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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 | human mitoribosomal large subunit assembly intermediate 1 with GTPBP10-GTPBP7 | |||||||||
マップデータ | full map, sharpened | |||||||||
試料 |
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キーワード | mitochondria / maturation / biogenesis / ribosome / GTPBP7 / GTPBP10 / GTP Binding Protein 10 / OBGH2 / MTG1 / LSU | |||||||||
| 機能・相同性 | 機能・相同性情報mitochondrial ribosomal large subunit rRNA binding / mRNA (cytidine-5-)-methyltransferase activity / rRNA modification in the mitochondrion / regulation of respiratory system process / mitochondrial RNA modification / mitochondrial RNA catabolic process / regulation of mitochondrial translation / negative regulation of mitochondrial translation / regulation of mitochondrial transcription / rRNA (cytosine-C5-)-methyltransferase activity ...mitochondrial ribosomal large subunit rRNA binding / mRNA (cytidine-5-)-methyltransferase activity / rRNA modification in the mitochondrion / regulation of respiratory system process / mitochondrial RNA modification / mitochondrial RNA catabolic process / regulation of mitochondrial translation / negative regulation of mitochondrial translation / regulation of mitochondrial transcription / rRNA (cytosine-C5-)-methyltransferase activity / protein-RNA adaptor activity / negative regulation of ribosome biogenesis / Mitochondrial Fatty Acid Beta-Oxidation / Protein lipoylation / positive regulation of mitochondrial translation / mitochondrial large ribosomal subunit assembly / Complex I biogenesis / RNA methyltransferase activity / Respiratory electron transport / rRNA methyltransferase activity / rRNA import into mitochondrion / RNA folding chaperone / mitochondrial translational termination / mitochondrial translational elongation / mitochondrial ribosome assembly / translation release factor activity, codon nonspecific / Mitochondrial translation elongation / Mitochondrial translation initiation / Mitochondrial ribosome-associated quality control / camera-type eye development / protein lipoylation / mitochondrial fission / iron-sulfur cluster assembly complex / Mitochondrial translation termination / peptidyl-tRNA hydrolase / mitochondrial large ribosomal subunit / mitochondrial large ribosomal subunit binding / mitochondrial [2Fe-2S] assembly complex / mitochondrial ribosome / rRNA methylation / mitochondrial small ribosomal subunit / peptidyl-tRNA hydrolase activity / mitochondrial translation / [2Fe-2S] cluster assembly / iron-sulfur cluster assembly / ribosomal large subunit binding / proton motive force-driven mitochondrial ATP synthesis / mitochondrial electron transport, NADH to ubiquinone / acyl binding / mitochondrial respiratory chain complex I assembly / respiratory chain complex I / anatomical structure morphogenesis / acyl carrier activity / RNA processing / Mitochondrial protein degradation / rescue of stalled cytosolic ribosome / 転移酵素; 一炭素原子の基を移すもの; メチル基を移すもの / aerobic respiration / fatty acid binding / cellular response to leukemia inhibitory factor / ribosomal large subunit biogenesis / methyltransferase activity / mitochondrial membrane / fibrillar center / fatty acid biosynthetic process / rRNA processing / cell junction / double-stranded RNA binding / chromosome / heart development / 5S rRNA binding / small ribosomal subunit rRNA binding / endonuclease activity / large ribosomal subunit rRNA binding / mitochondrial inner membrane / negative regulation of translation / rRNA binding / nuclear body / structural constituent of ribosome / ribosome / translation / mitochondrial matrix / ribonucleoprotein complex / protein domain specific binding / nucleotide binding / hydrolase activity / mRNA binding / GTPase activity / apoptotic process / calcium ion binding / GTP binding / nucleolus / structural molecule activity / magnesium ion binding / mitochondrion / : / RNA binding / nucleoplasm / nucleus / plasma membrane 類似検索 - 分子機能 | |||||||||
