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H6 and F2 nanobodies bound to SARS-CoV-2 spike RBD

X-ray diffraction
1.73Å resolution
PDB entry 8owv coloured by chain, front view.
PDB entry 8owv coloured by chain, side view.
PDB entry 8owv 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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Assembly Name: Spike protein S2' and IG-heavy chain and IG-heavy chain
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Multimeric state: hetero trimer
Accessible surface area: 21184.41 Å2
Buried surface area: 3719.13 Å2
Dissociation area: 1,429.29 Å2
Dissociation energy (ΔGdiss): -9.76 kcal/mol
Dissociation entropy (TΔSdiss): 23.52 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-276097

Macromolecules

Spike protein S1
Chain: EEE
Length: 209 amino acids
Theoretical weight: 23.64 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Homo sapiens
UniProt:
  • Canonical: P0DTC2 (Residues: 331-532; Coverage: 16%)
Gene names: 2, S
Pfam: Betacoronavirus spike glycoprotein S1, receptor binding
Spike protein S1 in PDB entry 8owv, assembly 1, front view.
Spike protein S1 in PDB entry 8owv, assembly 1, side view.
Spike protein S1 in PDB entry 8owv, assembly 1, top view.
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F2
Chain: BBB
Length: 132 amino acids
Theoretical weight: 14.96 KDa
Source organism: Lama glama
Expression system: Escherichia coli
F2 in PDB entry 8owv, assembly 1, front view.
F2 in PDB entry 8owv, assembly 1, side view.
F2 in PDB entry 8owv, assembly 1, top view.
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H6
Chain: FFF
Length: 133 amino acids
Theoretical weight: 14.59 KDa
Source organism: Lama glama
Expression system: Escherichia coli
H6 in PDB entry 8owv, assembly 1, front view.
H6 in PDB entry 8owv, assembly 1, side view.
H6 in PDB entry 8owv, assembly 1, top view.
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