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基本情報
登録情報 | ![]() | ||||||||||||||||||||||||
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タイトル | Structure of the CNOT3-bound human 80S ribosome with tRNA-ARG in the P-site. | ||||||||||||||||||||||||
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![]() | mRNA degradation / CCR4-NOT complex / tRNA / RIBOSOME | ||||||||||||||||||||||||
機能・相同性 | ![]() CCR4-NOT core complex / CCR4-NOT complex / regulation of stem cell population maintenance / nuclear-transcribed mRNA poly(A) tail shortening / trophectodermal cell differentiation / Deadenylation of mRNA / translation at presynapse / embryonic brain development / exit from mitosis / eukaryotic 80S initiation complex ...CCR4-NOT core complex / CCR4-NOT complex / regulation of stem cell population maintenance / nuclear-transcribed mRNA poly(A) tail shortening / trophectodermal cell differentiation / Deadenylation of mRNA / translation at presynapse / embryonic brain development / exit from mitosis / eukaryotic 80S initiation complex / negative regulation of protein neddylation / response to insecticide / optic nerve development / M-decay: degradation of maternal mRNAs by maternally stored factors / negative regulation of endoplasmic reticulum unfolded protein response / regulation of G1 to G0 transition / axial mesoderm development / oxidized pyrimidine DNA binding / response to TNF agonist / negative regulation of formation of translation preinitiation complex / positive regulation of base-excision repair / regulation of translation involved in cellular response to UV / ribosomal protein import into nucleus / positive regulation of respiratory burst involved in inflammatory response / positive regulation of intrinsic apoptotic signaling pathway in response to DNA damage / protein-DNA complex disassembly / positive regulation of gastrulation / regulation of adenylate cyclase-activating G protein-coupled receptor signaling pathway / 90S preribosome assembly / protein tyrosine kinase inhibitor activity / IRE1-RACK1-PP2A complex / positive regulation of endodeoxyribonuclease activity / nucleolus organization / regulatory ncRNA-mediated gene silencing / positive regulation of Golgi to plasma membrane protein transport / positive regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator / retinal ganglion cell axon guidance / TNFR1-mediated ceramide production / negative regulation of RNA splicing / negative regulation of DNA repair / GAIT complex / positive regulation of DNA damage response, signal transduction by p53 class mediator / TORC2 complex binding / alpha-beta T cell differentiation / G1 to G0 transition / supercoiled DNA binding / neural crest cell differentiation / TP53 regulates transcription of additional cell cycle genes whose exact role in the p53 pathway remain uncertain / positive regulation of ubiquitin-protein transferase activity / NF-kappaB complex / cysteine-type endopeptidase activator activity involved in apoptotic process / oxidized purine DNA binding / negative regulation of intrinsic apoptotic signaling pathway in response to hydrogen peroxide / negative regulation of bicellular tight junction assembly / regulation of establishment of cell polarity / ubiquitin-like protein conjugating enzyme binding / middle ear morphogenesis / negative regulation of phagocytosis / rRNA modification in the nucleus and cytosol / Formation of the ternary complex, and subsequently, the 43S complex / erythrocyte homeostasis / cytoplasmic side of rough endoplasmic reticulum membrane / laminin receptor activity / negative regulation of ubiquitin protein ligase activity / ion channel inhibitor activity / protein kinase A binding / pigmentation / Ribosomal scanning and start codon recognition / homeostatic process / Translation initiation complex formation / positive regulation of mitochondrial depolarization / macrophage chemotaxis / positive regulation of T cell receptor signaling pathway / fibroblast growth factor binding / negative regulation of Wnt signaling pathway / lung morphogenesis / monocyte chemotaxis / positive regulation of