› 6e13

X-ray diffraction
2.35Å resolution

Pseudomonas putida PqqB with a non-physiological zinc at the active site binds the substrate mimic, 5-cysteinyl-3,4-dihydroxyphenylalanine (5-Cys-DOPA), non-specifically but supports the proposed function of the enzyme in pyrroloquinoline quinone biosynthesis.

Released:
DOI: 10.2210/pdb6e13/pdb
PDB entry 6e13 coloured by chain, front view.
PDB entry 6e13 coloured by chain, side view.
PDB entry 6e13 coloured by chain, top view.
Source organism: Pseudomonas putida KT2440
Primary publication:
Discovery of Hydroxylase Activity for PqqB Provides a Missing Link in the Pyrroloquinoline Quinone Biosynthetic Pathway.
Koehn EM, Latham JA, Armand T, Evans RL, Tu X, Wilmot CM, Iavarone AT, Klinman JP
J Am Chem Soc 141 4398-4405 (2019)
PMID: 30811189

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-183513 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Coenzyme PQQ synthesis protein B Chain: A
Molecule details ›
Chain: A
Length: 308 amino acids
Theoretical weight: 34 KDa
Source organism: Pseudomonas putida KT2440
Expression system: Escherichia coli
UniProt:
  • Canonical: Q88QV5 (Residues: 1-303; Coverage: 100%)
Gene names: PP_0379, pqqB
Sequence domains: Beta-lactamase superfamily domain
Structure domains: Ribonuclease Z/Hydroxyacylglutathione hydrolase-like

Ligands and Environments

3 bound ligands:
Ligand ZN 2 x ZN
Ligand CL 1 x CL
Ligand HKS 1 x HKS
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-B
Spacegroup: P43212
Unit cell:
a: 86.038Å b: 86.038Å c: 107.128Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.192 0.189 0.236
Expression system: Escherichia coli

Quick links

Citations

4 review citations

New developments in RiPP discovery, enzymology and engineering.
Montalbán-López et al. (2021)
3 more

5 mentions without citation

A Molecular Revolution in the Treatment of Hemophilia.
Butterfield et al. (2020)
4 more