+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 3zs2 | |||||||||
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タイトル | TyrB25,NMePheB26,LysB28,ProB29-insulin analogue crystal structure | |||||||||
要素 |
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キーワード | HORMONE (ホルモン) / CARBOHYDRATE METABOLISM (炭水化物代謝) / GLUCOSE METABOLISM (炭水化物代謝) / DIABETES MELLITUS (糖尿病) | |||||||||
機能・相同性 | 機能・相同性情報 negative regulation of NAD(P)H oxidase activity / negative regulation of glycogen catabolic process / regulation of cellular amino acid metabolic process / Signaling by Insulin receptor / IRS activation / nitric oxide-cGMP-mediated signaling / negative regulation of fatty acid metabolic process / Insulin processing / negative regulation of feeding behavior / regulation of protein secretion ...negative regulation of NAD(P)H oxidase activity / negative regulation of glycogen catabolic process / regulation of cellular amino acid metabolic process / Signaling by Insulin receptor / IRS activation / nitric oxide-cGMP-mediated signaling / negative regulation of fatty acid metabolic process / Insulin processing / negative regulation of feeding behavior / regulation of protein secretion / positive regulation of peptide hormone secretion / Regulation of gene expression in beta cells / positive regulation of respiratory burst / positive regulation of dendritic spine maintenance / alpha-beta T cell activation / negative regulation of acute inflammatory response / negative regulation of respiratory burst involved in inflammatory response / negative regulation of protein secretion / fatty acid homeostasis / Synthesis, secretion, and deacylation of Ghrelin / positive regulation of glycogen biosynthetic process / positive regulation of lipid biosynthetic process / Signal attenuation / FOXO-mediated transcription of oxidative stress, metabolic and neuronal genes / negative regulation of gluconeogenesis / positive regulation of nitric oxide mediated signal transduction / regulation of protein localization to plasma membrane / COPI-mediated anterograde transport / negative regulation of lipid catabolic process / negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway / negative regulation of reactive oxygen species biosynthetic process / positive regulation of insulin receptor signaling pathway / 小胞 / positive regulation of protein autophosphorylation / Insulin receptor recycling / insulin-like growth factor receptor binding / NPAS4 regulates expression of target genes / positive regulation of protein metabolic process / neuron projection maintenance / endoplasmic reticulum-Golgi intermediate compartment membrane / positive regulation of brown fat cell differentiation / activation of protein kinase B activity / positive regulation of glycolytic process / Insulin receptor signalling cascade / positive regulation of mitotic nuclear division / Regulation of insulin secretion / positive regulation of nitric-oxide synthase activity / positive regulation of long-term synaptic potentiation / endosome lumen / positive regulation of cytokine production / acute-phase response / positive regulation of protein secretion / regulation of transmembrane transporter activity / positive regulation of cell differentiation / positive regulation of glucose import / negative regulation of proteolysis / regulation of synaptic plasticity / wound healing / insulin receptor binding / negative regulation of protein catabolic process / positive regulation of neuron projection development / hormone activity / 認識 / Golgi lumen / vasodilation / positive regulation of protein localization to nucleus / glucose metabolic process / regulation of protein localization / glucose homeostasis / cell-cell signaling / insulin receptor signaling pathway / positive regulation of NF-kappaB transcription factor activity / PI5P, PP2A and IER3 Regulate PI3K/AKT Signaling / positive regulation