5AZJ image
Deposition Date 2015-10-08
Release Date 2016-10-19
Last Version Date 2024-10-23
Entry Detail
PDB ID:
5AZJ
Keywords:
Title:
Crystal structure of glycerol kinase from Trypanosoma brucei gambiense complexed with 4NP (with disulfide bridge)
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.61 Å
R-Value Free:
0.25
R-Value Work:
0.19
R-Value Observed:
0.19
Space Group:
P 1 21 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Glycerol kinase
Gene (Uniprot):gk
Chain IDs:A, C
Chain Length:518
Number of Molecules:2
Biological Source:Trypanosoma brucei gambiense
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Glycerol kinase
Gene (Uniprot):gk
Chain IDs:B, D
Chain Length:518
Number of Molecules:2
Biological Source:Trypanosoma brucei gambiense
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
TPO B THR modified residue
Primary Citation
Glycerol kinase of African trypanosomes possesses an intrinsic phosphatase activity.
Biochim Biophys Acta Gen Subj 1861 2830 2842 (2017)
PMID: 28778484 DOI: 10.1016/j.bbagen.2017.07.028

Abstact

BACKGROUND In general, glycerol kinases (GKs) are transferases that catalyze phospho group transfer from ATP to glycerol, and the mechanism was suggested to be random bi-bi. The reverse reaction i.e. phospho transfer from glycerol 3-phosphate (G3P) to ADP is only physiologically feasible by the African trypanosome GK. In contrast to other GKs the mechanism of Trypanosoma brucei gambiense glycerol kinase (TbgGK) was shown to be in an ordered fashion, and proceeding via autophosphorylation. From the unique reaction mechanism of TbgGK, we envisaged its potential to possess phosphatase activity in addition to being a kinase. METHODS Our hypothesis was tested by spectrophotometric and LC-MS/MS analyses using paranitrophenyl phosphate (pNPP) and TbgGK's natural substrate, G3P respectively. Furthermore, protein X-ray crystallography and site-directed mutagenesis were performed to examine pNPP binding, catalytic residues, and the possible reaction mechanism. RESULTS In addition to its widely known and expected phosphotransferase (class II) activity, TbgGK can efficiently facilitate the hydrolytic cleavage of phosphoric anhydride bonds (a class III property). This phosphatase activity followed the classical Michaelis-Menten pattern and was competitively inhibited by ADP and G3P, suggesting a common catalytic site for both activities (phosphatase and kinase). The structure of the TGK-pNPP complex, and structure-guided mutagenesis implicated T276 to be important for the catalysis. Remarkably, we captured a crystallographic molecular snapshot of the phosphorylated T276 reaction intermediate. CONCLUSION We conclude that TbgGK has both kinase and phosphatase activities. GENERAL SIGNIFICANCE This is the first report on a bifunctional kinase/phosphatase enzyme among members of the sugar kinase family.

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