5MDL

Crystal structure of an O2-tolerant [NiFe]-hydrogenase from Ralstonia eutropha in its O2-derivatized form by a "soak-and-freeze" derivatization method

5MDL の概要

• エントリーDOI: 10.2210/pdb5mdl/pdb
• 分子名称: Uptake hydrogenase large subunit;HOXG, CHLORIDE ION, OXYGEN ATOM, ... (12 entities in total)
• 機能のキーワード: [nife] hydrogenase, knallgasbacteria, proteobacteria, aerobic hydrogen bacteria, oxygen derivatisation, dehydrogenase, oxidoreductase, hydrogen catalysis, metalloenzyme, dihydrogen, bimetallic, metalloprotein catalytic center, ni-fe active site, t-cluster, fe-s cluster, [4fe-3s] cluster, [3fe-4s] cluster, [4fe-4s] cluster, oxygen derivatised state, oxidized state, oxygen tolerant hydrogenase, membrane bound, membrane, hydrophobic tunnel, gas transport
• 由来する生物種: Ralstonia eutropha; 詳細
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 104761.68

構造登録者

Kalms, J.,Schmidt, A.,Scheerer, P. (登録日: 2016-11-11, 公開日: 2018-02-21, 最終更新日: 2024-11-13)

主引用文献

Kalms, J.,Schmidt, A.,Frielingsdorf, S.,Utesch, T.,Gotthard, G.,von Stetten, D.,van der Linden, P.,Royant, A.,Mroginski, M.A.,Carpentier, P.,Lenz, O.,Scheerer, P.
Tracking the route of molecular oxygen in O2-tolerant membrane-bound [NiFe] hydrogenase.
Proc. Natl. Acad. Sci. U.S.A., 115:E2229-E2237, 2018

PubMed Abstract: [NiFe] hydrogenases catalyze the reversible splitting of H into protons and electrons at a deeply buried active site. The catalytic center can be accessed by gas molecules through a hydrophobic tunnel network. While most [NiFe] hydrogenases are inactivated by O, a small subgroup, including the membrane-bound [NiFe] hydrogenase (MBH) of , is able to overcome aerobic inactivation by catalytic reduction of O to water. This O tolerance relies on a special [4Fe3S] cluster that is capable of releasing two electrons upon O attack. Here, the O accessibility of the MBH gas tunnel network has been probed experimentally using a "soak-and-freeze" derivatization method, accompanied by protein X-ray crystallography and computational studies. This combined approach revealed several sites of O molecules within a hydrophobic tunnel network leading, via two tunnel entrances, to the catalytic center of MBH. The corresponding site occupancies were related to the O concentrations used for MBH crystal derivatization. The examination of the O-derivatized data furthermore uncovered two unexpected structural alterations at the [4Fe3S] cluster, which might be related to the O tolerance of the enzyme.

PubMed: 29463722
DOI: 10.1073/pnas.1712267115

実験手法

X-RAY DIFFRACTION (1.41 Å)