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データを開く
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基本情報
| 登録情報 | ![]() | |||||||||
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| タイトル | Respiratory complex CI:CIII2, type I, PERK -/- mouse under cold temperature | |||||||||
マップデータ | Cold Acclimated, PERK -/-, Type I of Respiratory Supercomplex CI:CIII2 | |||||||||
試料 |
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キーワード | Respiratory complex / Respiratory supercomplex / ELECTRON TRANSPORT | |||||||||
| 機能・相同性 | 機能・相同性情報response to D-galactosamine / Complex III assembly / Mitochondrial protein import / response to injury involved in regulation of muscle adaptation / Protein lipoylation / Mitochondrial Fatty Acid Beta-Oxidation / Complex I biogenesis / RHOG GTPase cycle / response to mercury ion / subthalamus development ...response to D-galactosamine / Complex III assembly / Mitochondrial protein import / response to injury involved in regulation of muscle adaptation / Protein lipoylation / Mitochondrial Fatty Acid Beta-Oxidation / Complex I biogenesis / RHOG GTPase cycle / response to mercury ion / subthalamus development / pons development / Respiratory electron transport / protein insertion into mitochondrial inner membrane / response to cobalamin / cerebellar Purkinje cell layer development / blastocyst hatching / mitochondrial respiratory chain complex III assembly / pyramidal neuron development / respiratory system process / response to alkaloid / psychomotor behavior / cellular respiration / thalamus development / Mitochondrial protein degradation / cellular response to oxygen levels / response to light intensity / mesenchymal stem cell proliferation / respiratory chain complex / reproductive system development / mitochondrial [2Fe-2S] assembly complex / iron-sulfur cluster assembly complex / mitochondrial large ribosomal subunit binding / gliogenesis / mesenchymal stem cell differentiation / circulatory system development / respiratory chain complex III / negative regulation of non-canonical NF-kappaB signal transduction / cardiac muscle tissue development / quinol-cytochrome-c reductase / neural precursor cell proliferation / [2Fe-2S] cluster assembly / response to glucagon / adult walking behavior / oxygen sensor activity / positive regulation of mitochondrial membrane potential / response to hydroperoxide / quinol-cytochrome-c reductase activity / cellular response to glucocorticoid stimulus / stem cell division / response to copper ion / mitochondrial electron transport, ubiquinol to cytochrome c / NADH dehydrogenase activity / iron-sulfur cluster assembly / hypothalamus development / midbrain development / electron transport coupled proton transport / mitochondrial ATP synthesis coupled electron transport / dopamine metabolic process / NADH:ubiquinone reductase (H+-translocating) / adult behavior / positive regulation of ATP biosynthetic process / mitochondrial respiratory chain complex I assembly / mitochondrial electron transport, NADH to ubiquinone / proton motive force-driven mitochondrial ATP synthesis / respiratory chain complex I / positive regulation of execution phase of apoptosis / animal organ regeneration / response to hyperoxia / NADH dehydrogenase (ubiquinone) activity / response to cadmium ion / neuron development / quinone binding / cellular response to interferon-beta / ATP synthesis coupled electron transport / response to hormone / negative regulation of reactive oxygen species biosynthetic process / extrinsic apoptotic signaling pathway / cellular response to retinoic acid / tricarboxylic acid cycle / neurogenesis / Neutrophil degranulation / visual perception / muscle contraction / reactive oxygen species metabolic process / aerobic respiration / cerebellum development / response to activity / regulation of mitochondrial membrane potential / respiratory electron transport chain / response to nicotine / response to cocaine / mitochondrion organization / hippocampus development / DNA damage response, signal transduction by p53 class mediator / kidney development / response to hydrogen peroxide / sensory perception of sound / monooxygenase activity / fatty acid metabolic process / electron transport chain 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: 6.3 Å | |||||||||
データ登録者 | Shin Y-C / Liao M | |||||||||
| 資金援助 | 米国, 2件
