{"id":"https://openalex.org/W1963962795","doi":"https://doi.org/10.1021/bi047956x","title":"Hinge Residue Ile260 of DNA Polymerase \u03b2 Is Important for Enzyme Activity and Fidelity","display_name":"Hinge Residue Ile260 of DNA Polymerase \u03b2 Is Important for Enzyme Activity and Fidelity","publication_year":2005,"publication_date":"2005-02-12","ids":{"openalex":"https://openalex.org/W1963962795","doi":"https://doi.org/10.1021/bi047956x","mag":"1963962795","pmid":"https://pubmed.ncbi.nlm.nih.gov/15751954"},"language":"en","primary_location":{"id":"doi:10.1021/bi047956x","doi":"https://doi.org/10.1021/bi047956x","is_oa":false,"landing_page_url":"https://doi.org/10.1021/bi047956x","pdf_url":null,"source":{"id":"https://openalex.org/S104038378","display_name":"Biochemistry","issn_l":"0006-2960","issn":["0006-2960","1520-4995","1943-295X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-b","doyens","jufo-1","ki-jl-1","medline","norway-1","poland-100","russia-white-list-2"],"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Biochemistry","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5008296935","display_name":"Daniela Starcevic","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Daniela Starcevic","raw_affiliation_strings":["Departments of Genetics and Therapeutic Radiology and Program in Microbiology, Yale University School of Medicine, New Haven, Connecticut 06520"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Genetics and Therapeutic Radiology and Program in Microbiology, Yale University School of Medicine, New Haven, Connecticut 06520","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112073025","display_name":"Shibani Dalal","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shibani Dalal","raw_affiliation_strings":["Departments of Genetics and Therapeutic Radiology and Program in Microbiology, Yale University School of Medicine, New Haven, Connecticut 06520"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Genetics and Therapeutic Radiology and Program in Microbiology, Yale University School of Medicine, New Haven, Connecticut 06520","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5031828516","display_name":"Joann Balazs Sweasy","orcid":"https://orcid.org/0000-0002-4503-0284","observed_orcids":["https://orcid.org/0000-0002-4503-0284"]},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Joann Sweasy","raw_affiliation_strings":["Departments of Genetics and Therapeutic Radiology and Program in Microbiology, Yale University School of Medicine, New Haven, Connecticut 06520"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departments of Genetics and Therapeutic Radiology and Program in Microbiology, Yale University School of Medicine, New Haven, Connecticut 06520","institution_ids":["https://openalex.org/I32971472"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5031828516"],"corresponding_institution_ids":["https://openalex.org/I32971472"],"apc_list":{"value":4500,"currency":"USD","value_usd":4500},"apc_paid":null,"fwci":0.8784,"has_fulltext":false,"cited_by_count":30,"citation_normalized_percentile":{"value":0.6855623,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"44","issue":"10","first_page":"3775","last_page":"3784"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10123","display_name":"DNA Repair Mechanisms","score":0.9824000000953674,"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/T10123","display_name":"DNA Repair Mechanisms","score":0.9824000000953674,"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/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.0066999997943639755,"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":0.0032999999821186066,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/dna-polymerase-beta","display_name":"DNA polymerase beta","score":0.9959999918937683},{"id":"https://openalex.org/keywords/mutator-activity","display_name":"mutator activity","score":0.640999972820282},{"id":"https://openalex.org/keywords/enzyme-activity","display_name":"enzyme activity","score":0.5070000290870667},{"id":"https://openalex.org/keywords/phosphodiester-bond-formation","display_name":"phosphodiester bond formation","score":0.7900000214576721},{"id":"https://openalex.org/keywords/active-site","display_name":"active site","score":0.5230000019073486},{"id":"https://openalex.org/keywords/site-directed-mutants","display_name":"site-directed mutants","score":0.5090000033378601},{"id":"https://openalex.org/keywords/molecular-modeling","display_name":"molecular modeling","score":0.6899999976158142}],"concepts":[{"id":"https://openalex.org/C2756471","wikidata":"https://www.wikidata.org/wiki/Q206286","display_name":"DNA polymerase","level":3,"score":0.6545422077178955},{"id":"https://openalex.org/C82381507","wikidata":"https://www.wikidata.org/wiki/Q416878","display_name":"Polymerase","level":3,"score":0.6319290399551392},{"id":"https://openalex.org/C2781338088","wikidata":"https://www.wikidata.org/wiki/Q903495","display_name":"Residue (chemistry)","level":2,"score":0.5741053819656372},{"id":"https://openalex.org/C31254050","wikidata":"https://www.wikidata.org/wiki/Q22328799","display_name":"DNA clamp","level":5,"score":0.5544092059135437},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.5420618057250977},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.533627450466156},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.5148628950119019},{"id":"https://openalex.org/C44000306","wikidata":"https://www.wikidata.org/wiki/Q244330","display_name":"Hinge","level":2,"score":0.4285568594932556},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.382357656955719},{"id":"https://openalex.org/C153911025","wikidata":"https://www.wikidata.org/wiki/Q7202","display_name":"Molecular biology","level":1,"score":0.3223930597305298},{"id":"https://openalex.org/C49105822","wikidata":"https://www.wikidata.org/wiki/Q176996","display_name":"Polymerase chain reaction","level":3,"score":0.30638232827186584},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23473882675170898},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.09128773212432861},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08550679683685303},{"id":"https://openalex.org/C156719811","wikidata":"https://www.wikidata.org/wiki/Q28774","display_name":"Reverse