PXD042298

PXD042298 is an original dataset announced via ProteomeXchange.

Title	Capillary zone electrophoresis-tandem mass spectrometry for top-down proteomics of mouse brain integral membrane proteins
Description	Mass spectrometry (MS)-based top-down characterization of integral membrane proteins (IMPs) is crucial for understanding their functions in biological processes. However, it is technically challenging due to their low solubility in typical MS-compatible buffers. In this work, for the first time, we developed an efficient capillary zone electrophoresis (CZE)-tandem MS (MS/MS) method for top-down proteomics (TDP) of IMPs enriched from mouse brains. Our technique employs a sample buffer containing 30% (v/v) formic acid and 60% (v/v) methanol for solubilizing IMPs and utilizes a separation buffer of 30% (v/v) acetic acid and 30% (v/v) methanol for maintaining the solubility of IMPs during CZE separation. Single-shot CZE-MS/MS identified 51 IMP proteoforms from the mouse brain sample. Coupling size exclusion chromatography (SEC) to CZE-MS/MS enabled the identification of 276 IMP proteoforms from the mouse brain sample and those proteoforms contained 1-4 transmembrane domains. This proof-of-concept work demonstrates the high potential of CZE-MS/MS for large-scale TDP of IMPs.
HostingRepository	PRIDE
AnnounceDate	2023-12-07
AnnouncementXML	Submission_2023-12-07_13:49:57.043.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Liangliang Sun
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	phosphorylated residue; myristoylated residue; acetylated residue; monohydroxylated residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2023-05-17 13:14:46	ID requested
⏵ 1	2023-12-07 13:49:57	announced

10.1021/acs.analchem.3c02346;

Wang Q, Xu T, Fang F, Wang Q, Lundquist P, Sun L, Capillary Zone Electrophoresis-Tandem Mass Spectrometry for Top-Down Proteomics of Mouse Brain Integral Membrane Proteins. Anal Chem, 95(34):12590-12594(2023) [pubmed]

submitter keyword: Top-down proteomics

Integral membrane protein

Proteoform

Capillary zone electrophoresis-mass spectrometry

Mouse brain

Liangliang Sun
contact affiliation	Department of Chemistry, Michigan State University, East Lansing, MI 48824
contact email	lsun@chemistry.msu.edu
lab head
Liangliang Sun
contact affiliation	Michigan State University
contact email	lsun@chemistry.msu.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/2023/12/PXD042298

PRIDE project URI

• PRIDE
  1. PXD042298
     1. Label: PRIDE project
     2. Name: Capillary zone electrophoresis-tandem mass spectrometry for top-down proteomics of mouse brain integral membrane proteins