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基本情報
登録情報 | データベース: PDB / ID: 3gxu | ||||||
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タイトル | Crystal structure of Eph receptor and ephrin complex | ||||||
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![]() | TRANSFERASE / Complex structure / Eph / ephrin / ATP-binding / Glycoprotein / Kinase / Membrane / Nucleotide-binding / Phosphoprotein / Receptor / Transmembrane / Tyrosine-protein kinase / Developmental protein / Differentiation / Disulfide bond / Host-virus interaction / Neurogenesis | ||||||
機能・相同性 | ![]() DH domain binding / neuron projection fasciculation / : / negative regulation of proteolysis involved in protein catabolic process / corticospinal tract morphogenesis / regulation of astrocyte differentiation / neuron projection guidance / venous blood vessel morphogenesis / nephric duct morphogenesis / fasciculation of sensory neuron axon ...DH domain binding / neuron projection fasciculation / : / negative regulation of proteolysis involved in protein catabolic process / corticospinal tract morphogenesis / regulation of astrocyte differentiation / neuron projection guidance / venous blood vessel morphogenesis / nephric duct morphogenesis / fasciculation of sensory neuron axon / fasciculation of motor neuron axon / positive regulation of aorta morphogenesis / synapse pruning / negative regulation of cellular response to hypoxia / negative regulation of axon regeneration / positive regulation of cardiac muscle cell differentiation / glial cell migration / transmembrane-ephrin receptor activity / positive regulation of amyloid precursor protein catabolic process / presynapse assembly / PH domain binding / regulation of modification of synaptic structure / regulation of synapse pruning / GPI-linked ephrin receptor activity / lymph vessel development / regulation of chemotaxis / adherens junction organization / regulation of dendritic spine morphogenesis / positive regulation of dendrite morphogenesis / negative regulation of cell adhesion / motor neuron axon guidance / cell migration involved in sprouting angiogenesis / EPH-Ephrin signaling / blood vessel morphogenesis / innervation / Ephrin signaling / adult walking behavior / regulation of GTPase activity / negative regulation of epithelial to mesenchymal transition / Somitogenesis / positive regulation of amyloid-beta formation / regulation of axonogenesis / EPHA-mediated growth cone collapse / regulation of postsynaptic neurotransmitter receptor internalization / positive regulation of intracellular signal transduction / negative regulation of long-term synaptic potentiation / cochlea development / keratinocyte proliferation / EPH-ephrin mediated repulsion of cells / anatomical structure morphogenesis / negative regulation of keratinocyte proliferation / ephrin receptor signaling pathway / regulation of postsynaptic membrane neurotransmitter receptor levels / axonal growth cone / ephrin receptor binding / T cell costimulation / axon terminus / EPHB-mediated forward signaling / positive regulation of cell adhesion / axon guidance / protein tyrosine kinase binding / negative regulation of cell migration / peptidyl-tyrosine phosphorylation / animal organ morphogenesis / dendritic shaft / adherens junction / filopodium / positive regulation of JNK cascade / neuromuscular junction / receptor protein-tyrosine kinase / postsynaptic density membrane / negative regulation of ERK1 and ERK2 cascade / Schaffer collateral - CA1 synapse / cellular response to amyloid-beta / kinase activity / cell-cell signaling / negative regulation of neuron projection development / amyloid-beta binding / virus receptor activity / presynaptic membrane / protein autophosphorylation / cellular response to lipopolysaccharide / protein tyrosine kinase activity / early endosome membrane / perikaryon / dendritic spine / mitochondrial outer membrane / negative regulation of neuron apoptotic process / protein kinase activity / cell adhesion / negative regulation of translation / protein stabilization / positive regulation of cell migration / axon / focal adhesion / positive regulation of cell population proliferation / dendrite / glutamatergic synapse / cell surface / ATP binding 類似検索 - 分子機能 | ||||||
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手法 | ![]() ![]() | ||||||
![]() | Qin, H.N. / Song, J.X. | ||||||
![]() | ![]() タイトル: Structural characterization of the EphA4-ephrin-B2 complex reveals new features enabling Eph-ephrin binding promiscuity 著者: Qin, H. / Noberini, R. / Huan, X. / Shi, J. / Pasquale, E.B. / Song, J. #1: ![]() タイトル: Crystal structure and NMR binding reveal that two small molecule antagonists target the high affinity ephrin-binding channel of the EphA4 receptor 著者: Qin, H. / Shi, J. / Noberini, R. / Pasquale, E.B. / Song, J. #2: ![]() タイトル: Crystal structure of an Eph receptor-ephrin complex 著者: Himanen, J.P. / Rajashankar, K.R. / Lackmann, M. / Cowan, C.A. / Henkemeyer, M. / Nikolov, D.B. | ||||||
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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 | ![]() | 83 KB | 表示 | ![]() |
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PDB形式 | ![]() | 61.7 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 | ![]() | 408.9 KB | 表示 | ![]() |
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文書・詳細版 | ![]() | 429.2 KB | 表示 | |
XML形式データ | ![]() | 11.5 KB | 表示 | |
CIF形式データ | ![]() | 17.4 KB | 表示 | |
アーカイブディレクトリ | ![]() ![]() | 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: 20206.844 Da / 分子数: 1 / 断片: UNP residues 29-203 / 由来タイプ: 組換発現 / 由来: (組換発現) ![]() ![]() ![]() |
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#2: タンパク質 | 分子量: 16261.525 Da / 分子数: 1 / 断片: UNP residues 27-169 / 由来タイプ: 組換発現 / 由来: (組換発現) ![]() ![]() ![]() |
#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: 2.21 Å3/Da / 溶媒含有率: 44.22 % |
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結晶化 | 温度: 298 K / 手法: 蒸気拡散法, ハンギングドロップ法 / pH: 7.5 詳細: 23.5% PEG4000, 0.1M Tris, 0.2M MgCl2, pH7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-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: ![]() |
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 | 相対比: 1 |
反射 | 解像度: 2.5→50 Å / Num. all: 11071 / Num. obs: 10938 |
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解析
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精密化 | 構造決定の手法: ![]() 開始モデル: PDB ENTRY 3CKH, 1KGY 解像度: 2.5→25 Å / σ(F): 3 / σ(I): 3 / 立体化学のターゲット値: Engh & Huber
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精密化ステップ | サイクル: LAST / 解像度: 2.5→25 Å
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