PXD043818-2

PXD043818 is an original dataset announced via ProteomeXchange.

Title	Defining neutralization and allostery by antibodies against COVID-19 variants
Description	This project is aimed at characterizing the interactions of SARS-CoV-2 Spike protein and its variants with multiple full-length antibodies and monitoring the accompanying conformational dynamics. Different categories of antibodies are tested that recognize different domains of the Spike protein. The project aims at identifying the effects of weak, moderate and strong neutralizing antibodies on Spike protein and decipher their mechanisms of action. In addition to the direct binding effects, distal allosteric effects are also determined. A range of biophysical experiments, biochemical assays, and molecular dynamics simulations are used as orthogonal approaches. The rationale is to identify regions on the SARS-CoV-2 Spike protein that acts as indicators for antibody binding and use these hotspots to develop better neutralizing antibodies against SARS-CoV-2 and any future viral pandemics.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:05:22.188.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Nikhil Kumar Tulsian
SpeciesList	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	2023-07-16 17:04:19	ID requested
1	2023-10-09 12:33:27	announced
⏵ 2	2024-10-22 06:05:22	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

ProteomeXchange project tag: Antibodies (B/D-HPP), Biology/Disease-Driven Human Proteome Project (B/D-HPP), Human Proteome Project

submitter keyword: antibody, epitope-paratope mapping,SARS-CoV-2, HDXMS, neutralization, MD simulations, variants of concern, Spike protein

Paul MacAry
contact affiliation	Department of Microbiology & Immunology, National University of Singapore, Singapore
contact email	micpam@nus.edu.sg
lab head
Nikhil Kumar Tulsian
contact affiliation	Senior Scientist, MSD International GmBH (Singapore)
contact email	nikhilkt.science@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/2023/10/PXD043818

PRIDE project URI

• PRIDE
  1. PXD043818
     1. Label: PRIDE project
     2. Name: Defining neutralization and allostery by antibodies against COVID-19 variants