8IV4 image
Entry Detail
PDB ID:
8IV4
EMDB ID:
Title:
Cryo-EM structure of SARS-CoV-2 spike protein in complex with double nAbs 8H12 and 3E2 (local refinement)
Biological Source:
PDB Version:
Deposition Date:
2023-03-26
Release Date:
2023-08-16
Method Details:
Experimental Method:
Resolution:
3.59 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:heavy chain of 8H12
Chain IDs:D (auth: A)
Chain Length:119
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Description:light chain of 8H12
Chain IDs:C (auth: B)
Chain Length:107
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Description:Spike protein S1
Chain IDs:E (auth: G)
Chain Length:204
Number of Molecules:1
Biological Source:Severe acute respiratory syndrome coronavirus 2
Polymer Type:polypeptide(L)
Description:heavy chain of 3E2
Chain IDs:B (auth: H)
Chain Length:121
Number of Molecules:1
Biological Source:Mus musculus
Polymer Type:polypeptide(L)
Description:light chain of 3E2
Chain IDs:A (auth: L)
Chain Length:104
Number of Molecules:1
Biological Source:Mus musculus
Ligand Molecules
Primary Citation
Two antibodies show broad, synergistic neutralization against SARS-CoV-2 variants by inducing conformational change within the RBD.
Protein Cell 15 121 134 (2024)
PMID: 37470320 DOI: 10.1093/procel/pwad040

Abstact

Continual evolution of the severe acute respiratory syndrome coronavirus (SARS-CoV-2) virus has allowed for its gradual evasion of neutralizing antibodies (nAbs) produced in response to natural infection or vaccination. The rapid nature of these changes has incited a need for the development of superior broad nAbs (bnAbs) and/or the rational design of an antibody cocktail that can protect against the mutated virus strain. Here, we report two angiotensin-converting enzyme 2 competing nAbs-8H12 and 3E2-with synergistic neutralization but evaded by some Omicron subvariants. Cryo-electron microscopy reveals the two nAbs synergistic neutralizing virus through a rigorous pairing permitted by rearrangement of the 472-489 loop in the receptor-binding domain to avoid steric clashing. Bispecific antibodies based on these two nAbs tremendously extend the neutralizing breadth and restore neutralization against recent variants including currently dominant XBB.1.5. Together, these findings expand our understanding of the potential strategies for the neutralization of SARS-CoV-2 variants toward the design of broad-acting antibody therapeutics and vaccines.

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Primary Citation of related structures