PXD059587

PXD059587 is an original dataset announced via ProteomeXchange.

Title	Proteomic profiling of CSE- and HDAC6-knockout EA.hy926 cells
Description	Hydrogen sulfide (H₂S) is an endogenous gasotransmitter implicated in the regulation of protein function. This study investigates whether H₂S-derived sulfur species can engage the catalytic Zn²⁺ center of histone deacetylase 6 (HDAC6) and influence HDAC6-dependent deacetylation. Molecular dynamics simulations support accessibility of HS⁻ to the HDAC6 CD2 active-site tunnel, whereas biochemical, biophysical and quantum-chemical analyses support a zinc-dependent interaction and the chemical feasibility of Zn–sulfur coordination. To investigate whether endogenous H₂S production and HDAC6 loss are associated with changes in global protein abundance, proteomic profiling was performed in EA.hy926 cells with knockout of cystathionine γ-lyase (CSE, encoded by CTH) or HDAC6. This dataset contains the proteomics data comparing CSE-knockout versus wild-type cells and HDAC6-knockout versus wild-type cells.
HostingRepository	PRIDE
AnnounceDate	2026-08-24
AnnouncementXML	Submission_2026-08-23_22:05:41.874.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Chen Sun
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Astral

Revision	Datetime	Status	ChangeLog Entry
0	2025-01-09 06:31:56	ID requested
⏵ 1	2026-08-23 22:05:42	announced

Dataset with its publication pending

submitter keyword: Hydrogen sulfide

HDAC6

Endothelial cells

HPLC-MS.

Yi-Chun Zhu
contact affiliation	Shanghai Key Laboratory of Bioactive Small Molecules, Department of Physiology and Pathophysiology, School of Basic Medical Sciences, Fudan University Shanghai Medical College, Shanghai 200032, China.
contact email	yczhu@shmu.edu.cn
lab head
Chen Sun
contact affiliation	Fudan University
contact email	16111010002@fudan.edu.cn
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/2026/08/PXD059587

PRIDE project URI

• PRIDE
  1. PXD059587
     1. Label: PRIDE project
     2. Name: Proteomic profiling of CSE- and HDAC6-knockout EA.hy926 cells