+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 8onp | ||||||
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タイトル | Human insulin trans-HypB26-DTIA analogue | ||||||
要素 |
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キーワード | HORMONE (ホルモン) / insulin (インスリン) / analogue / IR specific | ||||||
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 / Insulin processing / negative regulation of fatty acid metabolic process / 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 / Insulin processing / negative regulation of fatty acid metabolic process / negative regulation of feeding behavior / regulation of protein secretion / positive regulation of peptide hormone secretion / positive regulation of respiratory burst / Regulation of gene expression in beta cells / negative regulation of acute inflammatory response / alpha-beta T cell activation / negative regulation of respiratory burst involved in inflammatory response / positive regulation of dendritic spine maintenance / Synthesis, secretion, and deacylation of Ghrelin / positive regulation of glycogen biosynthetic process / negative regulation of protein secretion / Signal attenuation / FOXO-mediated transcription of oxidative stress, metabolic and neuronal genes / negative regulation of gluconeogenesis / positive regulation of nitric oxide mediated signal transduction / fatty acid homeostasis / regulation of protein localization to plasma membrane / COPI-mediated anterograde transport / negative regulation of lipid catabolic process / positive regulation of lipid biosynthetic process / negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway / positive regulation of insulin receptor signaling pathway / negative regulation of reactive oxygen species biosynthetic process / 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 / positive regulation of brown fat cell differentiation / endoplasmic reticulum-Golgi intermediate compartment membrane / 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 long-term synaptic potentiation / endosome lumen / positive regulation of cytokine production / acute-phase response / positive regulation of protein secretion / positive regulation of nitric-oxide synthase activity / 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 / hormone activity / negative regulation of protein catabolic process / 認識 / positive regulation of neuron projection development / Golgi lumen / positive regulation of protein localization to nucleus / vasodilation / 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: 1.77 Å | ||||||
データ登録者 | Brzozowski, A.M. / Zakova, L. / Jiracek, J. | ||||||
資金援助 | 英国, 1件
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引用 | ジャーナル: To Be Published タイトル: Analogues of human insulin with specificity to insulin receptor isoform B 著者: Brzozowski, A.M. / Zakova, L. / Jiracek, J. | ||||||
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 | 8onp.cif.gz | 23.2 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb8onp.ent.gz | 13.2 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 8onp.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/on/8onp ftp://data.pdbj.org/pub/pdb/validation_reports/on/8onp | HTTPS FTP |
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-関連構造データ
関連構造データ | 8okyC C: 同じ文献を引用 (文献) |
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類似構造データ | 類似検索 - 機能・相同性F&H 検索 |
-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
#1: タンパク質・ペプチド | 分子量: 2953.399 Da / 分子数: 1 / 由来タイプ: 合成 詳細: This is modified B chain of human insulin. (i) Human sequence B26Tyr is replaced by trans-hydroxy-Proline (HYP). (ii) The last four B27-B30 residues of human insulin are truncated/deleted. ...詳細: This is modified B chain of human insulin. (i) Human sequence B26Tyr is replaced by trans-hydroxy-Proline (HYP). (ii) The last four B27-B30 residues of human insulin are truncated/deleted. (iii) B26Hyp terminates with the carboxyamide group (-CONH2) instead of normal -COOH. 由来: (合成) Homo sapiens (ヒト) / 参照: UniProt: P01308 |
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#2: タンパク質・ペプチド | 分子量: 2383.698 Da / 分子数: 1 / 由来タイプ: 合成 詳細: This is the same sequence as for the wild type of human insulin A chain 由来: (合成) Homo sapiens (ヒト) / 参照: UniProt: P01308 |
#3: 化合物 | ChemComp-SO4 / |
#4: 水 | ChemComp-HOH / |
研究の焦点であるリガンドがあるか | Y |
-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: 2.34 Å3/Da / 溶媒含有率: 47.5 % |
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結晶化 | 温度: 293 K / 手法: 蒸気拡散法, ハンギングドロップ法 / pH: 4 / 詳細: 0.1 M Na2SO4 |
-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: Diamond / ビームライン: I03 / 波長: 0.97933 Å |
検出器 | タイプ: DECTRIS EIGER2 X 16M / 検出器: PIXEL / 日付: 2019年11月30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: 0.97933 Å / 相対比: 1 |
反射 | 解像度: 1.77→28.18 Å / Num. obs: 4987 / % possible obs: 99.4 % / 冗長度: 15.8 % / CC1/2: 0.997 / Rmerge(I) obs: 0.094 / Rpim(I) all: 0.026 / Rrim(I) all: 0.097 / Net I/σ(I): 15.1 |
反射 シェル | 解像度: 1.77→1.82 Å / Mean I/σ(I) obs: 1.4 / Num. unique obs: 359 / CC1/2: 0.692 / Rpim(I) all: 0.644 / % possible all: 99.7 |
-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 / 解像度: 1.77→28.18 Å / Cor.coef. Fo:Fc: 0.96 / Cor.coef. Fo:Fc free: 0.946 / SU B: 5.456 / SU ML: 0.153 / 交差検証法: THROUGHOUT / ESU R: 0.151 / ESU R Free: 0.141 / 立体化学のターゲット値: MAXIMUM LIKELIHOOD
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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: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
原子変位パラメータ | Biso mean: 47.505 Å2
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精密化ステップ | サイクル: 1 / 解像度: 1.77→28.18 Å
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拘束条件 |
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