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引用 | ジャーナル: Cell / 年: 2024タイトル: Structural basis of respiratory complex adaptation to cold temperatures. 著者: Young-Cheul Shin / Pedro Latorre-Muro / Amina Djurabekova / Oleksii Zdorevskyi / Christopher F Bennett / Nils Burger / Kangkang Song / Chen Xu / Joao A Paulo / Steven P Gygi / Vivek Sharma / ...著者: Young-Cheul Shin / Pedro Latorre-Muro / Amina Djurabekova / Oleksii Zdorevskyi / Christopher F Bennett / Nils Burger / Kangkang Song / Chen Xu / Joao A Paulo / Steven P Gygi / Vivek Sharma / Maofu Liao / Pere Puigserver / ![]() 要旨: In response to cold, mammals activate brown fat for respiratory-dependent thermogenesis reliant on the electron transport chain. Yet, the structural basis of respiratory complex adaptation upon cold ...In response to cold, mammals activate brown fat for respiratory-dependent thermogenesis reliant on the electron transport chain. Yet, the structural basis of respiratory complex adaptation upon cold exposure remains elusive. Herein, we combined thermoregulatory physiology and cryoelectron microscopy (cryo-EM) to study endogenous respiratory supercomplexes from mice exposed to different temperatures. A cold-induced conformation of CI:III (termed type 2) supercomplex was identified with a ∼25° rotation of CIII around its inter-dimer axis, shortening inter-complex Q exchange space, and exhibiting catalytic states that favor electron transfer. Large-scale supercomplex simulations in mitochondrial membranes reveal how lipid-protein arrangements stabilize type 2 complexes to enhance catalytic activity. Together, our cryo-EM studies, multiscale simulations, and biochemical analyses unveil the thermoregulatory mechanisms and dynamics of increased respiratory capacity in brown fat at the structural and energetic level. | |||||||||
| 履歴 |
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構造の表示
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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 | emd_35352.map.gz | 458.9 MB | EMDBマップデータ形式 | |
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| ヘッダ (付随情報) | emd-35352-v30.xml emd-35352.xml | 77.4 KB 77.4 KB | 表示 表示 | EMDBヘッダ |
| FSC (解像度算出) | emd_35352_fsc.xml | 18.3 KB | 表示 | FSCデータファイル |
| 画像 | emd_35352.png | 189.3 KB | ||
| マスクデータ | emd_35352_msk_1.map | 512 MB | マスクマップ | |
| Filedesc metadata | emd-35352.cif.gz | 15.9 KB | ||
| その他 | emd_35352_half_map_1.map.gz emd_35352_half_map_2.map.gz | 444.7 MB 444.8 MB | ||
| アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-35352 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-35352 | HTTPS FTP |
-検証レポート
| 文書・要旨 | emd_35352_validation.pdf.gz | 1.2 MB | 表示 | EMDB検証レポート |
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| 文書・詳細版 | emd_35352_full_validation.pdf.gz | 1.2 MB | 表示 | |
| XML形式データ | emd_35352_validation.xml.gz | 25.3 KB | 表示 | |
| CIF形式データ | emd_35352_validation.cif.gz | 33.8 KB | 表示 | |
| アーカイブディレクトリ | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-35352 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-35352 | HTTPS FTP |
-関連構造データ
| 関連構造データ | ![]() 8ic2MC ![]() 8iaoC ![]() 8iapC ![]() 8iaqC ![]() 8iarC ![]() 8ib4C ![]() 8ib5C ![]() 8ib6C ![]() 8ib7C ![]() 8ib9C ![]() 8ibaC ![]() 8ibbC ![]() 8ibcC ![]() 8ibdC ![]() 8ibeC ![]() 8ibfC ![]() 8ibgC ![]() 8ic3C ![]() 8ic4C ![]() 8ic5C ![]() 8xnlC ![]() 8xnmC ![]() 8xnnC ![]() 8xnoC ![]() 8xnpC ![]() 8xnqC ![]() 8xnrC ![]() 8xnsC ![]() 8xntC ![]() 8xnuC ![]() 8xnvC ![]() 8xnwC ![]() 8xnxC ![]() 8xnyC ![]() 8xnzC ![]() 8xo0C M: このマップから作成された原子モデル C: 同じ文献を引用 ( |
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| 類似構造データ | 類似検索 - 機能・相同性 F&H 検索 |
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リンク
| EMDBのページ | EMDB (EBI/PDBe) / EMDataResource |
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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 | ダウンロード / ファイル: emd_35352.map.gz / 形式: CCP4 / 大きさ: 512 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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| 注釈 | Cold Acclimated, PERK -/-, Type I of Respiratory Supercomplex CI:CIII2 | ||||||||||||||||||||||||||||||||||||
| 投影像・断面図 | 画像のコントロール
画像は Spider により作成 | ||||||||||||||||||||||||||||||||||||
| ボクセルのサイズ | X=Y=Z: 0.83 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
-マスク #1
| ファイル | emd_35352_msk_1.map | ||||||||||||
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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: Cold Acclimated, PERK -/-, Type I of Respiratory...
| ファイル | emd_35352_half_map_1.map | ||||||||||||
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| 注釈 | Cold Acclimated, PERK -/-, Type I of Respiratory Supercomplex CI:CIII2 | ||||||||||||
| 投影像・断面図 |
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| 密度ヒストグラム |
-ハーフマップ: Cold Acclimated, PERK -/-, Type I of Respiratory...
