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TitleStructures of Omicron spike complexes and implications for neutralizing antibody development.
Journal, issue, pagesCell Rep, Vol. 39, Issue 5, Page 110770, Year 2022
Publish dateMay 3, 2022
AuthorsHangtian Guo / Yan Gao / Tinghan Li / Tingting Li / Yuchi Lu / Le Zheng / Yue Liu / Tingting Yang / Feiyang Luo / Shuyi Song / Wei Wang / Xiuna Yang / Henry C Nguyen / Hongkai Zhang / Ailong Huang / Aishun Jin / Haitao Yang / Zihe Rao / Xiaoyun Ji /
PubMed AbstractThe emergence of the SARS-CoV-2 Omicron variant is dominant in many countries worldwide. The high number of spike mutations is responsible for the broad immune evasion from existing vaccines and ...The emergence of the SARS-CoV-2 Omicron variant is dominant in many countries worldwide. The high number of spike mutations is responsible for the broad immune evasion from existing vaccines and antibody drugs. To understand this, we first present the cryo-electron microscopy structure of ACE2-bound SARS-CoV-2 Omicron spike. Comparison to previous spike antibody structures explains how Omicron escapes these therapeutics. Secondly, we report structures of Omicron, Delta, and wild-type spikes bound to a patient-derived Fab antibody fragment (510A5), which provides direct evidence where antibody binding is greatly attenuated by the Omicron mutations, freeing spike to bind ACE2. Together with biochemical binding and 510A5 neutralization assays, our work establishes principles of binding required for neutralization and clearly illustrates how the mutations lead to antibody evasion yet retain strong ACE2 interactions. Structural information on spike with both bound and unbound antibodies collectively elucidates potential strategies for generation of therapeutic antibodies.
External linksCell Rep / PubMed:35477022 / PubMed Central
MethodsEM (single particle)
Resolution2.9 - 3.8 Å
Structure data

EMDB-32739, PDB-7ws0:
Structures of Omicron Spike complexes illuminate broad-spectrum neutralizing antibody development
Method: EM (single particle) / Resolution: 3.2 Å

EMDB-32740, PDB-7ws1:
Structures of Omicron Spike complexes illuminate broad-spectrum neutralizing antibody development
Method: EM (single particle) / Resolution: 3.4 Å

EMDB-32741, PDB-7ws2:
Structures of Omicron Spike complexes illuminate broad-spectrum neutralizing antibody development
Method: EM (single particle) / Resolution: 3.3 Å

EMDB-32742, PDB-7ws3:
Structures of Omicron Spike complexes illuminate broad-spectrum neutralizing antibody development
Method: EM (single particle) / Resolution: 3.6 Å

EMDB-32743, PDB-7ws4:
Ultrapotent SARS-CoV-2 neutralizing antibodies with protective efficacy against newly emerged mutational variants
Method: EM (single particle) / Resolution: 3.7 Å

EMDB-32744, PDB-7ws5:
Structures of Omicron Spike complexes illuminate broad-spectrum neutralizing antibody development
Method: EM (single particle) / Resolution: 3.7 Å

EMDB-32748, PDB-7ws6:
Structures of Omicron Spike complexes illuminate broad-spectrum neutralizing antibody development
Method: EM (single particle) / Resolution: 3.8 Å

EMDB-32749, PDB-7ws7:
Structures of Omicron Spike complexes illuminate broad-spectrum neutralizing antibody development
Method: EM (single particle) / Resolution: 3.4 Å

EMDB-32750, PDB-7ws8:
Structures of Omicron Spike complexes illuminate broad-spectrum neutralizing antibody development
Method: EM (single particle) / Resolution: 3.0 Å

EMDB-32751, PDB-7ws9:
Structures of Omicron Spike complexes illuminate broad-spectrum neutralizing antibody development
Method: EM (single particle) / Resolution: 2.9 Å

EMDB-32752, PDB-7wsa:
Structures of Omicron Spike complexes illuminate broad-spectrum neutralizing antibody development
Method: EM (single particle) / Resolution: 3.0 Å

Chemicals

ChemComp-NAG:
2-acetamido-2-deoxy-beta-D-glucopyranose

Source
  • severe acute respiratory syndrome coronavirus 2
  • homo sapiens (human)
KeywordsVIRAL PROTEIN/IMMUNE SYSTEM / COVID-19 / spike glycoprotein / virus / VIRAL PROTEIN / antibody / VIRAL PROTEIN-IMMUNE SYSTEM complex / VIRAL PROTEIN/HYDROLASE / VIRAL PROTEIN-HYDROLASE complex

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