› 4g8a

X-ray diffraction
2.4Å resolution

Crystal structure of human TLR4 polymorphic variant D299G and T399I in complex with MD-2 and LPS

Released:
DOI: 10.2210/pdb4g8a/pdb
PDB entry 4g8a coloured by chain, front view.
PDB entry 4g8a coloured by chain, side view.
PDB entry 4g8a coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural analyses of human Toll-like receptor 4 polymorphisms D299G and T399I.
Ohto U, Yamakawa N, Akashi-Takamura S, Miyake K, Shimizu T
J Biol Chem 287 40611-7 (2012)
PMID: 23055527

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-126153 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Toll-like receptor 4 Chains: A, B
Molecule details ›
Chains: A, B
Length: 635 amino acids
Theoretical weight: 72.29 KDa
Source organism: Homo sapiens
Expression system: Drosophila
UniProt:
  • Canonical: O00206 (Residues: 23-629; Coverage: 74%)
Gene name: TLR4
Sequence domains:
Structure domains: Ribonuclease Inhibitor
Lymphocyte antigen 96 Chains: C, D
Molecule details ›
Chains: C, D
Length: 144 amino acids
Theoretical weight: 16.59 KDa
Source organism: Homo sapiens
Expression system: Drosophila
UniProt:
  • Canonical: Q9Y6Y9 (Residues: 17-160; Coverage: 100%)
Gene names: ESOP1, LY96, MD2
Sequence domains: ML domain
Structure domains: Immunoglobulin-like

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
6 bound ligands:
Ligand NAG 4 x NAG
Ligand LP4 2 x LP4
Ligand LP5 2 x LP5
Ligand DAO 2 x DAO
Ligand MYR 2 x MYR
Ligand KDO 2 x KDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL32XU
Spacegroup: C2
Unit cell:
a: 158.038Å b: 124.68Å c: 109.14Å
α: 90° β: 115.72° γ: 90°
R-values:
R R work R free
0.202 0.199 0.249
Expression system: Drosophila

Quick links

Citations

20 review citations

Recognition of lipopolysaccharide pattern by TLR4 complexes.
Park et al. (2013)
19 more

163 mentions without citation

TLR4-Targeting Therapeutics: Structural Basis and Computer-Aided Drug Discovery Approaches.
Ain et al. (2020)
162 more