› 8ysh

X-ray diffraction
1.99Å resolution

MERS-CoV RBD in complex with nanobody Nb14

Released:
DOI: 10.2210/pdb8ysh/pdb
PDB entry 8ysh coloured by chain, front view.
PDB entry 8ysh coloured by chain, side view.
PDB entry 8ysh coloured by chain, top view.
Source organisms:
Primary publication:
Structure defining of ultrapotent neutralizing nanobodies against MERS-CoV with novel epitopes on receptor binding domain.
Ma S, Zhang D, Wang Q, Zhu L, Wu X, Ye S, Wang Y
PLoS Pathog 20 e1012438 (2024)
PMID: 39141662

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-275553 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Spike glycoprotein Chain: B
Molecule details ›
Chain: B
Length: 209 amino acids
Theoretical weight: 23.06 KDa
Source organism: Middle East respiratory syndrome-related coronavirus
Expression system: Insecta environmental sample
UniProt:
  • Canonical: R9UQ53 (Residues: 381-589; Coverage: 15%)
Gene name: S
Sequence domains: Betacoronavirus spike glycoprotein S1, receptor binding
Nb14 Chain: A
Molecule details ›
Chain: A
Length: 116 amino acids
Theoretical weight: 12.48 KDa
Source organism: Vicugna pacos
Expression system: Escherichia

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
1 bound ligand:
Ligand NAG 1 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL02U1
Spacegroup: P41212
Unit cell:
a: 58.488Å b: 58.488Å c: 351.625Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.229 0.229 0.239
Expression systems:
  • Insecta environmental sample
  • Escherichia

Quick links