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基本情報
登録情報 | ![]() | |||||||||
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タイトル | A respirasome from murine liver | |||||||||
![]() | composite map, used to build the model | |||||||||
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![]() | Respiratory chain super complex / mammalian mitochondria / MEMBRANE PROTEIN | |||||||||
機能・相同性 | ![]() Complex IV assembly / response to D-galactosamine / Complex III assembly / TP53 Regulates Metabolic Genes / subthalamus development / pons development / Mitochondrial protein import / response to injury involved in regulation of muscle adaptation / mesenchymal stem cell proliferation / reproductive system development ...Complex IV assembly / response to D-galactosamine / Complex III assembly / TP53 Regulates Metabolic Genes / subthalamus development / pons development / Mitochondrial protein import / response to injury involved in regulation of muscle adaptation / mesenchymal stem cell proliferation / reproductive system development / cerebellar Purkinje cell layer development / Protein lipoylation / Mitochondrial Fatty Acid Beta-Oxidation / Complex I biogenesis / respiratory chain complex IV assembly / RHOG GTPase cycle / response to mercury ion / Respiratory electron transport / Cytoprotection by HMOX1 / protein insertion into mitochondrial inner membrane / mesenchymal stem cell differentiation / circulatory system development / pyramidal neuron development / blastocyst hatching / thalamus development / mitochondrial respiratory chain complex III assembly / aerobic electron transport chain / respiratory system process / respiratory chain complex IV / psychomotor behavior / cellular respiration / Mitochondrial protein degradation / cellular response to oxygen levels / stem cell division / respiratory chain complex / response to light intensity / mitochondrial [2Fe-2S] assembly complex / iron-sulfur cluster assembly complex / mitochondrial large ribosomal subunit binding / response to copper ion / gliogenesis / response to alkaloid / cytochrome-c oxidase / respiratory chain complex III / oxidative phosphorylation / negative regulation of non-canonical NF-kappaB signal transduction / response to glucagon / cardiac muscle tissue development / neural precursor cell proliferation / quinol-cytochrome-c reductase / positive regulation of mitochondrial membrane potential / [2Fe-2S] cluster assembly / mitochondrial electron transport, cytochrome c to oxygen / adult walking behavior / cellular response to glucocorticoid stimulus / oxygen sensor activity / quinol-cytochrome-c reductase activity / response to hydroperoxide / cytochrome-c oxidase activity / mitochondrial electron transport, ubiquinol to cytochrome c / hypothalamus development / iron-sulfur cluster assembly / positive regulation of ATP biosynthetic process / midbrain development / response to cobalamin / electron transport coupled proton transport / dopamine metabolic process / adult behavior / NADH:ubiquinone reductase (H+-translocating) / mitochondrial respiratory chain complex I assembly / positive regulation of execution phase of apoptosis / mitochondrial electron transport, NADH to ubiquinone / NADH dehydrogenase activity / proton motive force-driven mitochondrial ATP synthesis / respiratory chain complex I / response to hyperoxia / NADH dehydrogenase (ubiquinone) activity / neuron development / animal organ regeneration / quinone binding / response to electrical stimulus / cellular response to interferon-beta / response to cadmium ion / ATP synthesis coupled electron transport / cellular response to retinoic acid / negative regulation of reactive oxygen species biosynthetic process / extrinsic apoptotic signaling pathway / neurogenesis / response to hormone / tricarboxylic acid cycle / muscle contraction / lactation / Neutrophil degranulation / visual perception / cerebellum development / reactive oxygen species metabolic process / DNA damage response, signal transduction by p53 class mediator / aerobic respiration / regulation of mitochondrial membrane potential / hippocampus development 類似検索 - 分子機能 | |||||||||
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: 3.5 Å | |||||||||
![]() | Vercellino I / Sazanov LA | |||||||||
資金援助 | European Union, 1件