activated T cell proliferation / positive regulation of natural killer cell proliferation / negative regulation of translational frameshifting / Protein hydroxylation / TOR signaling / BH3 domain binding / regulation of cell division / SARS-CoV-1 modulates host translation machinery / mTORC1-mediated signalling / cellular response to ethanol / iron-sulfur cluster binding / Peptide chain elongation / Selenocysteine synthesis / Formation of a pool of free 40S subunits / positive regulation of intrinsic apoptotic signaling pathway by p53 class mediator / endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / Eukaryotic Translation Termination / ubiquitin ligase inhibitor activity / blastocyst development / cellular response to actinomycin D / Response of EIF2AK4 (GCN2) to amino acid deficiency / positive regulation of signal transduction by p53 class mediator / negative regulation of ubiquitin-dependent protein catabolic process 類似検索 - 分子機能 | ||||||||||||||||||||||||
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手法 | 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 2.0 Å | ||||||||||||||||||||||||
![]() | Erzberger JP / Cruz VE | ||||||||||||||||||||||||
資金援助 | ![]()
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![]() | ![]() タイトル: Specific tRNAs promote mRNA decay by recruiting the CCR4-NOT complex to translating ribosomes. 著者: Xiaoqiang Zhu / Victor Emmanuel Cruz / He Zhang / Jan P Erzberger / Joshua T Mendell / ![]() 要旨: The CCR4-NOT complex is a major regulator of eukaryotic messenger RNA (mRNA) stability. Slow decoding during translation promotes association of CCR4-NOT with ribosomes, accelerating mRNA degradation. ...The CCR4-NOT complex is a major regulator of eukaryotic messenger RNA (mRNA) stability. Slow decoding during translation promotes association of CCR4-NOT with ribosomes, accelerating mRNA degradation. We applied selective ribosome profiling to further investigate the determinants of CCR4-NOT recruitment to ribosomes in mammalian cells. This revealed that specific arginine codons in the P-site are strong signals for ribosomal recruitment of human CNOT3, a CCR4-NOT subunit. Cryo-electron microscopy and transfer RNA (tRNA) mutagenesis demonstrated that the D-arms of select arginine tRNAs interact with CNOT3 and promote its recruitment whereas other tRNA D-arms sterically clash with CNOT3. These effects link codon content to mRNA stability. Thus, in addition to their canonical decoding function, tRNAs directly engage regulatory complexes during translation, a mechanism we term P-site tRNA-mediated mRNA decay. | ||||||||||||||||||||||||
履歴 |
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構造の表示
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 | ![]() | 322 MB | ![]() | |
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ヘッダ (付随情報) | ![]() ![]() | 105.9 KB 105.9 KB | 表示 表示 | ![]() |
FSC (解像度算出) | ![]() | 15.7 KB | 表示 | ![]() |
画像 | ![]() | 152.6 KB | ||
Filedesc metadata | ![]() | 21.5 KB | ||
その他 | ![]() ![]() | 274.1 MB 274.7 MB | ||
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-検証レポート
文書・要旨 | ![]() | 1.1 MB | 表示 | ![]() |
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文書・詳細版 | ![]() | 1.1 MB | 表示 | |
XML形式データ | ![]() | 23.4 KB | 表示 | |
CIF形式データ | ![]() | 31.3 KB | 表示 | |
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 | ![]() 9c3hMC ![]() 9c3iC 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 ![]() |
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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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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: 0.936 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
-ハーフマップ: #1
ファイル | emd_45170_half_map_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: #2
ファイル | emd_45170_half_map_2.map | ||||||||||||
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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 : 80S ribosome in complex with CNOT3 and P-site tRNA ARG CCG-1
+超分子 #1: 80S ribosome in complex with CNOT3 and P-site tRNA ARG CCG-1
+分子 #1: 5.8S rRNA
+分子 #2: 28S rRNA
