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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-6565 | |||||||||
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タイトル | The cryo-EM structure of yeast spliceosomal U4/U6.U5 tri-snRNP (improved map for Prp8 region at 3.49 A) | |||||||||
![]() | Reconstruction of tri-snRNP | |||||||||
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![]() | tri-snRNP / pre-mRNA splicing | |||||||||
機能・相同性 | ![]() spliceosomal conformational changes to generate catalytic conformation / positive regulation of primary miRNA processing / mRNA decay by 5' to 3' exoribonuclease / snoRNA splicing / snoRNA guided rRNA 2'-O-methylation / Lsm1-7-Pat1 complex / positive regulation of RNA binding / U6 snRNP / box C/D sno(s)RNA 3'-end processing / deadenylation-dependent decapping of nuclear-transcribed mRNA ...spliceosomal conformational changes to generate catalytic conformation / positive regulation of primary miRNA processing / mRNA decay by 5' to 3' exoribonuclease / snoRNA splicing / snoRNA guided rRNA 2'-O-methylation / Lsm1-7-Pat1 complex / positive regulation of RNA binding / U6 snRNP / box C/D sno(s)RNA 3'-end processing / deadenylation-dependent decapping of nuclear-transcribed mRNA / generation of catalytic spliceosome for first transesterification step / splicing factor binding / U4/U6 snRNP / spliceosome conformational change to release U4 (or U4atac) and U1 (or U11) / 7-methylguanosine cap hypermethylation / P-body assembly / pICln-Sm protein complex / small nuclear ribonucleoprotein complex / U4 snRNA binding / sno(s)RNA-containing ribonucleoprotein complex / box C/D methylation guide snoRNP complex / SMN-Sm protein complex / spliceosomal tri-snRNP complex / poly(U) RNA binding / commitment complex / U2-type prespliceosome assembly / U2-type catalytic step 2 spliceosome / U4 snRNP / U2 snRNP / U3 snoRNA binding / U1 snRNP / tRNA processing / U2-type prespliceosome / positive regulation of miRNA metabolic process / precatalytic spliceosome / Major pathway of rRNA processing in the nucleolus and cytosol / generation of catalytic spliceosome for second transesterification step / spliceosomal complex assembly / mRNA 5'-splice site recognition / nuclear-transcribed mRNA catabolic process / mRNA 3'-splice site recognition / spliceosomal tri-snRNP complex assembly / U5 snRNA binding / U5 snRNP / U2 snRNA binding / U6 snRNA binding / spliceosomal snRNP assembly / cellular response to glucose starvation / pre-mRNA intronic binding / U1 snRNA binding / U4/U6 x U5 tri-snRNP complex / catalytic step 2 spliceosome / maturation of LSU-rRNA / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / maturation of SSU-rRNA / small-subunit processome / spliceosomal complex / P-body / mRNA splicing, via spliceosome / rRNA processing / metallopeptidase activity / cytosolic large ribosomal subunit / nucleic acid binding / RNA helicase activity / RNA helicase / GTPase activity / mRNA binding / nucleolus / GTP binding / ATP hydrolysis activity / mitochondrion / RNA binding / nucleoplasm / ATP binding / identical protein binding / nucleus / cytosol / cytoplasm 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: 3.49 Å | |||||||||
![]() | Wan R / Yan C / Bai R / Wang L / Huang M / Wong C / Shi Y | |||||||||
![]() | ![]() タイトル: The 3.8 Å structure of the U4/U6.U5 tri-snRNP: Insights into spliceosome assembly and catalysis. 著者: Ruixue Wan / Chuangye Yan / Rui Bai / Lin Wang / Min Huang / Catherine C L Wong / Yigong Shi / ![]() 要旨: Splicing of precursor messenger RNA is accomplished by a dynamic megacomplex known as the spliceosome. Assembly of a functional spliceosome requires a preassembled U4/U6.U5 tri-snRNP complex, which ...Splicing of precursor messenger RNA is accomplished by a dynamic megacomplex known as the spliceosome. Assembly of a functional spliceosome requires a preassembled U4/U6.U5 tri-snRNP complex, which comprises the U5 small nuclear ribonucleoprotein (snRNP), the U4 and U6 small nuclear RNA (snRNA) duplex, and a number of protein factors. Here we report the three-dimensional structure of a Saccharomyces cerevisiae U4/U6.U5 tri-snRNP at an overall resolution of 3.8 angstroms by single-particle electron cryomicroscopy. The local resolution for the core regions of the tri-snRNP reaches 3.0 to 3.5 angstroms, allowing construction of a refined atomic model. Our structure contains U5 snRNA, the extensively base-paired U4/U6 snRNA, and 30 proteins including Prp8 and Snu114, which amount to 8495 amino acids and 263 nucleotides with a combined molecular mass of ~1 megadalton. The catalytic nucleotide U80 from U6 snRNA exists in an inactive conformation, stabilized by its base-pairing interactions with U4 snRNA and protected by Prp3. Pre-messenger RNA is bound in the tri-snRNP through base-pairing interactions with U6 snRNA and loop I of U5 snRNA. This structure, together with that of the spliceosome, reveals the molecular choreography of the snRNAs in the activation process of the spliceosomal ribozyme. | |||||||||
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 | ![]() | 116.5 MB | ![]() | |
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ヘッダ (付随情報) | ![]() ![]() | 10.1 KB 10.1 KB | 表示 表示 | ![]() |
画像 | ![]() ![]() | 54.6 KB 3.7 KB | ||
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 | ![]() 3jcmMC ![]() 6561C ![]() 6562C ![]() 6563C ![]() 6564C ![]() 6566C ![]() 6567C ![]() 6568C ![]() 6569C ![]() 6570C ![]() 6571C ![]() 6572C ![]() 6573C 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 |
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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 | Reconstruction of tri-snRNP | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ボクセルのサイズ | X=Y=Z: 1.32 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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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 : U4/U6.U5 tri-snRNP from Saccharomyces cerevisiae
全体 | 名称: U4/U6.U5 tri-snRNP from Saccharomyces cerevisiae |
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要素 |
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-超分子 #1000: U4/U6.U5 tri-snRNP from Saccharomyces cerevisiae
超分子 | 名称: U4/U6.U5 tri-snRNP from Saccharomyces cerevisiae / タイプ: sample / ID: 1000 / Number unique components: 34 |
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-超分子 #1: U4/U6.U5 tri-snRNP
超分子 | 名称: U4/U6.U5 tri-snRNP / タイプ: organelle_or_cellular_component / ID: 1 / 組換発現: No / データベース: NCBI |
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由来(天然) | 生物種: ![]() ![]() |
-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
凍結 | 凍結剤: ETHANE / 装置: FEI VITROBOT MARK IV |
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電子顕微鏡法
顕微鏡 | FEI TITAN KRIOS |
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日付 | 2015年8月8日 |
撮影 | カテゴリ: FILM フィルム・検出器のモデル: GATAN K2 SUMMIT (4k x 4k) デジタル化 - スキャナー: TEMSCAN / 実像数: 3141 |
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 |
試料ステージ | 試料ホルダーモデル: FEI TITAN KRIOS AUTOGRID HOLDER |
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: 3.49 Å / 解像度の算出法: OTHER / ソフトウェア - 名称: RELION / 使用した粒子像数: 172134 |
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