{"id":"https://openalex.org/W2297806504","doi":"https://doi.org/10.1096/fasebj.23.1_supplement.837.1","title":"Regulation of DNA damage responses by the polymerase manager proteins UmuD and UmuD\u2032","display_name":"Regulation of DNA damage responses by the polymerase manager proteins UmuD and UmuD\u2032","publication_year":2009,"publication_date":"2009-04-01","ids":{"openalex":"https://openalex.org/W2297806504","doi":"https://doi.org/10.1096/fasebj.23.1_supplement.837.1","mag":"2297806504"},"language":"en","primary_location":{"id":"doi:10.1096/fasebj.23.1_supplement.837.1","doi":"https://doi.org/10.1096/fasebj.23.1_supplement.837.1","is_oa":false,"landing_page_url":"https://doi.org/10.1096/fasebj.23.1_supplement.837.1","pdf_url":null,"source":{"id":"https://openalex.org/S25293849","display_name":"The FASEB Journal","issn_l":"0892-6638","issn":["0892-6638","1530-6860"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-c","doyens","jufo-2","ki-jl-2","medline","norway-2","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The FASEB Journal","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref"],"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/A5015910317","display_name":"Penny J. Beuning","orcid":"https://orcid.org/0000-0002-7770-022X","observed_orcids":["https://orcid.org/0000-0002-7770-022X"]},"institutions":[{"id":"https://openalex.org/I12912129","display_name":"Northeastern University","ror":"https://ror.org/04t5xt781","country_code":"US","type":"education","lineage":["https://openalex.org/I12912129"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Penny J Beuning","raw_affiliation_strings":["Chemistry and Chemical Biology, Northeastern University, Boston, MA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chemistry and Chemical Biology, Northeastern University, Boston, MA","institution_ids":["https://openalex.org/I12912129"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062695629","display_name":"Jana Sefcikova","orcid":"https://orcid.org/0000-0003-4225-3236","observed_orcids":["https://orcid.org/0000-0003-4225-3236"]},"institutions":[{"id":"https://openalex.org/I12912129","display_name":"Northeastern University","ror":"https://ror.org/04t5xt781","country_code":"US","type":"education","lineage":["https://openalex.org/I12912129"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jana Sefcikova","raw_affiliation_strings":["Chemistry and Chemical Biology, Northeastern University, Boston, MA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chemistry and Chemical Biology, Northeastern University, Boston, MA","institution_ids":["https://openalex.org/I12912129"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113723301","display_name":"Jing Susan Fang","orcid":"https://orcid.org/0000-0001-8593-378X","observed_orcids":["https://orcid.org/0000-0001-8593-378X"]},"institutions":[{"id":"https://openalex.org/I12912129","display_name":"Northeastern University","ror":"https://ror.org/04t5xt781","country_code":"US","type":"education","lineage":["https://openalex.org/I12912129"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jing Susan Fang","raw_affiliation_strings":["Chemistry and Chemical Biology, Northeastern University, Boston, MA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chemistry and Chemical Biology, Northeastern University, Boston, MA","institution_ids":["https://openalex.org/I12912129"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5082763070","display_name":"John R. Engen","orcid":"https://orcid.org/0000-0002-6918-9476","observed_orcids":["https://orcid.org/0000-0002-6918-9476"]},"institutions":[{"id":"https://openalex.org/I12912129","display_name":"Northeastern University","ror":"https://ror.org/04t5xt781","country_code":"US","type":"education","lineage":["https://openalex.org/I12912129"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"John R Engen","raw_affiliation_strings":["Chemistry and Chemical Biology, Northeastern University, Boston, MA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chemistry and Chemical