8IN2 image
Entry Detail
PDB ID:
8IN2
Keywords:
Title:
4,5-DOPA-extradiol-dioxygenase from Beta vulgaris
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2023-03-08
Release Date:
2024-04-24
Method Details:
Experimental Method:
Resolution:
3.08 Å
R-Value Free:
0.22
R-Value Work:
0.16
R-Value Observed:
0.17
Space Group:
P 31 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:4,5-DOPA dioxygenase extradiol
Chain IDs:A, B
Chain Length:276
Number of Molecules:2
Biological Source:Beta vulgaris
Ligand Molecules
Primary Citation
Structural Insights into 4,5-DOPA Extradiol Dioxygenase from Beta vulgaris : Unraveling the Key Step in Versatile Betalain Biosynthesis.
J.Agric.Food Chem. 73 6785 6794 (2025)
PMID: 40055856 DOI: 10.1021/acs.jafc.4c09501

Abstact

Betalains, a group of pigments widely distributed in various plants, are extensively applied in the food, beverage, and medicinal industries. The biosynthesis of betalains involves the enzymatic action of 4,5-DOPA-dioxygenase, which catalyzes the key ring-opening reaction of DOPA to produce betalamic acid, a crucial intermediate in the pathway. The crystal structure of a 4,5-DOPA-dioxygenase from Beta vulgaris (BvDOD) was determined in this study. The structural analysis revealed that BvDOD exhibited a structural fold similar to that of other members of the extradiol dioxygenase family. Moreover, the Fe-ligand residues His15, His53, and His229 indicated the enzyme's reliance on nonheme iron for catalyzing the ring-opening reaction. Molecular docking and mutational analysis identified two conserved residues, His119 and His175, in the active site essential for the catalytic reaction. In addition, Thr17, Asp254, and Tyr260 contributed to properly positioning the substrate in the active site. This study has provided structural insights into substrate recognition and catalytic mechanisms of BvDOD, which can be applied to develop enzymes for improved betalain production.

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Primary Citation of related structures