9GWW image
Entry Detail
PDB ID:
9GWW
Keywords:
Title:
Crystal structure of sulfoquinovose-1-dehydrogenase from Pseudomonas Putida in complex with sulfoquinovose substrate (sulfo-ED pathway)
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2024-09-27
Release Date:
2025-02-12
Method Details:
Experimental Method:
Resolution:
1.90 Å
R-Value Free:
0.27
R-Value Work:
0.22
R-Value Observed:
0.22
Space Group:
I 1 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Sulfoquinovose 1-dehydrogenase
Chain IDs:A, B
Chain Length:273
Number of Molecules:2
Biological Source:Pseudomonas putida
Ligand Molecules
Primary Citation
Structure, kinetics, and mechanism of Pseudomonas putida sulfoquinovose dehydrogenase, the first enzyme in the sulfoglycolytic Entner-Doudoroff pathway.
Biochem.J. 482 57 72 (2025)
PMID: 39840830 DOI: 10.1042/BCJ20240605

Abstact

The sulfosugar sulfoquinovose (SQ) is catabolized through the sulfoglycolytic Entner-Doudoroff pathway, beginning with the oxidation of SQ to sulfogluconolactone by SQ dehydrogenase. We present a comprehensive structural and kinetic characterization of Pseudomonas putida SQ dehydrogenase (PpSQDH). PpSQDH is a tetrameric enzyme belonging to the short-chain dehydrogenase/reductase (SDR) superfamily with a strong preference for NAD+ over NADP+. Kinetic analysis revealed a rapid equilibrium ordered mechanism in which the NAD+ cofactor is the first substrate to bind, and NADH is the last product to dissociate. Structural studies revealed a homotetrameric structure in solution and crystals, involving cross-subunit interactions in which the C-terminus residue (Gln260) inserts into the diagonally opposite subunit to form part of the second shell of residues lining the active site. Complexes of PpSQDH with SQ or NAD+ provide insight into the recognition of SQ and together with the kinetic analysis allow the proposal of a catalytic reaction mechanism. Our findings illuminate the mechanism of SQ degradation and the evolution of the SDR superfamily for organosulfonate catabolism.

Legend

Protein

Chemical

Disease

Primary Citation of related structures