PXD015282

PXD015282 is an original dataset announced via ProteomeXchange.

Title	DNMT1 IP-MS alalysis to identify ubiquitin-dependent interacting partners
Description	Stable inheritance of DNA methylation is critical for maintaining the differentiated phenotypes in multicellular organisms. However, the molecular basis ensuring high fidelity of maintenance DNA methylation is largely unknown. Here, we demonstrate that two distinct modes of DNMT1 recruitment, one is DNA replication-coupled and the other is uncoupled mechanism, regulate the stable inheritance of DNA methylation. PCNA-associated factor 15 (PAF15) represents a primary target of UHRF1 and undergoes dual mono-ubiquitylation (PAF15Ub2) on chromatin. PAF15Ub2 specifically interacts with DNMT1 and controls the recruitment of DNMT1 in a DNA replication-coupled manner. Thus, loss of PAF15Ub2 results in impaired DNA methylation at sites replicating during early S phase. In contrast, outside of S phase or when PAF15 ubiquitylation is perturbed, UHRF1 ubiquitylates histone H3 to promote DNMT1 recruitment. Together, we identify replication-coupled and uncoupled mechanisms of maintenance DNA methylation, both of which collaboratively ensure the stable DNA methylation.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:56:38.737.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Akinori Endo
SpeciesList	scientific name: Xenopus laevis (African clawed frog); NCBI TaxID: 8355;
ModificationList	ubiquitination signature dipeptidyl lysine; phosphorylated residue; acetylated residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2019-09-02 05:56:16	ID requested
1	2020-02-25 00:23:57	announced
2	2020-03-24 01:19:41	announced	2020-03-24: Updated publication reference for PubMed record(s): 32144273.
⏵ 3	2024-10-22 04:56:42	announced	2024-10-22: Updated project metadata.

10.1038/s41467-020-15006-4;

Nishiyama A, Mulholland CB, Bultmann S, Kori S, Endo A, Saeki Y, Qin W, Trummer C, Chiba Y, Yokoyama H, Kumamoto S, Kawakami T, Hojo H, Nagae G, Aburatani H, Tanaka K, Arita K, Leonhardt H, Nakanishi M, Two distinct modes of DNMT1 recruitment ensure stable maintenance DNA methylation. Nat Commun, 11(1):1222(2020) [pubmed]

submitter keyword: DNMT1 ubiquitin

Atsuya Nishiyama
contact affiliation	Division of Cancer Cell Biology, The Institute of Medical Science, The University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan
contact email	anishiya@ims.u-tokyo.ac.jp
lab head
Akinori Endo
contact affiliation	Tokyo Metropolitan Institute of Medical Science
contact email	endo-ak@igakuken.or.jp
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/2020/02/PXD015282

PRIDE project URI

• PRIDE
  1. PXD015282
     1. Label: PRIDE project
     2. Name: DNMT1 IP-MS alalysis to identify ubiquitin-dependent interacting partners