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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: 6zbt | ||||||
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| タイトル | Structure of 14-3-3 gamma in complex with Nedd4-2 14-3-3 binding motif Ser342 | ||||||
要素 |
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キーワード | SIGNALING PROTEIN / E3 ubiquitin protein ligase / complex / phosphorylation / 14-3-3 protein | ||||||
| 機能・相同性 | 機能・相同性情報positive regulation of caveolin-mediated endocytosis / RING-type E3 ubiquitin transferase (cysteine targeting) / negative regulation of sodium ion transmembrane transport / negative regulation of sodium ion import across plasma membrane / negative regulation of potassium ion export across plasma membrane / negative regulation of potassium ion transmembrane transport / positive regulation of cell-cell adhesion / negative regulation of protein localization to cell surface / phosphorylation-dependent protein binding / positive regulation of dendrite extension ...positive regulation of caveolin-mediated endocytosis / RING-type E3 ubiquitin transferase (cysteine targeting) / negative regulation of sodium ion transmembrane transport / negative regulation of sodium ion import across plasma membrane / negative regulation of potassium ion export across plasma membrane / negative regulation of potassium ion transmembrane transport / positive regulation of cell-cell adhesion / negative regulation of protein localization to cell surface / phosphorylation-dependent protein binding / positive regulation of dendrite extension / regulation of membrane repolarization / regulation of membrane depolarization / receptor catabolic process / regulation of sodium ion transmembrane transport / potassium channel inhibitor activity / positive regulation of T cell mediated immune response to tumor cell / ventricular cardiac muscle cell action potential / HECT-type E3 ubiquitin transferase / sodium channel inhibitor activity / regulation of neuron differentiation / regulation of dendrite morphogenesis / neuromuscular junction development / protein kinase C inhibitor activity / regulation of synapse organization / Regulation of localization of FOXO transcription factors / sodium channel regulator activity / protein monoubiquitination / Activation of BAD and translocation to mitochondria / regulation of signal transduction / protein targeting / Chk1/Chk2(Cds1) mediated inactivation of Cyclin B:Cdk1 complex / SARS-CoV-2 targets host intracellular signalling and regulatory pathways / protein K48-linked ubiquitination / negative regulation of protein kinase activity / cellular response to glucose starvation / SARS-CoV-1 targets host intracellular signalling and regulatory pathways / RHO GTPases activate PKNs / insulin-like growth factor receptor binding / negative regulation of TORC1 signaling / multivesicular body / Loss of Nlp from mitotic centrosomes / Loss of proteins required for interphase microtubule organization from the centrosome / Transcriptional and post-translational regulation of MITF-M expression and activity / Recruitment of mitotic centrosome proteins and complexes / Recruitment of NuMA to mitotic centrosomes / Anchoring of the basal body to the plasma membrane / protein sequestering activity / protein kinase C binding / Downregulation of TGF-beta receptor signaling / AURKA Activation by TPX2 / regulation of membrane potential / TP53 Regulates Metabolic Genes / Translocation of SLC2A4 (GLUT4) to the plasma membrane / Downregulation of SMAD2/3:SMAD4 transcriptional activity / Budding and maturation of HIV virion / receptor tyrosine kinase binding / regulation of synaptic plasticity / positive regulation of T cell activation / regulation of protein stability / receptor internalization / Stimuli-sensing channels / cellular response to insulin stimulus / neuron projection development / positive regulation of protein catabolic process / ubiquitin-protein transferase activity / ubiquitin protein ligase activity / Regulation of PLK1 Activity at G2/M Transition / intracellular protein localization / Antigen processing: Ubiquitination & Proteasome degradation / presynapse / regulation of protein localization / ubiquitin-dependent protein catabolic process / monoatomic ion transmembrane transport / proteasome-mediated ubiquitin-dependent protein catabolic process / transmembrane transporter binding / protein ubiquitination / apical plasma membrane / mitochondrial matrix / protein domain specific binding / focal adhesion / Golgi apparatus / signal transduction / RNA binding / extracellular exosome / nucleoplasm / identical protein binding / nucleus / membrane / cytoplasm / cytosol 類似検索 - 分子機能 | ||||||
