PXD044709

PXD044709 is an original dataset announced via ProteomeXchange.

Title	Reduction of ZFX levels decreases histone H4 acetylation and increases the pause ratio at target promoters
Description	The ZFX transcriptional activator binds to CpG island promoters, with a major peak at ~200-250bp downstream from transcription start sites. Because ZFX binds within the transcribed region, we investigated whether it regulates transcriptional elongation. We used GRO-seq to show that loss or reduction of ZFX increased the pause ratio at ZFX-regulated promoters. To further investigate the mechanisms by which ZFX regulates transcription, we determined regions of the protein needed for transactivation and for recruitment to the chromatin. Interestingly, although ZFX has 13 grouped zinc fingers, deletion of the first 11 fingers produces a protein that can still bind to chromatin and activate transcription. We next used TurboID-MS to detect ZFX-interacting proteins, identifying ZNF593, proteins that interact with the N-terminal transactivation domain (e.g. histone modifying proteins), and proteins that interact with ZFX when it is bound to the chromatin (e.g. TAFs and other histone modifying proteins). Our studies support a model in which ZFX enhances elongation at target promoters by recruiting H4 acetylation complexes and reducing pausing.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:53:38.378.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Emily Hsu
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	biotinylated residue
Instrument	timsTOF Pro; Orbitrap Fusion Lumos; Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2023-08-21 16:51:07	ID requested
1	2024-08-09 03:10:51	announced
⏵ 2	2024-10-22 06:53:46	announced	2024-10-22: Updated project metadata.

10.1093/nar/gkae372;

Hsu E, Hutchison K, Liu Y, Nicolet CM, Schreiner S, Zemke NR, Farnham PJ, Reduction of ZFX levels decreases histone H4 acetylation and increases Pol2 pausing at target promoters. Nucleic Acids Res, 52(12):6850-6865(2024) [pubmed]

submitter keyword: Elongation, TurboID, Pol2 pausing,ZFX, Transcription

Peggy J. Farnham
contact affiliation	Department of Biochemistry and Molecular Medicine and the Norris Comprehensive Cancer Center, Keck School of Medicine, University of Southern California, Los Angeles, CA, 90089, USA
contact email	peggy.farnham@med.usc.edu
lab head
Emily Hsu
contact affiliation	USC
contact email	ehsu6757@usc.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/2024/08/PXD044709

PRIDE project URI

• PRIDE
  1. PXD044709
     1. Label: PRIDE project
     2. Name: Reduction of ZFX levels decreases histone H4 acetylation and increases the pause ratio at target promoters