PXD003381

PXD003381 is an original dataset announced via ProteomeXchange.

Title	Structural Analysis of a Prokaryotic Ribosome Using a Novel Amidinating Cross-Linker and Mass Spectrometry
Description	The structure of the Escherichia coli ribosome, a 2.5 MDa ribonucleoprotein complex containing more than 50 proteins, was probed using the novel amidinating cross-linker diethyl suberthioimidate (DEST) and mass spectrometry. Peptide cross-links derived from this complex structure were identified at high confidence (FDR 0.8%) from precursor mass measurements and collision-induced dissociation (CID) fragmentation spectra. The acquired cross-linking data were found to be in excellent agreement with the crystal structure of the E. coli ribosome. DEST cross-links are particularly amenable to strong cation exchange (SCX) chromatography, facilitating a large-scale analysis. SCX enrichment and fractionation were shown to increase the number of cross-link spectra matches in our analysis 10-fold. Evidence is presented that these techniques can be used to study complex interactomes.
HostingRepository	PRIDE
AnnounceDate	2015-12-23
AnnouncementXML	Submission_2015-12-23_00:28:33.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Chao Ji
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2015-12-21 02:27:04	ID requested
⏵ 1	2015-12-23 00:28:34	announced

Lauber MA, Reilly JP, Structural analysis of a prokaryotic ribosome using a novel amidinating cross-linker and mass spectrometry. J Proteome Res, 10(8):3604-16(2011) [pubmed]

curator keyword: Biological, Technical

submitter keyword: Protein cross-linking, mass spectrometry, amidination, diethyl suberthioimidate, DEST, ribosome, E. coli

James P. Reilly
contact affiliation	Department of Chemistry, Indiana University
contact email	reilly@indiana.edu
lab head
Chao Ji
contact affiliation	SOIC
contact email	jic@indiana.edu
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/2015/12/PXD003381

PRIDE project URI

• PRIDE
  1. PXD003381
     1. Label: PRIDE project
     2. Name: Structural Analysis of a Prokaryotic Ribosome Using a Novel Amidinating Cross-Linker and Mass Spectrometry