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Structural basis of a public antibody response to SARS-CoV-2

View ORCID ProfileMeng Yuan, Hejun Liu, View ORCID ProfileNicholas C. Wu, View ORCID ProfileChang-Chun D. Lee, View ORCID ProfileXueyong Zhu, View ORCID ProfileFangzhu Zhao, View ORCID ProfileDeli Huang, Wenli Yu, Yuanzi Hua, Henry Tien, Thomas F. Rogers, Elise Landais, Devin Sok, Joseph G. Jardine, Dennis R. Burton, Ian A. Wilson
doi: https://doi.org/10.1101/2020.06.08.141267
Meng Yuan
1Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA
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  • ORCID record for Meng Yuan
Hejun Liu
1Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA
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Nicholas C. Wu
1Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA
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Chang-Chun D. Lee
1Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA
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Xueyong Zhu
1Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA
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Fangzhu Zhao
2Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA 92037, USA
3IAVI Neutralizing Antibody Center, The Scripps Research Institute, La Jolla, CA 92037, USA
4Consortium for HIV/AIDS Vaccine Development (CHAVD), The Scripps Research Institute, La Jolla, CA 92037, USA
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Deli Huang
2Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA 92037, USA
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  • ORCID record for Deli Huang
Wenli Yu
1Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA
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Yuanzi Hua
1Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA
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Henry Tien
1Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA
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Thomas F. Rogers
2Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA 92037, USA
5Division of Infectious Diseases, Department of Medicine, University of California, San Diego, La Jolla, CA 92037, USA
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Elise Landais
2Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA 92037, USA
3IAVI Neutralizing Antibody Center, The Scripps Research Institute, La Jolla, CA 92037, USA
6IAVI, New York, NY10004, USA
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Devin Sok
3IAVI Neutralizing Antibody Center, The Scripps Research Institute, La Jolla, CA 92037, USA
4Consortium for HIV/AIDS Vaccine Development (CHAVD), The Scripps Research Institute, La Jolla, CA 92037, USA
6IAVI, New York, NY10004, USA
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Joseph G. Jardine
3IAVI Neutralizing Antibody Center, The Scripps Research Institute, La Jolla, CA 92037, USA
6IAVI, New York, NY10004, USA
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Dennis R. Burton
2Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA 92037, USA
3IAVI Neutralizing Antibody Center, The Scripps Research Institute, La Jolla, CA 92037, USA
4Consortium for HIV/AIDS Vaccine Development (CHAVD), The Scripps Research Institute, La Jolla, CA 92037, USA
7Ragon Institute of Massachusetts General Hospital, Massachusetts Institute of Technology, and Harvard University, Cambridge, MA 02139, USA
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Ian A. Wilson
1Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA
3IAVI Neutralizing Antibody Center, The Scripps Research Institute, La Jolla, CA 92037, USA
4Consortium for HIV/AIDS Vaccine Development (CHAVD), The Scripps Research Institute, La Jolla, CA 92037, USA
8The Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA, 92037, USA
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  • For correspondence: wilson@scripps.edu
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ABSTRACT

Molecular-level understanding of human neutralizing antibody responses to SARS-CoV-2 could accelerate vaccine design and facilitate drug discovery. We analyzed 294 SARS-CoV-2 antibodies and found that IGHV3-53 is the most frequently used IGHV gene for targeting the receptor binding domain (RBD) of the spike (S) protein. We determined crystal structures of two IGHV3-53 neutralizing antibodies +/- Fab CR3022 ranging from 2.33 to 3.11 Å resolution. The germline-encoded residues of IGHV3-53 dominate binding to the ACE2 binding site epitope with no overlap with the CR3022 epitope. Moreover, IGHV3-53 is used in combination with a very short CDR H3 and different light chains. Overall, IGHV3-53 represents a versatile public VH in neutralizing SARS-CoV-2 antibodies, where their specific germline features and minimal affinity maturation provide important insights for vaccine design and assessing outcomes.

Competing Interest Statement

The authors have declared no competing interest.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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Posted June 09, 2020.
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Structural basis of a public antibody response to SARS-CoV-2
Meng Yuan, Hejun Liu, Nicholas C. Wu, Chang-Chun D. Lee, Xueyong Zhu, Fangzhu Zhao, Deli Huang, Wenli Yu, Yuanzi Hua, Henry Tien, Thomas F. Rogers, Elise Landais, Devin Sok, Joseph G. Jardine, Dennis R. Burton, Ian A. Wilson
bioRxiv 2020.06.08.141267; doi: https://doi.org/10.1101/2020.06.08.141267
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Structural basis of a public antibody response to SARS-CoV-2
Meng Yuan, Hejun Liu, Nicholas C. Wu, Chang-Chun D. Lee, Xueyong Zhu, Fangzhu Zhao, Deli Huang, Wenli Yu, Yuanzi Hua, Henry Tien, Thomas F. Rogers, Elise Landais, Devin Sok, Joseph G. Jardine, Dennis R. Burton, Ian A. Wilson
bioRxiv 2020.06.08.141267; doi: https://doi.org/10.1101/2020.06.08.141267

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