› 7v4m

X-ray diffraction
1.9Å resolution

Unique non-heme hydroxylase in biosynthesis of nucleoside antibiotic pathway uncover mechanism of reaction

Released:
DOI: 10.2210/pdb7v4m/pdb
PDB entry 7v4m coloured by chain, front view.
PDB entry 7v4m coloured by chain, side view.
PDB entry 7v4m coloured by chain, top view.
Source organism: Streptomyces sp. MK730-62F2
Primary publication:
beta-Hydroxylation of alpha-amino-beta-hydroxylbutanoyl-glycyluridine catalyzed by a nonheme hydroxylase ensures the maturation of caprazamycin
Zadeh SM, Chen MH, Wang ZC, Astani EK, Lo IW, Lin KH, Hsu NS, Adhikari K, Lyu SY, Tsai HY, Terasawa Y, Yabe M, Yamamoto K, Ichikawa S, Li TL
Commun Chem 5 87- (2022)

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-111359 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Aspartyl/asparaginy/proline hydroxylase domain-containing protein Chain: B
Molecule details ›
Chain: B
Length: 182 amino acids
Theoretical weight: 21.09 KDa
Source organism: Streptomyces sp. MK730-62F2
Expression system: Escherichia coli-Pichia pastoris shuttle vector pPpGUT1
UniProt:
  • Canonical: C4NCJ7 (Residues: 1-182; Coverage: 100%)
Gene name: cpz10

Ligands and Environments

4 bound ligands:
Ligand AKG 1 x AKG
Ligand K 1 x K
Ligand FE 2 x FE
Ligand PO4 1 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSRRC BEAMLINE BL15A1
Spacegroup: C2221
Unit cell:
a: 75.184Å b: 77.568Å c: 68.118Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.191 0.186 0.233
Expression system: Escherichia coli-Pichia pastoris shuttle vector pPpGUT1

Quick links

Citations

1 citations in other articles

Carbon-nitrogen bond formation to construct novel polyketide-indole hybrids from the indole-3-carbinol exposed culture of Daldinia eschscholzii.
Lin et al. (2022)