8QRF image
Deposition Date 2023-10-06
Release Date 2024-05-08
Last Version Date 2024-10-09
Entry Detail
PDB ID:
8QRF
Keywords:
Title:
SARS-CoV-2 delta RBD complexed with XBB-6 and beta-49 Fabs
Biological Source:
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.70 Å
R-Value Free:
0.31
R-Value Work:
0.27
R-Value Observed:
0.27
Space Group:
P 21 21 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Beta-49 heavy chain
Chain IDs:C (auth: A)
Chain Length:223
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Beta-49 light chain
Chain IDs:B
Chain Length:216
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Spike protein S1
Gene (Uniprot):S
Chain IDs:A (auth: E)
Chain Length:202
Number of Molecules:1
Biological Source:Severe acute respiratory syndrome coronavirus 2
Polymer Type:polypeptide(L)
Molecule:XBB-6 heavy chain
Chain IDs:D (auth: H)
Chain Length:230
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:XBB-6 light chain
Chain IDs:E (auth: L)
Chain Length:216
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation

Abstact

BA.2.86, a recently described sublineage of SARS-CoV-2 Omicron, contains many mutations in the spike gene. It appears to have originated from BA.2 and is distinct from the XBB variants responsible for many infections in 2023. The global spread and plethora of mutations in BA.2.86 has caused concern that it may possess greater immune-evasive potential, leading to a new wave of infection. Here, we examine the ability of BA.2.86 to evade the antibody response to infection using a panel of vaccinated or naturally infected sera and find that it shows marginally less immune evasion than XBB.1.5. We locate BA.2.86 in the antigenic landscape of recent variants and look at its ability to escape panels of potent monoclonal antibodies generated against contemporary SARS-CoV-2 infections. We demonstrate, and provide a structural explanation for, increased affinity of BA.2.86 to ACE2, which may increase transmissibility.

Legend

Protein

Chemical

Disease

Primary Citation of related structures