PXD063229-1

PXD063229 is an original dataset announced via ProteomeXchange.

Title	The small membrane protein YohP induces membrane depolarization and ppGpp accumulation in Escherichia coli
Description	Small membrane proteins represent an abundant and ubiquitous class of proteins that are often up-regulated when cells encounter unfavorable conditions, yet details about their exact function are largely missing. In bacteria, these proteins consist of typically less than 50 amino acids and contain a single transmembrane domain but lack any detectable catalytic activity. Thus, the benefit of producing these proteins during stress conditions is unknown. In the current study we used a multidisciplinary approach to determine the function of the 27 amino acid long protein YohP in E. coli. Our proteomics approach revealed that YohP production leads to an up-regulation of proteins involved in membrane protection and to a down-regulation of many enzymes involved in key metabolic processes, such as nucleotide biosynthesis. Further biochemical characterizations revealed increased cardiolipin content in the membrane, a partial dissipation of the membrane potential and reduced membrane fluidity in YohP-containing membranes. Finally, our data show that YohP production induces the stringent response and leads to elevated levels of (p)ppGpp. Overall, our data indicate that the YohP-induced proteome and membrane changes initiate a state of metabolic silencing that protects E. coli against stress and helps to conserve cellular resources.
HostingRepository	PRIDE
AnnounceDate	2025-10-20
AnnouncementXML	Submission_2025-10-20_12:25:12.205.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Julian Langer
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: NEWT:562;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Eclipse

Revision	Datetime	Status	ChangeLog Entry
0	2025-04-23 01:26:54	ID requested
⏵ 1	2025-10-20 12:25:12	announced

Dataset with its publication pending

submitter keyword: escherichia coli, data independent acquisition, yohp, bottom-up proteomics, small proteins, membrane protein

Julian Langer
contact affiliation	Mass Spectrometry and Proteomics, Max-Planck Institute of Biophysics
contact email	julian.langer@biophys.mpg.de
lab head
Julian Langer
contact affiliation	MPIs for Biophysics and Brain Research
contact email	julian.langer@biophys.mpg.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD063229
     1. Label: PRIDE project
     2. Name: The small membrane protein YohP induces membrane depolarization and ppGpp accumulation in Escherichia coli