PXD008781

PXD008781 is an original dataset announced via ProteomeXchange.

Title	The prion protein interactome in four mouse cell lines of distinct lineages
Description	At times, it can be difficult to discern if a lack of overlap in reported interactions for a protein-of-interest reflects differences in methodology or biology. A case in point is the prion protein (PrP) which is best known for its central role in prion disorders. Despite having over two dozen interactors reported, there is little consensus regarding their importance for understanding the biology of PrP. In such instances, systematic analyses of protein-protein networks across diverse paradigms can provide valuable insights. Here, we interrogated the PrP interactome in four distinct mouse cell lines. Analyses made use of identical affinity capture reagents and sample processing workflows. To enable the discrimination of specific from non-specific binders, negative controls were generated from PrP knockout lines of the respective cell models, and the relative levels of peptides were quantified with the help of isobaric labels. The study uncovered 26 proteins, which reside in proximity to PrP. All of these proteins are predicted to have access to the outer face of the plasma membrane, and approximately half of them were not reported to interact with PrP before. Strikingly, although several proteins exhibited profound co-enrichment with PrP in a given model, except for Ncam1, no protein was highly enriched in all four PrP-specific interactome datasets.
HostingRepository	PRIDE
AnnounceDate	2018-05-24
AnnouncementXML	Submission_2018-06-10_11:16:23.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Declan Williams
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	S-pyridylethyl-L-cysteine; phosphorylated residue; iTRAQ8plex-116 reporter+balance reagent acylated residue; monohydroxylated residue; deamidated residue
Instrument	Orbitrap Fusion ETD

Revision	Datetime	Status	ChangeLog Entry
0	2018-01-29 01:38:16	ID requested
1	2018-05-24 08:41:49	announced
⏵ 2	2018-06-10 11:16:24	announced	Updated publication reference for PubMed record(s): 29872131.

Ghodrati F, Mehrabian M, Williams D, Halgas O, Bourkas MEC, Watts JC, Pai EF, Schmitt-Ulms G, and integrin signaling. Sci Rep, 8(1):8654(2018) [pubmed]

curator keyword: Biological

submitter keyword: interactome, mouse, orbitrap fusion, prion

Gerold Schmitt-Ulms
contact affiliation	Tanz Centre for Research in Neurodegenerative Diseases, Faculty of Medicine, University of Toronto
contact email	g.schmittulms@utoronto.ca
lab head
Declan Williams
contact affiliation	University of Toronto
contact email	gwillym.williams@utoronto.ca
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/2018/05/PXD008781

PRIDE project URI

• PRIDE
  1. PXD008781
     1. Label: PRIDE project
     2. Name: The prion protein interactome in four mouse cell lines of distinct lineages