Biology, Northeastern University, Boston, MA","institution_ids":["https://openalex.org/I12912129"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I12912129"],"apc_list":{"value":3740,"currency":"USD","value_usd":3740},"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.21791474,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"23","issue":"S1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10123","display_name":"DNA Repair Mechanisms","score":0.92330002784729,"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":0.92330002784729,"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":0.04170000180602074,"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/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.021900000050663948,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/umud","display_name":"UmuD","score":0.9850000143051147},{"id":"https://openalex.org/keywords/dna-damage-response","display_name":"DNA damage response","score":0.7739999890327454},{"id":"https://openalex.org/keywords/sos-response","display_name":"SOS response","score":0.9769999980926514},{"id":"https://openalex.org/keywords/y-family-dna-polymerases","display_name":"Y-family DNA polymerases","score":0.9089999794960022},{"id":"https://openalex.org/keywords/dna-polymerase-iii","display_name":"DNA polymerase III","score":0.8920000195503235},{"id":"https://openalex.org/keywords/protein-conformation","display_name":"protein conformation","score":0.8399999737739563},{"id":"https://openalex.org/keywords/hydrogen-deuterium-exchange-mass-spectrometry","display_name":"hydrogen-deuterium exchange mass spectrometry","score":0.8569999933242798},{"id":"https://openalex.org/keywords/fluorescence-resonance-energy-transfer","display_name":"fluorescence resonance energy transfer","score":0.9620000123977661},{"id":"https://openalex.org/keywords/escherichia-coli","display_name":"Escherichia coli","score":0.9620000123977661},{"id":"https://openalex.org/keywords/protein-unfolding","display_name":"protein unfolding","score":0.5320000052452087},{"id":"https://openalex.org/keywords/dna-damage-tolerance","display_name":"DNA damage tolerance","score":0.46399998664855957}],"concepts":[{"id":"https://openalex.org/C2756471","wikidata":"https://www.wikidata.org/wiki/Q206286","display_name":"DNA polymerase","level":3,"score":0.6291537880897522},{"id":"https://openalex.org/C143425029","wikidata":"https://www.wikidata.org/wiki/Q5205747","display_name":"DNA damage","level":3,"score":0.6243773698806763},{"id":"https://openalex.org/C2780852648","wikidata":"https://www.wikidata.org/wiki/Q143584","display_name":"SOS response","level":4,"score":0.6071364879608154},{"id":"https://openalex.org/C82381507","wikidata":"https://www.wikidata.org/wiki/Q416878","display_name":"Polymerase","level":3,"score":0.5877804160118103},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.5582618713378906},{"id":"https://openalex.org/C96305047","wikidata":"https://www.wikidata.org/wiki/Q367473","display_name":"F\u00f6rster resonance energy transfer","level":3,"score":0.49738267064094543},{"id":"https://openalex.org/C31254050","wikidata":"https://www.wikidata.org/wiki/Q22328799","display_name":"DNA clamp","level":5,"score":0.45707494020462036},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.45585641264915466},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4507109224796295},{"id":"https://openalex.org/C131140672","wikidata":"https://www.wikidata.org/wiki/Q2031164","display_name":"Processivity","level":4,"score":0.41676536202430725},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.41085946559906006},{"id":"https://openalex.org/C134935766","wikidata":"https://www.wikidata.org/wiki/Q210538","display_name":"DNA repair","level":3,"score":0.410375714302063},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.35389822721481323},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.35103729367256165},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3479851186275482},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.33447712659835815},{"id":"https://openalex.org/C49105822","wikidata":"https://www.wikidata.org/wiki/Q176996","display_name":"Polymerase