PXD014675

PXD014675 is an original dataset announced via ProteomeXchange.

Title	In Situ Structural Restraints from Crosslinking Mass Spectrometry in Human Mitochondria
Description	The field of structural biology is increasingly focusing on studying proteins in situ, i.e. in a larger biological context. Crosslinking mass spectrometry is contributing to this effort, typically through the use of MS-cleavable crosslinkers. Here, we apply the popular non-cleavable crosslinker disuccinimidyl suberate to mitochondria and identify 5,518 distance restraints between protein residues. Each distance restraint within or between proteins provides structural information on proteins and their processes within mitochondria. Comparing these restraints to high-throughput comparative models and PDB deposited structures reveals novel protein conformations. Our data suggest substrates and flexibility of mitochondrial heat shock proteins. Crosslinking mass spectrometry is progressing towards large-scale in situ structural biology that reveals protein dynamics in addition to protein-protein interaction topologies.
HostingRepository	PRIDE
AnnounceDate	2019-12-04
AnnouncementXML	Submission_2019-12-03_19:07:21.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Petra Ryl
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2019-07-19 04:28:02	ID requested
⏵ 1	2019-12-03 19:07:22	announced

Ryl PSJ, Bohlke-Schneider M, Lenz S, Fischer L, Budzinski L, Stuiver M, Mendes MML, Sinn L, O'Reilly FJ, Rappsilber J, In Situ Structural Restraints from Cross-Linking Mass Spectrometry in Human Mitochondria. J Proteome Res, 19(1):327-336(2020) [pubmed]

curator keyword: Technical

submitter keyword: crosslinking mass spectrometry, in situ large-scale structural biology, non-cleavable DSS crosslinker, human mitochondria, comparative modelling

Juri Rappsilber
contact affiliation	Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, 13355 Berlin, Germany
contact email	juri.rappsilber@tu-berlin.de
lab head
Petra Ryl
contact affiliation	TU Berlin
contact email	p.ryl@tu-berlin.de
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/2019/12/PXD014675

PRIDE project URI

• PRIDE
  1. PXD014675
     1. Label: PRIDE project
     2. Name: In Situ Structural Restraints from Crosslinking Mass Spectrometry in Human Mitochondria