PXD046792

PXD046792 is an original dataset announced via ProteomeXchange.

Title	Yeast TLDc domain-containing proteins control assembly and subcellular localization of the V-ATPase
Description	Yeast vacuoles, equivalent to lysosomes in other eukaryotes, are important acidic degradative organelles as well as storage compartments and signaling hubs. To perform these functions, they rely on important protein complexes, including the V-ATPase, responsible for organelle acidification. In this study, we used cross-linking mass spectrometry to characterize the protein complexes of isolated vacuoles. We were able to detect many known protein-protein interactions, including known protein complexes, as well as undescribed ones. Among these, we identified the uncharacterized TLDc domain-containing protein Rtc5 as a novel interactor of the V-ATPase. We show that Rtc5 localizes to the vacuole membrane depending on N-myristoylation and on its interactions with the V-ATPase. We further analyzed the influence of this protein, and the second yeast TLDc domain-containing protein, Oxr1, on V-ATPase function. We find that both Rtc5 and Oxr1 promote the disassembly of the vacuolar V-ATPase in vivo, counteracting the role of the assembly chaperone, the RAVE complex. Finally, Oxr1 is necessary for the retention in the late Golgi complex of an organelle-specific subunit of the V-ATPase. Collectively, our results shed light on the in vivo roles of yeast TLDc domain-containing proteins in relation to the V-ATPase, highlighting the multifaceted regulation of this crucial protein complex.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:32:44.157.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Zhu Ying
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2023-11-08 11:23:49	ID requested
1	2024-03-11 02:49:51	announced
⏵ 2	2024-10-22 06:32:44	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: Oxr1, Lysosome, V-ATPase,Vacuole, TLDc, Rtc5

Fan Liu
contact affiliation	Department of Structural Biology, Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP)
contact email	FLiu@fmp-berlin.de
lab head
Zhu Ying
contact affiliation	Leibniz-Forschungsinstitut für Molekulare Pharmakologie
contact email	zhu@fmp-berlin.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD046792
     1. Label: PRIDE project
     2. Name: Yeast TLDc domain-containing proteins control assembly and subcellular localization of the V-ATPase