{"id":"https://openalex.org/W3170330680","doi":"https://doi.org/10.1096/fasebj.25.1_supplement.500.11","title":"E. coli UmuD conformational dynamics in response to DNA damage","display_name":"E. coli UmuD conformational dynamics in response to DNA damage","publication_year":2011,"publication_date":"2011-04-01","ids":{"openalex":"https://openalex.org/W3170330680","doi":"https://doi.org/10.1096/fasebj.25.1_supplement.500.11","mag":"3170330680"},"language":"en","primary_location":{"id":"doi:10.1096/fasebj.25.1_supplement.500.11","doi":"https://doi.org/10.1096/fasebj.25.1_supplement.500.11","is_oa":false,"landing_page_url":"https://doi.org/10.1096/fasebj.25.1_supplement.500.11","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/A5081333991","display_name":"Jaylene N. Ollivierre","orcid":null,"observed_orcids":[]},"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":"Jaylene Ollivierre","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/A5004964034","display_name":"Qiuying Huang","orcid":"https://orcid.org/0000-0002-4224-0710","observed_orcids":["https://orcid.org/0000-0002-4224-0710"]},"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":"Qiuying Huang","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/A5080153031","display_name":"David E. Budil","orcid":"https://orcid.org/0000-0003-2384-7928","observed_orcids":["https://orcid.org/0000-0003-2384-7928"]},"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":"David Budil","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/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 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"]}]}],"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":0.32912101,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"25","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":0.9487000107765198,"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":0.9487000107765198,"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":0.03229999914765358,"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"}},{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.006200000178068876,"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/umud","display_name":"UmuD","score":0.9210000038146973},{"id":"https://openalex.org/keywords/dna-damage-response","display_name":"DNA damage response","score":0.972000002861023},{"id":"https://openalex.org/keywords/protein-conformational-dynamics","display_name":"protein conformational dynamics","score":0.9269999861717224},{"id":"https://openalex.org/keywords/beta-clamp","display_name":"\u03b2-clamp","score":0.7870000004768372},{"id":"https://openalex.org/keywords/escherichia-coli","display_name":"Escherichia coli","score":0.878000020980835}],"concepts":[{"id":"https://openalex.org/C2780852648","wikidata":"https://www.wikidata.org/wiki/Q143584","display_name":"SOS response","level":4,"score":0.6777260899543762},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.6553752422332764},{"id":"https://openalex.org/C187961010","wikidata":"https://www.wikidata.org/wiki/Q260463","display_name":"Electron paramagnetic resonance","level":2,"score":0.5312820672988892},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.5055046081542969},{"id":"https://openalex.org/C104292427","wikidata":"https://www.wikidata.org/wiki/Q899781","display_name":"Protein subunit","level":3,"score":0.4850846827030182},{"id":"https://openalex.org/C16318435","wikidata":"https://www.wikidata.org/wiki/Q149299","display_name":"Mutagenesis","level":4,"score":0.4639332890510559},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.45794835686683655},{"id":"https://openalex.org/C547475151","wikidata":"https://www.wikidata.org/wiki/Q25419","display_name":"Escherichia coli","level":3,"score":0.448663592338562},{"id":"https://openalex.org/C143065580","wikidata":"https://www.wikidata.org/wiki/Q3285695","display_name":"Mutant","level":3,"score":0.3822159767150879},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.3505929112434387},{"id":"https://openalex.org/C143425029","wikidata":"https://www.wikidata.org/wiki/Q5205747","display_name":"DNA damage","level":3,"score":0.3305100202560425},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2970806658267975},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2725011110305786},{"id":"https://openalex.org/C46141821","wikidata":"https://www.wikidata.org/wiki/Q209402","display_name":"Nuclear magnetic resonance","level":1,"score":0.0763600766658783},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.07432574033737183}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1096/fasebj.25.1_supplement.500.11","doi":"https://doi.org/10.1096/fasebj.25.1_supplement.500.11","is_oa":false,"landing_page_url":"https://doi.org/10.1096/fasebj.25.1_supplement.500.11","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":[{"id":"https://openalex.org/G3522229792","display_name":"CAREER:   Biomolecular Interactions that Regulate the Cellular Response to DNA Damage","funder_award_id":"0845033","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2294525214","https://openalex.org/W2001729821","https://openalex.org/W3174818310","https://openalex.org/W2278904814","https://openalex.org/W2286882747","https://openalex.org/W7221375302","https://openalex.org/W3169626826","https://openalex.org/W1974566232","https://openalex.org/W91538665","https://openalex.org/W2025002741"],"abstract_inverted_index":{"The":[0,90],"SOS":[1],"mutagenesis":[2],"pathway":[3],"in":[4,15,41,63,104,112],"Escherichia":[5],"coli":[6],"involves":[7],"the":[8,21,57,64,98,126,139,154,163,173,177,191,195,198,201],"induction":[9],"of":[10,29,43,60,92,102,129,147,176,197,200],"at":[11],"least":[12],"57":[13],"genes":[14],"response":[16,113],"to":[17,48,85,96,107,114,124,171,181,194],"DNA":[18,115],"damage,":[19],"including":[20,162],"umuD":[22],"gene":[23],"products.":[24],"UmuD2":[25,61],"is":[26,95],"a":[27,36,144],"homodimer":[28],"139-amino":[30],"acid":[31],"subunits":[32],"that":[33,81,138,186],"interacts":[34,158],"with":[35,69,87,159],"RecA/ssDNA":[37],"nucleoprotein":[38],"filament":[39],"resulting":[40],"cleavage":[42],"its":[44,109],"N-terminal":[45,58,141],"24-amino":[46],"acids":[47],"yield":[49],"UmuD\u2019.":[50],"Several":[51],"models":[52],"have":[53],"been":[54],"proposed":[55],"wherein":[56],"arms":[59,142],"are":[62,150,166],"cis":[65],"or":[66,72],"trans":[67],"conformations,":[68],"elbows":[70],"up":[71],"down.":[73],"These":[74],"conformational":[75,127,174],"variants":[76],"expose":[77],"multiple":[78],"binding":[79,180],"surfaces":[80],"may":[82],"be":[83],"used":[84,123],"interact":[86],"other":[88],"proteins.":[89,134],"goal":[91],"our":[93],"research":[94],"determine":[97,172],"conformation":[99],"and":[100,131,149],"dynamics":[101,128],"UmuD":[103,133,140,157,188],"an":[105],"effort":[106],"understand":[108],"regulatory":[110],"role":[111],"damage.":[116],"Electron":[117],"paramagnetic":[118],"resonance":[119],"spectroscopy":[120],"(EPR)":[121],"was":[122],"probe":[125],"wild-type":[130],"variant":[132],"EPR":[135],"experiments":[136],"suggest":[137,185],"display":[143],"large":[145],"degree":[146],"motion":[148],"largely":[151],"unbound":[152],"from":[153],"globular":[155],"domain.":[156],"several":[160],"proteins":[161],"\u03b2-clamp.":[164],"We":[165],"using":[167],"fluorescently":[168],"labeled":[169],"\u03b2-clamp":[170,178],"change":[175],"upon":[179],"UmuD.":[182],"Preliminary":[183],"results":[184],"full-length":[187],"physically":[189],"opens":[190],"clamp,":[192],"similar":[193],"action":[196],"\u03b4-subunit":[199],"clamp-loader":[202],"complex.":[203],"Research":[204],"supported":[205],"by":[206],"NSF":[207],"Career":[208],"MCB-0845033.":[209]},"counts_by_year":[],"updated_date":"2026-10-30T12:39:25.321706","created_date":"2021-06-22T00:00:00"}
