› 3d0h

X-ray diffraction
3.1Å resolution

Crystal structure of spike protein receptor-binding domain from the 2002-2003 SARS coronavirus civet strain complexed with human-civet chimeric receptor ACE2

Released:
DOI: 10.2210/pdb3d0h/pdb
PDB entry 3d0h coloured by chain, front view.
PDB entry 3d0h coloured by chain, side view.
PDB entry 3d0h coloured by chain, top view.
Source organisms:
Primary publication:
Structural analysis of major species barriers between humans and palm civets for severe acute respiratory syndrome coronavirus infections.
Li F
J Virol 82 6984-91 (2008)
PMID: 18448527

Function and Biology Details

Reaction catalysed: 
Angiotensin II + H(2)O = angiotensin-(1-7) + L-phenylalanine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
hetero tetramer (preferred)
hetero dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-157810 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Processed angiotensin-converting enzyme 2 Chains: A, B
Molecule details ›
Chains: A, B
Length: 597 amino acids
Theoretical weight: 69.08 KDa
Source organisms: Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q9BYF1 (Residues: 19-20, 56-615; Coverage: 71%)
  • Canonical: Q56NL1 (Residues: 21-55; Coverage: 4%)
Gene names: ACE2, UNQ868/PRO1885
Sequence domains: Angiotensin-converting enzyme
Spike protein S1 Chains: E, F
Molecule details ›
Chains: E, F
Length: 179 amino acids
Theoretical weight: 20.42 KDa
UniProt:
  • Canonical: P59594 (Residues: 324-502; Coverage: 14%)
Gene names: 2, S
Sequence domains: Betacoronavirus spike glycoprotein S1, receptor binding
Structure domains: Alpha-Beta Plaits

Ligands and Environments

4 bound ligands:
Ligand NDG 5 x NDG
Ligand ZN 2 x ZN
Ligand CL 2 x CL
Ligand NAG 1 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-BM
Spacegroup: P21
Unit cell:
a: 80.352Å b: 119.841Å c: 109.42Å
α: 90° β: 95.89° γ: 90°
R-values:
R R work R free
0.225 0.221 0.302
Expression system: Spodoptera frugiperda

Quick links

Citations

37 review citations

Origin and evolution of pathogenic coronaviruses.
Cui et al. (2019)
36 more

12 mentions without citation

The COVID-19 Vaccine Race: Challenges and Opportunities in Vaccine Formulation.
Wang et al. (2020)
11 more