› 4s23

X-ray diffraction
1.65Å resolution

Structure of the GcpE-HMBPP complex from Thermus thermophilius

Released:
DOI: 10.2210/pdb4s23/pdb
PDB entry 4s23 coloured by chain, front view.
PDB entry 4s23 coloured by chain, side view.
PDB entry 4s23 coloured by chain, top view.
Source organism: Thermus thermophilus
Primary publication:
Structure of the GcpE-HMBPP complex from Thermus thermophilius.
Rekittke I, Warkentin E, Jomaa H, Ermler U
Biochem Biophys Res Commun 458 246-50 (2015)
PMID: 25660452

Function and Biology Details

Reaction catalysed: 
(E)-4-hydroxy-3-methylbut-2-en-1-yl diphosphate + H(2)O + oxidized flavodoxin = 2-C-methyl-D-erythritol 2,4-cyclodiphosphate + reduced flavodoxin
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-178168 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (flavodoxin) Chains: A, B
Molecule details ›
Chains: A, B
Length: 406 amino acids
Theoretical weight: 44.28 KDa
Source organism: Thermus thermophilus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5SLI8 (Residues: 1-406; Coverage: 100%)
Gene names: TTHA0305, ispG
Sequence domains: GcpE protein
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand SF4 2 x SF4
Ligand MES 2 x MES
Ligand H6P 2 x H6P
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X10SA
Spacegroup: P61
Unit cell:
a: 63.25Å b: 63.25Å c: 372.12Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.128 0.12 0.17
Expression system: Escherichia coli

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Citations

1 citations in other articles

Uncovering the functional residues of Arabidopsis isoprenoid biosynthesis enzyme HDS.
Wang et al. (2020)

1 mention without citation

The rational design of iron-sulfur cluster binding site for prolonged stability in magnetoreceptor MagR.
Tong et al. (2022)