1. An ultrapotent RBD-targeted biparatopic nanobody neutralizes broad SARS-CoV-2 variants.
- Author
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Chi X, Zhang X, Pan S, Yu Y, Shi Y, Lin T, Duan H, Liu X, Chen W, Yang X, Chen L, Dong X, Ren L, Ding Q, Wang J, and Yang W
- Subjects
- Antibodies, Neutralizing biosynthesis, Antibodies, Neutralizing genetics, Antibodies, Viral biosynthesis, Antibodies, Viral genetics, Antibody Affinity, Enzyme-Linked Immunosorbent Assay, Epitopes chemistry, Epitopes immunology, Escherichia coli genetics, Escherichia coli metabolism, Gene Expression, Humans, Immunoglobulin Fc Fragments biosynthesis, Immunoglobulin Fc Fragments genetics, Models, Molecular, Neutralization Tests, Protein Binding drug effects, Protein Conformation, Protein Interaction Domains and Motifs, Recombinant Fusion Proteins biosynthesis, Recombinant Fusion Proteins genetics, SARS-CoV-2 growth & development, SARS-CoV-2 immunology, Single-Domain Antibodies biosynthesis, Single-Domain Antibodies genetics, Spike Glycoprotein, Coronavirus antagonists & inhibitors, Spike Glycoprotein, Coronavirus chemistry, Spike Glycoprotein, Coronavirus genetics, Spike Glycoprotein, Coronavirus immunology, Antibodies, Neutralizing pharmacology, Antibodies, Viral pharmacology, Immunoglobulin Fc Fragments pharmacology, Recombinant Fusion Proteins pharmacology, SARS-CoV-2 drug effects, Single-Domain Antibodies pharmacology
- Abstract
The wide transmission and host adaptation of SARS-CoV-2 have led to the rapid accumulation of mutations, posing significant challenges to the effectiveness of vaccines and therapeutic antibodies. Although several neutralizing antibodies were authorized for emergency clinical use, convalescent patients derived natural antibodies are vulnerable to SARS-CoV-2 Spike mutation. Here, we describe the screen of a panel of SARS-CoV-2 receptor-binding domain (RBD) targeted nanobodies (Nbs) from a synthetic library and the design of a biparatopic Nb, named Nb1-Nb2, with tight affinity and super-wide neutralization breadth against multiple SARS-CoV-2 variants of concern. Deep-mutational scanning experiments identify the potential binding epitopes of the Nbs on the RBD and demonstrate that biparatopic Nb1-Nb2 has a strong escape-resistant feature against more than 60 tested RBD amino acid substitutions. Using pseudovirion-based and trans-complementation SARS-CoV-2 tools, we determine that the Nb1-Nb2 broadly neutralizes multiple SARS-CoV-2 variants at sub-nanomolar levels, including Alpha (B.1.1.7), Beta (B.1.351), Gamma (P.1), Delta (B.1.617.2), Lambda (C.37), Kappa (B.1.617.1), and Mu (B.1.621). Furthermore, a heavy-chain antibody is constructed by fusing the human IgG1 Fc to Nb1-Nb2 (designated as Nb1-Nb2-Fc) to improve its neutralization potency, yield, stability, and potential half-life extension. For the new Omicron variant (B.1.1.529) that harbors unprecedented multiple RBD mutations, Nb1-Nb2-Fc keeps a firm affinity (KD < 1.0 × 10
-12 M) and strong neutralizing activity (IC50 = 1.46 nM for authentic Omicron virus). Together, we developed a tetravalent biparatopic human heavy-chain antibody with ultrapotent and broad-spectrum SARS-CoV-2 neutralization activity which highlights the potential clinical applications., (© 2022. The Author(s).)- Published
- 2022
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