+分子 #4: 5S rRNA
+分子 #6: tRNA-ARG,CCG-1
+分子 #48: 18S rRNA
+分子 #49: mRNA
+分子 #3: Large ribosomal subunit protein uL18
+分子 #5: Large ribosomal subunit protein uL3
+分子 #7: Large ribosomal subunit protein uL4
+分子 #8: Large ribosomal subunit protein uL2
+分子 #9: Large ribosomal subunit protein uL24
+分子 #10: Large ribosomal subunit protein uL30
+分子 #11: Large ribosomal subunit protein eL8
+分子 #12: Large ribosomal subunit protein uL6
+分子 #13: Large ribosomal subunit protein eL32
+分子 #14: Large ribosomal subunit protein uL5
+分子 #15: Large ribosomal subunit protein eL6
+分子 #16: Large ribosomal subunit protein eL14
+分子 #17: Large ribosomal subunit protein eL15
+分子 #18: Large ribosomal subunit protein uL29
+分子 #19: Large ribosomal subunit protein eL37
+分子 #20: Large ribosomal subunit protein eL13
+分子 #21: Large ribosomal subunit protein eL19
+分子 #22: Large ribosomal subunit protein eL20
+分子 #23: Large ribosomal subunit protein eL21
+分子 #24: Large ribosomal subunit protein eL39
+分子 #25: Large ribosomal subunit protein uL14
+分子 #26: Large ribosomal subunit protein eL24
+分子 #27: Large ribosomal subunit protein uL13
+分子 #28: Large ribosomal subunit protein eL27
+分子 #29: Large ribosomal subunit protein uL15
+分子 #30: Large ribosomal subunit protein eL29
+分子 #31: Large ribosomal subunit protein eL30
+分子 #32: Large ribosomal subunit protein eL31
+分子 #33: Large ribosomal subunit protein eL42
+分子 #34: Large ribosomal subunit protein eL33
+分子 #35: Large ribosomal subunit protein eL34
+分子 #36: Large ribosomal subunit protein uL22
+分子 #37: Large ribosomal subunit protein eL36
+分子 #38: Large ribosomal subunit protein eL18
+分子 #39: Large ribosomal subunit protein eL38
+分子 #40: Large ribosomal subunit protein eL28
+分子 #41: Large ribosomal subunit protein eL22
+分子 #42: Large ribosomal subunit protein uL23
+分子 #43: Large ribosomal subunit protein eL40
+分子 #44: Large ribosomal subunit protein eL43
+分子 #45: Large ribosomal subunit protein uL16
+分子 #46: Nascent chain
+分子 #47: Small ribosomal subunit protein eS1
+分子 #50: Small ribosomal subunit protein uS2
+分子 #51: CCR4-NOT transcription complex subunit 3
+分子 #52: Small ribosomal subunit protein uS5
+分子 #53: Small ribosomal subunit protein uS7
+分子 #54: Small ribosomal subunit protein eS4, X isoform
+分子 #55: Small ribosomal subunit protein eS6
+分子 #56: Small ribosomal subunit protein eS7
+分子 #57: Small ribosomal subunit protein eS8
+分子 #58: Small ribosomal subunit protein uS4
+分子 #59: Small ribosomal subunit protein uS3
+分子 #60: Small ribosomal subunit protein uS17
+分子 #61: Small ribosomal subunit protein eS10
+分子 #62: Small ribosomal subunit protein uS15
+分子 #63: Small ribosomal subunit protein uS11
+分子 #64: Small ribosomal subunit protein uS19
+分子 #65: Small ribosomal subunit protein uS9
+分子 #66: Small ribosomal subunit protein eS17
+分子 #67: Small ribosomal subunit protein uS13
+分子 #68: Small ribosomal subunit protein eS19
+分子 #69: Small ribosomal subunit protein eS21
+分子 #70: Small ribosomal subunit protein uS8
+分子 #71: Small ribosomal subunit protein uS12
+分子 #72: Isoform 3 of Small ribosomal subunit protein eS24
+分子 #73: Small ribosomal subunit protein uS10
+分子 #74: Small ribosomal subunit protein eS26
+分子 #75: Small ribosomal subunit protein eS27
+分子 #76: Small ribosomal subunit protein eS25
+分子 #77: Small ribosomal subunit protein eS28
+分子 #78: FAU ubiquitin-like and ribosomal protein S30
+分子 #79: Small ribosomal subunit protein uS14
+分子 #80: Receptor of activated protein C kinase 1
+分子 #81: Small ribosomal subunit protein eS32
+分子 #82: Small ribosomal subunit protein eS12
+分子 #83: Ubiquitin-40S ribosomal protein S27a
+分子 #84: MAGNESIUM ION
+分子 #85: POTASSIUM ION
+分子 #86: 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HY...
+分子 #87: ZINC ION
+分子 #88: water
-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
緩衝液 | pH: 7.5 |
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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 IV (4k x 4k) 平均電子線量: 17.0 e/Å2 |
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 最大 デフォーカス(公称値): 1.9000000000000001 µm 最小 デフォーカス(公称値): 0.6 µm |
実験機器 | ![]() モデル: Titan Krios / 画像提供: FEI Company |