PXD035904
PXD035904 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Distinct Core Glycan and O-Glycoform Utilization of SARS-CoV-2 Omicron Variant Spike Protein RBD Revealed by Top-Down Mass Spectrometry |
| Description | The SARS-CoV-2 Omicron (B.1.1.529) variant possesses numerous spike (S) mutations particularly in the S receptor-binding domain (S-RBD) that significantly improve transmissibility and evasion of neutralizing antibodies. But exactly how the mutations in the Omicron variant enhance viral escape from immunological protection remains to be understood. The S-RBD remains the principal target for neutralizing antibodies and therapeutics, thus new structural insights into the Omicron S-RBD and characterization of the post-translational glycosylation changes can inform rational design of vaccines and therapeutics. Here we report the molecular variations and O-glycoform changes of the Omicron S-RBD variant as compared to wild-type (WA1/2020) and Delta (B.1.617.2) variants using high-resolution top-down mass spectrometry (MS). A novel O-glycosite (Thr376) unique to the Omicron variant is identified. Moreover, we have directly quantified the Core 1 and Core 2 O-glycan structures and characterized the O-glycoform structural heterogeneity of the three variants. Our findings reveal high resolution detail of Omicron O-glycoforms and their utilization to provide direct molecular evidence of proteoform alterations in the Omicron variant which could shed light on how this variant escapes immunological protection. |
| HostingRepository | MassIVE |
| AnnounceDate | 2022-09-02 |
| AnnouncementXML | Submission_2022-09-02_18:37:44.926.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | David Roberts |
| SpeciesList | scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; |
| ModificationList | Hex(1)HexNAc(1); Hex(1)HexNAc(1)NeuAc(2); unknown modification; acetylated residue; unknown modification; unknown modification |
| Instrument | solariX; timsTOF Pro |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2022-08-08 15:21:12 | ID requested | |
| ⏵ 1 | 2022-09-02 18:37:45 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: O-Glycoform, O-glycosylation, Omicron, COVID-19, Spike protein, Regional-binding domain, Top-down mass spectrometry |
Contact List
| Ying Ge | |
|---|---|
| contact affiliation | University of Wisconsin-Madison |
| contact email | ge2@wisc.edu |
| lab head | |
| David S. Roberts | |
| contact affiliation | University of Wisconsin-Madison |
| contact email | dsroberts@wisc.edu |
| lab head | |
| David Roberts | |
| contact affiliation | University of Wisconsin-Madison |
| contact email | dsroberts@wisc.edu |
| dataset submitter | |
Full Dataset Link List
| MassIVE dataset URI |
| 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://massive.ucsd.edu/MSV000090098/ |
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