5YTN

C135A mutant of copper-containing nitrite reductase from Geobacillus thermodenitrificans in complex with peroxide

5YTN の概要

• エントリーDOI: 10.2210/pdb5ytn/pdb
• 分子名称: Copper-containing nitrite reductase, COPPER (II) ION, (4R)-2-METHYLPENTANE-2,4-DIOL, ... (5 entities in total)
• 機能のキーワード: copper, nitrite reductase, oxidoreductase
• 由来する生物種: Geobacillus thermodenitrificans
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 35833.82

構造登録者

Fukuda, Y.,Matsusaki, T.,Tse, K.M.,Mizohata, E.,Murphy, M.E.P.,Inoue, T. (登録日: 2017-11-19, 公開日: 2018-08-22, 最終更新日: 2024-03-27)

主引用文献

Fukuda, Y.,Matsusaki, T.,Tse, K.M.,Mizohata, E.,Murphy, M.E.P.,Inoue, T.
Crystallographic study of dioxygen chemistry in a copper-containing nitrite reductase from Geobacillus thermodenitrificans.
Acta Crystallogr D Struct Biol, 74:769-777, 2018

PubMed Abstract: Copper-containing nitrite reductases (CuNIRs) are multifunctional enzymes that catalyse the one-electron reduction of nitrite (NO) to nitric oxide (NO) and the two-electron reduction of dioxygen (O) to hydrogen peroxide (HO). In contrast to the mechanism of nitrite reduction, that of dioxygen reduction is poorly understood. Here, results from anaerobic synchrotron-radiation crystallography (SRX) and aerobic in-house radiation crystallography (iHRX) with a CuNIR from the thermophile Geobacillus thermodenitrificans (GtNIR) support the hypothesis that the dioxygen present in an aerobically manipulated crystal can bind to the catalytic type 2 copper (T2Cu) site of GtNIR during SRX experiments. The anaerobic SRX structure showed a dual conformation of one water molecule as an axial ligand in the T2Cu site, while previous aerobic SRX GtNIR structures were refined as diatomic molecule-bound states. Moreover, an SRX structure of the C135A mutant of GtNIR with peroxide bound to the T2Cu atom was determined. The peroxide molecule was mainly observed in a side-on binding manner, with a possible minor end-on conformation. The structures provide insights into dioxygen chemistry in CuNIRs and hence help to unmask the other face of CuNIRs.

PubMed: 30082512
DOI: 10.1107/S2059798318010082

実験手法

X-RAY DIFFRACTION (1.75 Å)