PXD066046

PXD066046 is an original dataset announced via ProteomeXchange.

Title	Bacteria Sense the Antibiotic Rifampicin Through a Widespread Dual-Promoter Based Alarm System
Description	Most antibiotics are natural compounds or their derivatives, and bacteria have evolved defensive mechanisms to resist them. Many of these mechanisms are still poorly understood or uknown. This study reveals that in Bacillus subtilis the transcription factor HelD increases resistance to rifampicin by protecting its target, RNA polymerase (RNAP). This protection is mediated by the N-terminal domain of HelD that penetrates into RNAP to the close vicinity of the rifampicin binding pocket. Importantly, the bacterium detects low rifampicin levels using a unique regulatory system involving two convergent promoters: inhibition of one activates the other that drives helD expression. A similar two-promoter setup also controls the pps gene, which encodes a rifampicin-modifying enzyme. These findings define a widespread bacterial response system sensitive to rifampicin as this dual-promoter architecture is conserved across many bacterial species and found upstream of genes potentially involved in rifampicin resistance, such as those for hydrolases, transporters, and transferases.
HostingRepository	PRIDE
AnnounceDate	2025-12-18
AnnouncementXML	Submission_2025-12-18_04:42:20.730.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD066046
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Alena Krenkova
SpeciesList	scientific name: Bacillus subtilis; NCBI TaxID: NEWT:1423;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2025-07-11 00:46:09	ID requested
⏵ 1	2025-12-18 04:42:21	announced

10.1093/NAR/GKAF1407;

10.6019/PXD066046;

submitter keyword: RNA polymerase

HelD

rifampicin

Libor Krásný
contact affiliation	Laboratory of Microbial Genetics and Gene Expression, Institute of Microbiology of the Czech Academy of Sciences, Vídeňská 1083, 142 00 Prague 4, Czech Republic
contact email	krasny@biomed.cas.cz
lab head
Alena Krenkova
contact affiliation	IOCB CAS CR
contact email	alena.krenkova@uochb.cas.cz
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/2025/12/PXD066046

PRIDE project URI

• PRIDE
  1. PXD066046
     1. Label: PRIDE project
     2. Name: Bacteria Sense the Antibiotic Rifampicin Through a Widespread Dual-Promoter Based Alarm System