› 6d27

X-ray diffraction
2.74Å resolution

Crystal structure of the prostaglandin D2 receptor CRTH2 with CAY10471

Released:
DOI: 10.2210/pdb6d27/pdb
PDB entry 6d27 coloured by chain, front view.
PDB entry 6d27 coloured by chain, side view.
PDB entry 6d27 coloured by chain, top view.
Source organisms:
Primary publication:
Structures of the Human PGD2 Receptor CRTH2 Reveal Novel Mechanisms for Ligand Recognition.
Wang L, Yao D, Deepak RNVK, Liu H, Xiao Q, Fan H, Gong W, Wei Z, Zhang C
Mol Cell 72 48-59.e4 (2018)
PMID: 30220562

Function and Biology Details

Reaction catalysed: 
Hydrolysis of (1->4)-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues in a peptidoglycan and between N-acetyl-D-glucosamine residues in chitodextrins
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-133018 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Endolysin; Prostaglandin D2 receptor 2 Chain: A
Molecule details ›
Chain: A
Length: 470 amino acids
Theoretical weight: 52.23 KDa
Source organisms: Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q9Y5Y4 (Residues: 1-236, 237-237, 238-339; Coverage: 86%)
  • Canonical: P00720 (Residues: 61-161; Coverage: 62%)
Gene names: CRTH2, DL1R, E, GPR44, PTGDR2
Sequence domains:

Ligands and Environments

7 bound ligands:
Ligand SO4 7 x SO4
Ligand FT4 1 x FT4
Ligand MES 1 x MES
Ligand OLA 2 x OLA
Ligand PGE 2 x PGE
Ligand PGO 4 x PGO
Ligand PEG 1 x PEG
1 modified residue:
Ligand YCM 1 x YCM

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-B
Spacegroup: P212121
Unit cell:
a: 52.175Å b: 62.636Å c: 272.215Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.244 0.242 0.28
Expression system: Spodoptera frugiperda

Quick links

Citations

6 review citations

Roles of polyunsaturated fatty acids, from mediators to membranes.
Harayama et al. (2020)
5 more

11 mentions without citation

G protein-coupled receptors: structure- and function-based drug discovery.
Yang et al. (2021)
10 more