7XWK image
Deposition Date 2022-05-26
Release Date 2022-10-26
Last Version Date 2024-05-08
Entry Detail
PDB ID:
7XWK
Keywords:
Title:
structure of patulin-detoxifying enzyme Y155F with NADPH and substrate
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.12 Å
R-Value Free:
0.26
R-Value Work:
0.19
R-Value Observed:
0.20
Space Group:
P 1 21 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Short-chain dehydrogenase/reductase
Gene (Uniprot):SDR
Mutagens:Y155F
Chain IDs:A, B, C, D
Chain Length:250
Number of Molecules:4
Biological Source:Meyerozyma guilliermondii
Primary Citation
Structure-based rational design of a short-chain dehydrogenase/reductase for improving activity toward mycotoxin patulin.
Int.J.Biol.Macromol. 222 421 428 (2022)
PMID: 36176222 DOI: 10.1016/j.ijbiomac.2022.09.121

Abstact

Patulin is a fatal mycotoxin that is widely detected in drinking water and fruit-derived products contaminated by diverse filamentous fungi. CgSDR from Candida guilliermondii represents the first NADPH-dependent short-chain dehydrogenase/reductase that catalyzes the reduction of patulin to the nontoxic E-ascladiol. To elucidate the catalytic mechanism of CgSDR, we solved its crystal structure in complex with cofactor and substrate. Structural analyses indicate that patulin is situated in a hydrophobic pocket adjacent to the cofactor, with the hemiacetal ring orienting toward the nicotinamide moiety of NADPH. In addition, we conducted structure-guided engineering to modify substrate-binding residue V187 and obtained variant V187F, V187K and V187W, whose catalytic activity was elevated by 3.9-, 2.2- and 1.7-fold, respectively. The crystal structures of CgSDR variants suggest that introducing additional aromatic stacking or hydrogen-bonding interactions to bind the lactone ring of patulin might account for the observed enhanced activity. These results illustrate the catalytic mechanism of SDR-mediated patulin detoxification for the first time and provide the upgraded variants that exhibit tremendous potentials in industrial applications.

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