› 3aqc

X-ray diffraction
2.61Å resolution

M. luteus B-P 26 heterodimeric hexaprenyl diphosphate synthase in complex with magnesium and FPP analogue

Released:
DOI: 10.2210/pdb3aqc/pdb
PDB entry 3aqc coloured by chain, front view.
PDB entry 3aqc coloured by chain, side view.
PDB entry 3aqc coloured by chain, top view.
Source organism: Micrococcus luteus
Primary publication:
Crystal structure of heterodimeric hexaprenyl diphosphate synthase from Micrococcus luteus B-P 26 reveals that the small subunit is directly involved in the product chain length regulation.
Sasaki D, Fujihashi M, Okuyama N, Kobayashi Y, Noike M, Koyama T, Miki K
J Biol Chem 286 3729-40 (2011)
PMID: 21068379

Function and Biology Details

Reaction catalysed: 
(2E,6E)-farnesyl diphosphate + 3 isopentenyl diphosphate = 3 diphosphate + all-trans-hexaprenyl diphosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-130297 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Hexaprenyl-diphosphate synthase small subunit ((2E,6E)-farnesyl-diphosphate specific) Chains: A, C
Molecule details ›
Chains: A, C
Length: 147 amino acids
Theoretical weight: 17.29 KDa
Source organism: Micrococcus luteus
Expression system: Escherichia coli
UniProt:
  • Canonical: O66127 (Residues: 1-143; Coverage: 100%)
Gene name: hexs-a
Structure domains: Four Helix Bundle (Hemerythrin (Met), subunit A)
Hexaprenyl-diphosphate synthase large subunit ((2E,6E)-farnesyl-diphosphate specific) Chains: B, D
Molecule details ›
Chains: B, D
Length: 325 amino acids
Theoretical weight: 37.13 KDa
Source organism: Micrococcus luteus
Expression system: Escherichia coli
UniProt:
  • Canonical: O66129 (Residues: 1-325; Coverage: 100%)
Gene name: hexs-b
Sequence domains: Polyprenyl synthetase
Structure domains: Farnesyl Diphosphate Synthase

Ligands and Environments

3 bound ligands:
Ligand MG 6 x MG
Ligand 2DE 2 x 2DE
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NW12A
Spacegroup: I213
Unit cell:
a: 189.803Å b: 189.803Å c: 189.803Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.24 0.238 0.282
Expression system: Escherichia coli

Quick links

Citations

4 review citations

Structural and Chemical Biology of Terpenoid Cyclases.
Christianson DW. (2017)
3 more

2 mentions without citation

Crystal structure of heterodimeric hexaprenyl diphosphate synthase from Micrococcus luteus B-P 26 reveals that the small subunit is directly involved in the product chain length regulation.
Sasaki et al. (2011)
1 more