of cell growth / secretory granule lumen / protease binding / positive regulation of MAPK cascade / positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction / positive regulation of cell migration / G protein-coupled receptor signaling pathway / Amyloid fiber formation / 小胞体 / ゴルジ体 / negative regulation of gene expression / positive regulation of cell population proliferation / positive regulation of gene expression / regulation of DNA-templated transcription / extracellular space / extracellular region / identical protein binding 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: 1.97 Å | |||||||||
データ登録者 | Antolikova, E. / Zakova, L. / Turkenburg, J.P. / Watson, C.J. / Hanclova, I. / Sanda, M. / Cooper, A. / Kraus, T. / Brzozowski, A.M. / Jiracek, J.A. | |||||||||
引用 | ジャーナル: J.Biol.Chem. / 年: 2011 タイトル: Non-Equivalent Role of Inter- and Intramolecular Hydrogen Bonds in the Insulin Dimer Interface. 著者: Antolikova, E. / Zakova, L. / Turkenburg, J.P. / Watson, C.J. / Hanclova, I. / Sanda, M. / Cooper, A. / Kraus, T. / Brzozowski, A.M. / Jiracek, J.A. | |||||||||
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 | 3zs2.cif.gz | 110.9 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb3zs2.ent.gz | 59.7 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 3zs2.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/zs/3zs2 ftp://data.pdbj.org/pub/pdb/validation_reports/zs/3zs2 | HTTPS FTP |
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-関連構造データ
-リンク
-集合体
登録構造単位 |
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1 |
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単位格子 |
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-要素
-タンパク質・ペプチド , 2種, 12分子 ACEGIKBDFHJL
#1: タンパク質・ペプチド | 分子量: 2383.698 Da / 分子数: 6 / 変異: YES / 由来タイプ: 合成 / 由来: (合成) HOMO SAPIENS (ヒト) / 参照: UniProt: P01308 #2: タンパク質・ペプチド | 分子量: 3447.980 Da / 分子数: 6 / 由来タイプ: 合成 / 由来: (合成) HOMO SAPIENS (ヒト) / 参照: UniProt: P01308 |
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-非ポリマー , 4種, 160分子
#3: 化合物 | ChemComp-IPH / #4: 化合物 | #5: 化合物 | #6: 水 | ChemComp-HOH / | |
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-詳細
配列の詳細 | THE N-PEPTIDE ATOM OF B26PHE IS METHYLATED |
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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: 2.4 Å3/Da / 溶媒含有率: 48 % / 解説: NONE |
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結晶化 | pH: 8.2 詳細: 0.1 M NACITRATE, 0.3 M TRIS PH 8.2, 0.6 MM ZN(AC)2, 0.06% PHENOL |
-データ収集
回折 | 平均測定温度: 100 K |
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放射光源 | 由来: シンクロトロン / サイト: ESRF / ビームライン: ID23-2 / 波長: 1.0712 |
検出器 | タイプ: MARMOSAIC 225 mm CCD / 検出器: CCD / 日付: 2006年12月3日 |
放射 | 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: 1.0712 Å / 相対比: 1 |
反射 | 解像度: 1.97→50 Å / Num. obs: 18615 / % possible obs: 90.2 % / Observed criterion σ(I): 0 / 冗長度: 2.3 % / Biso Wilson estimate: 30.7 Å2 / Rmerge(I) obs: 0.11 / Net I/σ(I): 13.5 |
反射 シェル | 解像度: 1.97→2.04 Å / 冗長度: 1.5 % / Rmerge(I) obs: 0.62 / Mean I/σ(I) obs: 8.5 / % possible all: 61.7 |
-解析
ソフトウェア |
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精密化 | 構造決定の手法: 分子置換 開始モデル: PDB ENTRY 1MS0 解像度: 1.97→53.68 Å / Cor.coef. Fo:Fc: 0.953 / Cor.coef. Fo:Fc free: 0.921 / SU B: 4.412 / SU ML: 0.127 / 交差検証法: THROUGHOUT / ESU R: 0.21 / ESU R Free: 0.19 / 立体化学のターゲット値: MAXIMUM LIKELIHOOD 詳細: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. HYDROGENS HAVE BEEN USED IF PRESENT IN THE INPUT. U VALUES REFINED INDIVIDUALLY
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溶媒の処理 | イオンプローブ半径: 0.8 Å / 減衰半径: 0.8 Å / VDWプローブ半径: 1.2 Å / 溶媒モデル: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
原子変位パラメータ | Biso mean: 40.213 Å2
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精密化ステップ | サイクル: LAST / 解像度: 1.97→53.68 Å
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拘束条件 |
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