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データを開く
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基本情報
登録情報 | データベース: PDB / ID: 1vpp | ||||||
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タイトル | COMPLEX BETWEEN VEGF AND A RECEPTOR BLOCKING PEPTIDE | ||||||
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![]() | GROWTH FACTOR/GROWTH FACTOR INHIBITOR / CYSTINE KNOT / ANGIOGENESIS / VASCULOGENESIS / RECEPTOR BLOCKING PEPTIDE / GROWTH FACTOR-GROWTH FACTOR INHIBITOR COMPLEX | ||||||
機能・相同性 | ![]() basophil chemotaxis / positive regulation of endothelial cell chemotaxis by VEGF-activated vascular endothelial growth factor receptor signaling pathway / VEGF-A complex / Signaling by VEGF / cellular stress response to acid chemical / positive regulation of lymphangiogenesis / vascular endothelial growth factor receptor 1 binding / negative regulation of establishment of endothelial barrier / vascular endothelial growth factor receptor binding / VEGF ligand-receptor interactions ...basophil chemotaxis / positive regulation of endothelial cell chemotaxis by VEGF-activated vascular endothelial growth factor receptor signaling pathway / VEGF-A complex / Signaling by VEGF / cellular stress response to acid chemical / positive regulation of lymphangiogenesis / vascular endothelial growth factor receptor 1 binding / negative regulation of establishment of endothelial barrier / vascular endothelial growth factor receptor binding / VEGF ligand-receptor interactions / negative regulation of adherens junction organization / post-embryonic camera-type eye development / positive regulation of mast cell chemotaxis / lymph vessel morphogenesis / primitive erythrocyte differentiation / negative regulation of blood-brain barrier permeability / positive regulation of cell proliferation by VEGF-activated platelet derived growth factor receptor signaling pathway / regulation of nitric oxide mediated signal transduction / VEGF-activated neuropilin signaling pathway / bone trabecula formation / coronary vein morphogenesis / cardiac vascular smooth muscle cell development / lymphangiogenesis / lung vasculature development / vascular endothelial growth factor receptor-2 signaling pathway / positive regulation of epithelial tube formation / VEGF binds to VEGFR leading to receptor dimerization / motor neuron migration / positive regulation of trophoblast cell migration / positive regulation of axon extension involved in axon guidance / endothelial cell chemotaxis / eye photoreceptor cell development / vascular wound healing / positive regulation of protein localization to early endosome / regulation of hematopoietic progenitor cell differentiation / camera-type eye morphogenesis / positive regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis / positive regulation of branching involved in ureteric bud morphogenesis / neuropilin binding / induction of positive chemotaxis / coronary artery morphogenesis / vascular endothelial growth factor receptor 2 binding / negative regulation of cell-cell adhesion mediated by cadherin / transmembrane receptor protein tyrosine kinase activator activity / positive regulation of vascular permeability / commissural neuron axon guidance / dopaminergic neuron differentiation / tube formation / positive regulation of vascular endothelial growth factor signaling pathway / positive regulation of blood vessel branching / platelet-derived growth factor receptor binding / surfactant homeostasis / retinal ganglion cell axon guidance / sprouting angiogenesis / extracellular matrix binding / cell migration involved in sprouting angiogenesis / endothelial cell proliferation / epithelial cell maturation / positive regulation of leukocyte migration / positive regulation of positive chemotaxis / cardiac muscle cell development / Regulation of gene expression by Hypoxia-inducible Factor / positive regulation of endothelial cell chemotaxis / positive regulation of cell migration involved in sprouting angiogenesis / vascular endothelial growth factor signaling pathway / artery morphogenesis / positive regulation of peptidyl-tyrosine phosphorylation / positive regulation of DNA biosynthetic process / negative regulation of epithelial to mesenchymal transition / branching involved in blood vessel morphogenesis / positive regulation of neuroblast proliferation / negative regulation of fat cell differentiation / positive chemotaxis / chemoattractant activity / positive regulation of sprouting angiogenesis / positive regulation of protein autophosphorylation / mesoderm development / outflow tract morphogenesis / monocyte differentiation / fibronectin binding / positive regulation of cell division / positive regulation of receptor internalization / macrophage differentiation / mammary gland alveolus development / cellular response to vascular endothelial growth factor stimulus / neuroblast proliferation / positive regulation of blood vessel endothelial cell migration / positive regulation of focal adhesion assembly / vascular endothelial growth factor receptor signaling pathway / positive regulation of osteoblast differentiation / heart morphogenesis / vasculogenesis / cell maturation / ovarian follicle development / lactation / positive regulation of endothelial cell proliferation / TFAP2 (AP-2) family regulates transcription of growth factors and their receptors / epithelial cell differentiation / homeostasis of number of cells within a tissue / extracellular matrix 類似検索 - 分子機能 | ||||||
生物種 | ![]() | ||||||
手法 | ![]() ![]() ![]() | ||||||
![]() | Wiesmann, C. / Christinger, H.W. / Cochran, A.G. / Cunningham, B.C. / Fairbrother, W.J. / Keenan, C.J. / Meng, G. / de Vos, A.M. | ||||||
![]() | ![]() タイトル: Crystal structure of the complex between VEGF and a receptor-blocking peptide. 著者: Wiesmann, C. / Christinger, H.W. / Cochran, A.G. / Cunningham, B.C. / Fairbrother, W.J. / Keenan, C.J. / Meng, G. / de Vos, A.M. | ||||||
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 | ![]() | 66.8 KB | 表示 | ![]() |
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PDB形式 | ![]() | 48.7 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 | ![]() | 382.4 KB | 表示 | ![]() |
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文書・詳細版 | ![]() | 382 KB | 表示 | |
XML形式データ | ![]() | 5.9 KB | 表示 | |
CIF形式データ | ![]() | 11 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 | ![]() 1fltS 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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非結晶学的対称性 (NCS) | NCS oper: (Code: given Matrix: (0.48459, 0.84119, -0.23993), ベクター: |
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要素
#1: タンパク質 | 分子量: 11948.680 Da / 分子数: 2 / 断片: RECEPTOR BINDING DOMAIN / 由来タイプ: 組換発現 / 由来: (組換発現) ![]() ![]() ![]() #2: タンパク質・ペプチド | 分子量: 2258.491 Da / 分子数: 2 / 断片: RECEPTOR BLOCKING PEPTIDE / 由来タイプ: 合成 / 詳細: THIS SEQUENCE IS CHEMICALLY SYNTHESIZED #3: 水 | ChemComp-HOH / | Has protein modification | Y | |
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-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: 2.5 Å3/Da / 溶媒含有率: 50.84 % | ||||||||||||||||||||||||||||||
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結晶化 | pH: 7.5 / 詳細: pH 7.5 | ||||||||||||||||||||||||||||||
結晶化 | *PLUS 手法: 蒸気拡散法, ハンギングドロップ法 / pH: 5 | ||||||||||||||||||||||||||||||
溶液の組成 | *PLUS
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-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: MARRESEARCH / 検出器: IMAGE PLATE / 日付: 1997年5月15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: 1.08 Å / 相対比: 1 |
反射 | 解像度: 1.9→99 Å / Num. obs: 23253 / % possible obs: 99.6 % / 冗長度: 5.1 % / Rsym value: 0.06 / Net I/σ(I): 14.4 |
反射 | *PLUS Rmerge(I) obs: 0.045 |
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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: 1FLT 解像度: 1.9→20 Å / 交差検証法: THROUGHOUT / σ(F): 0 / ESU R: 0.15 / ESU R Free: 0.17
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原子変位パラメータ | Biso mean: 27.1 Å2 /
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精密化ステップ | サイクル: LAST / 解像度: 1.9→20 Å
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拘束条件 |
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ソフトウェア | *PLUS 名称: REFMAC / 分類: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
精密化 | *PLUS 最高解像度: 1.9 Å / Num. reflection obs: 21270 / σ(F): 0 / % reflection Rfree: 6.3 % / Rfactor obs: 0.19 / Rfactor Rfree: 0.27 / Rfactor Rwork: 0.19 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
溶媒の処理 | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
原子変位パラメータ | *PLUS Biso mean: 27.1 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
拘束条件 | *PLUS
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