7RKV image
Entry Detail
PDB ID:
7RKV
EMDB ID:
Title:
Structure of the SARS-CoV-2 S 6P trimer in complex with neutralizing antibody C118 (State 1)
Biological Source:
PDB Version:
Deposition Date:
2021-07-22
Release Date:
2021-09-22
Method Details:
Experimental Method:
Resolution:
3.45 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Spike glycoprotein
Chain IDs:A, B, C
Chain Length:1271
Number of Molecules:3
Biological Source:Severe acute respiratory syndrome coronavirus 2
Polymer Type:polypeptide(L)
Description:C118 Fab Heavy Chain
Chain IDs:D, F (auth: E), H (auth: G)
Chain Length:239
Number of Molecules:3
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:C118 Fab Light Chain
Chain IDs:E (auth: H), G (auth: F), I (auth: L)
Chain Length:217
Number of Molecules:3
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Broad cross-reactivity across sarbecoviruses exhibited by a subset of COVID-19 donor-derived neutralizing antibodies.
Cell Rep 36 109760 109760 (2021)
PMID: 34534459 DOI: 10.1016/j.celrep.2021.109760

Abstact

Many anti-severe acute respiratory syndrome coronavirus 2 (anti-SARS-CoV-2) neutralizing antibodies target the angiotensin-converting enzyme 2 (ACE2) binding site on viral spike receptor-binding domains (RBDs). Potent antibodies recognize exposed variable epitopes, often rendering them ineffective against other sarbecoviruses and SARS-CoV-2 variants. Class 4 anti-RBD antibodies against a less-exposed, but more-conserved, cryptic epitope could recognize newly emergent zoonotic sarbecoviruses and variants, but they usually show only weak neutralization potencies. Here, we characterize two class 4 anti-RBD antibodies derived from coronavirus disease 2019 (COVID-19) donors that exhibit breadth and potent neutralization of zoonotic coronaviruses and SARS-CoV-2 variants. C118-RBD and C022-RBD structures reveal orientations that extend from the cryptic epitope to occlude ACE2 binding and CDRH3-RBD main-chain H-bond interactions that extend an RBD β sheet, thus reducing sensitivity to RBD side-chain changes. A C118-spike trimer structure reveals rotated RBDs that allow access to the cryptic epitope and the potential for intra-spike crosslinking to increase avidity. These studies facilitate vaccine design and illustrate potential advantages of class 4 RBD-binding antibody therapeutics.

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Primary Citation of related structures