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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: 2pk4 | |||||||||
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タイトル | THE REFINED STRUCTURE OF THE EPSILON-AMINOCAPROIC ACID COMPLEX OF HUMAN PLASMINOGEN KRINGLE | |||||||||
![]() | HUMAN PLASMINOGEN KRINGLE 4 | |||||||||
![]() | HYDROLASE(SERINE PROTEASE) | |||||||||
機能・相同性 | ![]() plasmin / trans-synaptic signaling by BDNF, modulating synaptic transmission / trophoblast giant cell differentiation / tissue remodeling / protein antigen binding / tissue regeneration / mononuclear cell migration / Signaling by PDGF / negative regulation of cell-cell adhesion mediated by cadherin / positive regulation of fibrinolysis ...plasmin / trans-synaptic signaling by BDNF, modulating synaptic transmission / trophoblast giant cell differentiation / tissue remodeling / protein antigen binding / tissue regeneration / mononuclear cell migration / Signaling by PDGF / negative regulation of cell-cell adhesion mediated by cadherin / positive regulation of fibrinolysis / Dissolution of Fibrin Clot / negative regulation of cell-substrate adhesion / myoblast differentiation / biological process involved in interaction with symbiont / labyrinthine layer blood vessel development / muscle cell cellular homeostasis / Activation of Matrix Metalloproteinases / apolipoprotein binding / extracellular matrix disassembly / positive regulation of blood vessel endothelial cell migration / negative regulation of fibrinolysis / fibrinolysis / Degradation of the extracellular matrix / serine-type peptidase activity / platelet alpha granule lumen / Schaffer collateral - CA1 synapse / kinase binding / Regulation of Insulin-like Growth Factor (IGF) transport and uptake by Insulin-like Growth Factor Binding Proteins (IGFBPs) / blood coagulation / Platelet degranulation / protein-folding chaperone binding / protease binding / collagen-containing extracellular matrix / endopeptidase activity / blood microparticle / protein domain specific binding / negative regulation of cell population proliferation / external side of plasma membrane / serine-type endopeptidase activity / signaling receptor binding / glutamatergic synapse / enzyme binding / cell surface / proteolysis / extracellular space / extracellular exosome / extracellular region / plasma membrane 類似検索 - 分子機能 | |||||||||
生物種 | ![]() | |||||||||
手法 | ![]() | |||||||||
![]() | Tulinsky, A. / Wu, T.-P. | |||||||||
![]() | ![]() タイトル: The refined structure of the epsilon-aminocaproic acid complex of human plasminogen kringle 4. 著者: Wu, T.P. / Padmanabhan, K. / Tulinsky, A. / Mulichak, A.M. #1: ![]() タイトル: Structure of Bovine Prothrombin Fragment 1 Refined at 2.25 Angstroms Resolution 著者: Seshadri, T.P. / Tulinsky, A. / Skrzypczak-Jankun, E. / Park, C.H. #2: ![]() タイトル: Structure of the Lysine-Fibrin Binding Subsite of Human Plasminogen Kringle 4 著者: Mulichak, A.M. / Tulinsky, A. #3: ![]() タイトル: Lysine(Slash)Fibrin Binding Sites of Kringles Modeled After the Structure of Kringle 1 of Prothrombin 著者: Tulinsky, A. / Park, C.H. / Mao, B. / Llinas, M. #4: ![]() タイトル: Structure of Prothrombin Fragment 1 Refined at 2.8 Angstroms Resolution 著者: Tulinsky, A. / Park, C.H. / Skrzypczak-Jankun, E. | |||||||||
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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PDBx/mmCIF形式 | ![]() | 31.6 KB | 表示 | ![]() |
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PDB形式 | ![]() | 19.9 KB | 表示 | ![]() |
PDBx/mmJSON形式 | ![]() | ツリー表示 | ![]() | |
その他 | ![]() |
-検証レポート
アーカイブディレクトリ | ![]() ![]() | HTTPS FTP |
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-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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Atom site foot note | 1: CIS PROLINE - PRO 30 |
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要素
#1: タンパク質 | 分子量: 9169.110 Da / 分子数: 1 / 由来タイプ: 組換発現 / 由来: (組換発現) ![]() |
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#2: 化合物 | ChemComp-ACA / |
#3: 水 | ChemComp-HOH / |
配列の詳細 | SEQUENCE NUMBERING OF KRINGLE 4 IS BASED ON PLASMINOGEN KRINGLE 5. THE FINAL STRUCTURE HAS RESIDUE ...SEQUENCE NUMBERING OF KRINGLE 4 IS BASED ON PLASMINOGE |
-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: 2.02 Å3/Da / 溶媒含有率: 39.16 % | |||||||||||||||||||||||||
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結晶化 | *PLUS pH: 6 / 手法: 蒸気拡散法, シッティングドロップ法 | |||||||||||||||||||||||||
溶液の組成 | *PLUS
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-データ収集
反射 | *PLUS 最高解像度: 2.25 Å / Num. all: 3400 / Num. obs: 3381 / % possible obs: 95 % |
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解析
ソフトウェア | 名称: PROFFT / 分類: 精密化 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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精密化 | Rfactor obs: 0.148 / 最高解像度: 2.25 Å 詳細: RESIDUES THR 18 AND ARG 32 HAD NO ELECTRON DENSITY AND WERE THEREFORE REFINED AS ALA. | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
精密化ステップ | サイクル: LAST / 最高解像度: 2.25 Å
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拘束条件 |
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精密化 | *PLUS 最高解像度: 2.25 Å / 最低解像度: 7 Å / Num. reflection obs: 2993 / Rfactor obs: 0.148 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
溶媒の処理 | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
原子変位パラメータ | *PLUS Biso mean: 17.9 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
拘束条件 | *PLUS
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