+データを開く
-基本情報
登録情報 | データベース: EMDB / ID: EMD-11893 | |||||||||||||||
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タイトル | 43S preinitiation complex from Trypanosoma cruzi with the kDDX60 helicase | |||||||||||||||
マップデータ | ||||||||||||||||
試料 |
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機能・相同性 | 機能・相同性情報 : / eukaryotic translation initiation factor 3 complex, eIF3e / eukaryotic translation initiation factor 3 complex / eukaryotic 43S preinitiation complex / formation of cytoplasmic translation initiation complex / eukaryotic 48S preinitiation complex / regulation of translational initiation / translation regulator activity / translation initiation factor binding / translation initiation factor activity ...: / eukaryotic translation initiation factor 3 complex, eIF3e / eukaryotic translation initiation factor 3 complex / eukaryotic 43S preinitiation complex / formation of cytoplasmic translation initiation complex / eukaryotic 48S preinitiation complex / regulation of translational initiation / translation regulator activity / translation initiation factor binding / translation initiation factor activity / metallopeptidase activity / ribosomal small subunit assembly / ribosome binding / kinase activity / small ribosomal subunit / cytosolic small ribosomal subunit / tRNA binding / nucleic acid binding / membrane => GO:0016020 / rRNA binding / リボソーム / structural constituent of ribosome / ribonucleoprotein complex / 翻訳 (生物学) / リン酸化 / GTPase activity / GTP binding / RNA binding / zinc ion binding / ATP binding / metal ion binding / 細胞質 類似検索 - 分子機能 | |||||||||||||||
生物種 | Trypanosoma cruzi (クルーズトリパノソーマ) | |||||||||||||||
手法 | 単粒子再構成法 / クライオ電子顕微鏡法 / 解像度: 3.33 Å | |||||||||||||||
データ登録者 | Bochler A / Brito Querido J / Prilepskaja T / Soufari H / Del Cistia ML / Kuhn L / Rimoldi Ribeiro A / Valasek LS / Hashem Y | |||||||||||||||
資金援助 | フランス, チェコ, 4件
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引用 | ジャーナル: Cell Rep / 年: 2020 タイトル: Structural Differences in Translation Initiation between Pathogenic Trypanosomatids and Their Mammalian Hosts. 著者: Anthony Bochler / Jailson Brito Querido / Terezie Prilepskaja / Heddy Soufari / Angelita Simonetti / Mayara Lucia Del Cistia / Lauriane Kuhn / Aline Rimoldi Ribeiro / Leoš Shivaya Valášek / Yaser Hashem / 要旨: Canonical mRNA translation in eukaryotes begins with the formation of the 43S pre-initiation complex (PIC). Its assembly requires binding of initiator Met-tRNA and several eukaryotic initiation ...Canonical mRNA translation in eukaryotes begins with the formation of the 43S pre-initiation complex (PIC). Its assembly requires binding of initiator Met-tRNA and several eukaryotic initiation factors (eIFs) to the small ribosomal subunit (40S). Compared to their mammalian hosts, trypanosomatids present significant structural differences in their 40S, suggesting substantial variability in translation initiation. Here, we determine the structure of the 43S PIC from Trypanosoma cruzi, the parasite causing Chagas disease. Our structure shows numerous specific features, such as the variant eIF3 structure and its unique interactions with the large rRNA expansion segments (ESs) 9, 7, and 6, and the association of a kinetoplastid-specific DDX60-like helicase. It also reveals the 40S-binding site of the eIF5 C-terminal domain and structures of key terminal tails of several conserved eIFs underlying their activities within the PIC. Our results are corroborated by glutathione S-transferase (GST) pull-down assays in both human and T. cruzi and mass spectrometry data. | |||||||||||||||
履歴 |
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-構造の表示
ムービー |
ムービービューア |
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構造ビューア | EMマップ: SurfViewMolmilJmol/JSmol |
添付画像 |
-ダウンロードとリンク
-EMDBアーカイブ
マップデータ | emd_11893.map.gz | 228.3 MB | EMDBマップデータ形式 | |
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ヘッダ (付随情報) | emd-11893-v30.xml emd-11893.xml | 66.1 KB 66.1 KB | 表示 表示 | EMDBヘッダ |
画像 | emd_11893.png | 77.8 KB | ||
アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-11893 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-11893 | HTTPS FTP |
-関連構造データ
-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_11893.map.gz / 形式: CCP4 / 大きさ: 244.1 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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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:
CCP4マップ ヘッダ情報:
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-添付データ
-試料の構成要素
+全体 : 43S preinitiation complex from Trypanosoma cruzi with the helicas...
