› 3wph

X-ray diffraction
2.33Å resolution

Crystal structure of mouse TLR9 in complex with inhibitory DNA4084 (form 2)

Released:
DOI: 10.2210/pdb3wph/pdb
PDB entry 3wph coloured by chain, front view.
PDB entry 3wph coloured by chain, side view.
PDB entry 3wph coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis of CpG and inhibitory DNA recognition by Toll-like receptor 9.
Ohto U, Shibata T, Tanji H, Ishida H, Krayukhina E, Uchiyama S, Miyake K, Shimizu T
Nature 520 702-5 (2015)
PMID: 25686612

Function and Biology Details

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-117084 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
Toll-like receptor 9 Chain: A
Molecule details ›
Chain: A
Length: 803 amino acids
Theoretical weight: 90.17 KDa
Source organism: Mus musculus
Expression system: Drosophila melanogaster
UniProt:
  • Canonical: Q9EQU3 (Residues: 26-818; Coverage: 79%)
Gene name: Tlr9
Sequence domains:
Structure domains: Ribonuclease Inhibitor
DNA (5'-D(*CP*CP*TP*GP*GP*AP*TP*GP*GP*GP*AP*A)-3') Chain: B
Molecule details ›
Chain: B
Length: 12 nucleotides
Theoretical weight: 3.73 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand NAG 2 x NAG
Ligand SO4 3 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NE3A
Spacegroup: C2
Unit cell:
a: 136.41Å b: 130.1Å c: 71.33Å
α: 90° β: 91.54° γ: 90°
R-values:
R R work R free
0.215 0.213 0.247
Expression systems:
  • Drosophila melanogaster
  • Not provided

Quick links

Citations

65 review citations

Toll-like Receptors and the Control of Immunity.
Fitzgerald et al. (2020)
64 more

3 mentions without citation

Structural and functional understanding of the toll-like receptors.
Asami et al. (2021)
2 more