PXD040717 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Timeline of changes in spike conformational dynamics in emergent SARS-CoV-2 variants reveal progressive stabilization of trimer stalk with altered NTD dynamics |
Description | SARS-CoV-2 emergent variants are characterized by increased viral fitness and each shows multiple mutations predominantly localized to the spike (S) protein. Here, amide hydrogen/deuterium exchange mass spectrometry has been applied to track changes in S dynamics from multiple SARS-CoV-2 variants. Our results highlight large differences across variants at two loci with impacts on S dynamics and stability. A significant enhancement in stabilization first occurred with the emergence of D614G S followed by smaller, progressive stabilization in subsequent variants. Stabilization preceded altered dynamics in the N-terminal domain, wherein Omicron BA.1 S showed the largest magnitude increases relative to other preceding variants. Changes in stabilization and dynamics resulting from S mutations detail the evolutionary trajectory of S in emerging variants. These carry major implications for SARS-CoV-2 viral fitness and offer new insights into variant-specific therapeutic development. |
HostingRepository | PRIDE |
AnnounceDate | 2024-10-22 |
AnnouncementXML | Submission_2024-10-22_05:43:51.959.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Sean Braet |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | No PTMs are included in the dataset |
Instrument | Synapt MS |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2023-03-09 03:33:38 | ID requested | |
1 | 2023-03-14 13:01:57 | announced | |
2 | 2023-11-14 08:59:35 | announced | 2023-11-14: Updated project metadata. |
⏵ 3 | 2024-10-22 05:43:52 | announced | 2024-10-22: Updated project metadata. |
Publication List
Keyword List
submitter keyword: SARS-CoV-2, HDXMS, Allostery |
Contact List
Ganesh S Anand |
contact affiliation | The Pennsylvania State University, Department of Chemistry |
contact email | gsa5089@psu.edu |
lab head | |
Sean Braet |
contact affiliation | Penn State |
contact email | smb6745@psu.edu |
dataset submitter | |
Full Dataset Link List
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/2023/03/PXD040717 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD040717
- Label: PRIDE project
- Name: Timeline of changes in spike conformational dynamics in emergent SARS-CoV-2 variants reveal progressive stabilization of trimer stalk with altered NTD dynamics