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Crystal structure of the SARS-CoV-2 RBD with the antibody Cv2.3194

X-ray diffraction
1.87Å resolution
PDB entry 8qh0 coloured by chain, front view.
PDB entry 8qh0 coloured by chain, side view.
PDB entry 8qh0 coloured by chain, top view.
Source organisms:
Assembly composition:
hetero trimer (preferred)
Entry contents: 3 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero trimer
Accessible surface area: 27692.79 Å2
Buried surface area: 6164.5 Å2
Dissociation area: 1,034.86 Å2
Dissociation energy (ΔGdiss): 0.62 kcal/mol
Dissociation entropy (TΔSdiss): 12.94 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-246033

Macromolecules

Spike protein S1
Chain: A
Length: 206 amino acids
Theoretical weight: 23.07 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Drosophila melanogaster
UniProt:
  • Canonical: P0DTC2 (Residues: 331-528; Coverage: 16%)
Gene names: 2, S
Pfam: Betacoronavirus spike glycoprotein S1, receptor binding
Spike protein S1 in PDB entry 8qh0, assembly 1, front view.
Spike protein S1 in PDB entry 8qh0, assembly 1, side view.
Spike protein S1 in PDB entry 8qh0, assembly 1, top view.
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Cv2.3194 Heavy chain
Chain: H
Length: 229 amino acids
Theoretical weight: 24.38 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Cv2.3194 Heavy chain in PDB entry 8qh0, assembly 1, front view.
Cv2.3194 Heavy chain in PDB entry 8qh0, assembly 1, side view.
Cv2.3194 Heavy chain in PDB entry 8qh0, assembly 1, top view.
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Ig-like domain-containing protein
Chain: L
Length: 211 amino acids
Theoretical weight: 22.82 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q6PJF2 (Residues: 21-234; Coverage: 98%)
Gene name: IGK@
Pfam:
Ig-like domain-containing protein in PDB entry 8qh0, assembly 1, front view.
Ig-like domain-containing protein in PDB entry 8qh0, assembly 1, side view.
Ig-like domain-containing protein in PDB entry 8qh0, assembly 1, top view.
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