| ファイル | emd_35352_half_map_2.map | ||||||||||||
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| 注釈 | Cold Acclimated, PERK -/-, Type I of Respiratory Supercomplex CI:CIII2 | ||||||||||||
| 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 : Respiratory Supercomplex CI:CIII2
+超分子 #1: Respiratory Supercomplex CI:CIII2
+分子 #1: NADH-ubiquinone oxidoreductase chain 3
+分子 #2: NADH dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial
+分子 #3: NADH dehydrogenase [ubiquinone] iron-sulfur protein 3, mitochondrial
+分子 #4: NADH dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial
+分子 #5: NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial
+分子 #6: NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial
+分子 #7: NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial
+分子 #8: NADH-ubiquinone oxidoreductase chain 1
+分子 #9: NADH dehydrogenase [ubiquinone] iron-sulfur protein 8, mitochondrial
+分子 #10: NADH-ubiquinone oxidoreductase chain 6
+分子 #11: NADH-ubiquinone oxidoreductase chain 4L
+分子 #12: NADH-ubiquinone oxidoreductase chain 5
+分子 #13: NADH-ubiquinone oxidoreductase chain 4
+分子 #14: NADH-ubiquinone oxidoreductase chain 2
+分子 #15: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mi...
+分子 #16: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mit...
+分子 #17: NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial
+分子 #18: NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial
+分子 #19: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2
+分子 #20: Acyl carrier protein, mitochondrial
+分子 #21: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5
+分子 #22: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6
+分子 #23: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8
+分子 #24: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11
+分子 #25: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13
+分子 #26: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1
+分子 #27: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3
+分子 #28: NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial
+分子 #29: NADH dehydrogenase [ubiquinone] 1 subunit C2
+分子 #30: NADH dehydrogenase [ubiquinone] iron-sulfur protein 5
+分子 #31: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1
+分子 #32: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mit...
+分子 #33: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mito...
+分子 #34: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6
+分子 #35: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, mito...
+分子 #36: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3
+分子 #37: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mito...
+分子 #38: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4
+分子 #39: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9
+分子 #40: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7
+分子 #41: NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10
+分子 #42: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12
+分子 #43: NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7
+分子 #44: NADH dehydrogenase [ubiquinone] flavoprotein 3, mitochondrial
+分子 #45: Cytochrome b-c1 complex subunit 1, mitochondrial
+分子 #46: Cytochrome b-c1 complex subunit 2, mitochondrial
+分子 #47: Cytochrome b
+分子 #48: Cytochrome c1, heme protein, mitochondrial
+分子 #49: Cytochrome b-c1 complex subunit Rieske, mitochondrial
+分子 #50: Cytochrome b-c1 complex subunit 7
+分子 #51: Cytochrome b-c1 complex subunit 8
+分子 #52: Cytochrome b-c1 complex subunit 6, mitochondrial
+分子 #53: Cytochrome b-c1 complex subunit 9
+分子 #54: Cytochrome b-c1 complex subunit 10
+分子 #55: IRON/SULFUR CLUSTER
+分子 #56: UBIQUINONE-1
+分子 #57: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE
+分子 #58: 1,2-Distearoyl-sn-glycerophosphoethanolamine
+分子 #59: FE2/S2 (INORGANIC) CLUSTER
+分子 #60: FLAVIN MONONUCLEOTIDE
+分子 #61: Ubiquinone-9
+分子 #62: CARDIOLIPIN
+分子 #63: ZINC ION
+分子 #64: ADENOSINE-5'-DIPHOSPHATE
+分子 #65: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
+分子 #66: ~{S}-[2-[3-[[(2~{R})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butan...
+分子 #67: PROTOPORPHYRIN IX CONTAINING FE
+分子 #68: 5-(3,7,11,15,19,23-HEXAMETHYL-TETRACOSA-2,6,10,14,18,22-HEXAENYL)...
+分子 #69: HEME C
+分子 #70: UBIQUINONE-10
-実験情報
-構造解析
| 手法 | クライオ電子顕微鏡法 |
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解析 | 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 | 0.33 mg/mL |
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| 緩衝液 | pH: 8 |
| 凍結 | 凍結剤: ETHANE |
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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 (6k x 4k) / 平均電子線量: 50.2 e/Å2 |
| 電子線 | 加速電圧: 300 kV / 電子線源: FIELD EMISSION GUN |
| 電子光学系 | 照射モード: OTHER / 撮影モード: OTHER / 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 |
| 実験機器 | ![]() モデル: Titan Krios / 画像提供: FEI Company |
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コントローラー
万見について




キーワード
データ登録者
米国, 2件
引用
































































































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Y (Row.)
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解析
FIELD EMISSION GUN

