PXD017066-1

PXD017066 is an original dataset announced via ProteomeXchange.

Title	Improving identification of in-organello protein-protein interactions using an affinity-enrichable, isotopically-coded, and mass spectrometry-cleavable chemical crosslinker
Description	An experimental and computational approach for identification of protein-protein interactions by in-vivo chemical crosslinking and mass spectrometry (CLMS) has been developed that takes advantage of the specific characteristics of cyanurbiotindipropionylsuccinimide (CBDPS), an affinity-tagged isotopically-coded mass spectrometry (MS)-cleavable crosslinking reagent. Utilizing this reagent in combination with a crosslinker-specific data-dependent acquisition strategy based on MS2 scans, and a software pipeline designed for integrating crosslinker-specific mass spectral information led to demonstrated improvements in the application of the CLMS technique, in terms of the detection, acquisition, and identification of crosslinker-modified peptides. This approach was evaluated on intact yeast mitochondria, and the results showed that hundreds of unique protein-protein interactions could be identified on a proteome-wide scale. Both known and previously-unknown protein-protein interactions were able to be identified.
HostingRepository	PRIDE
AnnounceDate	2020-03-18
AnnouncementXML	Submission_2020-03-17_17:25:09.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yassene Mohammed
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos; Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2020-01-10 06:41:27	ID requested
⏵ 1	2020-03-17 17:25:10	announced

Dataset with its publication pending

curator keyword: Biological

submitter keyword: cross-linking, yeast, mitochondria

Christoph H. Borchers
contact affiliation	1. Department of Biochemistry and Microbiology, University of Victoria, Victoria, British Columbia, Canada; 2. University of Victoria Genome BC Proteomics Centre, University of Victoria, Victoria, British Columbia, Canada; 3. Gerald Bronfman Department of Oncology, Jewish General Hospital, Montreal, Quebec, Canada; 4. Segal Cancer Proteomics Centre, Lady Davis Institute, Jewish General Hospital, McGill University, Montreal, Quebec, Canada
contact email	christoph@proteincentre.com
lab head
Yassene Mohammed
contact affiliation	Leiden University Medcial Center
contact email	yassene@proteincentre.com
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/2020/03/PXD017066

PRIDE project URI

• PRIDE
  1. PXD017066
     1. Label: PRIDE project
     2. Name: Improving identification of in-organello protein-protein interactions using an affinity-enrichable, isotopically-coded, and mass spectrometry-cleavable chemical crosslinker