› 4zpt

X-ray diffraction
2.59Å resolution

Structure of MERS-Coronavirus Spike Receptor-binding Domain (England1 Strain) in Complex with Vaccine-Elicited Murine Neutralizing Antibody D12 (Crystal Form 1)

Released:
DOI: 10.2210/pdb4zpt/pdb
PDB entry 4zpt coloured by chain, front view.
PDB entry 4zpt coloured by chain, side view.
PDB entry 4zpt coloured by chain, top view.
Source organisms:
Primary publication:
Evaluation of candidate vaccine approaches for MERS-CoV.
Wang L, Shi W, Joyce MG, Modjarrad K, Zhang Y, Leung K, Lees CR, Zhou T, Yassine HM, Kanekiyo M, Yang ZY, Chen X, Becker MM, Freeman M, Vogel L, Johnson JC, Olinger G, Todd JP, Bagci U, Solomon J, Mollura DJ, Hensley L, Jahrling P, Denison MR, Rao SS, Subbarao K, Kwong PD, Mascola JR, Kong WP, Graham BS
Nat Commun 6 7712 (2015)
PMID: 26218507

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-207948 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
D12 Fab Heavy chain Chains: A, H
Molecule details ›
Chains: A, H
Length: 216 amino acids
Theoretical weight: 23.12 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
D12 Fab Light chain Chains: B, L
Molecule details ›
Chains: B, L
Length: 214 amino acids
Theoretical weight: 23.74 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
Spike protein S1 Chains: R, S
Molecule details ›
Chains: R, S
Length: 208 amino acids
Theoretical weight: 22.96 KDa
Source organism: Betacoronavirus England 1
Expression system: Homo sapiens
UniProt:
  • Canonical: K9N5Q8 (Residues: 381-588; Coverage: 16%)
Gene names: 3, S
Sequence domains: Betacoronavirus spike glycoprotein S1, receptor binding
Structure domains:

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P212121
Unit cell:
a: 74.452Å b: 128.79Å c: 170.871Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.206 0.204 0.244
Expression system: Homo sapiens

Quick links

Citations

85 review citations

SARS and MERS: recent insights into emerging coronaviruses.
de Wit et al. (2016)
84 more

6 mentions without citation

MERS-CoV spike protein: a key target for antivirals.
Du et al. (2017)
5 more