8CMA image
Deposition Date 2023-02-18
Release Date 2024-02-28
Last Version Date 2024-11-13
Entry Detail
PDB ID:
8CMA
Keywords:
Title:
SARS-CoV-2 Delta-RBD complexed with BA.4/5-35 Fab
Biological Source:
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.29 Å
R-Value Free:
0.26
R-Value Work:
0.23
R-Value Observed:
0.23
Space Group:
C 1 2 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Spike protein S1
Gene (Uniprot):S
Chain IDs:B (auth: E)
Chain Length:202
Number of Molecules:1
Biological Source:Severe acute respiratory syndrome coronavirus 2
Polymer Type:polypeptide(L)
Molecule:BA.4/5-35 heavy chain
Chain IDs:A (auth: H)
Chain Length:223
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:BA.4/5-35 light chain
Chain IDs:C (auth: L)
Chain Length:216
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Emerging variants develop total escape from potent monoclonal antibodies induced by BA.4/5 infection.
Nat Commun 15 3284 3284 (2024)
PMID: 38627386 DOI: 10.1038/s41467-024-47393-3

Abstact

The rapid evolution of SARS-CoV-2 is driven in part by a need to evade the antibody response in the face of high levels of immunity. Here, we isolate spike (S) binding monoclonal antibodies (mAbs) from vaccinees who suffered vaccine break-through infections with Omicron sub lineages BA.4 or BA.5. Twenty eight potent antibodies are isolated and characterised functionally, and in some cases structurally. Since the emergence of BA.4/5, SARS-CoV-2 has continued to accrue mutations in the S protein, to understand this we characterize neutralization of a large panel of variants and demonstrate a steady attrition of neutralization by the panel of BA.4/5 mAbs culminating in total loss of function with recent XBB.1.5.70 variants containing the so-called 'FLip' mutations at positions 455 and 456. Interestingly, activity of some mAbs is regained on the recently reported variant BA.2.86.

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Protein

Chemical

Disease

Primary Citation of related structures
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