+超分子 #1: 43S preinitiation complex from Trypanosoma cruzi with the helicas...
+分子 #1: kDDX60
+分子 #4: 40S ribosomal protein S24
+分子 #5: Elongation initiation factor 2 alpha subunit, putative
+分子 #6: 60S ribosomal protein L40
+分子 #7: Translation initiation factor, putative
+分子 #8: Guanine nucleotide-binding protein subunit beta-like protein
+分子 #9: 40S ribosomal protein S16, putative
+分子 #10: 40S ribosomal protein S18, putative
+分子 #11: 40S ribosomal protein S23, putative
+分子 #12: 40S ribosomal protein S8
+分子 #13: 40S ribosomal protein S5, putative
+分子 #14: 40S ribosomal protein S7
+分子 #15: 40S ribosomal protein S13, putative
+分子 #16: 40S ribosomal protein S27, putative
+分子 #17: 40S ribosomal protein S26
+分子 #18: 40S ribosomal protein S33
+分子 #19: 40S ribosomal protein S14, putative
+分子 #20: 40S ribosomal protein S11, putative
+分子 #21: Putative 40S ribosomal protein S9
+分子 #22: 40S ribosomal protein SA
+分子 #23: 40S ribosomal protein S2, putative
+分子 #24: Putative 40S ribosomal protein S21
+分子 #25: 40S ribosomal protein S25
+分子 #26: RNA-binding protein, putative
+分子 #27: 40S ribosomal protein S12
+分子 #28: Eukaryotic translation initiation factor 2 subunit, putative
+分子 #29: 40S ribosomal protein S6
+分子 #30: 40S ribosomal protein S17, putative
+分子 #31: Ribosomal protein S20, putative
+分子 #32: 40S ribosomal protein S3, putative
+分子 #33: 40S ribosomal protein S10, putative
+分子 #34: Ribosomal protein S19, putative
+分子 #35: 40S ribosomal protein S15a, putative
+分子 #36: 40S ribosomal protein S30
+分子 #37: Protein translation factor SUI1 homolog, putative
+分子 #38: Putative eukaryotic translation initiation factor 1A
+分子 #39: Eukaryotic translation initiation factor 3 subunit E
+分子 #40: Eukaryotic translation initiation factor 5, putative
+分子 #41: Ribosomal protein S29, putative
+分子 #42: eL41
+分子 #43: JAB_MPN domain-containing protein
+分子 #44: CSN8_PSD8_EIF3K domain-containing protein
+分子 #45: 40S ribosomal protein S15, putative
+分子 #46: Eukaryotic translation initiation factor 3 subunit 8, putative
+分子 #47: eIF3A
+分子 #48: 40S ribosomal protein S3a-2
+分子 #49: Eukaryotic translation initiation factor 3 (EIF-3) interacting pr...
+分子 #50: eIF3H
+分子 #51: Eukaryotic translation initiation factor 3 subunit 7-like protein...
+分子 #52: 40S ribosomal protein S4
+分子 #2: initiator tRNA-Met
+分子 #3: 18S
+分子 #53: ZINC ION
+分子 #54: MAGNESIUM ION
+分子 #55: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
-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: 7.4 |
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グリッド | モデル: Quantifoil R2/2 / メッシュ: 300 |
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 |
-電子顕微鏡法
顕微鏡 | FEI TITAN KRIOS |
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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: OTHER |
撮影 | フィルム・検出器のモデル: GATAN K2 SUMMIT (4k x 4k) 平均電子線量: 30.0 e/Å2 |
実験機器 | モデル: Titan Krios / 画像提供: FEI Company |
-画像解析
初期モデル | モデルのタイプ: PDB ENTRY PDBモデル - PDB ID: |
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初期 角度割当 | タイプ: PROJECTION MATCHING |
最終 角度割当 | タイプ: PROJECTION MATCHING |
最終 再構成 | 解像度のタイプ: BY AUTHOR / 解像度: 3.33 Å / 解像度の算出法: FSC 0.143 CUT-OFF / 使用した粒子像数: 33775 |