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データを開く
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基本情報
登録情報 | データベース: EMDB / ID: EMD-12217 | ||||||||||||
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タイトル | in vitro reconstituted 50S-ObgE-GMPPNP-RsfS particle | ||||||||||||
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![]() | RIBOSOME / pre-50S / ribosome biogenesis / ribosome assembly | ||||||||||||
機能・相同性 | ![]() guanyl ribonucleotide binding / dormancy process / negative regulation of ribosome biogenesis / negative regulation of cytoplasmic translational initiation / guanosine tetraphosphate binding / ribosomal large subunit binding / transcriptional attenuation / endoribonuclease inhibitor activity / RNA-binding transcription regulator activity / positive regulation of ribosome biogenesis ...guanyl ribonucleotide binding / dormancy process / negative regulation of ribosome biogenesis / negative regulation of cytoplasmic translational initiation / guanosine tetraphosphate binding / ribosomal large subunit binding / transcriptional attenuation / endoribonuclease inhibitor activity / RNA-binding transcription regulator activity / positive regulation of ribosome biogenesis / negative regulation of cytoplasmic translation / DnaA-L2 complex / translation repressor activity / negative regulation of DNA-templated DNA replication initiation / mRNA regulatory element binding translation repressor activity / ribosome assembly / assembly of large subunit precursor of preribosome / cytosolic ribosome assembly / ribosomal large subunit assembly / chromosome segregation / response to reactive oxygen species / translational initiation / regulation of cell growth / DNA-templated transcription termination / 加水分解酵素; 酸無水物に作用; GTPに作用・細胞または細胞小器官の運動に関与 / response to radiation / mRNA 5'-UTR binding / GDP binding / large ribosomal subunit / ribosome binding / transferase activity / 5S rRNA binding / large ribosomal subunit rRNA binding / cytosolic large ribosomal subunit / cytoplasmic translation / tRNA binding / rRNA binding / negative regulation of translation / ribosome / structural constituent of ribosome / translation / response to antibiotic / negative regulation of DNA-templated transcription / GTPase activity / mRNA binding / GTP binding / magnesium ion binding / DNA binding / RNA binding / zinc ion binding / cytoplasm / cytosol 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: 2.4 Å | ||||||||||||
![]() | Hilal T / Nikolay R | ||||||||||||
資金援助 | ![]()
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![]() | ![]() タイトル: Snapshots of native pre-50S ribosomes reveal a biogenesis factor network and evolutionary specialization. 著者: Rainer Nikolay / Tarek Hilal / Sabine Schmidt / Bo Qin / David Schwefel / Carlos H Vieira-Vieira / Thorsten Mielke / Jörg Bürger / Justus Loerke / Kazuaki Amikura / Timo Flügel / Takuya ...著者: Rainer Nikolay / Tarek Hilal / Sabine Schmidt / Bo Qin / David Schwefel / Carlos H Vieira-Vieira / Thorsten Mielke / Jörg Bürger / Justus Loerke / Kazuaki Amikura / Timo Flügel / Takuya Ueda / Matthias Selbach / Elke Deuerling / Christian M T Spahn / ![]() ![]() 要旨: Ribosome biogenesis is a fundamental multi-step cellular process that culminates in the formation of ribosomal subunits, whose production and modification are regulated by numerous biogenesis factors. ...Ribosome biogenesis is a fundamental multi-step cellular process that culminates in the formation of ribosomal subunits, whose production and modification are regulated by numerous biogenesis factors. In this study, we analyze physiologic prokaryotic ribosome biogenesis by isolating bona fide pre-50S subunits from an Escherichia coli strain with the biogenesis factor ObgE, affinity tagged at its native gene locus. Our integrative structural approach reveals a network of interacting biogenesis factors consisting of YjgA, RluD, RsfS, and ObgE on the immature pre-50S subunit. In addition, our study provides mechanistic insight into how the GTPase ObgE, in concert with other biogenesis factors, facilitates the maturation of the 50S functional core and reveals both conserved and divergent evolutionary features of ribosome biogenesis between prokaryotes and eukaryotes. | ||||||||||||
履歴 |
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構造の表示
ムービー |
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構造ビューア | EMマップ: ![]() ![]() ![]() |
添付画像 |
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マップデータ | ![]() | 165 MB | ![]() | |
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ヘッダ (付随情報) | ![]() ![]() | 47.8 KB 47.8 KB | 表示 表示 | ![]() |
FSC (解像度算出) | ![]() | 12.5 KB | 表示 | ![]() |
画像 | ![]() | 111.1 KB | ||
Filedesc metadata | ![]() | 10.5 KB | ||
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
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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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ボクセルのサイズ | X=Y=Z: 1.01 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
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試料の構成要素
+全体 : in vitro reconstituted 50S-RsfS-ObgE-GMPPNP complex
+超分子 #1: in vitro reconstituted 50S-RsfS-ObgE-GMPPNP complex
+分子 #1: 50S ribosomal protein L36
+分子 #2: 50S ribosomal protein L2
+分子 #3: 50S ribosomal protein L3
+分子 #4: 50S ribosomal protein L4
+分子 #5: 50S ribosomal protein L5
+分子 #6: 50S ribosomal protein L6
+分子 #7: 50S ribosomal protein L13
+分子 #8: 50S ribosomal protein L15
+分子 #9: 50S ribosomal protein L17
+分子 #10: 50S ribosomal protein L18
+分子 #11: 50S ribosomal protein L20
+分子 #12: 50S ribosomal protein L21
+分子 #13: 50S ribosomal protein L22
+分子 #14: 50S ribosomal protein L23
+分子 #15: 50S ribosomal protein L24
+分子 #16: 50S ribosomal protein L25
+分子 #17: 50S ribosomal protein L27
+分子 #18: 50S ribosomal protein L28
+分子 #19: 50S ribosomal protein L29
+分子 #20: 50S ribosomal protein L30
+分子 #21: 50S ribosomal protein L32
+分子 #22: 50S ribosomal protein L33
+分子 #23: 50S ribosomal protein L34
+分子 #24: 50S ribosomal protein L14
+分子 #25: 50S ribosomal protein L19
+分子 #26: 50S ribosomal protein L16
+分子 #27: 50S ribosomal protein L9
+分子 #28: 50S ribosomal protein L31
+分子 #31: Ribosomal silencing factor RsfS
+分子 #32: GTPase ObgE/CgtA
+分子 #33: 50S ribosomal protein L35
+分子 #29: 23S ribosomal RNA
+分子 #30: 5S ribosomal RNA
+分子 #34: ZINC ION
+分子 #35: MAGNESIUM ION
+分子 #36: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
+分子 #37: 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 III (4k x 4k) 検出モード: COUNTING / 平均電子線量: 30.0 e/Å2 |
電子線 | 加速電圧: 300 kV / 電子線源: ![]() |
電子光学系 | C2レンズ絞り径: 50.0 µm / 最小 デフォーカス(補正後): 2.2 µm / 照射モード: FLOOD BEAM / 撮影モード: BRIGHT FIELD / Cs: 2.7 mm / 最小 デフォーカス(公称値): 0.8 µm / 倍率(公称値): 96000 |
試料ステージ | 試料ホルダーモデル: FEI TITAN KRIOS AUTOGRID HOLDER ホルダー冷却材: NITROGEN |
実験機器 | ![]() モデル: Titan Krios / 画像提供: FEI Company |