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PXD057294

PXD057294 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleThe role and cooperation of AidB dehydrogenase and AlkB dioxygenase in repair of adducts to DNA and RNA bases
DescriptionThe aim of the project is to conduct in vivo, in vitro and in silico studies of the substrate specificity of AidB dehydrogenase against the by-products rising in AlkB dioxygenase repair reaction and AlkB and AidB cooperative interaction in the repair of adducts to DNA and RNA bases. AidB dehydrogenase and AlkB dioxygenase are induced in the E. coli adaptive response to alkylating agents. As a result of direct AlkB removal of base modifications, toxic and mutagenic by-products are formed: formaldehyde, glyoxal or malondialdehyde. Our studies indicate that AlkB is efficiently inhibited in vitro by the side products of the repair reaction. The biological role and substrates of AidB are unknown. It is known that AidB does not repair DNA lesions; its crystallographic structure points to small molecule substrates. This allowed me to formulate the hypothesis that AidB dehydrogenase may be involved in the detoxification of highly reactive by-products generated as a result of AlkB repair and that to prevent their release to the cell, these enzymes can interact directly in the cell homeostasis maintenance.
HostingRepositoryPRIDE
AnnounceDate2025-05-07
AnnouncementXMLSubmission_2025-05-07_04:49:44.448.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterEwa Sitkiewicz
SpeciesList scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationListNo PTMs are included in the dataset
InstrumentSynapt MS
Dataset History
RevisionDatetimeStatusChangeLog Entry
02024-10-29 07:40:17ID requested
12025-05-07 04:49:45announced
Publication List
10.1021/acs.jproteome.4c00700;
Pucha, ł, a W, Kistowski M, Zhukova L, Burdukiewicz M, Dadlez M, HRaDeX: R Package and Web Server for Computing High-Resolution Deuterium Uptake Rates for HDX-MS Data. J Proteome Res, 24(4):1688-1700(2025) [pubmed]
Keyword List
submitter keyword: AidB dehydrogenase, DNA repair, AlkB dioxygenase, E.coli, RNA repair
Contact List
Michał Dadlez
contact affiliationInstitute of Biochemistry and Biophysics, Pol. Acad. Sci. Mass Sepctrometry Laboratory, Head
contact emailmichald@ibb.waw.pl
lab head
Ewa Sitkiewicz
contact affiliationMass Spectrometry Laboratory Institute of Biochemistry and Biophysics Polish Academy of Sciences
contact emailewa@ibb.waw.pl
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
Repository Record List
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