+
データを開く
-
基本情報
| 登録情報 | ![]() | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| タイトル | SSU processome maturation and disassembly, State I | |||||||||
マップデータ | ||||||||||
試料 |
| |||||||||
キーワード | SSU processome / ribosome assembly / RNA folding / RNA-protein interactions / RIBOSOME | |||||||||
| 機能・相同性 | 機能・相同性情報18S rRNA (adenine1779-N6/adenine1780-N6)-dimethyltransferase / 18S rRNA (adenine(1779)-N(6)/adenine(1780)-N(6))-dimethyltransferase activity / nuclear polyadenylation-dependent antisense transcript catabolic process / nuclear polyadenylation-dependent snoRNA catabolic process / nuclear polyadenylation-dependent snRNA catabolic process / nuclear polyadenylation-dependent mRNA catabolic process / regulation of ribosomal protein gene transcription by RNA polymerase II / U1 snRNA 3'-end processing / nuclear polyadenylation-dependent CUT catabolic process / U5 snRNA 3'-end processing ...18S rRNA (adenine1779-N6/adenine1780-N6)-dimethyltransferase / 18S rRNA (adenine(1779)-N(6)/adenine(1780)-N(6))-dimethyltransferase activity / nuclear polyadenylation-dependent antisense transcript catabolic process / nuclear polyadenylation-dependent snoRNA catabolic process / nuclear polyadenylation-dependent snRNA catabolic process / nuclear polyadenylation-dependent mRNA catabolic process / regulation of ribosomal protein gene transcription by RNA polymerase II / U1 snRNA 3'-end processing / nuclear polyadenylation-dependent CUT catabolic process / U5 snRNA 3'-end processing / TRAMP-dependent tRNA surveillance pathway / RNA fragment catabolic process / exosome (RNase complex) / rRNA small subunit pseudouridine methyltransferase Nep1 / CURI complex / UTP-C complex / rRNA 2'-O-methylation / Noc4p-Nop14p complex / U4 snRNA 3'-end processing / nuclear polyadenylation-dependent rRNA catabolic process / poly(A)-dependent snoRNA 3'-end processing / t-UTP complex / nuclear exosome (RNase complex) / Pwp2p-containing subcomplex of 90S preribosome / nuclear microtubule / Mpp10 complex / exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / rRNA (pseudouridine) methyltransferase activity / snoRNA guided rRNA 2'-O-methylation / rRNA modification / histone H2AQ104 methyltransferase activity / septum digestion after cytokinesis / regulation of rRNA processing / rRNA (adenine-N6,N6-)-dimethyltransferase activity / tRNA re-export from nucleus / histone mRNA catabolic process / snRNA binding / RNA folding chaperone / box C/D sno(s)RNA 3'-end processing / nuclear mRNA surveillance / rRNA methyltransferase activity / rDNA heterochromatin / endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / post-transcriptional tethering of RNA polymerase II gene DNA at nuclear periphery / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA,5S) / regulation of transcription by RNA polymerase I / endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / box C/D methylation guide snoRNP complex / U4/U6 snRNP / positive regulation of rRNA processing / tRNA export from nucleus / single-stranded telomeric DNA binding / rRNA primary transcript binding / sno(s)RNA-containing ribonucleoprotein complex / Negative regulators of DDX58/IFIH1 signaling / rRNA base methylation / U4 snRNA binding / O-methyltransferase activity / SUMOylation of RNA binding proteins / protein localization to nucleolus / RNA catabolic process / mTORC1-mediated signalling / rRNA methylation / Protein hydroxylation / regulation of telomere maintenance / U4 snRNP / U3 snoRNA binding / positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay / Formation of the ternary complex, and subsequently, the 43S complex / poly(A)+ mRNA export from nucleus / Translation initiation complex formation / Ribosomal scanning and start codon recognition / snoRNA binding / precatalytic spliceosome / preribosome, small subunit precursor / Major pathway of rRNA processing in the nucleolus and cytosol / establishment of cell polarity / spliceosomal complex