PXD056825

PXD056825 is an original dataset announced via ProteomeXchange.

Title	Isobaric crosslinking mass spectrometry technology for studying conformational and structural changes in proteins and complexes
Description	Dynamic conformational and structural changes in proteins and protein complexes play a central and ubiquitous role in the regulation of protein function, yet it is very challenging to study these changes, especially for large protein complexes, under physiological conditions. Here we introduce a novel isobaric crosslinker, Qlinker, for studying conformational and structural changes in proteins and protein complexes using quantitative crosslinking mass spectrometry (qCLMS). Qlinkers are small and simple, amine-reactive molecules with an optimal extended distance of ~10 Å which use MS2 reporter ions for relative quantification of Qlinker-modified peptides derived from different samples. We synthesized the 2-plex Q2linker and showed that the Q2linker can provide quantitative crosslinking data that pinpoints key conformational and structural changes in biosensors, binary and ternary complexes composed of the general transcription factors TBP, TFIIA, and TFIIB, and RNA polymerase II (pol II) complexes.
HostingRepository	PRIDE
AnnounceDate	2024-11-13
AnnouncementXML	Submission_2024-11-13_10:37:27.282.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jie Luo
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2024-10-15 14:24:55	ID requested
⏵ 1	2024-11-13 10:37:27	announced

10.1101/2022.12.02.518925;

submitter keyword: isobaric crosslinkers, qCLMS, conformational changes, quantitative crosslinking mass spectrometry

Jeff Ranish
contact affiliation	Institute for Systems Biology
contact email	jranish@systemsbiology.org
lab head
Jie Luo
contact affiliation	Institute for Systems Biology
contact email	jluo@systemsbiology.org
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/2024/11/PXD056825

PRIDE project URI

• PRIDE
  1. PXD056825
     1. Label: PRIDE project
     2. Name: Isobaric crosslinking mass spectrometry technology for studying conformational and structural changes in proteins and complexes