4E8Y image
Deposition Date 2012-03-20
Release Date 2012-12-26
Last Version Date 2023-09-13
Entry Detail
PDB ID:
4E8Y
Title:
Crystal Structure of Burkholderia cenocepacia HldA in Complex with an ATP-competitive Inhibitor
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.60 Å
R-Value Free:
0.23
R-Value Work:
0.19
R-Value Observed:
0.19
Space Group:
P 1 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:D-beta-D-heptose 7-phosphate kinase
Gene (Uniprot):hldA
Chain IDs:A, B
Chain Length:352
Number of Molecules:2
Biological Source:Burkholderia cenocepacia
Primary Citation
Structural-functional studies of Burkholderia cenocepacia D-glycero-beta-D-manno-heptose 7-phosphate kinase (HldA) and characterization of inhibitors with antibiotic adjuvant and antivirulence properties.
J.Med.Chem. 56 1405 1417 (2013)
PMID: 23256532 DOI: 10.1021/jm301483h

Abstact

As an essential constituent of the outer membrane of Gram-negative bacteria, lipopolysaccharide contributes significantly to virulence and antibiotic resistance. The lipopolysaccharide biosynthetic pathway therefore serves as a promising therapeutic target for antivirulence drugs and antibiotic adjuvants. Here we report the structural-functional studies of D-glycero-β-D-manno-heptose 7-phosphate kinase (HldA), an absolutely conserved enzyme in this pathway, from Burkholderia cenocepacia. HldA is structurally similar to members of the PfkB carbohydrate kinase family and appears to catalyze heptose phosphorylation via an in-line mechanism mediated mainly by a conserved aspartate, Asp270. Moreover, we report the structures of HldA in complex with two potent inhibitors in which both inhibitors adopt a folded conformation and occupy the nucleotide-binding sites. Together, these results provide important insight into the mechanism of HldA-catalyzed heptose phosphorylation and necessary information for further development of HldA inhibitors.

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