chain reaction","level":3,"score":0.1254115104675293},{"id":"https://openalex.org/C91881484","wikidata":"https://www.wikidata.org/wiki/Q191807","display_name":"Fluorescence","level":2,"score":0.11111804842948914},{"id":"https://openalex.org/C156719811","wikidata":"https://www.wikidata.org/wiki/Q28774","display_name":"Reverse transcriptase","level":4,"score":0.08137074112892151},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1096/fasebj.23.1_supplement.837.1","doi":"https://doi.org/10.1096/fasebj.23.1_supplement.837.1","is_oa":false,"landing_page_url":"https://doi.org/10.1096/fasebj.23.1_supplement.837.1","pdf_url":null,"source":{"id":"https://openalex.org/S25293849","display_name":"The FASEB Journal","issn_l":"0892-6638","issn":["0892-6638","1530-6860"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-c","doyens","jufo-2","ki-jl-2","medline","norway-2","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The FASEB Journal","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2005609267","https://openalex.org/W2013869088","https://openalex.org/W169282273","https://openalex.org/W91538665","https://openalex.org/W1974566232","https://openalex.org/W7221375302","https://openalex.org/W2119958338","https://openalex.org/W2001729821","https://openalex.org/W2294525214","https://openalex.org/W3174818310"],"abstract_inverted_index":{"Organisms":[0],"experience":[1,10],"DNA":[2,11,41,46,54,93,123,135],"damage":[3,12],"from":[4],"numerous":[5],"sources.":[6],"When":[7],"bacterial":[8],"cells":[9],"and":[13,47,71,95,111,132,139,149],"other":[14],"stresses,":[15],"the":[16,34,72,91,96,109,114,119,128,180,190],"SOS":[17],"response":[18,121],"is":[19,63,105,186,211],"induced,":[20],"leading":[21],"to":[22,53,106,122],"upregulation":[23],"of":[24,58,102,113,130,183,203],"at":[25],"least":[26],"50":[27],"genes":[28,36],"in":[29,51,189,206],"E.":[30],"coli":[31],".":[32],"Among":[33],"upregulated":[35],"are":[37,126,162,200],"specialized":[38],"Y":[39,88],"family":[40,89],"polymerases,":[42,90],"which":[43,185],"replicate":[44],"damaged":[45],"play":[48],"a":[49,214],"role":[50],"tolerance":[52],"damage.":[55,124],"The":[56,66,81,100],"activity":[57,138],"these":[59],"potentially":[60],"mutagenic":[61],"proteins":[62,68],"tightly":[64],"regulated.":[65],"manager":[67],"UmuD":[69,131],"2":[70,76],"cleaved":[73,191],"form":[74,192],"UmuD'":[75,133],"provide":[77],"one":[78],"regulatory":[79],"mechanism.":[80],"umuD":[82,115],"gene":[83,116],"products":[84,117],"interact":[85],"with":[86,165],"both":[87,207],"replicative":[92],"polymerase,":[94],"beta":[97],"processivity":[98],"clamp.":[99],"goal":[101],"this":[103],"study":[104],"determine":[107],"how":[108],"conformation":[110,205],"dynamics":[112],"regulate":[118],"cellular":[120],"We":[125],"characterizing":[127],"effects":[129],"on":[134],"polymerase":[136],"III":[137],"probing":[140],"their":[141],"conformations":[142],"using":[143],"fluorescence":[144],"resonance":[145],"energy":[146],"transfer":[147],"(FRET)":[148],"hydrogen\u2010deuterium":[150],"exchange":[151,164],"mass":[152],"spectrometry":[153],"(HXMS).":[154],"In":[155],"HXMS":[156,176],"experiments,":[157],"backbone":[158],"amide":[159],"hydrogens":[160,171],"that":[161,179],"solvent\u2010accessible":[163],"deuterium":[166],"over":[167],"time,":[168],"whereas":[169],"inaccessible":[170],"do":[172],"not":[173,187],"exchange.":[174],"Our":[175],"results":[177],"reveal":[178],"N\u2010terminal":[181],"arm":[182],"UmuD,":[184],"present":[188],"UmuD\u2032,":[193],"exhibits":[194],"local":[195],"partial":[196],"unfolding.":[197],"Additionally,":[198],"there":[199],"substantial":[201],"regions":[202],"stable":[204],"proteins.":[208],"This":[209],"work":[210],"funded":[212],"by":[213],"Dreyfus":[215],"Foundation":[216],"New":[217],"Faculty":[218],"Award.":[219]},"counts_by_year":[],"updated_date":"2026-10-30T12:39:25.321706","created_date":"2016-06-24T00:00:00"}
