› 5do2

X-ray diffraction
2.41Å resolution

Complex structure of MERS-RBD bound with 4C2 antibody

Released:
DOI: 10.2210/pdb5do2/pdb
PDB entry 5do2 coloured by chain, front view.
PDB entry 5do2 coloured by chain, side view.
PDB entry 5do2 coloured by chain, top view.
Source organisms:
Primary publication:
A humanized neutralizing antibody against MERS-CoV targeting the receptor-binding domain of the spike protein.
Li Y, Wan Y, Liu P, Zhao J, Lu G, Qi J, Wang Q, Lu X, Wu Y, Liu W, Zhang B, Yuen KY, Perlman S, Gao GF, Yan J
Cell Res 25 1237-49 (2015)
PMID: 26391698

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-234971 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Spike glycoprotein Chains: A, B
Molecule details ›
Chains: A, B
Length: 251 amino acids
Theoretical weight: 27.6 KDa
Source organism: Middle East respiratory syndrome-related coronavirus
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: K0BRG7 (Residues: 367-606; Coverage: 18%)
Gene name: S
Sequence domains: Betacoronavirus spike glycoprotein S1, receptor binding
Structure domains:
4C2 heavy chain Chains: C, H
Molecule details ›
Chains: C, H
Length: 219 amino acids
Theoretical weight: 23.48 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
4C2 light chain Chains: D, L
Molecule details ›
Chains: D, L
Length: 214 amino acids
Theoretical weight: 23.71 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: P212121
Unit cell:
a: 74.083Å b: 110.401Å c: 172.981Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.247 0.245 0.289
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'

Quick links

Citations

37 review citations

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

8 mentions without citation

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