+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 6yhf | ||||||
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タイトル | Solution NMR Structure of APP TMD | ||||||
要素 | Amyloid-beta precursor proteinアミロイド前駆体タンパク質 | ||||||
キーワード | MEMBRANE PROTEIN (膜タンパク質) / APP / gamma secretase (Γ-セクレターゼ) / transmembrane (膜貫通型タンパク質) | ||||||
機能・相同性 | 機能・相同性情報 regulation of epidermal growth factor-activated receptor activity / signaling receptor activator activity / cytosolic mRNA polyadenylation / collateral sprouting in absence of injury / microglia development / regulation of synapse structure or activity / Formyl peptide receptors bind formyl peptides and many other ligands / regulation of Wnt signaling pathway / axo-dendritic transport / synaptic assembly at neuromuscular junction ...regulation of epidermal growth factor-activated receptor activity / signaling receptor activator activity / cytosolic mRNA polyadenylation / collateral sprouting in absence of injury / microglia development / regulation of synapse structure or activity / Formyl peptide receptors bind formyl peptides and many other ligands / regulation of Wnt signaling pathway / axo-dendritic transport / synaptic assembly at neuromuscular junction / smooth endoplasmic reticulum calcium ion homeostasis / axon midline choice point recognition / astrocyte activation involved in immune response / regulation of spontaneous synaptic transmission / mating behavior / NMDA selective glutamate receptor signaling pathway / 繊毛 / Lysosome Vesicle Biogenesis / PTB domain binding / Golgi-associated vesicle / positive regulation of amyloid fibril formation / neuron remodeling / Insertion of tail-anchored proteins into the endoplasmic reticulum membrane / protein serine/threonine kinase binding / Deregulated CDK5 triggers multiple neurodegenerative pathways in Alzheimer's disease models / : / nuclear envelope lumen / suckling behavior / presynaptic active zone / dendrite development / COPII-coated ER to Golgi transport vesicle / modulation of excitatory postsynaptic potential / TRAF6 mediated NF-kB activation / Advanced glycosylation endproduct receptor signaling / neuromuscular process controlling balance / The NLRP3 inflammasome / regulation of presynapse assembly / transition metal ion binding / regulation of multicellular organism growth / intracellular copper ion homeostasis / negative regulation of long-term synaptic potentiation / negative regulation of neuron differentiation / ECM proteoglycans / 小胞体 / Mitochondrial protein degradation / positive regulation of T cell migration / spindle midzone / Purinergic signaling in leishmaniasis infection / positive regulation of calcium-mediated signaling / クラスリン / regulation of peptidyl-tyrosine phosphorylation / positive regulation of chemokine production / forebrain development / Notchシグナリング / positive regulation of G2/M transition of mitotic cell cycle / neuron projection maintenance / positive regulation of protein metabolic process / ionotropic glutamate receptor signaling pathway / positive regulation of glycolytic process / cholesterol metabolic process / response to interleukin-1 / positive regulation of mitotic cell cycle / extracellular matrix organization / 軸索誘導 / adult locomotory behavior / trans-Golgi network membrane / platelet alpha granule lumen / locomotory behavior / positive regulation of peptidyl-threonine phosphorylation / dendritic shaft / 学習 / positive regulation of interleukin-1 beta production / central nervous system development / positive regulation of long-term synaptic potentiation / endosome lumen / astrocyte activation / Post-translational protein phosphorylation / positive regulation of JNK cascade / synapse organization / regulation of long-term neuronal synaptic plasticity / microglial cell activation / TAK1-dependent IKK and NF-kappa-B activation / visual learning / serine-type endopeptidase inhibitor activity / neuromuscular junction / recycling endosome / 認識 / positive regulation of inflammatory response / Golgi lumen / neuron cellular homeostasis / エンドサイトーシス / positive regulation of non-canonical NF-kappaB signal transduction / cellular response to amyloid-beta / positive regulation of interleukin-6 production / Regulation of Insulin-like Growth Factor (IGF) transport and uptake by Insulin-like Growth Factor Binding Proteins (IGFBPs) / neuron projection development / G2/M transition of mitotic cell cycle / positive regulation of tumor necrosis factor production / cell-cell junction / シナプス小胞 類似検索 - 分子機能 | ||||||
生物種 | Homo sapiens (ヒト) | ||||||
手法 | 溶液NMR / simulated annealing | ||||||
データ登録者 | Silber, M. / Muhle-Goll, C. | ||||||
資金援助 | ドイツ, 1件
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引用 | ジャーナル: Acs Chem Neurosci / 年: 2020 タイトル: Altered Hinge Conformations in APP Transmembrane Helix Mutants May Affect Enzyme-Substrate Interactions of gamma-Secretase. 著者: Silber, M. / Hitzenberger, M. / Zacharias, M. / Muhle-Goll, C. | ||||||
履歴 |
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-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 | 6yhf.cif.gz | 209.6 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb6yhf.ent.gz | 178.5 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 6yhf.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/yh/6yhf ftp://data.pdbj.org/pub/pdb/validation_reports/yh/6yhf | HTTPS FTP |
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-関連構造データ
関連構造データ | 6yhiC 6yhoC 6yhpC 6yhxC C: 同じ文献を引用 (文献) |
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類似構造データ | |
その他のデータベース |
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-リンク
-集合体
登録構造単位 |
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1 |
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NMR アンサンブル |
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-要素
#1: タンパク質・ペプチド | 分子量: 3070.925 Da / 分子数: 1 / 断片: Amyloid precursor protein transmembrane domain / 由来タイプ: 合成 / 由来: (合成) Homo sapiens (ヒト) / 参照: UniProt: P05067 |
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-実験情報
-実験
実験 | 手法: 溶液NMR |
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NMR実験 | Sample state: isotropic / タイプ: 1H-1H-NOESY |
-試料調製
詳細 | タイプ: solution / 内容: 500 uM APP WT, 80% TFE-d2, 20% H2O / 詳細: pH 7.0 / Label: APP_WT / 溶媒系: 80% TFE-d2, 20% H2O |
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試料 | 濃度: 500 uM / 構成要素: APP WT / Isotopic labeling: natural abundance |
試料状態 | イオン強度: 0 Not defined / Label: conditions_1 / pH: 7.0 / PH err: 0.1 / 圧: ambient Pa / 温度: 298 K |
-NMR測定
NMRスペクトロメーター | タイプ: Bruker CP TCI / 製造業者: Bruker / モデル: CP TCI / 磁場強度: 600 MHz |
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-解析
NMR software |
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精密化 | 手法: simulated annealing / ソフトェア番号: 1 | ||||||||||||||||||||
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: 20 structures for lowest energy 計算したコンフォーマーの数: 400 / 登録したコンフォーマーの数: 20 |