› 3wxl

X-ray diffraction
1.9Å resolution

Crystal structure of trypanosoma brucei gambiense glycerol kinase complex with adp, mg2+, and glycerol

Released:
DOI: 10.2210/pdb3wxl/pdb
PDB entry 3wxl coloured by chain, front view.
PDB entry 3wxl coloured by chain, side view.
PDB entry 3wxl coloured by chain, top view.
Source organism: Trypanosoma brucei gambiense
Primary publication:
Molecular basis for the reverse reaction of African human trypanosomes glycerol kinase.
Balogun EO, Inaoka DK, Shiba T, Kido Y, Tsuge C, Nara T, Aoki T, Honma T, Tanaka A, Inoue M, Matsuoka S, Michels PA, Kita K, Harada S
Mol Microbiol 94 1315-29 (2014)
PMID: 25315291

Function and Biology Details

Reaction catalysed: 
ATP + glycerol = ADP + sn-glycerol 3-phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-112526 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
glycerol kinase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 518 amino acids
Theoretical weight: 57.06 KDa
Source organism: Trypanosoma brucei gambiense
Expression system: Escherichia coli
UniProt:
  • Canonical: D3KVM3 (Residues: 1-512; Coverage: 100%)
Gene name: gk
Sequence domains:
Structure domains: Nucleotidyltransferase; domain 5

Ligands and Environments

3 bound ligands:
Ligand GOL 6 x GOL
Ligand ADP 5 x ADP
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NW12A
Spacegroup: P21
Unit cell:
a: 62.115Å b: 153.84Å c: 120.098Å
α: 90° β: 89.95° γ: 90°
R-values:
R R work R free
0.214 0.212 0.254
Expression system: Escherichia coli

Quick links

Citations

4 citation in other articles

Improved Metabolic Models for E. coli and Mycoplasma genitalium from GlobalFit, an Algorithm That Simultaneously Matches Growth and Non-Growth Data Sets.
Hartleb et al. (2016)
3 more

2 mentions without citation

The Negative Effects of KPN00353 on Glycerol Kinase and Microaerobic 1,3-Propanediol Production in Klebsiella pneumoniae.
Jeng et al. (2017)
1 more