PXD018002

PXD018002 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Analysis of protein interaction partners of TDIF
Description	Reactive oxygen species (ROS) generated as by-products of metabolism can induce stochastic damage to cellular components including DNA. A localised oxidative damage may arise during transcriptional activation at promoters of protein coding genes. ROS are generated during oxidative demethylation of histones and 5-methyl cytosine in promoter CpG clusters. ROS induced oxidation of DNA bases, mainly 7,8-dihydro-8-oxoguanine (8-oxoG) is normally resolved through a well characterised repair pathway where the oxidised base is first removed by components of base excision repair (BER) pathway, and the resulting breaks in the DNA backbone are subsequently repaired by the single-strand repair (SSBR) machinery that includes TDP1 and XRCC1. In this project we have identified the role of a putative mitotic assembly protein, TDIF in ROS induced single strand break repair. Using semi-quantitative LC-MS/MS and biochemical assays we show that the long isoform of TDIF specifically interacts with SSBR machinery after oxidative damage.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:34:35.485.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Adelina E Acosta-Martin
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Elite

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2020-03-11 09:43:18	ID requested
1	2022-10-12 08:35:30	announced
⏵ 2	2023-11-14 08:34:36	announced	2023-11-14: Updated project metadata.

Publication List

Ray S, Abugable AA, Parker J, Liversidge K, Palminha NM, Liao C, Acosta-Martin AE, Souza CDS, Jurga M, Sudbery I, El-Khamisy SF, A mechanism for oxidative damage repair at gene regulatory elements. Nature, 609(7929):1038-1047(2022) [pubmed]

Ray S, Abugable AA, Parker J, Liversidge K, Palminha NM, Liao C, Acosta-Martin AE, Souza CDS, Jurga M, Sudbery I, El-Khamisy SF, A mechanism for oxidative damage repair at gene regulatory elements. Nature, 609(7929):1038-1047(2022) [pubmed]

Keyword List

submitter keyword: DNA repair
TDIF
hydrogen peroxide (H2O2)
immunoprecipitation
LC-MS/MS

submitter keyword: DNA repair

TDIF

hydrogen peroxide (H2O2)

immunoprecipitation

LC-MS/MS

Contact List

Sherif F El-Khamisy
contact affiliation	Department of Molecular Biology and Biotechnology, Firth Court, University of Sheffield, Sheffield, UK
contact email	s.el-khamisy@sheffield.ac.uk
lab head
Adelina E Acosta-Martin
contact affiliation	University of Sheffield
contact email	a.acosta-martin@sheffield.ac.uk
dataset submitter

Full Dataset Link List

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2022/10/PXD018002
PRIDE project URI

Dataset FTP location
NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2022/10/PXD018002

PRIDE project URI

Repository Record List

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