| 生物種 | Homo sapiens (ヒト) | |||||||||
| 手法 | 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 3.03 Å | |||||||||
データ登録者 | Kummer E / Nguyen TG / Ritter C | |||||||||
| 資金援助 | デンマーク, 1件
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引用 | ジャーナル: Nat Commun / 年: 2023タイトル: Structural insights into the role of GTPBP10 in the RNA maturation of the mitoribosome. 著者: Thu Giang Nguyen / Christina Ritter / Eva Kummer / ![]() 要旨: Mitochondria contain their own genetic information and a dedicated translation system to express it. The mitochondrial ribosome is assembled from mitochondrial-encoded RNA and nuclear-encoded ...Mitochondria contain their own genetic information and a dedicated translation system to express it. The mitochondrial ribosome is assembled from mitochondrial-encoded RNA and nuclear-encoded ribosomal proteins. Assembly is coordinated in the mitochondrial matrix by biogenesis factors that transiently associate with the maturing particle. Here, we present a structural snapshot of a large mitoribosomal subunit assembly intermediate containing 7 biogenesis factors including the GTPases GTPBP7 and GTPBP10. Our structure illustrates how GTPBP10 aids the folding of the ribosomal RNA during the biogenesis process, how this process is related to bacterial ribosome biogenesis, and why mitochondria require two biogenesis factors in contrast to only one in bacteria. | |||||||||
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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_17719.map.gz | 398.3 MB | EMDBマップデータ形式 | |
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| ヘッダ (付随情報) | emd-17719-v30.xml emd-17719.xml | 87.4 KB 87.4 KB | 表示 表示 | EMDBヘッダ |
| 画像 | emd_17719.png | 96.9 KB | ||
| マスクデータ | emd_17719_msk_1.map | 421.9 MB | マスクマップ | |
| Filedesc metadata | emd-17719.cif.gz | 18.4 KB | ||
| その他 | emd_17719_additional_1.map.gz emd_17719_half_map_1.map.gz emd_17719_half_map_2.map.gz | 212.1 MB 391.2 MB 391.3 MB | ||
| アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-17719 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-17719 | HTTPS FTP |
-関連構造データ
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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_17719.map.gz / 形式: CCP4 / 大きさ: 421.9 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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| 注釈 | full map, sharpened | ||||||||||||||||||||||||||||||||||||
| 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: 1.08 Å | ||||||||||||||||||||||||||||||||||||
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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_17719_msk_1.map | ||||||||||||
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| 密度ヒストグラム |
-追加マップ: full map, unsharpened
| ファイル | emd_17719_additional_1.map | ||||||||||||
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| 注釈 | full map, unsharpened | ||||||||||||
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| 密度ヒストグラム |
-ハーフマップ: #2
| ファイル | emd_17719_half_map_1.map | ||||||||||||
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| 密度ヒストグラム |
-ハーフマップ: #1
| ファイル | emd_17719_half_map_2.map | ||||||||||||
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試料の構成要素
+全体 : large mitoribosomal subunit biogenesis intermediate with GTPBP10,...
+超分子 #1: large mitoribosomal subunit biogenesis intermediate with GTPBP10,...
