+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 1h95 | ||||||
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タイトル | Solution structure of the single-stranded DNA-binding Cold Shock Domain (CSD) of human Y-box protein 1 (YB1) determined by NMR (10 lowest energy structures) | ||||||
要素 | Y-BOX BINDING PROTEIN | ||||||
キーワード | TRANSLATION FACTOR / TRANSCRIPTION FACTOR (転写因子) / OB-FOLD / 5-STRANDED ANTI-PARALLEL BETA-BARREL / SINGLE STRANDED DNA BINDING / COLD SHOCK / Y-BOX | ||||||
機能・相同性 | 機能・相同性情報 tRNA transport / CRD-mediated mRNA stability complex / C5-methylcytidine-containing RNA reader activity / miRNA transport / negative regulation of striated muscle cell differentiation / RNA transport / Noncanonical activation of NOTCH3 / negative regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay / CRD-mediated mRNA stabilization / protein localization to cytoplasmic stress granule ...tRNA transport / CRD-mediated mRNA stability complex / C5-methylcytidine-containing RNA reader activity / miRNA transport / negative regulation of striated muscle cell differentiation / RNA transport / Noncanonical activation of NOTCH3 / negative regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay / CRD-mediated mRNA stabilization / protein localization to cytoplasmic stress granule / messenger ribonucleoprotein complex / histone pre-mRNA 3'end processing complex / embryonic morphogenesis / U12-type spliceosomal complex / positive regulation of cytoplasmic translation / mRNA stabilization / cellular response to interleukin-7 / miRNA binding / mRNA Splicing - Minor Pathway / negative regulation of cellular senescence / Processing of Capped Intron-Containing Pre-mRNA / positive regulation of cell division / epidermis development / mRNA Splicing - Major Pathway / RNA splicing / P-body / SMAD2/SMAD3:SMAD4 heterotrimer regulates transcription / 転写後修飾 / cytoplasmic stress granule / Interferon gamma signaling / sequence-specific double-stranded DNA binding / single-stranded DNA binding / GTPase binding / double-stranded DNA binding / 遺伝子発現の調節 / in utero embryonic development / negative regulation of translation / nucleic acid binding / ribonucleoprotein complex / mRNA binding / intracellular membrane-bounded organelle / シナプス / chromatin binding / regulation of DNA-templated transcription / negative regulation of transcription by RNA polymerase II / 小胞体 / positive regulation of transcription by RNA polymerase II / DNA binding / RNA binding / extracellular exosome / extracellular region / 核質 / 細胞核 / 細胞膜 / 細胞質基質 / 細胞質 類似検索 - 分子機能 | ||||||
生物種 | HOMO SAPIENS (ヒト) | ||||||
手法 | 溶液NMR / TORSION ANGLE DYNAMICS, RESTRAINED MD | ||||||
データ登録者 | Kloks, C.P.A.M. / Spronk, C.A.E.M. / Hoffmann, A. / Vuister, G.W. / Grzesiek, S. / Hilbers, C.W. | ||||||
引用 | ジャーナル: J.Mol.Biol. / 年: 2002 タイトル: The Solution Structure and DNA-Binding Properties of the Cold-Shock Domain of the Human Y-Box Protein Yb-1. 著者: Kloks, C.P.A.M. / Spronk, C.A.E.M. / Lasonder, E. / Hoffmann, A. / Vuister, G.W. / Grzesiek, S. / Hilbers, C.W. | ||||||
履歴 |
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Remark 700 | SHEET DETERMINATION METHOD: AUTHOR PROVIDED. |
-構造の表示
構造ビューア | 分子: MolmilJmol/JSmol |
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-ダウンロードとリンク
-ダウンロード
PDBx/mmCIF形式 | 1h95.cif.gz | 246.6 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb1h95.ent.gz | 203.8 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 1h95.json.gz | ツリー表示 | PDBx/mmJSON形式 | |
その他 | その他のダウンロード |
-検証レポート
アーカイブディレクトリ | https://data.pdbj.org/pub/pdb/validation_reports/h9/1h95 ftp://data.pdbj.org/pub/pdb/validation_reports/h9/1h95 | HTTPS FTP |
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-関連構造データ
類似構造データ | |
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その他のデータベース |
-リンク
-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: 8754.899 Da / 分子数: 1 / 断片: COLD SHOCK DOMAIN / 由来タイプ: 組換発現 詳細: SINGLE STRANDED DNA BINDING COLD SHOCK DOMAIN(CSD) OF HUMAN Y-BOX PROTEIN 1 (YB-1) 由来: (組換発現) HOMO SAPIENS (ヒト) / プラスミド: PET11A / 発現宿主: ESCHERICHIA COLI (大腸菌) / 株 (発現宿主): BL21(DE3) / 参照: UniProt: P67809*PLUS |
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配列の詳細 | THE SEQUENCE IS MATCHES TO SWISS PROT ENTRY Q90376 (RESIDUES 15-92) WHICH REPRESENTS Y-BOX BINDING ...THE SEQUENCE IS MATCHES TO SWISS PROT ENTRY Q90376 (RESIDUES 15-92) WHICH REPRESENTS |
-実験情報
-実験
実験 | 手法: 溶液NMR | ||||||||||||||||||||
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NMR実験 |
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NMR実験の詳細 | Text: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR SPECTROSCOPY ON 15N AND 15N/13C LABELLED COLD SHOCK DOMAIN OF HUMAN YB-1 |
-試料調製
試料状態 | イオン強度: 0 / pH: 6.7 / 圧: 1 atm / 温度: 303 K |
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結晶化 | *PLUS 手法: その他 / 詳細: NMR |
-NMR測定
NMRスペクトロメーター |
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-解析
NMR software |
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精密化 | 手法: TORSION ANGLE DYNAMICS, RESTRAINED MD / ソフトェア番号: 1 / 詳細: RESTRAINED MD | ||||||||||||||||||||
NMRアンサンブル | 計算したコンフォーマーの数: 10 / 登録したコンフォーマーの数: 10 |