› 6yz7

X-ray diffraction
3.3Å resolution

H11-D4, SARS-CoV-2 RBD, CR3022 ternary complex

Released:
DOI: 10.2210/pdb6yz7/pdb
PDB entry 6yz7 coloured by chain, front view.
PDB entry 6yz7 coloured by chain, side view.
PDB entry 6yz7 coloured by chain, top view.
Source organisms:
Entry authors: Naismith JH, Ren J, Zhou D, Zhao Y, Stuart DI

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-209682 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Spike protein S1 Chains: AAA, EEE
Molecule details ›
Chains: AAA, EEE
Length: 210 amino acids
Theoretical weight: 23.72 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Homo sapiens
UniProt:
  • Canonical: P0DTC2 (Residues: 330-532; Coverage: 16%)
Gene names: 2, S
Sequence domains: Betacoronavirus spike glycoprotein S1, receptor binding
Antibody Cr3022 Chains: BBB, HHH
Molecule details ›
Chains: BBB, HHH
Length: 229 amino acids
Theoretical weight: 24.46 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Antibody light chain Chains: CCC, LLL
Molecule details ›
Chains: CCC, LLL
Length: 220 amino acids
Theoretical weight: 24.29 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Nanobody Chains: DDD, FFF
Molecule details ›
Chains: DDD, FFF
Length: 134 amino acids
Theoretical weight: 15.01 KDa
Source organism: Lama glama
Expression system: Escherichia coli

Ligands and Environments

1 bound ligand:
Ligand NAG 2 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P4122
Unit cell:
a: 154.598Å b: 154.598Å c: 229.312Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.239 0.238 0.269
Expression systems:
  • Homo sapiens
  • Escherichia coli

Quick links