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A combination of cross-neutralizing antibodies synergizes to prevent SARS-CoV-2 and SARS-CoV pseudovirus infection

Journal Article · · Cell Host & Microbe
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  1. The Scripps Research Inst., La Jolla, CA (United States)
  2. The Scripps Research Inst., La Jolla, CA (United States); Ragon Institute of MGH, MIT and Harvard, Cambridge, MA (United States)
  3. Univ. of Amsterdam (Netherlands)
  4. Univ. of Amsterdam (Netherlands); Cornell Univ., Ithaca, NY (United States). Weill Medical College
  5. German Center for Neurodegenerative Diseases (DZNE), Berlin (Germany); Charité – Universitätsmedizin Berlin (Germany)
  6. German Center for Neurodegenerative Diseases (DZNE), Berlin (Germany); Helmholtz Innovation Lab BaoBab, Berlin (Germany); Charité – Universitätsmedizin Berlin (Germany)
  7. Univ. of Illinois at Urbana-Champaign, IL (United States)
Coronaviruses have caused several human epidemics and pandemics including the ongoing coronavirus disease 2019 (COVID-19). Prophylactic vaccines and therapeutic antibodies have already shown striking effectiveness against COVID-19. Nevertheless, concerns remain about antigenic drift in SARS-CoV-2 as well as threats from other sarbecoviruses. Cross-neutralizing antibodies to SARS-related viruses provide opportunities to address such concerns. Here, we report on crystal structures of a cross-neutralizing antibody, CV38-142, in complex with the receptor-binding domains from SARS-CoV-2 and SARS-CoV. Recognition of the N343 glycosylation site and water-mediated interactions facilitate cross-reactivity of CV38-142 to SARS-related viruses, allowing the antibody to accommodate antigenic variation in these viruses. CV38-142 synergizes with other cross-neutralizing antibodies, notably COVA1-16, to enhance neutralization of SARS-CoV and SARS-CoV-2, including circulating variants of concern B.1.1.7 and B.1.351. Overall, this study provides valuable information for vaccine and therapeutic design to address current and future antigenic drift in SARS-CoV-2 and to protect against zoonotic SARS-related coronaviruses.
Research Organization:
Argonne National Laboratory (ANL), Argonne, IL (United States). Advanced Photon Source (APS)
Sponsoring Organization:
Bill and Melinda Gates Foundation; German Research Foundation (DFG); National Institutes of Health (NIH); USDOE Office of Science (SC)
Grant/Contract Number:
AC02-06CH11357
OSTI ID:
1810870
Alternate ID(s):
OSTI ID: 1812075
Journal Information:
Cell Host & Microbe, Journal Name: Cell Host & Microbe Journal Issue: 5 Vol. 29; ISSN 1931-3128
Publisher:
ElsevierCopyright Statement
Country of Publication:
United States
Language:
ENGLISH

References (76)

