PXD039993

PXD039993 is an original dataset announced via ProteomeXchange.

Title	Charge site manipulation to enhance top-down fragmentation efficiency
Description	In recent years, top-down mass spectrometry has become a widely used approach to study proteoforms; however, improving sequence coverage remains an important goal. Here, two different proteins, α-synuclein and bovine carbonic anhydrase, were subjected to top-down collision-induced dissociation (CID) after electrospray ionisation. Two high-boiling solvents, DMSO and propylene carbonate, were added to the protein solution in low concentration (2%) and the effects on the top-down fragmentation patterns of the proteins were systematically investigated. Each sample was measured in triplicate, which revealed highly reproducible differences in the top-down CID fragmentation patterns in the presence of a solution additive, even if the same precursor charge state was isolated in the quadrupole of the instrument. Further investigation supports the solution condition-dependent selective formation of different protonation site isomers as the underlying cause of these differences. Higher sequence coverage was often observed in the presence of additives, and the benefits of this approach became even more evident when datasets from different solution conditions were combined, as increases up to 35% in cleavage coverage were obtained. Overall, this approach therefore represents a promising opportunity to increase top-down fragmentation efficiency.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_06:54:26.178.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Tanja Habeck
SpeciesList	scientific name: Bos taurus (Bovine); NCBI TaxID: 9913; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Synapt MS

Revision	Datetime	Status	ChangeLog Entry
0	2023-02-09 01:51:17	ID requested
1	2023-06-27 01:07:18	announced
⏵ 2	2023-11-14 06:54:26	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

submitter keyword: Protein, Top-down,Protomers, Charge site manipulation

Frederik Lermyte
contact affiliation	Department of Chemistry, Institute of Chemistry and Biochemistry, Technical University of Darmstadt, 64287 Darmstadt
contact email	frederik.lermyte@tu-darmstadt.de
lab head
Tanja Habeck
contact affiliation	Department of Chemistry, Institute of Chemistry and Biochemistry, Technical University of Darmstadt, 64287 Darmstadt
contact email	tanja.habeck@tu-darmstadt.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/2023/06/PXD039993

PRIDE project URI

• PRIDE
  1. PXD039993
     1. Label: PRIDE project
     2. Name: Charge site manipulation to enhance top-down fragmentation efficiency