› 1u43

X-ray diffraction
3.2Å resolution

IspF with 4-diphosphocytidyl-2c-methyl-D-erythritol 2-phosphate

Released:
DOI: 10.2210/pdb1u43/pdb
PDB entry 1u43 coloured by chain, front view.
PDB entry 1u43 coloured by chain, side view.
PDB entry 1u43 coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Structure of 2C-methyl-d-erythritol-2,4-cyclodiphosphate synthase involved in mevalonate-independent biosynthesis of isoprenoids.
Steinbacher S, Kaiser J, Wungsintaweekul J, Hecht S, Eisenreich W, Gerhardt S, Bacher A, Rohdich F
J Mol Biol 316 79-88 (2002)
PMID: 11829504

Function and Biology Details

Reaction catalysed: 
2-phospho-4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol = 2-C-methyl-D-erythritol 2,4-cyclodiphosphate + CMP
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-158656 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase Chain: A
Molecule details ›
Chain: A
Length: 159 amino acids
Theoretical weight: 16.92 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P62617 (Residues: 1-159; Coverage: 100%)
Gene names: JW2716, b2746, ispF, mecS, ygbB
Sequence domains: YgbB family
Structure domains: 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase

Ligands and Environments

1 bound ligand:
Ligand SUD 1 x SUD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: I213
Unit cell:
a: 145.01Å b: 145.01Å c: 145.01Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.21 0.2 0.254
Expression system: Escherichia coli

Quick links

Citations

10 review citations

Molecular recognition in chemical and biological systems.
Persch et al. (2015)
9 more

1 mention without citation

The structure of Mycobacteria 2C-methyl-D-erythritol-2,4-cyclodiphosphate synthase, an essential enzyme, provides a platform for drug discovery.
Buetow et al. (2007)