› 3oz2

X-ray diffraction
1.6Å resolution

Crystal structure of a geranylgeranyl bacteriochlorophyll reductase-like (Ta0516) from Thermoplasma acidophilum at 1.60 A resolution

Released:
DOI: 10.2210/pdb3oz2/pdb
PDB entry 3oz2 coloured by chain, front view.
PDB entry 3oz2 coloured by chain, side view.
PDB entry 3oz2 coloured by chain, top view.
Source organism: Thermoplasma acidophilum
Primary publication:
Insights into substrate specificity of geranylgeranyl reductases revealed by the structure of digeranylgeranylglycerophospholipid reductase, an essential enzyme in the biosynthesis of archaeal membrane lipids.
Xu Q, Eguchi T, Mathews II, Rife CL, Chiu HJ, Farr CL, Feuerhelm J, Jaroszewski L, Klock HE, Knuth MW, Miller MD, Weekes D, Elsliger MA, Deacon AM, Godzik A, Lesley SA, Wilson IA
J Mol Biol 404 403-17 (2010)
PMID: 20869368

Function and Biology Details

Reaction catalysed: 
2,3-bis-(O-phytanyl)-sn-glycerol 1-phosphate + 8 NAD(P)(+) = 2,3-bis-(O-geranylgeranyl)-sn-glycerol 1-phosphate + 8 NAD(P)H
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-190878 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Digeranylgeranylglycerophospholipid reductase Chain: A
Molecule details ›
Chain: A
Length: 397 amino acids
Theoretical weight: 44.03 KDa
Source organism: Thermoplasma acidophilum
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9HKS9 (Residues: 1-396; Coverage: 100%)
Gene name: Ta0516
Sequence domains: FAD binding domain
Structure domains:

Ligands and Environments


Cofactor: Ligand FAD 1 x FAD
3 bound ligands:
Ligand OZ2 1 x OZ2
Ligand EDO 11 x EDO
Ligand GOL 2 x GOL
1 modified residue:
Ligand MSE 12 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL11-1
Spacegroup: P212121
Unit cell:
a: 49.59Å b: 70.67Å c: 117.85Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.154 0.153 0.171
Expression system: Escherichia coli

Quick links

Citations

4 review citations

Terpene biosynthesis: modularity rules.
Oldfield et al. (2012)
3 more

5 mentions without citation

Biosynthesis of archaeal membrane ether lipids.
Jain et al. (2014)
4 more