PXD004557-2

PXD004557 is an original dataset announced via ProteomeXchange.

Title	HCOV-NL63 spike protein glycopeptides
Description	HCoV-NL63 is a coronavirus that can cause severe lower respiratory tract infections requiring hospitalization. Of great interest is understanding the HCoV-NL63 coronavirus spike glycoprotein trimer, which is the conformational machine responsible for entry into host cells and the sole target of neutralizing antibodies during infection. We utilized an electron-transfer/higher energy collision dissociation ion fragmentation scheme (Frese, C. K. et al., 2013.) in combination with cryo-electron microscopy to resolve the extensive glycan shield that obstructs the protein surface. These glycans provide a structural framework to understanding the accessibility of the protein to antibodies.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:31:24.045.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Joost Snijder
SpeciesList	scientific name: Human coronavirus NL63; NCBI TaxID: 277944;
ModificationList	N-linked glycan core N4-glycosylated asparagine; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion ETD

Revision	Datetime	Status	ChangeLog Entry
0	2016-07-12 01:28:40	ID requested
1	2016-09-26 16:54:16	announced
⏵ 2	2024-10-22 04:31:27	announced	2024-10-22: Updated project metadata.

Walls AC, Tortorici MA, Frenz B, Snijder J, Li W, Rey FA, DiMaio F, Bosch BJ, Veesler D, Glycan shield and epitope masking of a coronavirus spike protein observed by cryo-electron microscopy. Nat Struct Mol Biol, 23(10):899-905(2016) [pubmed]

10.1038/nsmb.3293;

submitter keyword: EThcD, glycopeptide,virus

David Veesler
contact affiliation	Department of Biochemistry, University of Washington, Seattle, Washington, USA
contact email	dveesler@uw.edu
lab head
Joost Snijder
contact affiliation	Utrecht University
contact email	joost.snijder@gmail.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/2016/09/PXD004557

PRIDE project URI

• PRIDE
  1. PXD004557
     1. Label: PRIDE project
     2. Name: HCOV-NL63 spike protein glycopeptides