,88,110],"readout":[6,23],"mechanisms":[7],"to":[8,84],"preferentially":[9],"bind":[10],"specific":[11],"DNA":[12,41,73,124],"sequences.":[13],"The":[14,75],"nucleosome":[15,48],"offers":[16],"prominent":[18],"example":[19],"shape":[22,42],"mechanism":[24],"where":[25],"arginines":[26,111],"insert":[27],"into":[28],"narrow":[29,113],"minor":[30,80,114],"groove":[31,81,97],"regions":[32],"that":[33,107],"face":[34],"the":[35,79,89,108,122,126],"histone":[36],"core.":[37],"Here":[38],"we":[39],"compare":[40],"and":[43,68,102],"arginine":[44],"recognition":[45],"three":[47],"core":[49],"particle":[50],"structures,":[51,61],"expanding":[52],"our":[54,104],"previous":[55,105],"study":[56],"by":[57,96],"characterizing":[58],"two":[59],"additional":[60],"one":[62,69],"with":[63,70,112],"different":[65,72],"protein":[66],"sequence":[67,91],"sequence.":[74],"electrostatic":[76],"potential":[77],"in":[78,120,125],"is":[82],"shown":[83],"be":[85],"largely":[86],"independent":[87],"underlying":[90],"but":[92],"is,":[93],"however,":[94],"dominated":[95],"geometry.":[98],"Our":[99],"results":[100],"extend":[101],"generalize":[103],"observation":[106],"interaction":[109],"grooves":[115],"plays":[116],"an":[117],"important":[118],"role":[119],"stabilizing":[121],"deformed":[123],"nucleosome.":[127]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":5},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":6},{"year":2015,"cited_by_count":10},{"year":2014,"cited_by_count":6},{"year":2013,"cited_by_count":7},{"year":2012,"cited_by_count":6}],"updated_date":"2026-11-06T12:05:46.655746","created_date":"2016-06-24T00:00:00"}