- PDB-8q5t: Nitrogenase Fe protein from Methanothermococcus thermolithotrophi... -
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基本情報
登録情報
データベース: PDB / ID: 8q5t
タイトル
Nitrogenase Fe protein from Methanothermococcus thermolithotrophicus, monoclinic crystalline form at 2.31-A resolution
要素
Nitrogenase iron protein 1
キーワード
ELECTRON TRANSPORT / nitrogenase / electron donor / ATPase / [4Fe-4S]-cluster / electron transfer / conformational changes / methanogenic archaea / thermophile / oxidoreductase / O2-sensitivity / N2-fixation
機能・相同性
機能・相同性情報
nitrogenase / : / nitrogenase activity / nitrogen fixation / 4 iron, 4 sulfur cluster binding / ATP binding / metal ion binding 類似検索 - 分子機能
Nitrogenase iron protein NifH / NifH/frxC family / NifH/chlL conserved site / 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family / NifH/frxC family signature 2. / NifH/frxC family signature 1. / NIFH_FRXC family profile. / P-loop containing nucleoside triphosphate hydrolase 類似検索 - ドメイン・相同性
IRON/SULFUR CLUSTER / Nitrogenase iron protein 1 類似検索 - 構成要素
マシュー密度: 2.12 Å3/Da / 溶媒含有率: 41.97 % / 解説: The crystal was in a shape of brown plates.
結晶化
温度: 293.15 K / 手法: 蒸気拡散法, シッティングドロップ法 / pH: 4.6 詳細: The purified protein was crystallised at a final concentration of 6 mg/ml by spotting 0.5 ul of crystallisation solution with 0.5 ul of protein sample. Crystallisation was done anaerobically ...詳細: The purified protein was crystallised at a final concentration of 6 mg/ml by spotting 0.5 ul of crystallisation solution with 0.5 ul of protein sample. Crystallisation was done anaerobically in a Coy tent containing a N2/H2 (97:3%) atmosphere. The screening was done at 20 degrees Celsius on 96-Well MRC 2-drop polystyrene (SWISSCI) plates containing 90 ul of crystallisation solution. The crystallisation solution in which crystals were obtained contained 30 % v/v 2-methyl-2,4-pentanediol, 100 mM sodium acetate, pH 4.6 and 20 mM calcium chloride.
構造決定の手法: 分子置換 / 解像度: 2.31→48.47 Å / SU ML: 0.25 / 交差検証法: FREE R-VALUE / σ(F): 1.34 / 位相誤差: 24.56 / 立体化学のターゲット値: ML 詳細: Translation-libration screw was used during refinement. The model was refined with riding hydrogens that were omitted in the final deposited model.
Rfactor
反射数
%反射
Rfree
0.2349
2280
5.06 %
Rwork
0.1942
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obs
0.1963
45074
99.98 %
溶媒の処理
減衰半径: 0.9 Å / VDWプローブ半径: 1.1 Å / 溶媒モデル: FLAT BULK SOLVENT MODEL