7W5N image
Entry Detail
PDB ID:
7W5N
Keywords:
Title:
The crystal structure of the reduced form of Gluconobacter oxydans WSH-004 SNDH
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2021-11-30
Release Date:
2023-03-01
Method Details:
Experimental Method:
Resolution:
2.99 Å
R-Value Free:
0.21
R-Value Work:
0.17
R-Value Observed:
0.17
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:L-sorbosone dehydrogenase, NAD(P) dependent
Chain IDs:A, B, C, D
Chain Length:504
Number of Molecules:4
Biological Source:Gluconobacter oxydans
Ligand Molecules
Primary Citation
Structural Insight into the Catalytic Mechanisms of an L-Sorbosone Dehydrogenase.
Adv Sci 10 e2301955 e2301955 (2023)
PMID: 37679059 DOI: 10.1002/advs.202301955

Abstact

L-Sorbosone dehydrogenase (SNDH) is a key enzyme involved in the biosynthesis of 2-keto-L-gulonic acid , which is a direct precursor for the industrial scale production of vitamin C. Elucidating the structure and the catalytic mechanism is essential for improving SNDH performance. By solving the crystal structures of SNDH from Gluconobacter oxydans WSH-004, a reversible disulfide bond between Cys295 and the catalytic Cys296 residues is discovered. It allowed SNDH to switch between oxidation and reduction states, resulting in opening or closing the substrate pocket. Moreover, the Cys296 is found to affect the NADP+ binding pose with SNDH. Combining the in vitro biochemical and site-directed mutagenesis studies, the redox-based dynamic regulation and the catalytic mechanisms of SNDH are proposed. Moreover, the mutants with enhanced activity are obtained by extending substrate channels. This study not only elucidates the physiological control mechanism of the dehydrogenase, but also provides a theoretical basis for engineering similar enzymes.

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