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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: 2d5g | ||||||
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タイトル | Structure of ubiquitin fold protein R767E mutant | ||||||
![]() | Axin-1 | ||||||
![]() | SIGNALING PROTEIN / UBIQUITIN FOLD | ||||||
機能・相同性 | ![]() Beta-catenin phosphorylation cascade / Disassembly of the destruction complex and recruitment of AXIN to the membrane / TCF dependent signaling in response to WNT / Degradation of beta-catenin by the destruction complex / Degradation of AXIN / embryonic skeletal joint morphogenesis / armadillo repeat domain binding / response to quercetin / hemoglobin metabolic process / head development ...Beta-catenin phosphorylation cascade / Disassembly of the destruction complex and recruitment of AXIN to the membrane / TCF dependent signaling in response to WNT / Degradation of beta-catenin by the destruction complex / Degradation of AXIN / embryonic skeletal joint morphogenesis / armadillo repeat domain binding / response to quercetin / hemoglobin metabolic process / head development / cell development / Ub-specific processing proteases / dorsal/ventral axis specification / axial mesoderm formation / post-anal tail morphogenesis / axial mesoderm development / beta-catenin destruction complex / epigenetic programming in the zygotic pronuclei / positive regulation of ubiquitin-dependent protein catabolic process / I-SMAD binding / dorsal/ventral pattern formation / adult walking behavior / Wnt signalosome / regulation of canonical Wnt signaling pathway / nervous system process / nucleocytoplasmic transport / erythrocyte homeostasis / negative regulation of protein metabolic process / negative regulation of fat cell differentiation / negative regulation of Wnt signaling pathway / positive regulation of transforming growth factor beta receptor signaling pathway / negative regulation of transcription elongation by RNA polymerase II / SMAD binding / R-SMAD binding / ubiquitin-like ligase-substrate adaptor activity / lateral plasma membrane / canonical Wnt signaling pathway / cytoplasmic microtubule organization / positive regulation of peptidyl-threonine phosphorylation / positive regulation of protein ubiquitination / cell periphery / positive regulation of JNK cascade / sensory perception of sound / regulation of protein phosphorylation / protein catabolic process / negative regulation of canonical Wnt signaling pathway / beta-catenin binding / Wnt signaling pathway / protein polyubiquitination / positive regulation of protein catabolic process / : / microtubule cytoskeleton / p53 binding / positive regulation of proteasomal ubiquitin-dependent protein catabolic process / positive regulation of peptidyl-serine phosphorylation / cell cortex / cytoplasmic vesicle / protein-containing complex assembly / in utero embryonic development / molecular adaptor activity / positive regulation of protein phosphorylation / protein domain specific binding / negative regulation of gene expression / signaling receptor binding / apoptotic process / ubiquitin protein ligase binding / synapse / protein kinase binding / perinuclear region of cytoplasm / enzyme binding / protein homodimerization activity / protein-containing complex / identical protein binding / nucleus / plasma membrane / cytoplasm 類似検索 - 分子機能 | ||||||
生物種 | ![]() ![]() | ||||||
手法 | ![]() ![]() ![]() | ||||||
![]() | Shibata, N. / Higuchi, Y. | ||||||
![]() | ![]() タイトル: Structure of ubiquitin fold protein R767E mutant 著者: Shibata, N. / Hanamura, T. / Yamamoto, R. / Ueda, Y. / Yamamoto, H. / Kikuchi, A. / Higuchi, Y. | ||||||
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 | ![]() | 109.4 KB | 表示 | ![]() |
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PDB形式 | ![]() | 87.4 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 | ![]() | 468.8 KB | 表示 | ![]() |
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文書・詳細版 | ![]() | 490.1 KB | 表示 | |
XML形式データ | ![]() | 21.2 KB | 表示 | |
CIF形式データ | ![]() | 29.2 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 | |
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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: 9803.242 Da / 分子数: 6 / 断片: DIX DOMAIN / 変異: R767E / 由来タイプ: 組換発現 / 由来: (組換発現) ![]() ![]() ![]() ![]() #2: 化合物 | ChemComp-HG / |
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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: 2.98 Å3/Da / 溶媒含有率: 58.66 % / 解説: the file contains Friedel pairs. |
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結晶化 | 温度: 283 K / 手法: 蒸気拡散法, シッティングドロップ法 / pH: 7.5 詳細: PEG8000, TRIS, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 283K |
-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: ADSC QUANTUM 4 / 検出器: CCD / 日付: 2005年2月19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 Å / 相対比: 1 |
反射 | 解像度: 3.2→50 Å / Num. all: 21930 / Num. obs: 21930 / % possible obs: 99.9 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 |
反射 シェル | 解像度: 3.2→3.31 Å / % possible all: 100 |
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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: ![]()
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溶媒の処理 | 溶媒モデル: FLAT MODEL / Bsol: 66.6075 Å2 / ksol: 0.281879 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
原子変位パラメータ | Biso mean: 76.2 Å2
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Refine analyze |
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精密化ステップ | サイクル: LAST / 解像度: 3.2→49.18 Å
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拘束条件 |
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LS精密化 シェル | 解像度: 3.2→3.31 Å / Rfactor Rfree error: 0.032 / Total num. of bins used: 10
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Xplor file |
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