PXD010402

PXD010402 is an original dataset announced via ProteomeXchange.

Title	Interaction-based capture and identification of protein effectors of ppGpp, the master regulator of bacterial growth
Description	The small nucleotide ppGpp is a conserved regulatory molecule in prokaryotes that tunes growth rate in response to nutrient availability. How ppGpp regulates growth remains poorly defined. In Escherichia coli, ppGpp directly binds RNA polymerase to modulate transcription, but it likely has other targets. Here, we develop a capture-compound mass spectrometry approach to identify more than 50 putative ppGpp targets that control many key cellular processes, including translation, polyamine synthesis, and nucleotide metabolism. We validate several proteins as bona fide ppGpp targets in vivo. In particular, we demonstrate that ppGpp inhibits the enzymes Gsk and PurF to block purine salvage and de novo synthesis, respectively. Our results indicate that downregulating ATP and GTP synthesis is a critical facet of growth control by ppGpp. Collectively, our results provide new insight into ppGpp-based growth control in E. coli and candidates for future exploration. The capture compounds developed will also enable identification of ppGpp targets in other species, including many pathogens.
HostingRepository	PRIDE
AnnounceDate	2018-12-04
AnnouncementXML	Submission_2018-12-04_03:52:00.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD010402
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Amanda Del Rosario
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	Oxidation
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2018-07-12 06:22:33	ID requested
1	2018-10-04 08:57:23	announced
⏵ 2	2018-12-04 03:52:01	announced	Updated project metadata.

Dataset with its publication pending

curator keyword: Biological

submitter keyword: ppGpp, E. coli, LC-MS/MS

Amanda Del Rosario
contact affiliation	Massachusetts Institute of Technology
contact email	aweaver@mit.edu
lab head
Amanda Del Rosario
contact affiliation	Janssen Pharmaceuticals
contact email	adelros1@its.jnj.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD010402
     1. Label: PRIDE project
     2. Name: Interaction-based capture and identification of protein effectors of ppGpp, the master regulator of bacterial growth