Insights on the mutational landscape of the SARS-CoV-2 Omicron variant receptor-binding domain
Insights on the mutational landscape of the SARS-CoV-2 Omicron variant receptor-binding domain
The Omicron variant features enhanced transmissibility and antibody escape. Here, we describe the Omicron receptor-binding domain (RBD) mutational landscape using amino acid interaction (AAI) networks, which are well suited for interrogating constellations of mutations that function in an epistatic manner. Using AAI, we map Omicron mutations directly and indirectly driving increased escape breadth and depth in class 1-4 antibody epitopes. Further, we present epitope networks for authorized therapeutic antibodies and assess perturbations to each antibody's epitope. Since our initial modeling following the identification of Omicron, these predictions have been realized by experimental findings of Omicron neutralization escape from therapeutic antibodies ADG20, AZD8895, and AZD1061. Importantly, the AAI predicted escape resulting from indirect epitope perturbations was not captured by previous sequence or point mutation analyses. Finally, for several Omicron RBD mutations, we find evidence for a plausible role in enhanced transmissibility via disruption of RBD-down conformational stability at the RBDdown-RBDdown interface.
- Massachusetts Institute of Technology United States
- Singapore-MIT Alliance for Research and Technology Singapore
- Harvard–MIT Division of Health Sciences and Technology United States
SARS-CoV-2, Antibodies, Monoclonal, COVID-19, Antibodies, Viral, Antibodies, Neutralizing, Epitopes, Protein Domains, Neutralization Tests, Report, Mutation, Spike Glycoprotein, Coronavirus, Humans, Immune Evasion, Protein Binding
SARS-CoV-2, Antibodies, Monoclonal, COVID-19, Antibodies, Viral, Antibodies, Neutralizing, Epitopes, Protein Domains, Neutralization Tests, Report, Mutation, Spike Glycoprotein, Coronavirus, Humans, Immune Evasion, Protein Binding
citations This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).50 popularity This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.Top 1% influence This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).Top 1% impulse This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.Top 1%
