› 6t8m

X-ray diffraction
2.02Å resolution

Prolyl Hydroxylase (PHD) involved in hypoxia sensing by Dictyostelium discoideum

Released:
DOI: 10.2210/pdb6t8m/pdb
Model geometry
Fit model/data
PDB entry 6t8m coloured by chain, front view.
PDB entry 6t8m coloured by chain, side view.
PDB entry 6t8m coloured by chain, top view.
Source organism: Dictyostelium discoideum
Primary publication:
Biochemical and biophysical analyses of hypoxia sensing prolyl hydroxylases from Dictyostelium discoideum and Toxoplasma gondii.
Liu T, Abboud MI, Chowdhury R, Tumber A, Hardy AP, Lippl K, Lohans CT, Pires E, Wickens J, McDonough MA, West CM, Schofield CJ
OpenAccess logo J Biol Chem 295 16545-16561 (2020)
PMID: 32934009

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-183130 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Prolyl 4-hydroxylase subunit alpha Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 227 amino acids
Theoretical weight: 26.97 KDa
Source organism: Dictyostelium discoideum
Expression system: Escherichia coli
UniProt:
  • Canonical: Q86KR9 (Residues: 60-284; Coverage: 79%)
Gene names: DDB_G0277759, p4h1, phyA
Sequence domains: 2OG-Fe(II) oxygenase superfamily

Ligands and Environments

4 bound ligands:
Ligand NI 5 x NI
Ligand GOL 3 x GOL
Ligand OGA 3 x OGA
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: C2221
Unit cell:
a: 45.216Å b: 81.781Å c: 379.21Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.229 0.228 0.256
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Regulatory Functions of Hypoxia in Host-Parasite Interactions: A Focus on Enteric, Tissue, and Blood Protozoa.
DeMichele et al. (2023)
1 other article

1 mention without citation

Biochemical and biophysical analyses of hypoxia sensing prolyl hydroxylases from Dictyostelium discoideum and Toxoplasma gondii.
Liu et al. (2020)