transcriptase","level":4,"score":0.07601076364517212},{"id":"https://openalex.org/C74650414","wikidata":"https://www.wikidata.org/wiki/Q11397","display_name":"Classical mechanics","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":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001216","descriptor_name":"Asparagine","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001224","descriptor_name":"Aspartic Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004789","descriptor_name":"Enzyme Activation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004795","descriptor_name":"Enzyme Stability","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005816","descriptor_name":"Genetic Complementation Test","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005973","descriptor_name":"Glutamine","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006639","descriptor_name":"Histidine","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007532","descriptor_name":"Isoleucine","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007532","descriptor_name":"Isoleucine","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D008239","descriptor_name":"Lysine","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010446","descriptor_name":"Peptide Fragments","qualifier_ui":"Q000037","qualifier_name":"antagonists & inhibitors","is_major_topic":false},{"descriptor_ui":"D010446","descriptor_name":"Peptide Fragments","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010446","descriptor_name":"Peptide Fragments","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013379","descriptor_name":"Substrate Specificity","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018698","descriptor_name":"Glutamic Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019943","descriptor_name":"Amino Acid Substitution","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019951","descriptor_name":"DNA Polymerase beta","qualifier_ui":"Q000037","qualifier_name":"antagonists & inhibitors","is_major_topic":false},{"descriptor_ui":"D019951","descriptor_name":"DNA Polymerase beta","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019951","descriptor_name":"DNA Polymerase beta","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D029968","descriptor_name":"Escherichia coli Proteins","qualifier_ui":"Q000037","qualifier_name":"antagonists & inhibitors","is_major_topic":false},{"descriptor_ui":"D029968","descriptor_name":"Escherichia coli Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029968","descriptor_name":"Escherichia coli Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D051381","descriptor_name":"Rats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1021/bi047956x","doi":"https://doi.org/10.1021/bi047956x","is_oa":false,"landing_page_url":"https://doi.org/10.1021/bi047956x","pdf_url":null,"source":{"id":"https://openalex.org/S104038378","display_name":"Biochemistry","issn_l":"0006-2960","issn":["0006-2960","1520-4995","1943-295X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-b","doyens","jufo-1","ki-jl-1","medline","norway-1","poland-100","russia-white-list-2"],"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Biochemistry","raw_type":"journal-article"},{"id":"pmid:15751954","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15751954","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":"Biochemistry","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G1992660308","display_name":"DNA Polymerase Beta and Mutagenesis","funder_award_id":"R01CA080830","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G3849460767","display_name":null,"funder_award_id":"CA80830","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":1,"referenced_works":["https://openalex.org/W2002246211"],"related_works":["https://openalex.org/W2032061690","https://openalex.org/W1989755486","https://openalex.org/W7220942168","https://openalex.org/W2002519376","https://openalex.org/W2752695722","https://openalex.org/W2969838985","https://openalex.org/W1968835388","https://openalex.org/W2038699583","https://openalex.org/W2045994244","https://openalex.org/W2074813675"],"abstract_inverted_index":{"DNA":[0,11,24,152],"polymerases":[1],"ensure":[2],"efficient":[3],"insertion":[4,41],"of":[5,40,50,54,83,118,129,150,161],"the":[6,10,48,55,79,84,115,125,140,148,151,155,159,162],"correct":[7],"dNTP":[8,22],"into":[9],"substrate.":[12],"They":[13],"have":[14],"evolved":[15],"mechanisms":[16],"for":[17,36,123,175],"discriminating":[18],"among":[19],"very":[20],"similar":[21],"substrates.":[23],"polymerase":[25,30],"beta":[26],"is":[27,121],"a":[28,33,37,145,166],"repair":[29],"that":[31,114],"provides":[32],"model":[34],"system":[35],"direct":[38],"study":[39],"fidelity.":[42],"In":[43],"this":[44],"study,":[45],"we":[46],"examined":[47],"role":[49],"hinge":[51,163],"residue":[52,65,72,119],"Ile260":[53],"rat":[56],"Polbeta":[57],"on":[58],"enzyme":[59,156],"activity":[60,80,126],"and":[61,73,81,92,104,127,143,157],"accuracy.":[62],"We":[63,131],"changed":[64],"I260":[66],"to":[67,77],"every":[68],"other":[69],"amino":[70],"acid":[71],"used":[74],"genetic":[75],"screens":[76],"assess":[78],"fidelity":[82,128],"resulting":[85],"mutants.":[86],"The":[87],"I260D,":[88],"-E,":[89],"-K,":[90],"-N,":[91],"-R":[93],"mutants":[94],"are":[95,106],"significantly":[96],"less":[97],"active":[98,107,173],"than":[99],"wild-type":[100],"Polbeta.":[101,130],"Interestingly,":[102],"I260H":[103],"I260Q":[105],"but":[108],"exhibit":[109],"mutator":[110],"activity.":[111],"This":[112],"suggests":[113],"nonpolar":[116],"nature":[117],"260":[120],"important":[122],"maintaining":[124],"employ":[132],"molecular":[133],"modeling":[134],"as":[135],"an":[136,171],"aid":[137],"in":[138,154,169],"explaining":[139],"observed":[141],"phenotypes":[142],"propose":[144],"mechanism":[146],"whereby":[147],"positioning":[149],"substrate":[153],"within":[158],"surface":[160],"may":[164],"be":[165],"key":[167],"player":[168],"forming":[170],"optimal":[172],"site":[174],"phosphodiester":[176],"bond":[177],"formation":[178],"between":[179],"Watson-Crick":[180],"base":[181],"pairs.":[182]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2019,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":4}],"updated_date":"2026-10-31T12:09:11.096373","created_date":"2016-06-24T00:00:00"}