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基本情報
登録情報 | データベース: PDB / ID: 4k11 | ||||||
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タイトル | The structure of 1NA in complex with Src T338G | ||||||
![]() | Proto-oncogene tyrosine-protein kinase Src | ||||||
![]() | TRANSFERASE / 1NA / c-Src / Kinase / Phosphorylation | ||||||
機能・相同性 | ![]() regulation of caveolin-mediated endocytosis / regulation of toll-like receptor 3 signaling pathway / cellular response to progesterone stimulus / positive regulation of platelet-derived growth factor receptor-beta signaling pathway / positive regulation of dephosphorylation / regulation of cell projection assembly / negative regulation of telomere maintenance / Regulation of commissural axon pathfinding by SLIT and ROBO / regulation of epithelial cell migration / ERBB2 signaling pathway ...regulation of caveolin-mediated endocytosis / regulation of toll-like receptor 3 signaling pathway / cellular response to progesterone stimulus / positive regulation of platelet-derived growth factor receptor-beta signaling pathway / positive regulation of dephosphorylation / regulation of cell projection assembly / negative regulation of telomere maintenance / Regulation of commissural axon pathfinding by SLIT and ROBO / regulation of epithelial cell migration / ERBB2 signaling pathway / Regulation of gap junction activity / BMP receptor binding / negative regulation of focal adhesion assembly / positive regulation of integrin activation / Activated NTRK2 signals through FYN / positive regulation of protein processing / Netrin mediated repulsion signals / regulation of intracellular estrogen receptor signaling pathway / intestinal epithelial cell development / negative regulation of neutrophil activation / regulation of vascular permeability / focal adhesion assembly / connexin binding / Activated NTRK3 signals through PI3K / osteoclast development / cellular response to fluid shear stress / signal complex assembly / positive regulation of small GTPase mediated signal transduction / branching involved in mammary gland duct morphogenesis / Co-stimulation by CD28 / Regulation of RUNX1 Expression and Activity / DCC mediated attractive signaling / EPH-Ephrin signaling / positive regulation of podosome assembly / regulation of bone resorption / positive regulation of lamellipodium morphogenesis / Ephrin signaling / Signal regulatory protein family interactions / negative regulation of mitochondrial depolarization / odontogenesis / podosome / MET activates PTK2 signaling / cellular response to peptide hormone stimulus / Regulation of KIT signaling / regulation of early endosome to late endosome transport / leukocyte migration / Signaling by ALK / phospholipase activator activity / oogenesis / GP1b-IX-V activation signalling / Co-inhibition by CTLA4 / EPHA-mediated growth cone collapse / Receptor Mediated Mitophagy / p130Cas linkage to MAPK signaling for integrins / interleukin-6-mediated signaling pathway / stress fiber assembly / positive regulation of Notch signaling pathway / Signaling by EGFR / RUNX2 regulates osteoblast differentiation / negative regulation of intrinsic apoptotic signaling pathway / stimulatory C-type lectin receptor signaling pathway / forebrain development / Fc-gamma receptor signaling pathway involved in phagocytosis / Recycling pathway of L1 / regulation of cell-cell adhesion / PECAM1 interactions / uterus development / regulation of heart rate by cardiac conduction / GRB2:SOS provides linkage to MAPK signaling for Integrins / RHOU GTPase cycle / protein tyrosine kinase activator activity / RET signaling / negative regulation of anoikis / signaling receptor activator activity / Long-term potentiation / FCGR activation / positive regulation of epithelial cell migration / progesterone