7km5

X-ray diffraction
3.19Å resolution

Crystal structure of SARS-CoV-2 RBD complexed with Nanosota-1

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
PDBe Complex ID:
PDB-CPX-209800 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Spike protein S1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 225 amino acids
Theoretical weight: 25.52 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P0DTC2 (Residues: 319-535; Coverage: 17%)
Gene names: 2, S
Sequence domains: Betacoronavirus spike glycoprotein S1, receptor binding
nanobody Chains: C, D
Molecule details ›
Chains: C, D
Length: 124 amino acids
Theoretical weight: 13.58 KDa
Source organism: Lama glama
Expression system: Escherichia coli

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
1 bound ligand:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P43212
Unit cell:
a: 60.849Å b: 60.849Å c: 410.701Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.249 0.247 0.294
Expression systems:
  • Spodoptera frugiperda
  • Escherichia coli