PXD045033-3

PXD045033 is an original dataset announced via ProteomeXchange.

Title	Human U2OS DNApk GLASS-ChIP LC-MS/MS
Description	The Mre11-Rad50-Nbs1 (MRN) complex recognizes and processes DNA double-strand breaks for homologous recombination by performing short-range removal of 5ʹ strands. Endonucleolytic processing by MRN requires a stably bound protein at the break site—a role we postulate is played by DNA-dependent protein kinase (DNA-PK) in mammals. Here we interrogate sites of MRN-dependent processing by identifying sites of CtIP association and by sequencing DNA- PK-bound DNA fragments that are products of MRN cleavage. These intermediates are generated most efficiently when DNA-PK is catalytically blocked, yielding products within 200 bp of the break site, whereas DNA-PK products in the absence of kinase inhibition show greater dispersal. Use of light-activated Cas9 to induce breaks facilitates temporal resolution of DNA- PK and Mre11 binding, showing that both complexes bind to DNA ends before release of DNA- PK-bound products. These results support a sequential model of double-strand break repair involving collaborative interactions between homologous and non-homologous repair complexes.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:08:45.314.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Nicolette Ender
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2023-09-01 07:33:50	ID requested
1	2023-10-24 11:17:04	announced
2	2023-11-14 09:07:28	announced	2023-11-14: Updated project metadata.
⏵ 3	2024-10-22 06:08:46	announced	2024-10-22: Updated project metadata.

10.1038/s41467-023-41544-8;

Deshpande RA, Marin-Gonzalez A, Barnes HK, Woolley PR, Ha T, Paull TT, Genome-wide analysis of DNA-PK-bound MRN cleavage products supports a sequential model of DSB repair pathway choice. Nat Commun, 14(1):5759(2023) [pubmed]

submitter keyword: Human, U2OS, GLASS-ChIP, DNApk, LC-MS/MS

Tanya T. Paull
contact affiliation	University of Texas at Austin, College of Natural Sciences, Department of Molecular Biosciences
contact email	tpaull@utexas.edu
lab head
Nicolette Ender
contact affiliation	University of Texas at Austin
contact email	nender@utexas.edu
dataset submitter

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/2023/10/PXD045033

PRIDE project URI

• PRIDE
  1. PXD045033
     1. Label: PRIDE project
     2. Name: Human U2OS DNApk GLASS-ChIP LC-MS/MS