› 3k8d

X-ray diffraction
1.9Å resolution

Crystal structure of E. coli lipopolysaccharide specific CMP-KDO synthetase in complex with CTP and 2-deoxy-Kdo

Released:
DOI: 10.2210/pdb3k8d/pdb
PDB entry 3k8d coloured by chain, front view.
PDB entry 3k8d coloured by chain, side view.
PDB entry 3k8d coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Structure-based mechanism of CMP-2-keto-3-deoxymanno-octulonic acid synthetase: convergent evolution of a sugar-activating enzyme with DNA/RNA polymerases.
Heyes DJ, Levy C, Lafite P, Roberts IS, Goldrick M, Stachulski AV, Rossington SB, Stanford D, Rigby SE, Scrutton NS, Leys D
J Biol Chem 284 35514-23 (2009)
PMID: 19815542

Function and Biology Details

Reaction catalysed: 
CTP + 3-deoxy-D-manno-octulosonate = diphosphate + CMP-3-deoxy-D-manno-octulosonate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-138288 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
3-deoxy-manno-octulosonate cytidylyltransferase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 264 amino acids
Theoretical weight: 29.46 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P04951 (Residues: 1-248; Coverage: 100%)
Gene names: JW0901, b0918, kdsB
Sequence domains: Cytidylyltransferase
Structure domains: Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A

Ligands and Environments

3 bound ligands:
Ligand MG 4 x MG
Ligand KDO 4 x KDO
Ligand CTP 4 x CTP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I02
Spacegroup: P31
Unit cell:
a: 94.77Å b: 94.77Å c: 153.14Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.153 0.151 0.182

Quick links

Citations

4 review citations

Survey of the year 2009: applications of isothermal titration calorimetry.
Falconer et al. (2011)
3 more

6 mentions without citation

Phosphoribosyl Diphosphate (PRPP): Biosynthesis, Enzymology, Utilization, and Metabolic Significance.
Hove-Jensen et al. (2017)
5 more