› 3wpd

X-ray diffraction
2.75Å resolution

Crystal structure of horse TLR9 in complex with inhibitory DNA4084

Released:
DOI: 10.2210/pdb3wpd/pdb
PDB entry 3wpd coloured by chain, front view.
PDB entry 3wpd coloured by chain, side view.
PDB entry 3wpd 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:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-117081 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (3 distinct):
Toll-like receptor 9 Chain: A
Molecule details ›
Chain: A
Length: 802 amino acids
Theoretical weight: 89.43 KDa
Source organism: Equus caballus
Expression system: Drosophila melanogaster
UniProt:
  • Canonical: Q2EEY0 (Residues: 26-817; Coverage: 79%)
Gene name: TLR9
Sequence domains:
Structure domains: Ribonuclease Inhibitor
DNA (5'-D(*CP*CP*TP*GP*GP*AP*TP*GP*GP*G)-3') Chain: C
Molecule details ›
Chain: C
Length: 10 nucleotides
Theoretical weight: 3.1 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
2 bound ligands:
Ligand SO4 3 x SO4
Ligand NAG 2 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NE3A
Spacegroup: C2
Unit cell:
a: 117.55Å b: 117.08Å c: 69.57Å
α: 90° β: 105.46° γ: 90°
R-values:
R R work R free
0.204 0.201 0.258
Expression systems:
  • Drosophila melanogaster
  • Not provided

Quick links

Citations

64 review citations

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

8 mentions without citation

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