› 2rdn

X-ray diffraction
1.35Å resolution

Crystal Structure of PtlH with AKG and ent-1PL bound

Released:
DOI: 10.2210/pdb2rdn/pdb
PDB entry 2rdn coloured by chain, front view.
PDB entry 2rdn coloured by chain, side view.
PDB entry 2rdn coloured by chain, top view.
Source organism: Streptomyces avermitilis
Primary publication:
Crystal structure of the non-heme iron dioxygenase PtlH in pentalenolactone biosynthesis.
You Z, Omura S, Ikeda H, Cane DE, Jogl G
J Biol Chem 282 36552-60 (2007)
PMID: 17942405

Function and Biology Details

Reaction catalysed: 
1-deoxypentalenate + 2-oxoglutarate + O(2) = 1-deoxy-11-beta-hydroxypentalenate + succinate + CO(2)
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-182663 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
1-deoxypentalenic acid 11-beta-hydroxylase Chain: A
Molecule details ›
Chain: A
Length: 288 amino acids
Theoretical weight: 32.59 KDa
Source organism: Streptomyces avermitilis
Expression system: Escherichia coli
UniProt:
  • Canonical: Q82IZ1 (Residues: 1-285; Coverage: 100%)
Gene names: SAV_2991, ptlH
Sequence domains: Phytanoyl-CoA dioxygenase (PhyH)
Structure domains: q2cbj1_9rhob like domain

Ligands and Environments

4 bound ligands:
Ligand FE 1 x FE
Ligand MG 2 x MG
Ligand AKG 1 x AKG
Ligand 1PL 1 x 1PL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X4A
Spacegroup: P21
Unit cell:
a: 43.499Å b: 70.106Å c: 48.725Å
α: 90° β: 92.49° γ: 90°
R-values:
R R work R free
0.173 0.172 0.196
Expression system: Escherichia coli

Quick links

Citations

7 review citations

Genome mining of the Streptomyces avermitilis genome and development of genome-minimized hosts for heterologous expression of biosynthetic gene clusters.
Ikeda et al. (2014)
6 more

3 mentions without citation

Synthesis of 5-hydroxyectoine from ectoine: crystal structure of the non-heme iron(II) and 2-oxoglutarate-dependent dioxygenase EctD.
Reuter et al. (2010)
2 more