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![]() | ![]() タイトル: SCAF1 drives the compositional diversity of mammalian respirasomes. 著者: Irene Vercellino / Leonid A Sazanov / ![]() ![]() 要旨: Supercomplexes of the respiratory chain are established constituents of the oxidative phosphorylation system, but their role in mammalian metabolism has been hotly debated. Although recent studies ...Supercomplexes of the respiratory chain are established constituents of the oxidative phosphorylation system, but their role in mammalian metabolism has been hotly debated. Although recent studies have shown that different tissues/organs are equipped with specific sets of supercomplexes, depending on their metabolic needs, the notion that supercomplexes have a role in the regulation of metabolism has been challenged. However, irrespective of the mechanistic conclusions, the composition of various high molecular weight supercomplexes remains uncertain. Here, using cryogenic electron microscopy, we demonstrate that mammalian (mouse) tissues contain three defined types of 'respirasome', supercomplexes made of CI, CIII and CIV. The stoichiometry and position of CIV differs in the three respirasomes, of which only one contains the supercomplex-associated factor SCAF1, whose involvement in respirasome formation has long been contended. Our structures confirm that the 'canonical' respirasome (the C-respirasome, CICIIICIV) does not contain SCAF1, which is instead associated to a different respirasome (the CS-respirasome), containing a second copy of CIV. We also identify an alternative respirasome (A-respirasome), with CIV bound to the 'back' of CI, instead of the 'toe'. This structural characterization of mouse mitochondrial supercomplexes allows us to hypothesize a mechanistic basis for their specific role in different metabolic conditions. #1: ![]() 年: 2018 タイトル: Real-space refinement in PHENIX for cryo-EM and crystallography 著者: Afonine PV / Adams PD | |||||||||
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マップデータ | ![]() | 11.3 MB | ![]() | |
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ヘッダ (付随情報) | ![]() ![]() | 92.9 KB 92.9 KB | 表示 表示 | ![]() |
FSC (解像度算出) | ![]() | 21.2 KB | 表示 | ![]() |
画像 | ![]() | 42.5 KB | ||
Filedesc metadata | ![]() | 18.8 KB | ||
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 | ![]() 8pw7MC ![]() 8pw5C ![]() 8pw6C ![]() 8rgpC ![]() 8rgqC ![]() 8rgrC ![]() 8rgtC C: 同じ文献を引用 ( M: このマップから作成された原子モデル |
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類似構造データ | 類似検索 - 機能・相同性 ![]() |
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リンク
EMDBのページ | ![]() ![]() |
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「今月の分子」の関連する項目 |
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マップ
ファイル | ![]() | ||||||||||||||||||||||||||||||||||||
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注釈 | composite map, used to build the model | ||||||||||||||||||||||||||||||||||||
投影像・断面図 | 画像のコントロール
画像は Spider により作成 これらの図は立方格子座標系で作成されたものです | ||||||||||||||||||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 1.06 Å | ||||||||||||||||||||||||||||||||||||
密度 |
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対称性 | 空間群: 1 | ||||||||||||||||||||||||||||||||||||
詳細 | EMDB XML:
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-添付データ
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試料の構成要素
+全体 : A respirasome from murine liver
+超分子 #1: A respirasome from murine liver
+分子 #1: Cytochrome c oxidase subunit 1
+分子 #2: Cytochrome c oxidase subunit 2
+分子 #3: Cytochrome c oxidase subunit 3
+分子 #4: Cytochrome c oxidase subunit 4 isoform 1, mitochondrial
+分子 #5: Cytochrome c oxidase subunit 5A, mitochondrial
+分子 #6: Cytochrome c oxidase subunit 5B, mitochondrial
+分子 #7: Cytochrome c oxidase subunit 6A1, mitochondrial
+分子 #8: Cytochrome c oxidase subunit 6B1
+分子 #9: Cytochrome c oxidase subunit 6C
+分子 #10: Cytochrome c oxidase subunit 7B, mitochondrial
+分子 #11: Cytochrome c oxidase subunit 7C, mitochondrial
+分子 #12: Cytochrome c oxidase subunit 7A2, mitochondrial
+分子 #13: Cytochrome b-c1 complex subunit 1, mitochondrial
+分子 #14: Cytochrome b-c1 complex subunit 2, mitochondrial
+分子 #15: Cytochrome b
+分子 #16: Cytochrome c1, heme protein, mitochondrial
+分子 #17: Cytochrome b-c1 complex subunit Rieske, mitochondrial
+分子 #18: Cytochrome b-c1 complex subunit 7
+分子 #19: Cytochrome b-c1 complex subunit 8
+分子 #20: Cytochrome b-c1 complex subunit 6, mitochondrial
+分子 #21: Cytochrome b-c1 complex subunit 9
+分子 #22: Cytochrome b-c1 complex subunit 10
+分子 #23: NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial
+分子 #24: NADH dehydrogenase [ubiquinone] iron-sulfur protein 3, mitochondrial
+分子 #25: NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial
+分子 #26: NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial
+分子 #27: NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial
+分子 #28: NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial
+分子 #29: NADH dehydrogenase [ubiquinone] iron-sulfur protein 8, mitochondrial
+分子 #30: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mit...
