PXD044709 is an
original dataset announced via ProteomeXchange.
Dataset Summary
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 |
Dataset History
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. |
Publication List
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] |
Keyword List
submitter keyword: Elongation, TurboID, Pol2 pausing,ZFX, Transcription |
Contact List
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 | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD044709
- Label: PRIDE project
- Name: Reduction of ZFX levels decreases histone H4 acetylation and increases the pause ratio at target promoters