7WI0 image
Deposition Date 2022-01-01
Release Date 2022-06-22
Last Version Date 2024-10-23
Entry Detail
PDB ID:
7WI0
Keywords:
Title:
SARS-CoV-2 Omicron variant spike in complex with three human neutralizing antibodies
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.82 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Spike protein S1
Gene (Uniprot):S
Chain IDs:A
Chain Length:195
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:XMA04 heavy chain variable domain
Chain IDs:B
Chain Length:124
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:XMA01 heavy chain variable domain
Chain IDs:C
Chain Length:122
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:IGL c4029_light_IGKV1-39_IGKJ2
Chain IDs:D
Chain Length:107
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:IG c934_light_IGKV1-5_IGKJ1
Chain IDs:E
Chain Length:107
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:XMA09 heavy chain variable domain
Chain IDs:F (auth: H)
Chain Length:123
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:IG c1437_light_IGLV1-40_IGLJ1
Chain IDs:G (auth: L)
Chain Length:110
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Three SARS-CoV-2 antibodies provide broad and synergistic neutralization against variants of concern, including Omicron.
Cell Rep 39 110862 110862 (2022)
PMID: 35594869 DOI: 10.1016/j.celrep.2022.110862

Abstact

The rapidly spreading Omicron variant is highly resistant to vaccines, convalescent sera, and neutralizing antibodies (nAbs), highlighting the urgent need for potent therapeutic nAbs. Here, a panel of human nAbs from severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) convalescent patients show diverse neutralization against Omicron, of which XMA01 and XMA04 maintain nanomolar affinities and excellent neutralization (half maximal inhibitory concentration [IC50]: ∼20 ng/mL). nAb XMA09 shows weak but unattenuated neutralization against all variants of concern (VOCs) as well as SARS-CoV. Structural analysis reveals that the above three antibodies could synergistically bind to the receptor-binding domains (RBDs) of both wild-type and Omicron spikes and defines the critical determinants for nAb-mediated broad neutralizations. Three nAbs confer synergistic neutralization against Omicron, resulting from the inter-antibody interaction between XMA04 and XMA01(or XMA09). Furthermore, the XMA01/XMA04 cocktail provides synergistic protection against Beta and Omicron variant infections in hamsters. In summary, our results provide insights for the rational design of antibody cocktail therapeutics or universal vaccines against Omicron.

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Protein

Chemical

Disease

Primary Citation of related structures
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