PXD032009

PXD032009 is an original dataset announced via ProteomeXchange.

Title	Photoaffinity capture compounds to profile the Magic Spot Nucleotide interactomes
Description	Magic Spot Nucleotides (MSN) regulate the stringent response, a highly conserved bacterial stress adaptation mechanism, enabling survival when confronted with adverse external challenges. In times of antibiotic crisis, a detailed understanding of the stringent response is of critical importance, as potentially new targets for pharmacological intervention could be identified. In this study, we delineate the MSN interactome in Escherichia coli and Salmonella typhimurium cell lysates applying a family of trifunctional photoaffinity capture compounds. We introduce different MSN probes covering diverse phosphorylation patterns, such as pppGpp, ppGpp, and pGpp. Our chemical proteomics approach provides datasets of diverse putative MSN receptors both from cytosolic and membrane fractions that, upon validation, unveil new MSN targets. We find, for example, that the dinucleoside polyphosphate hydrolase activity of the non-Nudix hydrolase ApaH is potently inhibited by pppGpp, which itself is converted to pGpp by ApaH. The photoaffinity capture compounds described herein will be useful to identify MSN interactomes under varying conditions and across bacterial species.
HostingRepository	PRIDE
AnnounceDate	2026-07-27
AnnouncementXML	Submission_2026-07-27_02:32:37.988.xml
DigitalObjectIdentifier	https://doi.org/10.6019/PXD032009
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Danilo Ritz
SpeciesList	scientific name: Salmonella enterica subsp. enterica serovar Typhimurium; NCBI TaxID: NEWT:90371; scientific name: Escherichia coli; NCBI TaxID: NEWT:562;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive Plus; LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2022-03-02 09:45:37	ID requested
⏵ 1	2026-07-27 02:32:38	announced

Haas TM, Laventie BJ, Lagies S, Harter C, Prucker I, Ritz D, Saleem-Batcha R, Qiu D, H, ü, ttel W, Andexer J, Kammerer B, Jenal U, Jessen HJ, Photoaffinity Capture Compounds to Profile the Magic Spot Nucleotide Interactomes. Angew Chem Int Ed Engl, 61(22):e202201731(2022) [pubmed]

10.1002/anie.202201731;

10.6019/PXD032009;

submitter keyword: chemical proteomics,Magic Spot Nucleotides (MSN), stringent response

Alexander Schmidt
contact affiliation	Proteomics Core Facility Biozentrum, University of Basel Spitalstrasse 41 CH - 4056 Basel Switzerland
contact email	alex.schmidt@unibas.ch
lab head
Danilo Ritz
contact affiliation	Proteomics Core Facility Biozentrum, University of Basel Klingelbergstrasse 50/70 CH-4056 Basel / Switzerland
contact email	danilo.ritz@unibas.ch
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD032009
     1. Label: PRIDE project
     2. Name: Photoaffinity capture compounds to profile the Magic Spot Nucleotide interactomes