PXD038658

PXD038658 is an original dataset announced via ProteomeXchange.

Title	Targeted cross-linker delivery for in situ mapping of protein conformations and interactions in mitochondria
Description	Current methods for intracellular protein analysis mostly require the separation of specific organelles or the change of intracellular environment. However, the functions of these proteins are determined by their native microenvironment as they usually form complexes with ions, nucleic acids, and other proteins. Thus, we have explored a method for in situ crosslinking and mapping of mitochondrial proteins in living cells. Poly(lactic-co-glycolic acid) (PLGA) nanoparticles are functionalized with dihexadecyldimethylammonium bromide (DDAB) to deliver protein crosslinkers into mitochondria. In situ crosslinked proteins are analyzed using mass spectrometry. With this method, we have totally identified a total of 74 pairs of74 pairs of protein-protein interactions that do not exist in the STRING database. Our data on mitochondrial respiratory chain proteins (~93%) are also consistent with the experimental or predicted structural analysis of these proteins. Thus, we have established a promising technology platform for in situ defined protein analysis in cellular organelles under their native microenvironment.
HostingRepository	PRIDE
AnnounceDate	2023-05-26
AnnouncementXML	Submission_2023-05-26_00:54:49.828.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	YuwanChen
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2022-12-07 12:11:43	ID requested
⏵ 1	2023-05-26 00:54:50	announced

Dataset with its publication pending

submitter keyword: In-cell cross-linking, Mitochondria, Protein conformations and interactions, Nanocarrier delivery,Chemical cross-linking mass spectrometry

LihuaZhang
contact affiliation	CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China.
contact email	lihuazhang@dicp.ac.cn
lab head
YuwanChen
contact affiliation	CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China.
contact email	zpyuwanchen@163.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/2023/05/PXD038658

PRIDE project URI

• PRIDE
  1. PXD038658
     1. Label: PRIDE project
     2. Name: Targeted cross-linker delivery for in situ mapping of protein conformations and interactions in mitochondria