+データを開く
-基本情報
登録情報 | データベース: EMDB / ID: EMD-14479 | |||||||||
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タイトル | Cryo-EM structure of the ribosome-associated RAC complex on the 80S ribosome - RAC-1 conformation | |||||||||
マップデータ | ||||||||||
試料 |
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機能・相同性 | 機能・相同性情報 RNA polymerase I core factor complex / 'de novo' cotranslational protein folding / dolichyl-diphosphooligosaccharide-protein glycotransferase / dolichyl-diphosphooligosaccharide-protein glycotransferase activity / RNA polymerase I core promoter sequence-specific DNA binding / protein glycosylation / 90S preribosome / regulation of translational fidelity / translation regulator activity / maturation of LSU-rRNA ...RNA polymerase I core factor complex / 'de novo' cotranslational protein folding / dolichyl-diphosphooligosaccharide-protein glycotransferase / dolichyl-diphosphooligosaccharide-protein glycotransferase activity / RNA polymerase I core promoter sequence-specific DNA binding / protein glycosylation / 90S preribosome / regulation of translational fidelity / translation regulator activity / maturation of LSU-rRNA / Hsp70 protein binding / maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / rescue of stalled ribosome / maturation of SSU-rRNA / methyltransferase activity / small-subunit processome / protein kinase C binding / ATP-dependent protein folding chaperone / modification-dependent protein catabolic process / protein tag activity / rRNA processing / ribosomal small subunit biogenesis / small ribosomal subunit rRNA binding / large ribosomal subunit / ribosome biogenesis / ribosome binding / ribosomal small subunit assembly / small ribosomal subunit / 5S rRNA binding / large ribosomal subunit rRNA binding / cytosolic small ribosomal subunit / ribosomal large subunit assembly / cytoplasmic translation / cytosolic large ribosomal subunit / methylation / negative regulation of translation / rRNA binding / ribosome / protein ubiquitination / structural constituent of ribosome / ribonucleoprotein complex / positive regulation of protein phosphorylation / translation / mRNA binding / ubiquitin protein ligase binding / nucleolus / RNA binding / ATP binding / membrane / nucleus / metal ion binding / cytosol / cytoplasm 類似検索 - 分子機能 | |||||||||
生物種 | Chaetomium thermophilum var. thermophilum DSM 1495 (菌類) / Thermochaetoides thermophila DSM 1495 (菌類) | |||||||||
手法 | 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 3.2 Å | |||||||||
データ登録者 | Kisonaite M / Wild K / Sinning I | |||||||||
資金援助 | ドイツ, 1件
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引用 | ジャーナル: Nat Struct Mol Biol / 年: 2023 タイトル: Structural inventory of cotranslational protein folding by the eukaryotic RAC complex. 著者: Miglė Kišonaitė / Klemens Wild / Karine Lapouge / Genís Valentín Gesé / Nikola Kellner / Ed Hurt / Irmgard Sinning / 要旨: The challenge of nascent chain folding at the ribosome is met by the conserved ribosome-associated complex (RAC), which forms a chaperone triad with the Hsp70 protein Ssb in fungi, and consists of ...The challenge of nascent chain folding at the ribosome is met by the conserved ribosome-associated complex (RAC), which forms a chaperone triad with the Hsp70 protein Ssb in fungi, and consists of the non-canonical Hsp70 Ssz1 and the J domain protein Zuotin (Zuo1). Here we determine cryo-EM structures of Chaetomium thermophilum RAC bound to 80S ribosomes. RAC adopts two distinct conformations accommodating continuous ribosomal rotation by a flexible lever arm. It is held together by a tight interaction between the Ssz1 substrate-binding domain and the Zuo1 N terminus, and additional contacts between the Ssz1 nucleotide-binding domain and Zuo1 J- and Zuo1 homology domains, which form a rigid unit. The Zuo1 HPD motif conserved in J-proteins is masked in a non-canonical interaction by the Ssz1 nucleotide-binding domain, and allows the positioning of Ssb for activation by Zuo1. Overall, we provide the basis for understanding how RAC cooperates with Ssb in a dynamic nascent chain interaction and protein folding. | |||||||||
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 | emd_14479.map.gz | 406.7 MB | EMDBマップデータ形式 | |
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ヘッダ (付随情報) | emd-14479-v30.xml emd-14479.xml | 103.4 KB 103.4 KB | 表示 表示 | EMDBヘッダ |
FSC (解像度算出) | emd_14479_fsc.xml | 22.2 KB | 表示 | FSCデータファイル |
画像 | emd_14479.png | 143.7 KB | ||
その他 | emd_14479_additional_1.map.gz | 402.5 MB | ||
アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-14479 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-14479 | HTTPS FTP |
-検証レポート
文書・要旨 | emd_14479_validation.pdf.gz | 605.3 KB | 表示 | EMDB検証レポート |
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文書・詳細版 | emd_14479_full_validation.pdf.gz | 604.9 KB | 表示 | |
XML形式データ | emd_14479_validation.xml.gz | 16.3 KB | 表示 | |
CIF形式データ | emd_14479_validation.cif.gz | 22.3 KB | 表示 | |
アーカイブディレクトリ | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-14479 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-14479 | HTTPS FTP |
-関連構造データ
関連構造データ | 7z3nMC 7z3oC 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 (文献) |
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類似構造データ | 類似検索 - 機能・相同性F&H 検索 |
-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 |
-マップ
ファイル | ダウンロード / ファイル: emd_14479.map.gz / 形式: CCP4 / 大きさ: 437.9 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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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: 1.1 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
-追加マップ: This additional map has a better defined Zuo1...