+分子 #1: 39S ribosomal protein L32, mitochondrial
+分子 #2: 39S ribosomal protein L22, mitochondrial
+分子 #3: Mitochondrial assembly of ribosomal large subunit protein 1
+分子 #4: 39S ribosomal protein L33, mitochondrial
+分子 #5: 39S ribosomal protein L23, mitochondrial
+分子 #6: MIEF1 upstream open reading frame protein
+分子 #7: 39S ribosomal protein L34, mitochondrial
+分子 #8: 39S ribosomal protein L24, mitochondrial
+分子 #9: Acyl carrier protein, mitochondrial
+分子 #10: 39S ribosomal protein L35, mitochondrial
+分子 #11: 39S ribosomal protein L27, mitochondrial
+分子 #12: 5-methylcytosine rRNA methyltransferase NSUN4
+分子 #13: 39S ribosomal protein L37, mitochondrial
+分子 #14: 39S ribosomal protein L28, mitochondrial
+分子 #15: Transcription termination factor 4, mitochondrial
+分子 #16: 39S ribosomal protein L38, mitochondrial
+分子 #17: 39S ribosomal protein L47, mitochondrial
+分子 #18: Mitochondrial ribosome-associated GTPase 1
+分子 #19: 39S ribosomal protein L39, mitochondrial
+分子 #20: 39S ribosomal protein L30, mitochondrial
+分子 #21: 39S ribosomal protein L40, mitochondrial
+分子 #22: 39S ribosomal protein L42, mitochondrial
+分子 #23: 39S ribosomal protein L41, mitochondrial
+分子 #24: Large ribosomal subunit protein mL43
+分子 #26: 39S ribosomal protein L44, mitochondrial
+分子 #28: 39S ribosomal protein L45, mitochondrial
+分子 #29: 39S ribosomal protein L2, mitochondrial
+分子 #30: 39S ribosomal protein L46, mitochondrial
+分子 #31: 39S ribosomal protein L3, mitochondrial
+分子 #32: 39S ribosomal protein L48, mitochondrial
+分子 #33: 39S ribosomal protein L4, mitochondrial
+分子 #34: 39S ribosomal protein L49, mitochondrial
+分子 #35: 39S ribosomal protein L9, mitochondrial
+分子 #36: 39S ribosomal protein L50, mitochondrial
+分子 #37: 39S ribosomal protein L10, mitochondrial
+分子 #38: 39S ribosomal protein L51, mitochondrial
+分子 #39: 39S ribosomal protein L11, mitochondrial
+分子 #40: 39S ribosomal protein L52, mitochondrial
+分子 #41: 39S ribosomal protein L13, mitochondrial
+分子 #42: 39S ribosomal protein L53, mitochondrial
+分子 #43: 39S ribosomal protein L14, mitochondrial
+分子 #44: 39S ribosomal protein L54, mitochondrial
+分子 #45: 39S ribosomal protein L15, mitochondrial
+分子 #46: 39S ribosomal protein L55, mitochondrial
+分子 #47: 39S ribosomal protein L16, mitochondrial
+分子 #48: Ribosomal protein 63, mitochondrial
+分子 #49: 39S ribosomal protein L17, mitochondrial
+分子 #50: Peptidyl-tRNA hydrolase ICT1, mitochondrial
+分子 #51: 39S ribosomal protein L18, mitochondrial
+分子 #52: Growth arrest and DNA damage-inducible proteins-interacting protein 1
+分子 #53: 39S ribosomal protein L19, mitochondrial
+分子 #54: 39S ribosomal protein S18a, mitochondrial
+分子 #55: 39S ribosomal protein L20, mitochondrial
+分子 #56: 39S ribosomal protein S30, mitochondrial
+分子 #57: 39S ribosomal protein L21, mitochondrial
+分子 #58: GTP-binding protein 10
+分子 #25: 16S rRNA + pre-H68-71 segment
+分子 #27: CP tRNA-Val
+分子 #59: ZINC ION
+分子 #60: S-(2-{[N-(2-HYDROXY-4-{[HYDROXY(OXIDO)PHOSPHINO]OXY}-3,3-DIMETHYL...
+分子 #61: S-ADENOSYLMETHIONINE
+分子 #62: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
+分子 #63: MAGNESIUM ION
+分子 #64: POTASSIUM ION
-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
| 緩衝液 | pH: 7.6 |
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| 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: FEI FALCON III (4k x 4k) 検出モード: INTEGRATING / 平均電子線量: 40.0 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: FLOOD BEAM / 撮影モード: BRIGHT FIELD / 最大 デフォーカス(公称値): 2.5 µm 最小 デフォーカス(公称値): 0.7000000000000001 µm |
| 実験機器 | ![]() モデル: Titan Krios / 画像提供: FEI Company |
ムービー
コントローラー
万見について




キーワード
Homo sapiens (ヒト)
データ登録者
デンマーク, 1件
引用




















Z (Sec.)
Y (Row.)
X (Col.)























































解析
FIELD EMISSION GUN

