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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: PDB / ID: 2ltr | ||||||
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タイトル | Solution structure of RDE-4(32-136) | ||||||
![]() | Protein RDE-4 | ||||||
![]() | RNA BINDING PROTEIN / RDE-4 / dsRBD1 / RNAi / RDE-4DC | ||||||
機能・相同性 | ![]() MicroRNA (miRNA) biogenesis / Small interfering RNA (siRNA) biogenesis / PKR-mediated signaling / regulation of regulatory ncRNA processing / RISC-loading complex / regulatory ncRNA-mediated post-transcriptional gene silencing / siRNA binding / siRNA processing / RISC complex / double-stranded RNA binding ...MicroRNA (miRNA) biogenesis / Small interfering RNA (siRNA) biogenesis / PKR-mediated signaling / regulation of regulatory ncRNA processing / RISC-loading complex / regulatory ncRNA-mediated post-transcriptional gene silencing / siRNA binding / siRNA processing / RISC complex / double-stranded RNA binding / single-stranded RNA binding / ribonucleoprotein complex / protein homodimerization activity / nucleus / cytoplasm 類似検索 - 分子機能 | ||||||
生物種 | ![]() ![]() | ||||||
手法 | 溶液NMR / simulated annealing | ||||||
![]() | Deshmukh, M. / Chiliveri, S. | ||||||
![]() | ![]() タイトル: Structure of RDE-4 dsRBDs and mutational studies provide insights into dsRNA recognition in the Caenorhabditis elegans RNAi pathway. 著者: Chiliveri, S.C. / Deshmukh, M.V. #1: ジャーナル: Biomol.Nmr Assign. / 年: 2011 タイトル: Backbone and sidechain methyl Ile (delta1), Leu and Val chemical shift assignments of RDE-4 (1-243), an RNA interference initiation protein in C. elegans. 著者: Chiliveri, S.C. / Kumar, S. / Marelli, U.K. / Deshmukh, M.V. | ||||||
履歴 |
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構造の表示
構造ビューア | 分子: ![]() ![]() |
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ダウンロードとリンク
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PDBx/mmCIF形式 | ![]() | 344.4 KB | 表示 | ![]() |
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PDB形式 | ![]() | 281.6 KB | 表示 | ![]() |
PDBx/mmJSON形式 | ![]() | ツリー表示 | ![]() | |
その他 | ![]() |
-検証レポート
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
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-関連構造データ
関連構造データ | ![]() 2ltsC C: 同じ文献を引用 ( |
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その他のデータベース |
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リンク
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集合体
登録構造単位 | ![]()
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NMR アンサンブル |
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要素
#1: タンパク質 | 分子量: 27860.629 Da / 分子数: 1 / 断片: dsRBD1 (UniProt residues 32-136) / 由来タイプ: 組換発現 由来: (組換発現) ![]() ![]() 遺伝子: rde-4, T20G5.11 / プラスミド: pET28a / 発現宿主: ![]() ![]() |
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-実験情報
-実験
実験 | 手法: 溶液NMR 詳細: Solution structure of RDE-4(32-136) containing N-terminal helix, dsRBD1 and part of the linker | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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NMR実験 |
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試料調製
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試料状態 |
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-NMR測定
NMRスペクトロメーター | タイプ: Bruker Avance / 製造業者: Bruker / モデル: AVANCE / 磁場強度: 600 MHz |
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解析
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精密化 | 手法: simulated annealing / ソフトェア番号: 1 詳細: THE PROTEIN USED IN THIS STUDY (UNP RESIDUES 1-243) IS A FRAGMENT OF RDE-4, AN RNAI INITIATOR PROTEIN IN C. ELEGANS. IT CONSISTS OF FOUR REGIONS, WHICH ARE THE N-TERMINAL REGION (1-43), ...詳細: THE PROTEIN USED IN THIS STUDY (UNP RESIDUES 1-243) IS A FRAGMENT OF RDE-4, AN RNAI INITIATOR PROTEIN IN C. ELEGANS. IT CONSISTS OF FOUR REGIONS, WHICH ARE THE N-TERMINAL REGION (1-43), DSRBD1 (44-107), LINKER (108-168), AND DSRBD2 (169-235). IN THE COURSE OF ASSIGNMENTS AND STRUCTURE CALCULATION, A PART OF THE LINKER (RESIDUES 126-149) IS FOUND TO BE HIGHLY FLEXIBLE. NO SPATIAL INTER-DOMAIN CONTACTS WERE OBSERVED BETWEEN THE TWO DSRBDS. THEREFORE, SOLUTION STRUCTURES OF DSRBD1 AND DSRBD2 WERE CALCULATED SEPARATELY. FOR 2LTR, RIGID PART OF N-TERMINAL REGION (32-43), DSRBD1 (44-107) AND LINKER REGION (108-136) WERE USED TO CALCULATE THE FINAL STRUCTURES, WHEREAS FOR 2LTS, RIGID PART OF THE LINKER (150-168) AND DSRBD2 (169-235) WERE CHOSEN FOR THE CALCULATION OF THE FINAL STRUCTURES. THE RELATIVE ORIENTATION BETWEEN TWO STRUCTURES COULD NOT BE DETERMINED DUE TO THE FLEXIBLE NATURE OF THE LINKER. | |||||||||||||||||||||
代表構造 | 選択基準: lowest energy | |||||||||||||||||||||
NMRアンサンブル | コンフォーマー選択の基準: structures with the lowest energy 計算したコンフォーマーの数: 100 / 登録したコンフォーマーの数: 10 |