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基本情報
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タイトル | The cryo-EM structure of human pre-C*-II complex | |||||||||
![]() | The cryo-EM map of human pre-C*-II complex | |||||||||
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機能・相同性 | ![]() second spliceosomal transesterification activity / exon-exon junction subcomplex mago-y14 / negative regulation of selenocysteine incorporation / regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay / cellular response to selenite ion / spliceosomal complex disassembly / exon-exon junction complex / pre-mRNA 3'-splice site binding / negative regulation of proteasomal protein catabolic process / post-mRNA release spliceosomal complex ...second spliceosomal transesterification activity / exon-exon junction subcomplex mago-y14 / negative regulation of selenocysteine incorporation / regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay / cellular response to selenite ion / spliceosomal complex disassembly / exon-exon junction complex / pre-mRNA 3'-splice site binding / negative regulation of proteasomal protein catabolic process / post-mRNA release spliceosomal complex / regulation of retinoic acid receptor signaling pathway / regulation of translation at postsynapse, modulating synaptic transmission / 3'-5' RNA helicase activity / U2 snRNP binding / negative regulation of toll-like receptor signaling pathway / U7 snRNA binding / histone pre-mRNA DCP binding / renal system process / generation of catalytic spliceosome for first transesterification step / intracellular mRNA localization / negative regulation of excitatory postsynaptic potential / U7 snRNP / alternative mRNA splicing, via spliceosome / regulation of vitamin D receptor signaling pathway / histone pre-mRNA 3'end processing complex / Z-decay: degradation of maternal mRNAs by zygotically expressed factors / negative regulation of interleukin-8 production / SLBP independent Processing of Histone Pre-mRNAs / regulation of mRNA processing / SLBP Dependent Processing of Replication-Dependent Histone Pre-mRNAs / negative regulation of lipopolysaccharide-mediated signaling pathway / selenocysteine insertion sequence binding / Deadenylation of mRNA / embryonic brain development / protein methylation / U12-type spliceosomal complex / negative regulation of phosphorylation / methylosome / negative regulation of interferon-beta production / nuclear retinoic acid receptor binding / Prp19 complex / 7-methylguanosine cap hypermethylation / positive regulation of androgen receptor activity / poly(A) binding / U1 snRNP binding / M-decay: degradation of maternal mRNAs by maternally stored factors / mRNA 3'-end processing / pICln-Sm protein complex / pre-mRNA binding / U2-type catalytic step 1 spliceosome / RNA splicing, via transesterification reactions / ATP-dependent activity, acting on RNA / small nuclear ribonucleoprotein complex / embryonic cranial skeleton morphogenesis / sno(s)RNA-containing ribonucleoprotein complex / SMN-Sm protein complex / C2H2 zinc finger domain binding / regulation of mRNA splicing, via spliceosome / spliceosomal tri-snRNP complex / P granule / telomerase holoenzyme complex / U2-type spliceosomal complex / mRNA cis splicing, via spliceosome / positive regulation by host of viral transcription / U2-type precatalytic spliceosome / commitment complex / positive regulation of vitamin D receptor signaling pathway / Transport of Mature mRNA derived from an Intron-Containing Transcript / telomerase RNA binding / U2-type prespliceosome assembly / nuclear vitamin D receptor binding / U2-type catalytic step 2 spliceosome / U4 snRNP / Notch binding / Regulation of gene expression in late stage (branching morphogenesis) pancreatic bud precursor cells / RUNX3 regulates NOTCH signaling / U2 snRNP / positive regulation of mRNA splicing, via spliceosome / RNA Polymerase II Transcription Termination / NOTCH4 Intracellular Domain Regulates Transcription / U1 snRNP / nuclear-transcribed mRNA catabolic process, nonsense-mediated decay / ubiquitin-ubiquitin ligase activity / exploration behavior / WD40-repeat domain binding / NOTCH3 Intracellular Domain Regulates Transcription / positive regulation of neurogenesis / lipid biosynthetic process / U2-type prespliceosome / K63-linked polyubiquitin modification-dependent protein binding / cyclosporin A binding / nuclear androgen receptor binding / negative regulation of type I interferon-mediated signaling pathway / negative regulation of NF-kappaB transcription factor activity / precatalytic spliceosome / Notch-HLH transcription pathway / protein kinase inhibitor activity / positive regulation of transforming growth factor beta receptor signaling pathway / Formation of paraxial mesoderm / spliceosomal complex assembly 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: 3.6 Å | |||||||||
![]() | Zhan X / Lu Y / Shi Y | |||||||||
資金援助 | ![]()