receptor signaling pathway / EPH-ephrin mediated repulsion of cells / positive regulation of protein serine/threonine kinase activity / GAB1 signalosome / negative regulation of hippo signaling / vascular endothelial growth factor receptor signaling pathway / ephrin receptor signaling pathway / bone resorption / negative regulation of protein-containing complex assembly / Downregulation of ERBB4 signaling / Nuclear signaling by ERBB4 / InlA-mediated entry of Listeria monocytogenes into host cells / phospholipase binding / ephrin receptor binding / T cell costimulation / cellular response to platelet-derived growth factor stimulus / p38MAPK events / Signaling by ERBB2 / EPHB-mediated forward signaling / ionotropic glutamate receptor binding / Integrin signaling / positive regulation of TORC1 signaling / NCAM signaling for neurite out-growth 類似検索 - 分子機能 | ||||||
生物種 | ![]() | ||||||
手法 | ![]() ![]() | ||||||
![]() | Eck, M.J. / Yun, C.H. | ||||||
![]() | ![]() タイトル: The structure of 1NA in complex with Src T338G 著者: Eck, M.J. / Yun, C.H. | ||||||
履歴 |
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構造の表示
構造ビューア | 分子: ![]() ![]() |
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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 | ![]() | 110.6 KB | 表示 | ![]() |
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PDB形式 | ![]() | 83.2 KB | 表示 | ![]() |
PDBx/mmJSON形式 | ![]() | ツリー表示 | ![]() | |
その他 | ![]() |
-検証レポート
文書・要旨 | ![]() | 818.4 KB | 表示 | ![]() |
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文書・詳細版 | ![]() | 827.6 KB | 表示 | |
XML形式データ | ![]() | 21.8 KB | 表示 | |
CIF形式データ | ![]() | 31.7 KB | 表示 | |
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
-関連構造データ
関連構造データ | ![]() 2srcS S: 精密化の開始モデル |
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類似構造データ |
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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: 51207.934 Da / 分子数: 1 / 断片: UNP residues 87-534 / 変異: T338G / 由来タイプ: 組換発現 / 由来: (組換発現) ![]() 発現宿主: ![]() ![]() 参照: UniProt: P12931, non-specific protein-tyrosine kinase |
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#2: 化合物 | ChemComp-0J9 / |
#3: 水 | ChemComp-HOH / |
Has protein modification | Y |
-実験情報
-実験
実験 | 手法: ![]() |
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試料調製
結晶 | マシュー密度: 3.11 Å3/Da / 溶媒含有率: 60.47 % |
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結晶化 | 温度: 295 K / 手法: 蒸気拡散法, ハンギングドロップ法 / pH: 6.5 詳細: 50 mM PIPES, pH 6.5, 12% PEG4000, 10 mM DTT, VAPOR DIFFUSION, HANGING DROP, temperature 295K |
-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: ![]() |
検出器 | タイプ: MAR scanner 300 mm plate / 検出器: IMAGE PLATE / 日付: 2000年8月3日 / 詳細: mirrors |
放射 | モノクロメーター: MIRRORS / 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: 1.5418 Å / 相対比: 1 |
反射 | 解像度: 2.3→20 Å / Num. all: 29341 / Num. obs: 28882 / % possible obs: 98.7 % / Observed criterion σ(F): 0 / Observed criterion σ(I): -3.3 / Rmerge(I) obs: 0.07 / Net I/σ(I): 14.3 |
反射 シェル | 解像度: 2.3→2.38 Å / Rmerge(I) obs: 0.516 / Mean I/σ(I) obs: 1.75 / Num. unique all: 2837 / % possible all: 99.6 |
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解析
ソフトウェア |
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精密化 | 構造決定の手法: ![]() 開始モデル: PDB ENTRY 2SRC 解像度: 2.3→20 Å / Cor.coef. Fo:Fc: 0.958 / Cor.coef. Fo:Fc free: 0.936 / 交差検証法: THROUGHOUT / ESU R: 0.267 / ESU R Free: 0.219 / 立体化学のターゲット値: MAXIMUM LIKELIHOOD 詳細: 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: 46.094 Å2
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精密化ステップ | サイクル: LAST / 解像度: 2.3→20 Å
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拘束条件 |
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LS精密化 シェル | 解像度: 2.3→2.359 Å / Total num. of bins used: 20
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