PXD047197-2

PXD047197 is an original dataset announced via ProteomeXchange.

Title	Chromatin targeting of the RNF12/RLIM E3 ubiquitin ligase controls gene-specific transcription
Description	Protein ubiquitylation regulates key biological processes including transcription. This is exemplified by the E3 ubiquitin ligase RNF12/RLIM, which is mutated in an X-linked intellectual disability disorder and controls developmental gene expression by ubiquitylating the REX1 transcription factor. However, the precise mechanisms by which ubiquitylation patterns specific transcriptional programmes are not known. Here, we show that genomic targeting of RNF12 selectively programmes developmental transcription. RNF12 is recruited to specific genomic locations by recognising a distinct consensus sequence motif, which enables co-localisation with REX1. Surprisingly, RNF12 chromatin recruitment is achieved via the non-catalytic basic region (BR) and comprises a previously unappreciated autoinhibitory mechanism. Furthermore, RNF12 chromatin targeting is critical for REX1 ubiquitylation and downstream RNF12-dependent gene regulation. Our results demonstrate a key role for chromatin in regulation of the RNF12-REX1 axis and provides insight into mechanisms by which spatial control of protein ubiquitylation enables specific programming of gene expression.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:19:41.561.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jeroen Demmers
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2023-11-23 05:54:52	ID requested
1	2024-01-09 00:19:05	announced
⏵ 2	2024-10-22 06:19:41	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: RNF12/RLIM, transcription, E3 ubiquitin ligase, chromatin

Jeroen Demmers
contact affiliation	Erasmus MC
contact email	j.demmers@erasmusmc.nl
lab head
Jeroen Demmers
contact affiliation	Proteomics Center, Erasmus University Medical Center, Rotterdam, The Netherlands
contact email	j.demmers@erasmusmc.nl
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/2024/01/PXD047197

PRIDE project URI

• PRIDE
  1. PXD047197
     1. Label: PRIDE project
     2. Name: Chromatin targeting of the RNF12/RLIM E3 ubiquitin ligase controls gene-specific transcription