assembly / positive regulation of transcription by RNA polymerase I / SRP-dependent cotranslational protein targeting to membrane / GTP hydrolysis and joining of the 60S ribosomal subunit / nucleolar large rRNA transcription by RNA polymerase I / Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC) / Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC) / Formation of a pool of free 40S subunits / L13a-mediated translational silencing of Ceruloplasmin expression / 90S preribosome / Ub-specific processing proteases / proteasome assembly / RNA processing / regulation of translational fidelity / ribosomal subunit export from nucleus / U4/U6 x U5 tri-snRNP complex / endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / ribosomal small subunit export from nucleus / RNA endonuclease activity / nuclear periphery / 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 / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) 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: 3.01 Å | |||||||||
データ登録者 | Buzovetsky O / Klinge S | |||||||||
| 資金援助 | 米国, 2件
| |||||||||
引用 | ジャーナル: Nature / 年: 2025タイトル: Helicase-mediated mechanism of SSU processome maturation and disassembly. 著者: Olga Buzovetsky / Sebastian Klinge / ![]() 要旨: Eukaryotic ribosomal small subunit (SSU) assembly requires the SSU processome, a nucleolar precursor containing the RNA chaperone U3 small nucleolar RNA (snoRNA). The underlying molecular mechanisms ...Eukaryotic ribosomal small subunit (SSU) assembly requires the SSU processome, a nucleolar precursor containing the RNA chaperone U3 small nucleolar RNA (snoRNA). The underlying molecular mechanisms of SSU processome maturation, remodelling, disassembly and RNA quality control, and the transitions between states remain unknown owing to a paucity of intermediates. Here we report 16 native SSU processome structures alongside genetic data, revealing how two helicases, the Mtr4-exosome and Dhr1, are controlled for accurate and unidirectional ribosome biogenesis. Our data show how irreversible pre-ribosomal RNA degradation by the redundantly tethered RNA exosome couples the transformation of the SSU processome into a pre-40S particle, during which Utp14 can probe evolving surfaces, ultimately positioning and activating Dhr1 to unwind the U3 snoRNA and initiate nucleolar pre-40S release. This study highlights a paradigm for large dynamic RNA-protein complexes in which irreversible RNA degradation drives compositional changes and communicates these changes to govern enzyme activity while maintaining overall quality control. | |||||||||
| 履歴 |
|
-
構造の表示
| 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_49085.map.gz | 234.7 MB | EMDBマップデータ形式 | |
|---|---|---|---|---|
| ヘッダ (付随情報) | emd-49085-v30.xml emd-49085.xml | 106.7 KB 106.7 KB | 表示 表示 | EMDBヘッダ |
| 画像 | emd_49085.png | 152.4 KB | ||
| Filedesc metadata | emd-49085.cif.gz | 29.1 KB | ||
| アーカイブディレクトリ | http://ftp.pdbj.org/pub/emdb/structures/EMD-49085 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-49085 | HTTPS FTP |
-検証レポート
| 文書・要旨 | emd_49085_validation.pdf.gz | 571.9 KB | 表示 | EMDB検証レポート |
|---|---|---|---|---|
| 文書・詳細版 | emd_49085_full_validation.pdf.gz | 571.5 KB | 表示 | |
| XML形式データ | emd_49085_validation.xml.gz | 7.9 KB | 表示 | |
| CIF形式データ | emd_49085_validation.cif.gz | 9.2 KB | 表示 | |
| アーカイブディレクトリ | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-49085 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-49085 | HTTPS FTP |
-関連構造データ
| 関連構造データ | ![]() 9n75MC ![]() 9n6vC ![]() 9n6wC ![]() 9n6xC ![]() 9n6yC ![]() 9n6zC ![]() 9n70C ![]() 9n73C ![]() 9n74C ![]() 9n76C ![]() 9n77C ![]() 9n7aC C: 同じ文献を引用 ( M: このマップから作成された原子モデル |
|---|---|
| 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 |
|---|---|
| 「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_49085.map.gz / 形式: CCP4 / 大きさ: 488.4 MB / タイプ: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 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: 1.063 Å | ||||||||||||||||||||||||||||||||||||
