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TitleComprehensive structural analysis reveals broad-spectrum neutralizing antibodies against SARS-CoV-2 Omicron variants.
Journal, issue, pagesCell Discov, Vol. 9, Issue 1, Page 37, Year 2023
Publish dateApr 4, 2023
AuthorsXiangyang Chi / Lingyun Xia / Guanying Zhang / Ximin Chi / Bangdong Huang / Yuanyuan Zhang / Zhengshan Chen / Jin Han / Liushu Wu / Zeya Li / Hancong Sun / Ping Huang / Changming Yu / Wei Chen / Qiang Zhou /
PubMed AbstractThe pandemic of COVID-19 caused by SARS-CoV-2 continues to spread around the world. Mutant strains of SARS-CoV-2 are constantly emerging. At present, Omicron variants have become mainstream. In this ...The pandemic of COVID-19 caused by SARS-CoV-2 continues to spread around the world. Mutant strains of SARS-CoV-2 are constantly emerging. At present, Omicron variants have become mainstream. In this work, we carried out a systematic and comprehensive analysis of the reported spike protein antibodies, counting the epitopes and genotypes of these antibodies. We further comprehensively analyzed the impact of Omicron mutations on antibody epitopes and classified these antibodies according to their binding patterns. We found that the epitopes of the H-RBD class antibodies were significantly less affected by Omicron mutations than other classes. Binding and virus neutralization experiments showed that such antibodies could effectively inhibit the immune escape of Omicron. Cryo-EM results showed that this class of antibodies utilized a conserved mechanism to neutralize SARS-CoV-2. Our results greatly help us deeply understand the impact of Omicron mutations. Meanwhile, it also provides guidance and insights for developing Omicron antibodies and vaccines.
External linksCell Discov / PubMed:37015915 / PubMed Central
MethodsEM (single particle)
Resolution3.1 - 4.0 Å
Structure data

34259

8gto

EMDB-34259, PDB-8gto:
cryo-EM structure of Omicron BA.5 S protein in complex with XGv282
Method: EM (single particle) / Resolution: 3.2 Å

EMDB-34260: Cryo-EM map of Omicron BA.5 S protein in complex with XGv282 focused on RBD_XGv282 sub-complex
Method: EM (single particle) / Resolution: 4.0 Å

34261

8gtp

EMDB-34261, PDB-8gtp:
cryo-EM structure of Omicron BA.5 S protein in complex with XGv289
Method: EM (single particle) / Resolution: 3.1 Å

EMDB-34262: Cryo-EM map of Omicron BA.5 S protein in complex with XGv289 focused on RBD_XGv289 sub-complex
Method: EM (single particle) / Resolution: 3.7 Å

34263

8gtq

EMDB-34263, PDB-8gtq:
cryo-EM structure of Omicron BA.5 S protein in complex with S2L20
Method: EM (single particle) / Resolution: 3.1 Å

EMDB-34264: Cryo-EM map of Omicron BA.5 S protein in complex with S2L20 focused on NTD_S2L20 sub-complex
Method: EM (single particle) / Resolution: 3.4 Å

Chemicals

ChemComp-NAG:
2-acetamido-2-deoxy-beta-D-glucopyranose / N-Acetylglucosamine

Source
  • severe acute respiratory syndrome coronavirus 2
  • homo sapiens (human)
KeywordsVIRAL PROTEIN/IMMUNE SYSTEM / SARS-CoV-2 / VIRAL PROTEIN / VIRAL PROTEIN-IMMUNE SYSTEM complex

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