+分子 #31: NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial
+分子 #32: NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial
+分子 #33: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2
+分子 #34: Acyl carrier protein, mitochondrial
+分子 #35: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5
+分子 #36: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6
+分子 #37: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12
+分子 #38: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7
+分子 #39: NADH dehydrogenase [ubiquinone] flavoprotein 3, mitochondrial
+分子 #40: NADH-ubiquinone oxidoreductase chain 3
+分子 #41: NADH-ubiquinone oxidoreductase chain 1
+分子 #42: NADH-ubiquinone oxidoreductase chain 6
+分子 #43: NADH-ubiquinone oxidoreductase chain 4L
+分子 #44: NADH-ubiquinone oxidoreductase chain 5
+分子 #45: NADH-ubiquinone oxidoreductase chain 4
+分子 #46: NADH-ubiquinone oxidoreductase chain 2
+分子 #47: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mi...
+分子 #48: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8
+分子 #49: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11
+分子 #50: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13
+分子 #51: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1
+分子 #52: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3
+分子 #53: NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial
+分子 #54: NADH dehydrogenase [ubiquinone] 1 subunit C2
+分子 #55: NADH dehydrogenase [ubiquinone] iron-sulfur protein 5
+分子 #56: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1
+分子 #57: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mit...
+分子 #58: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mito...
+分子 #59: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6
+分子 #60: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, mito...
+分子 #61: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3
+分子 #62: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mito...
+分子 #63: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4
+分子 #64: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9
+分子 #65: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7
+分子 #66: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10
+分子 #67: Cytochrome c oxidase subunit 8A, mitochondrial
+分子 #68: COPPER (II) ION
+分子 #69: SODIUM ION
+分子 #70: HEME-A
+分子 #71: 1,2-Distearoyl-sn-glycerophosphoethanolamine
+分子 #72: MAGNESIUM ION
+分子 #73: DINUCLEAR COPPER ION
+分子 #74: ZINC ION
+分子 #75: TRISTEAROYLGLYCEROL
+分子 #76: CARDIOLIPIN
+分子 #77: PROTOPORPHYRIN IX CONTAINING FE
+分子 #78: HEME C
+分子 #79: FE2/S2 (INORGANIC) CLUSTER
+分子 #80: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE
+分子 #81: IRON/SULFUR CLUSTER
+分子 #82: FLAVIN MONONUCLEOTIDE
+分子 #83: POTASSIUM ION
+分子 #84: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
+分子 #85: S-[2-({N-[(2S)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-b...
+分子 #86: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE
-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 | 0.3 mg/mL | ||||||||||||
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緩衝液 | pH: 7.7 構成要素:
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グリッド | モデル: Quantifoil R0.6/1 / 材質: COPPER / 支持フィルム - 材質: CARBON / 支持フィルム - トポロジー: CONTINUOUS / 支持フィルム - Film thickness: 1 / 前処理 - タイプ: GLOW DISCHARGE / 前処理 - 時間: 5 sec. | ||||||||||||
凍結 | 凍結剤: ETHANE / チャンバー内湿度: 100 % / チャンバー内温度: 277.15 K / 装置: FEI VITROBOT MARK IV |
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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 K3 BIOQUANTUM (6k x 4k) 撮影したグリッド数: 1 / 実像数: 9453 / 平均露光時間: 4.4 sec. / 平均電子線量: 80.0 e/Å2 |
電子線 | 加速電圧: 300 kV / 電子線源: ![]() |
電子光学系 | C2レンズ絞り径: 50.0 µm / 最大 デフォーカス(補正後): 2.5 µm / 最小 デフォーカス(補正後): 0.5 µm / 照射モード: FLOOD BEAM / 撮影モード: BRIGHT FIELD / Cs: 2.7 mm / 最大 デフォーカス(公称値): 2.0 µm / 最小 デフォーカス(公称値): 1.0 µm / 倍率(公称値): 81000 |
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 |