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![]() | ![]() タイトル: Mechanism of exon ligation by human spliceosome. 著者: Xiechao Zhan / Yichen Lu / Xiaofeng Zhang / Chuangye Yan / Yigong Shi / ![]() 要旨: Pre-mRNA splicing involves two sequential reactions: branching and exon ligation. The C complex after branching undergoes remodeling to become the C complex, which executes exon ligation. Here, we ...Pre-mRNA splicing involves two sequential reactions: branching and exon ligation. The C complex after branching undergoes remodeling to become the C complex, which executes exon ligation. Here, we report cryo-EM structures of two intermediate human spliceosomal complexes, pre-C-I and pre-C-II, both at 3.6 Å. In both structures, the 3' splice site is already docked into the active site, the ensuing 3' exon sequences are anchored on PRP8, and the step II factor FAM192A contacts the duplex between U2 snRNA and the branch site. In the transition of pre-C-I to pre-C-II, the step II factors Cactin, FAM32A, PRKRIP1, and SLU7 are recruited. Notably, the RNA helicase PRP22 is positioned quite differently in the pre-C-I, pre-C-II, and C complexes, suggesting a role in 3' exon binding and proofreading. Together with information on human C and C complexes, our studies recapitulate a molecular choreography of the C-to-C transition, revealing mechanistic insights into exon ligation. | |||||||||
履歴 |
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構造の表示
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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 | ![]() | 230.2 MB | ![]() | |
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ヘッダ (付随情報) | ![]() ![]() | 63.6 KB 63.6 KB | 表示 表示 | ![]() |
画像 | ![]() | 68.4 KB | ||
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-検証レポート
文書・要旨 | ![]() | 463 KB | 表示 | ![]() |
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文書・詳細版 | ![]() | 462.6 KB | 表示 | |
XML形式データ | ![]() | 7.4 KB | 表示 | |
CIF形式データ | ![]() | 8.5 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 | ![]() 7w5aMC ![]() 7w59C ![]() 7w5bC 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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注釈 | The cryo-EM map of human pre-C*-II complex | ||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 1.338 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
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試料の構成要素
+全体 : Human pre-C*-II complex
+超分子 #1: Human pre-C*-II complex
+分子 #1: Pre-mRNA-processing-splicing factor 8
+分子 #3: 116 kDa U5 small nuclear ribonucleoprotein component
+分子 #4: U5 small nuclear ribonucleoprotein 40 kDa protein
+分子 #9: Pre-mRNA-splicing factor SYF1
+分子 #10: Crooked neck-like protein 1
+分子 #11: Pre-mRNA-splicing factor SPF27
+分子 #12: Cell division cycle 5-like protein
+分子 #13: Pre-mRNA-splicing factor SYF2
+分子 #14: Protein BUD31 homolog
+分子 #15: Pre-mRNA-splicing factor RBM22
+分子 #16: Spliceosome-associated protein CWC15 homolog
+分子 #17: RNA helicase aquarius
+分子 #18: SNW domain-containing protein 1
+分子 #19: Peptidyl-prolyl cis-trans isomerase-like 1
+分子 #20: Pleiotropic regulator 1
+分子 #21: Serine/arginine repetitive matrix protein 2
+分子 #22: Pre-mRNA-splicing factor CWC22 homolog
+分子 #23: Pre-mRNA-processing factor 17
+分子 #24: PSME3-interacting protein
+分子 #25: ATP-dependent RNA helicase DHX8
+分子 #26: Cactin
+分子 #27: PRKR-interacting protein 1
+分子 #28: Protein FAM32A
+分子 #29: Small nuclear ribonucleoprotein-associated proteins B and B'
+分子 #30: Peptidyl-prolyl cis-trans isomerase E
+分子 #31: Small nuclear ribonucleoprotein Sm D3
+分子 #32: Small nuclear ribonucleoprotein Sm D1
+分子 #33: Small nuclear ribonucleoprotein Sm D2
+分子 #34: Small nuclear ribonucleoprotein F
+分子 #35: Small nuclear ribonucleoprotein E
+分子 #36: Small nuclear ribonucleoprotein G
+分子 #37: Protein mago nashi homolog
+分子 #38: RNA-binding protein 8A
+分子 #39: Eukaryotic initiation factor 4A-III
+分子 #40: Protein CASC3
+分子 #41: Pre-mRNA-processing factor 19
+分子 #42: U2 small nuclear ribonucleoprotein A'
+分子 #43: U2 small nuclear ribonucleoprotein B''
+分子 #44: Pre-mRNA-splicing factor SLU7
+分子 #2: U5 snRNA
+分子 #5: U6 snRNA
+分子 #6: Pre-mRNA
+分子 #7: Pre-mRNA
+分子 #8: U2 snRNA
+分子 #45: INOSITOL HEXAKISPHOSPHATE
+分子 #46: GUANOSINE-5'-TRIPHOSPHATE
+分子 #47: MAGNESIUM ION
+分子 #48: ZINC ION
+分子 #49: ADENOSINE-5'-TRIPHOSPHATE
-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: 7.9 |
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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: GATAN K2 SUMMIT (4k x 4k) 検出モード: SUPER-RESOLUTION / 平均電子線量: 50.0 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): 2.5 µm / 最小 デフォーカス(公称値): 1.2 µm |
実験機器 | ![]() モデル: Titan Krios / 画像提供: FEI Company |
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画像解析
最終 再構成 | 解像度のタイプ: BY AUTHOR / 解像度: 3.6 Å / 解像度の算出法: FSC 0.143 CUT-OFF / 使用した粒子像数: 212224 |
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初期 角度割当 | タイプ: MAXIMUM LIKELIHOOD |
最終 角度割当 | タイプ: MAXIMUM LIKELIHOOD |