| 生物種 | Homo sapiens (ヒト) | ||||||
| 手法 | X線回折 / シンクロトロン / 分子置換 / 解像度: 1.799485197 Å | ||||||
データ登録者 | Joshi, R. / Kalabova, D. / Obsil, T. / Obsilova, V. | ||||||
| 資金援助 | チェコ, 1件
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引用 | ジャーナル: Commun Biol / 年: 2021タイトル: 14-3-3-protein regulates Nedd4-2 by modulating interactions between HECT and WW domains. 著者: Pohl, P. / Joshi, R. / Petrvalska, O. / Obsil, T. / Obsilova, V. | ||||||
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構造の表示
| 構造ビューア | 分子: Molmil Jmol/JSmol |
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ダウンロードとリンク
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ダウンロード
| PDBx/mmCIF形式 | 6zbt.cif.gz | 255.3 KB | 表示 | PDBx/mmCIF形式 |
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| PDB形式 | pdb6zbt.ent.gz | 164.3 KB | 表示 | PDB形式 |
| PDBx/mmJSON形式 | 6zbt.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
| 文書・要旨 | 6zbt_validation.pdf.gz | 353.1 KB | 表示 | wwPDB検証レポート |
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| 文書・詳細版 | 6zbt_full_validation.pdf.gz | 355.8 KB | 表示 | |
| XML形式データ | 6zbt_validation.xml.gz | 39.5 KB | 表示 | |
| CIF形式データ | 6zbt_validation.cif.gz | 57.7 KB | 表示 | |
| アーカイブディレクトリ | https://data.pdbj.org/pub/pdb/validation_reports/zb/6zbt ftp://data.pdbj.org/pub/pdb/validation_reports/zb/6zbt | HTTPS FTP |
-関連構造データ
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リンク
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集合体
| 登録構造単位 | ![]()
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| 単位格子 |
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要素
| #1: タンパク質 | 分子量: 27004.426 Da / 分子数: 4 / 変異: S235Stop / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / 遺伝子: YWHAG / 発現宿主: ![]() #2: タンパク質・ペプチド | 分子量: 1131.175 Da / 分子数: 4 / 由来タイプ: 合成 / 由来: (合成) Homo sapiens (ヒト) / 参照: UniProt: Q96PU5, HECT-type E3 ubiquitin transferase#3: 化合物 | ChemComp-CFH / #4: 水 | ChemComp-HOH / | 研究の焦点であるリガンドがあるか | N | Has protein modification | Y | |
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-実験情報
-実験
| 実験 | 手法: X線回折 / 使用した結晶の数: 1 |
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試料調製
| 結晶 | マシュー密度: 2.69 Å3/Da / 溶媒含有率: 54.34 % |
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| 結晶化 | 温度: 293.15 K / 手法: 蒸気拡散法, ハンギングドロップ法 / pH: 7.5 詳細: PEG 400, magnesium chloride, HEPES, hexafluoro-2-propanol |
-データ収集
| 回折 | 平均測定温度: 100 K / Serial crystal experiment: N |
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| 放射光源 | 由来: シンクロトロン / サイト: BESSY / ビームライン: 14.2 / 波長: 0.9184 Å |
| 検出器 | タイプ: DECTRIS PILATUS3 2M / 検出器: PIXEL / 日付: 2019年10月19日 / 詳細: Sagitally bended Si111 crystal |
| 放射 | モノクロメーター: DCM Si(111) / プロトコル: SINGLE WAVELENGTH / 単色(M)・ラウエ(L): M / 散乱光タイプ: x-ray |
| 放射波長 | 波長: 0.9184 Å / 相対比: 1 |
| 反射 | 解像度: 1.799→27.5102551593 Å / Num. obs: 108872 / % possible obs: 99.88 % / 冗長度: 5.81 % / Biso Wilson estimate: 31.6177163868 Å2 / Rrim(I) all: 0.041 / Net I/σ(I): 25.82 |
| 反射 シェル | 解像度: 1.799→1.864 Å / Num. unique obs: 10874 / Rrim(I) all: 0.597 |
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解析
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| 精密化 | 構造決定の手法: 分子置換開始モデル: 2B05 解像度: 1.799485197→27.5102551593 Å / SU ML: 0.239143595933 / 交差検証法: FREE R-VALUE / σ(F): 1.92845296366 / 位相誤差: 26.8248386407 立体化学のターゲット値: GeoStd + Monomer Library + CDL v1.2
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| 溶媒の処理 | 減衰半径: 0.9 Å / VDWプローブ半径: 1.11 Å / 溶媒モデル: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| 原子変位パラメータ | Biso mean: 36.2003851277 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| 精密化ステップ | サイクル: LAST / 解像度: 1.799485197→27.5102551593 Å
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| LS精密化 シェル |
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万見について




Homo sapiens (ヒト)
X線回折
チェコ, 1件
引用












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