UCSF Chimera?A visualization system for exploratory research and analysis journal January 2004
Conservation of water molecules in an antibody-antigen interaction journal September 1995
Shape Complementarity at Protein/Protein Interfaces journal December 1993
Antibody-antigen interactions journal February 1993
[20] Processing of X-ray diffraction data collected in oscillation mode book January 1997
Structural insights into coronavirus entry book January 2019
Recognition of the SARS-CoV-2 receptor binding domain by neutralizing antibodies journal January 2021
Potent Neutralizing Antibodies against SARS-CoV-2 Identified by High-Throughput Single-Cell Sequencing of Convalescent Patients’ B Cells journal July 2020
Structures of Human Antibodies Bound to SARS-CoV-2 Spike Reveal Common Epitopes and Recurrent Features of Antibodies journal August 2020
Deep Mutational Scanning of SARS-CoV-2 Receptor Binding Domain Reveals Constraints on Folding and ACE2 Binding journal September 2020
Structurally Resolved SARS-CoV-2 Antibody Shows High Efficacy in Severely Infected Hamsters and Provides a Potent Cocktail Pairing Strategy journal November 2020
Mapping Neutralizing and Immunodominant Sites on the SARS-CoV-2 Spike Receptor-Binding Domain by Structure-Guided High-Resolution Serology journal November 2020
A Therapeutic Non-self-reactive SARS-CoV-2 Antibody Protects from Lung Pathology in a COVID-19 Hamster Model journal November 2020
Circulating SARS-CoV-2 spike N439K variants maintain fitness while evading antibody-mediated immunity journal March 2021
Evidence of escape of SARS-CoV-2 variant B.1.351 from natural and vaccine-induced sera journal April 2021
An Alternative Binding Mode of IGHV3-53 Antibodies to the SARS-CoV-2 Receptor Binding Domain journal October 2020
Quantifying Drug Combination Synergy along Potency and Efficacy Axes journal February 2019
Neutralization of SARS-CoV-2 by Destruction of the Prefusion Spike journal September 2020
Complete Mapping of Mutations to the SARS-CoV-2 Spike Receptor-Binding Domain that Escape Antibody Recognition journal January 2021
Identification of SARS-CoV-2 spike mutations that attenuate monoclonal and serum antibody neutralization journal March 2021
Comprehensive mapping of mutations in the SARS-CoV-2 receptor-binding domain that affect recognition by polyclonal human plasma antibodies journal March 2021
Cross-Neutralization of a SARS-CoV-2 Antibody to a Functionally Conserved Site Is Mediated by Avidity journal December 2020
Inference of Macromolecular Assemblies from Crystalline State journal September 2007
Automated molecular microscopy: The new Leginon system journal July 2005
Appion: An integrated, database-driven pipeline to facilitate EM image processing journal April 2009
DoG Picker and TiltPicker: Software tools to facilitate particle selection in single particle electron microscopy journal May 2009
RELION: Implementation of a Bayesian approach to cryo-EM structure determination journal December 2012
Comprehensive Analysis of the Glycan Complement of SARS-CoV-2 Spike Proteins Using Signature Ions-Triggered Electron-Transfer/Higher-Energy Collisional Dissociation (EThcD) Mass Spectrometry journal October 2020
COVID mink analysis shows mutations are not dangerous — yet journal November 2020
Evidence for SARS-CoV-2 related coronaviruses circulating in bats and pangolins in Southeast Asia journal February 2021
Origin and evolution of pathogenic coronaviruses journal December 2018
Identifying SARS-CoV-2 related coronaviruses in Malayan pangolins journal March 2020
Cross-neutralization of SARS-CoV-2 by a human monoclonal SARS-CoV antibody journal May 2020
Human neutralizing antibodies elicited by SARS-CoV-2 infection journal May 2020
Convergent antibody responses to SARS-CoV-2 in convalescent individuals journal June 2020
Potently neutralizing and protective human antibodies against SARS-CoV-2 journal July 2020
SARS-CoV-2 neutralizing antibody structures inform therapeutic strategies journal October 2020
mRNA vaccine-elicited antibodies to SARS-CoV-2 and circulating variants journal February 2021
Antibody resistance of SARS-CoV-2 variants B.1.351 and B.1.1.7 journal March 2021
Sixteen novel lineages of SARS-CoV-2 in South Africa journal February 2021
SARS-CoV-2 501Y.V2 escapes neutralization by South African COVID-19 donor plasma journal March 2021
Resistance of SARS-CoV-2 variants to neutralization by monoclonal and serum-derived polyclonal antibodies journal March 2021
Structural basis for the neutralization of SARS-CoV-2 by an antibody from a convalescent patient journal July 2020
Stabilized coronavirus spikes are resistant to conformational changes induced by receptor recognition or proteolysis journal October 2018
Structure and function in rhodopsin: High-level expression of rhodopsin with restricted and homogeneous N-glycosylation by a tetracycline-inducible N-acetylglucosaminyltransferase I-negative HEK293S stable mammalian cell line journal October 2002
The Role of Hydrogen Bonding via Interfacial Water Molecules in Antigen-Antibody Complexation journal February 2003
synergy: a Python library for calculating, analyzing and visualizing drug combination synergy journal September 2020
Shape complementarity and hydrogen bond preferences in protein–protein interfaces: implications for antibody modeling and protein–protein docking journal April 2016
SynergyFinder: a web application for analyzing drug combination dose–response matrix data journal April 2017
Possible host-adaptation of SARS-CoV-2 due to improved ACE2 receptor binding in mink journal January 2021
Phaser crystallographic software journal July 2007
Coot model-building tools for molecular graphics journal November 2004
MolProbity : all-atom structure validation for macromolecular crystallography journal December 2009
PHENIX: a comprehensive Python-based system for macromolecular structure solution journal January 2010
Features and development of Coot journal March 2010
A Highly Conserved Neutralizing Epitope on Group 2 Influenza A Viruses journal July 2011
A highly conserved cryptic epitope in the receptor binding domains of SARS-CoV-2 and SARS-CoV journal April 2020
Site-specific glycan analysis of the SARS-CoV-2 spike journal May 2020
Structural basis for neutralization of SARS-CoV-2 and SARS-CoV by a potent therapeutic antibody journal July 2020
Potent neutralizing antibodies from COVID-19 patients define multiple targets of vulnerability journal June 2020
Isolation of potent SARS-CoV-2 neutralizing antibodies and protection from disease in a small animal model journal June 2020
Structure-based design of prefusion-stabilized SARS-CoV-2 spikes journal July 2020
Studies in humanized mice and convalescent humans yield a SARS-CoV-2 antibody cocktail journal June 2020
Antibody cocktail to SARS-CoV-2 spike protein prevents rapid mutational escape seen with individual antibodies journal June 2020
Structural basis of a shared antibody response to SARS-CoV-2 journal July 2020
Structural analysis of full-length SARS-CoV-2 spike protein from an advanced vaccine candidate journal October 2020
Transmission of SARS-CoV-2 on mink farms between humans and mink and back to humans journal November 2020
Structure-guided multivalent nanobodies block SARS-CoV-2 infection and suppress mutational escape journal January 2021
Recurrent deletions in the SARS-CoV-2 spike glycoprotein drive antibody escape journal February 2021
Genomic Characterization of a Novel SARS-CoV-2 Lineage from Rio de Janeiro, Brazil journal April 2021
Neutralization Synergy of Human Immunodeficiency Virus Type 1 Primary Isolates by Cocktails of Broadly Neutralizing Antibodies journal December 2001
Bat origin of human coronaviruses journal December 2015
Human Monoclonal Antibody Combination against SARS Coronavirus: Synergy and Coverage of Escape Mutants journal July 2006
Zoonotic origins of human coronaviruses journal January 2020
New tools for automated high-resolution cryo-EM structure determination in RELION-3 journal November 2018
Escape from neutralizing antibodies by SARS-CoV-2 spike protein variants journal October 2020