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基本情報
登録情報 | データベース: EMDB / ID: EMD-0417 | ||||||||||||
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タイトル | T.elongatus NDH Peripheral Arm Focus Map with NdhS(data-set 1) | ||||||||||||
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生物種 | ![]() ![]() | ||||||||||||
手法 | 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 3.7 Å | ||||||||||||
![]() | Laughlin TG / Davies KM | ||||||||||||
資金援助 | ![]()
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![]() | ![]() タイトル: Structure of the complex I-like molecule NDH of oxygenic photosynthesis. 著者: Thomas G Laughlin / Andrew N Bayne / Jean-François Trempe / David F Savage / Karen M Davies / ![]() ![]() 要旨: Cyclic electron flow around photosystem I (PSI) is a mechanism by which photosynthetic organisms balance the levels of ATP and NADPH necessary for efficient photosynthesis. NAD(P)H dehydrogenase-like ...Cyclic electron flow around photosystem I (PSI) is a mechanism by which photosynthetic organisms balance the levels of ATP and NADPH necessary for efficient photosynthesis. NAD(P)H dehydrogenase-like complex (NDH) is a key component of this pathway in most oxygenic photosynthetic organisms and is the last large photosynthetic membrane-protein complex for which the structure remains unknown. Related to the respiratory NADH dehydrogenase complex (complex I), NDH transfers electrons originating from PSI to the plastoquinone pool while pumping protons across the thylakoid membrane, thereby increasing the amount of ATP produced per NADP molecule reduced. NDH possesses 11 of the 14 core complex I subunits, as well as several oxygenic-photosynthesis-specific (OPS) subunits that are conserved from cyanobacteria to plants. However, the three core complex I subunits that are involved in accepting electrons from NAD(P)H are notably absent in NDH, and it is therefore not clear how NDH acquires and transfers electrons to plastoquinone. It is proposed that the OPS subunits-specifically NdhS-enable NDH to accept electrons from its electron donor, ferredoxin. Here we report a 3.1 Å structure of the 0.42-MDa NDH complex from the thermophilic cyanobacterium Thermosynechococcus elongatus BP-1, obtained by single-particle cryo-electron microscopy. Our maps reveal the structure and arrangement of the principal OPS subunits in the NDH complex, as well as an unexpected cofactor close to the plastoquinone-binding site in the peripheral arm. The location of the OPS subunits supports a role in electron transfer and defines two potential ferredoxin-binding sites at the apex of the peripheral arm. These results suggest that NDH could possess several electron transfer routes, which would serve to maximize plastoquinone reduction and avoid deleterious off-target chemistry of the semi-plastoquinone radical. | ||||||||||||
履歴 |
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構造の表示
ムービー |
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構造ビューア | EMマップ: ![]() ![]() ![]() |
添付画像 |
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ダウンロードとリンク
-EMDBアーカイブ
マップデータ | ![]() | 166.8 MB | ![]() | |
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ヘッダ (付随情報) | ![]() ![]() | 18.8 KB 18.8 KB | 表示 表示 | ![]() |
FSC (解像度算出) | ![]() | 12.8 KB | 表示 | ![]() |
画像 | ![]() | 62.1 KB | ||
マスクデータ | ![]() | 178 MB | ![]() | |
その他 | ![]() ![]() | 140.9 MB 140.8 MB | ||
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-関連構造データ
関連構造データ | ![]() 0415C ![]() 0416C ![]() 0418C ![]() 0419C ![]() 0420C ![]() 0425C ![]() 6nbqC ![]() 6nbxC ![]() 6nbyC C: 同じ文献を引用 ( |
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類似構造データ | |
電子顕微鏡画像生データ | ![]() Data size: 1.8 TB Data #1: Unaligned multiframe micrographs for NDH dataset1 [micrographs - multiframe] Data #2: Unaligned multiframe micrographs for NDH dataset2 [micrographs - multiframe]) |
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リンク
EMDBのページ | ![]() ![]() |
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マップ
ファイル | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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注釈 | unsharpened | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 1.068 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
密度 |
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対称性 | 空間群: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
詳細 | EMDB XML:
CCP4マップ ヘッダ情報:
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-添付データ
-マスク #1
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投影像・断面図 |
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密度ヒストグラム |
-ハーフマップ: em-half-volume P1
ファイル | emd_0417_half_map_1.map | ||||||||||||
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注釈 | em-half-volume_P1 | ||||||||||||
投影像・断面図 |
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密度ヒストグラム |
-ハーフマップ: em-half-volume P2
ファイル | emd_0417_half_map_2.map | ||||||||||||
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注釈 | em-half-volume_P2 | ||||||||||||
投影像・断面図 |
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密度ヒストグラム |
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試料の構成要素
-全体 : NAD(P)H dehydrogenase-like complex peripheral arm(NDH/NDH-1_1/NDH...
全体 | 名称: NAD(P)H dehydrogenase-like complex peripheral arm(NDH/NDH-1_1/NDH1L) from T.elongatus |
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要素 |
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-超分子 #1: NAD(P)H dehydrogenase-like complex peripheral arm(NDH/NDH-1_1/NDH...
超分子 | 名称: NAD(P)H dehydrogenase-like complex peripheral arm(NDH/NDH-1_1/NDH1L) from T.elongatus タイプ: complex / ID: 1 / 親要素: 0 / 含まれる分子: #1-#17 |
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由来(天然) | 生物種: ![]() ![]() |
-実験情報
-構造解析
手法 | クライオ電子顕微鏡法 |
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![]() | 単粒子再構成法 |
試料の集合状態 | particle |
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試料調製
濃度 | 0.01 mg/mL | ||||||||
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緩衝液 | pH: 6 構成要素:
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凍結 | 凍結剤: ETHANE / チャンバー内湿度: 100 % / チャンバー内温度: 295 K / 装置: FEI VITROBOT MARK IV 詳細: incubate on grid for 30 seconds and blot 2.5 seconds before plunging. |
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電子顕微鏡法
顕微鏡 | FEI TITAN KRIOS |
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撮影 | フィルム・検出器のモデル: GATAN K2 SUMMIT (4k x 4k) 検出モード: SUPER-RESOLUTION / デジタル化 - 画像ごとのフレーム数: 1-35 / 撮影したグリッド数: 1 / 実像数: 2519 / 平均露光時間: 0.2 sec. / 平均電子線量: 50.0 e/Å2 / 詳細: One image per hole, focusing at each image. |
電子線 | 加速電圧: 300 kV / 電子線源: ![]() |
電子光学系 | 照射モード: FLOOD BEAM / 撮影モード: BRIGHT FIELD / Cs: 2.7 mm |
試料ステージ | 試料ホルダーモデル: FEI TITAN KRIOS AUTOGRID HOLDER ホルダー冷却材: NITROGEN |
実験機器 | ![]() モデル: Titan Krios / 画像提供: FEI Company |