PXD048849-2

PXD048849 is an original dataset announced via ProteomeXchange.

Title	Detection of structure-specific interactions of Rab GTPases
Description	Protein–protein interactions (PPIs) mediate multiple essential functions and regulatory events in living organisms. The physical interactome of a given protein can be abnormally altered in response to external and internal cues, thus modulating cell physiology and contributing to human pathologies including neurodegenerative diseases. Despite substantial efforts, current approaches cannot pinpoint structure-specific PPIs or their interaction interfaces on a proteome-wide scale. To address this limitation, we have adapted the structural proteomics method known as limited proteolysis–mass spectrometry to identify PPIs by probing protein structural alterations within cellular extracts upon treatment with a protein of interest. Here, we added Rab GTPases, namely Rab5A and Rab2A in their GTP- and GDP-bound forms to a HEK293T cellular extract and probed their structure-specific interactomes. We identified already know interactors of these proteins bassed on previously published data as well as a number of candidate interactor proteins.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:29:01.466.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Aleš Holfeld
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2024-01-24 12:59:14	ID requested
1	2024-02-10 15:33:33	announced
⏵ 2	2024-10-22 06:29:01	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: LC-MSMS, Interactome, Mass spectrometry,Limited proteolysis, Structural proteomics, Protein-protein interactions, Proteomics, Rab GTPases, Structure-specific interactions

Prof. Paola Picotti
contact affiliation	Institute of Molecular Systems Biology, ETH Zurich
contact email	picotti@imsb.biol.ethz.ch
lab head
Aleš Holfeld
contact affiliation	Institute of Molecular Systems Biology, Department of Biology, ETH Zurich, Zurich, Switzerland
contact email	holfeld@imsb.biol.ethz.ch
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/2024/02/PXD048849

PRIDE project URI

• PRIDE
  1. PXD048849
     1. Label: PRIDE project
     2. Name: Detection of structure-specific interactions of Rab GTPases