PXD006593-2

PXD006593 is an original dataset announced via ProteomeXchange.

Title	Ubiquitome analysis of UHRF1 and UHRF2-deficient mESCs
Description	The E3 ligase UHRF1 is an essential epigenetic cofactor for DNMT1 dependent maintenance DNA methylation, which provides a binding platform for DNMT1 by both cooperative binding of histones and hemi-methylated DNA as well as by ubiquitinating histone H3. Here, we conduct a comprehensive screen to identify novel ubiquitination targets of UHRF1 and its paralogue UHRF2 by comparing the ubiquitome of wildtype (wt), UHRF1- and UHRF2-deficient mouse embryonic stem cells. With an antibody-dependent enrichment of ubiquitin remnant motif-containing peptides followed by isobaric-labeling based quantitative mass spectrometry, we find both known and novel E3 ligase substrates of UHRF1 involved in a variety of biological processes such as RNA processing, DNA methylation and DNA damage repair.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:38:01.425.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Elisabeth Karg
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; ubiquitination signature dipeptidyl lysine; monohydroxylated residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2017-05-25 23:26:35	ID requested
1	2017-10-24 02:34:10	announced
⏵ 2	2024-10-22 04:38:02	announced	2024-10-22: Updated project metadata.

Karg E, Smets M, Ryan J, Forn, é I, Qin W, Mulholland CB, Kalideris G, Imhof A, Bultmann S, Leonhardt H, Ubiquitome Analysis Reveals PCNA-Associated Factor 15 (PAF15) as a Specific Ubiquitination Target of UHRF1 in Embryonic Stem Cells. J Mol Biol, 429(24):3814-3824(2017) [pubmed]

10.1016/j.jmb.2017.10.014;

curator keyword: Biological

submitter keyword: ubiquitination, PAF,mouse embryonic stem cells, UHRF

Heinrich Leonhardt
contact affiliation	Department of Biology II and Center for Integrated Protein Science Munich (CIPSM), Ludwig-Maximilians-Universität München
contact email	h.leonhardt@lmu.de
lab head
Elisabeth Karg
contact affiliation	Ludwig-Maximilians Universität München
contact email	schmidtmann@bio.lmu.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD006593
     1. Label: PRIDE project
     2. Name: Ubiquitome analysis of UHRF1 and UHRF2-deficient mESCs