| 密度 |
| ||||||||||||||||||||||||||||||||||||
| 対称性 | 空間群: 1 | ||||||||||||||||||||||||||||||||||||
| 詳細 | EMDB XML:
|
-添付データ
-
試料の構成要素
+全体 : SSU processome maturation and disassembly, State I
+超分子 #1: SSU processome maturation and disassembly, State I
+分子 #1: 5'ETS rRNA
+分子 #2: 18S rRNA
+分子 #3: U3 snoRNA
+分子 #4: 40S ribosomal protein S18-A
+分子 #5: 40S ribosomal protein S4-A
+分子 #6: 40S ribosomal protein S5
+分子 #7: 40S ribosomal protein S6-A
+分子 #8: 40S ribosomal protein S7-A
+分子 #9: 40S ribosomal protein S8-A
+分子 #10: 40S ribosomal protein S9-A
+分子 #11: 40S ribosomal protein S16-A
+分子 #12: 40S ribosomal protein S11-A
+分子 #13: 40S ribosomal protein S22-A
+分子 #14: 40S ribosomal protein S24-A
+分子 #15: 40S ribosomal protein S28-A
+分子 #16: NET1-associated nuclear protein 1
+分子 #17: U3 small nucleolar RNA-associated protein 8
+分子 #18: U3 small nucleolar RNA-associated protein 15
+分子 #19: U3 small nucleolar RNA-associated protein 9
+分子 #20: U3 small nucleolar RNA-associated protein 5
+分子 #21: U3 small nucleolar RNA-associated protein 10
+分子 #22: U3 small nucleolar RNA-associated protein 4
+分子 #23: Periodic tryptophan protein 2
+分子 #24: U3 small nucleolar RNA-associated protein 6
+分子 #25: U3 small nucleolar RNA-associated protein 12
+分子 #26: U3 small nucleolar RNA-associated protein 13
+分子 #27: U3 small nucleolar RNA-associated protein 18
+分子 #28: U3 small nucleolar RNA-associated protein 21
+分子 #29: U3 small nucleolar RNA-associated protein 7
+分子 #30: U3 small nucleolar ribonucleoprotein protein IMP3
+分子 #31: U3 small nucleolar RNA-associated protein MPP10
+分子 #32: Something about silencing protein 10
+分子 #33: Bud site selection protein 21
+分子 #34: 40S ribosomal protein S13
+分子 #35: 40S ribosomal protein S14-A
+分子 #36: U3 small nucleolar RNA-associated protein 22
+分子 #37: Ribosomal RNA-processing protein 7
+分子 #38: Dimethyladenosine transferase
+分子 #39: Small ribosomal subunit protein eS1A
+分子 #40: 40S ribosomal protein S19-A
+分子 #41: 40S ribosomal protein S27-A
+分子 #42: Probable ATP-dependent RNA helicase DHR1
+分子 #43: Exosome complex exonuclease RRP6
+分子 #44: 40S ribosomal protein S12
+分子 #45: Ubiquitin-40S ribosomal protein S31
+分子 #46: Nucleolar protein 56
+分子 #47: Nucleolar protein 58
+分子 #48: rRNA 2'-O-methyltransferase fibrillarin
+分子 #49: 13 kDa ribonucleoprotein-associated protein
+分子 #50: Ribosomal RNA-processing protein 9
+分子 #51: RNA 3'-terminal phosphate cyclase-like protein
+分子 #52: Ribosome biogenesis protein BMS1
+分子 #53: Ribosomal RNA small subunit methyltransferase NEP1
+分子 #54: rRNA-processing protein FCF1
+分子 #55: U3 small nucleolar ribonucleoprotein protein IMP4
+分子 #56: U3 small nucleolar RNA-associated protein 20
+分子 #57: rRNA-processing protein FCF2
+分子 #58: 40S ribosomal protein S23-A
+分子 #59: U3 small nucleolar RNA-associated protein 14
+分子 #60: Nucleolar complex protein 14
+分子 #61: Nucleolar complex protein 4
+分子 #62: Regulator of rDNA transcription protein 14
+分子 #63: Pre-rRNA-processing protein PNO1
+分子 #64: U3 small nucleolar RNA-associated protein 11
+分子 #65: Essential nuclear protein 1
+分子 #66: MAGNESIUM ION
+分子 #67: ADENOSINE-5'-TRIPHOSPHATE
+分子 #68: ZINC ION
+分子 #69: ADENOSINE-5'-DIPHOSPHATE
+分子 #70: GUANOSINE-5'-TRIPHOSPHATE
-実験情報
-構造解析
| 手法 | クライオ電子顕微鏡法 |
|---|---|
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 構成要素:
| ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 凍結 | 凍結剤: ETHANE |
-
電子顕微鏡法
| 顕微鏡 | TFS KRIOS |
|---|---|
| 撮影 | フィルム・検出器のモデル: GATAN K3 (6k x 4k) / 平均電子線量: 61.6 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: OTHER / 撮影モード: BRIGHT FIELD / 最大 デフォーカス(公称値): 25.0 µm / 最小 デフォーカス(公称値): 1.0 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
データ登録者
米国, 2件
引用



























































































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























解析
FIELD EMISSION GUN
