› 7wp5

Electron Microscopy
3.9Å resolution

Cryo-EM structure of SARS-CoV-2 Omicron S6P trimer in complex with neutralizing antibody VacW-209 (local refinement)

Released:
DOI: 10.2210/pdb7wp5/pdb
PDB entry 7wp5 coloured by chain, front view.
PDB entry 7wp5 coloured by chain, side view.
PDB entry 7wp5 coloured by chain, top view.
Source organisms:
Primary publication:
Immune escape by SARS-CoV-2 Omicron variant and structural basis of its effective neutralization by a broad neutralizing human antibody VacW-209.
Ju B, Zheng Q, Guo H, Fan Q, Li T, Song S, Sun H, Shen S, Zhou X, Xue W, Cui L, Zhou B, Li S, Xia N, Zhang Z
OpenAccess logo Cell Res 32 491-494 (2022)
PMID: 35260792
Related structures: EMD-32669

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-279034 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (4 distinct):
Ig-like domain-containing protein Chain: L
Molecule details ›
Chain: L
Length: 111 amino acids
Theoretical weight: 11.51 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: A0A5C2GQT9 (Residues: 1-111; Coverage: 100%)
Sequence domains: Immunoglobulin V-set domain
VacW-209 heavy chain Chain: H
Molecule details ›
Chain: H
Length: 131 amino acids
Theoretical weight: 14.46 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Spike protein S1 Chain: F

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
No bound ligands
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this EM entry.
Resolution: 3.9Å
Relevant EMDB volumes: EMD-32669
Expression system: Homo sapiens

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Citations

2 review citations

Emerging SARS-CoV-2 variants: Why, how, and what's next?
Chen et al. (2022)
1 more