› 8qh1

X-ray diffraction
2.65Å resolution

Crystal structure of the SARS-CoV-2 RBD from the Omicron BA4 variant with the antibody Cv2.3194

Released:
DOI: 10.2210/pdb8qh1/pdb
PDB entry 8qh1 coloured by chain, front view.
PDB entry 8qh1 coloured by chain, side view.
PDB entry 8qh1 coloured by chain, top view.
Source organisms:
Entry authors: Fernandez I, Rey FA

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-245968 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Spike glycoprotein Chain: E
Molecule details ›
Chain: E
Length: 243 amino acids
Theoretical weight: 27.51 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Homo sapiens
UniProt:
  • Canonical: A0A8A5XRG7 (Residues: 328-527; Coverage: 16%)
Gene name: S
Sequence domains: Betacoronavirus spike glycoprotein S1, receptor binding
Cv2.3194 heavy chain Chain: H
Molecule details ›
Chain: H
Length: 229 amino acids
Theoretical weight: 24.38 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Ig-like domain-containing protein Chain: L
Molecule details ›
Chain: L
Length: 211 amino acids
Theoretical weight: 22.81 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q6PJF2 (Residues: 21-235; Coverage: 98%)
Gene name: IGK@
Sequence domains:

Ligands and Environments

1 bound ligand:
Ligand NAG 1 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Unit cell:
a: 57.793Å b: 85.348Å c: 193.987Å
α: 90° β: 97.48° γ: 90°
R-values:
R R work R free
0.199 0.198 0.232
Expression system: Homo sapiens

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