3EB9 image
Deposition Date 2008-08-27
Release Date 2009-05-26
Last Version Date 2023-08-30
Entry Detail
PDB ID:
3EB9
Keywords:
Title:
Crystal structure of 6-phosphogluconolactonase from trypanosoma brucei complexed with citrate
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.00 Å
R-Value Free:
0.24
R-Value Work:
0.19
R-Value Observed:
0.19
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:6-phosphogluconolactonase
Gene (Uniprot):6pgl
Chain IDs:A, B
Chain Length:266
Number of Molecules:2
Biological Source:Trypanosoma brucei
Primary Citation
Insights into the enzymatic mechanism of 6-phosphogluconolactonase from Trypanosoma brucei using structural data and molecular dynamics simulation.
J.Mol.Biol. 388 1009 1021 (2009)
PMID: 19345229 DOI: 10.1016/j.jmb.2009.03.063

Abstact

Trypanosoma brucei is the causative agent of African sleeping sickness. Current work for the development of new drugs against this pathology includes evaluation of enzymes of the pentose phosphate pathway (PPP), which first requires a clear understanding of their function and mechanism of action. In this context, we focused on T. brucei 6-phosphogluconolactonase (Tb6PGL), which converts delta-6-phosphogluconolactone into 6-phosphogluconic acid in the second step of the PPP. We have determined the crystal structure of Tb6PGL in complex with two ligands, 6-phosphogluconic acid and citrate, at 2.2 A and 2.0 A resolution, respectively. We have performed molecular dynamics (MD) simulations on Tb6PGL in its empty form and in complex with delta-6-phosphogluconolactone, its natural ligand. Analysis of the structural data and MD simulations allowed us to propose a detailed enzymatic mechanism for 6PGL enzymes.

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