ファイル | emd_14479_additional_1.map | ||||||||||||
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注釈 | This additional map has a better defined Zuo1 at the exit tunnel of 80S ribosome. | ||||||||||||
投影像・断面図 |
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密度ヒストグラム |
-試料の構成要素
+全体 : Chaetomium thermophilum RAC on 80S ribosome
+超分子 #1: Chaetomium thermophilum RAC on 80S ribosome
+分子 #1: 26S rRNA
+分子 #2: 18S rRNA
+分子 #3: 5S rRNA
+分子 #4: 5.8S rRNA
+分子 #5: Putative guanine nucleotide-binding protein
+分子 #6: HABP4_PAI-RBP1 domain-containing protein
+分子 #7: Putative ribosome associated protein
+分子 #8: Putative heat shock protein
+分子 #9: 60S ribosomal protein L2-like protein
+分子 #10: 60S ribosomal protein L3-like protein
+分子 #11: 60S ribosomal protein L4-like protein
+分子 #12: 60S ribosomal protein l5-like protein
+分子 #13: 60S ribosomal protein L6
+分子 #14: 60S ribosomal protein l7-like protein
+分子 #15: 60S ribosomal protein L8
+分子 #16: uL6
+分子 #17: 60S ribosomal protein L10-like protein
+分子 #18: Putative ribosomal protein
+分子 #19: 60S ribosomal protein L12-like protein
+分子 #20: 60S ribosomal protein L13
+分子 #21: 60S ribosomal protein L14-like protein
+分子 #22: Ribosomal protein L15
+分子 #23: 60S ribosomal protein L16-like protein
+分子 #24: 60S ribosomal protein l17-like protein
+分子 #25: Ribosomal protein L18-like protein
+分子 #26: Ribosomal protein L19
+分子 #27: 60S ribosomal protein L20
+分子 #28: 60S ribosomal protein l21-like protein
+分子 #29: 60S ribosomal protein L22-like protein
+分子 #30: 60S ribosomal protein l23-like protein
+分子 #31: eL24
+分子 #32: 60S ribosomal protein L25-like protein
+分子 #33: 60S ribosomal protein L26-like protein
+分子 #34: 60S ribosomal protein L27
+分子 #35: 60S ribosomal protein L28-like protein
+分子 #36: 60S ribosomal protein L29
+分子 #37: 60S ribosomal protein l30-like protein
+分子 #38: Putative 60S ribosomal protein
+分子 #39: 60S ribosomal protein L32-like protein
+分子 #40: 60S ribosomal protein l33-like protein
+分子 #41: Ribosomal protein l34-like protein
+分子 #42: Dolichyl-diphosphooligosaccharide--protein glycotransferase
+分子 #43: 60S ribosomal protein L36
+分子 #44: Ribosomal protein L37
+分子 #45: eL38
+分子 #46: Ribosomal protein eL39
+分子 #47: Putative ribosomal protein
+分子 #48: 60S ribosomal protein L41-A
+分子 #49: 60S ribosomal protein L44-like protein
+分子 #50: 60S ribosomal protein L43-like protein
+分子 #51: Putative 60S ribosomal protein
+分子 #52: 60S acidic ribosomal protein P0
+分子 #53: Nascent chain
+分子 #54: 40S ribosomal protein S0
+分子 #55: 40S ribosomal protein S1
+分子 #56: 40S ribosomal protein S2-like protein
+分子 #57: 40S ribosomal protein S3-like protein
+分子 #58: 40S ribosomal protein S4
+分子 #59: 40S ribosomal protein s5-like protein
+分子 #60: 40S ribosomal protein S6
+分子 #61: 40S ribosomal protein S7
+分子 #62: 40S ribosomal protein S8
+分子 #63: 40S ribosomal protein s9-like protein
+分子 #64: 40S ribosomal protein s10-like protein
+分子 #65: 40S ribosomal protein S11-like protein
+分子 #66: 40S ribosomal protein S12
+分子 #67: 40S ribosomal protein S13-like protein
+分子 #68: 40S ribosomal protein S14-like protein
+分子 #69: 40S ribosomal protein s15-like protein
+分子 #70: 40S ribosomal protein S16-like protein
+分子 #71: 40S ribosomal protein S17-like protein
+分子 #72: Putative ribosomal protein
+分子 #73: 40S ribosomal protein S19-like protein
+分子 #74: 40S ribosomal protein S20-like protein
+分子 #75: 40S ribosomal protein S21-like protein
+分子 #76: 40S ribosomal protein S22-like protein
+分子 #77: 40S ribosomal protein s23-like protein
+分子 #78: 40S ribosomal protein S24
+分子 #79: 40S ribosomal protein S25
+分子 #80: 40S ribosomal protein S26
+分子 #81: Ribosomal protein s27-like protein
+分子 #82: 40S ribosomal protein S28-like protein
+分子 #83: Ribosomal protein uS14
+分子 #84: 40S ribosomal protein S30
+分子 #85: 40S ribosomal protein S27a-like protein
+分子 #86: MAGNESIUM ION
+分子 #87: ADENOSINE-5'-TRIPHOSPHATE
+分子 #88: ZINC 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 |
-試料調製
緩衝液 | pH: 7.5 |
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凍結 | 凍結剤: ETHANE |
-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: 39.4 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 |
実験機器 | モデル: Titan Krios / 画像提供: FEI Company |