› 6kn9

X-ray diffraction
3.3Å resolution

Crystal structure of human interleukin 18 receptor beta extracellular domain in complex with an antagonistic scFv

Released:
DOI: 10.2210/pdb6kn9/pdb
PDB entry 6kn9 coloured by chain, front view.
PDB entry 6kn9 coloured by chain, side view.
PDB entry 6kn9 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
A Synthetic Human Antibody Antagonizes IL-18Rβ Signaling Through an Allosteric Mechanism.
Liu S, Miersch S, Li P, Bai B, Liu C, Qin W, Su J, Huang H, Pan J, Sidhu SS, Wu D
J Mol Biol 432 1169-1182 (2020)
PMID: 31954129

Function and Biology Details

Reaction catalysed: 
(1a) NAD(+) = cyclic ADP-ribose + nicotinamide
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-522922 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Interleukin-18 receptor accessory protein Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 337 amino acids
Theoretical weight: 38.5 KDa
Source organism: Homo sapiens
Expression system: Insect cell expression vector pTIE1
UniProt:
  • Canonical: O95256 (Residues: 20-356; Coverage: 58%)
Gene names: IL18RAP, IL1R7
Sequence domains: Immunoglobulin domain
scFv Chains: D, E, F
Molecule details ›
Chains: D, E, F
Length: 257 amino acids
Theoretical weight: 27.25 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli K-12

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
1 bound ligand:
Ligand NAG 2 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NFPSS BEAMLINE BL19U1
Spacegroup: P31
Unit cell:
a: 163.16Å b: 163.16Å c: 64.145Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.248 0.247 0.277
Expression systems:
  • Insect cell expression vector pTIE1
  • Escherichia coli K-12

Quick links

Citations

1 review citation

Strategies to therapeutically modulate cytokine action.
Leonard et al. (2023)
4 other articles