PXD013731

PXD013731 is an original dataset announced via ProteomeXchange.

Title	Functional characterization of the p97/valosin-containing protein (VCP) interacting network in Leishmania Functional characterization of the p97/valosin-containing protein (VCP) interacting network in Leishmania
Description	Valosin‐containing protein (VCP)/p97/Cdc48 is an essential AAA+ ATPase associated with many ubiquitin-dependent cellular pathways that plays a central role in protein quality control in all eukaryotes. Its functional diversity relies on its ability to cooperate with a large number of protein cofactors that provide pathway selectivity and fine-tune substrate processing. Here, we identified the main partners of the recently characterized Leishmania infantum VCP homolog (LiVCP) and we provide the first insights into the biology of the LiVCP network in Trypanosomatidae. Among the LiVCP core partners detected by immunoprecipitation (IP) and LC-MS/MS mass spectra acquisition, we determined p47, FAF1, UFD1 and PUB1 as the major cofactors of the Leishmania VCP. Furthermore, we provide in silico analyses demonstrating the conserved regions of these cofactors that potentially interact with LiVCP. We employed ‘‘network proteomics’’ using IP and LC-MS/MS studies for each cofactor to confirm their close partnership with LiVCP and to identify the cofactor-specific interacting partners as well as the partners that are shared among multiple cofactors and LiVCP complexes, such as the important heterotrimer VCP-NPL4-UFD1 complex in Leishmania. Our results suggest a glycosome/peroxisome association of LiFAF1. Gene Ontology analysis of each proteome coupled with digitonin fractionation and immunofluorescence studies indicated nuclear association for Lip47, cytoplasmic and vacuolar association for LiUFD1, glycosome association for LiFAF1, and endoplasmic reticulum interaction for LiPUB1 protein. All together, these data provide the first VCP protein network in Trypanosomatidae. Further functional and structural analysis of the essential LiVCP quality control protein network may lead to the development of new anti-parasitic drugs.
HostingRepository	PRIDE
AnnounceDate	2020-08-11
AnnouncementXML	Submission_2020-08-11_02:35:21.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Bruno Aguiar
SpeciesList	scientific name: Leishmania infantum JPCM5; NCBI TaxID: 435258;
ModificationList	No PTMs are included in the dataset
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2019-05-07 02:54:41	ID requested
⏵ 1	2020-08-11 02:35:22	announced

Aguiar BG, Dumas C, Maaroufi H, Padmanabhan PK, Papadopoulou B, ATPase valosin-containing protein (VCP)/p97/Cdc48 interaction network in Leishmania. Sci Rep, 10(1):13135(2020) [pubmed]

submitter keyword: Leishmania

VCP/p97

VCP cofactors

co-immunoprecipitation

LC-MS/MS

Network proteomics

Barbara Papadopoulou
contact affiliation	CHU de Quebec Research Center-Laval University 2705 Laurier Blvd., Quebec (QC), Canada G1V 4G2 Phone: (418) 525-4444, ext. 47608; Fax: (418) 654-2715
contact email	barbara.papadopoulou@crchudequebec.ulaval.ca
lab head
Bruno Aguiar
contact affiliation	CHUL-QUÉBEC
contact email	guedesaguiar@ufpi.edu.br
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/2020/08/PXD013731

PRIDE project URI

• PRIDE
  1. PXD013731
     1. Label: PRIDE project
     2. Name: Functional characterization of the p97/valosin-containing protein (VCP) interacting network in Leishmania Functional characterization of the p97/valosin-containing protein (VCP) interacting network in Leishmania