6ON3
A substrate bound structure of L-DOPA dioxygenase from Streptomyces sclerotialus
6ON3 の概要
| エントリーDOI | 10.2210/pdb6on3/pdb |
| 分子名称 | L-DOPA extradiol dioxygenase, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 3,4-DIHYDROXYPHENYLALANINE, ... (5 entities in total) |
| 機能のキーワード | extradiol dioxygenase; vincinal oxygen chelate superfamily., oxidoreductase |
| 由来する生物種 | Streptomyces sclerotialus |
| タンパク質・核酸の鎖数 | 6 |
| 化学式量合計 | 115299.99 |
| 構造登録者 | |
| 主引用文献 | Wang, Y.,Shin, I.,Fu, Y.,Colabroy, K.L.,Liu, A. Crystal Structures of L-DOPA Dioxygenase fromStreptomyces sclerotialus. Biochemistry, 58:5339-5350, 2019 Cited by PubMed Abstract: Extradiol dioxygenases are essential biocatalysts for breaking down catechols. The vicinal oxygen chelate (VOC) superfamily contains a large number of extradiol dioxygenases, most of which are found as part of catabolic pathways degrading a variety of natural and human-made aromatic rings. The l-3,4-dihydroxyphenylalanine (L-DOPA) extradiol dioxygenases compose a multitude of pathways that produce various antibacterial or antitumor natural products. The structural features of these dioxygenases are anticipated to be distinct from those of other VOC extradiol dioxygenases. Herein, we identified a new L-DOPA dioxygenase from the thermophilic bacterium (SsDDO) through a sequence and genome context analysis. The activity of SsDDO was kinetically characterized with L-DOPA using an ultraviolet-visible spectrophotometer and an oxygen electrode. The optimal temperature of the assay was 55 °C, at which the and of SsDDO were 110 ± 10 μM and 2.0 ± 0.1 s, respectively. We determined the crystal structures of SsDDO in the ligand-free form and as a substrate-bound complex, refined to 1.99 and 2.31 Å resolution, respectively. These structures reveal that SsDDO possesses a form IV arrangement of βαβββ modules, the first characterization of this assembly from among the VOC/type I extradiol dioxygenase protein family. Electron paramagnetic resonance spectra of Fe-NO adducts for the resting and substrate-bound enzyme were obtained. This work contributes to our understanding of a growing class of topologically distinct VOC dioxygenases, and the obtained structural features will improve our understanding of the extradiol cleavage reaction within the VOC superfamily. PubMed: 31180203DOI: 10.1021/acs.biochem.9b00396 主引用文献が同じPDBエントリー |
| 実験手法 | X-RAY DIFFRACTION (2.31 Å) |
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