- PDB-4cz5: Truncated tetramerization domain of zebrafish p53 (crystal form I) -
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データを開く
IDまたはキーワード:
読み込み中...
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基本情報
登録情報
データベース: PDB / ID: 4cz5
タイトル
Truncated tetramerization domain of zebrafish p53 (crystal form I)
要素
CELLULAR TUMOR ANTIGEN P53
キーワード
CELL CYCLE / P53 FAMILY / TUMOR SUPPRESSOR / TRANSCRIPTION FACTOR / PROTEIN EVOLUTION
機能・相同性
機能・相同性情報
regulation of oogenesis / Regulation of TP53 Expression / Regulation of TP53 Activity through Acetylation / Regulation of TP53 Activity through Association with Co-factors / Regulation of TP53 Activity through Methylation / RUNX3 regulates CDKN1A transcription / Regulation of TP53 Activity through Phosphorylation / PKR-mediated signaling / Autodegradation of the E3 ubiquitin ligase COP1 / G2/M Checkpoints ...regulation of oogenesis / Regulation of TP53 Expression / Regulation of TP53 Activity through Acetylation / Regulation of TP53 Activity through Association with Co-factors / Regulation of TP53 Activity through Methylation / RUNX3 regulates CDKN1A transcription / Regulation of TP53 Activity through Phosphorylation / PKR-mediated signaling / Autodegradation of the E3 ubiquitin ligase COP1 / G2/M Checkpoints / Ovarian tumor domain proteases / epithelium development / Ub-specific processing proteases / Oxidative Stress Induced Senescence / Oncogene Induced Senescence / Regulation of TP53 Degradation / Stabilization of p53 / The role of GTSE1 in G2/M progression after G2 checkpoint / intestinal epithelial structure maintenance / programmed cell death involved in cell development / hematopoietic stem cell homeostasis / epidermis morphogenesis / apoptotic process involved in blood vessel morphogenesis / negative regulation of cell division / retrotransposon silencing / regulation of double-strand break repair / apoptotic process involved in development / response to methylmercury / definitive hemopoiesis / regulation of intrinsic apoptotic signaling pathway by p53 class mediator / DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator / hematopoietic stem cell proliferation / erythrocyte maturation / negative regulation of cell cycle / response to X-ray / intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator / anatomical structure morphogenesis / erythrocyte development / positive regulation of cell cycle / response to UV / intrinsic apoptotic signaling pathway / negative regulation of angiogenesis / transforming growth factor beta receptor signaling pathway / DNA damage checkpoint signaling / promoter-specific chromatin binding / protein tetramerization / regulation of protein stability / autophagy / cellular senescence / positive regulation of neuron apoptotic process / regulation of cell population proliferation / cellular response to hypoxia / spermatogenesis / sequence-specific DNA binding / DNA-binding transcription factor activity, RNA polymerase II-specific / cell cycle / positive regulation of apoptotic process / RNA polymerase II cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / apoptotic process / DNA damage response / chromatin / regulation of transcription by RNA polymerase II / positive regulation of DNA-templated transcription / positive regulation of transcription by RNA polymerase II / mitochondrion / identical protein binding / nucleus / metal ion binding / cytoplasm 類似検索 - 分子機能
ADDITIONAL GGS SEQUENCE AT THE N TERMINUS AS A RESULT OF CLONING STRATEGY
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実験情報
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実験
実験
手法: X線回折 / 使用した結晶の数: 1
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試料調製
結晶
マシュー密度: 1.9 Å3/Da / 溶媒含有率: 35 % / 解説: NONE
結晶化
温度: 293 K / 手法: 蒸気拡散法, シッティングドロップ法 / pH: 9 詳細: SITTING DROP VAPOR DIFFUSION AT 20 DEGREE C; PROTEIN SOLUTION: 17 MG/ML IN 20 MM TRIS PH 7.5, 50 MM NACL, 5 MM DTT; CRYSTALLIZATION BUFFER: 2.4 M AMMONIUM SULFATE, 100 MM BICINE, PH 9.0
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: 0.8266 Å / 相対比: 1
反射
解像度: 1.02→28.09 Å / Num. obs: 59076 / % possible obs: 99.8 % / Observed criterion σ(I): 2 / 冗長度: 5.2 % / Rmerge(I) obs: 0.03 / Net I/σ(I): 19.3
反射 シェル
解像度: 1.02→1.08 Å / 冗長度: 5 % / Rmerge(I) obs: 0.54 / Mean I/σ(I) obs: 3 / % possible all: 99.9
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解析
ソフトウェア
名称: REFMAC / バージョン: 5.8.0069 / 分類: 精密化
精密化
構造決定の手法: 分子置換 / 解像度: 1.02→28.1 Å / Cor.coef. Fo:Fc: 0.971 / Cor.coef. Fo:Fc free: 0.963 / SU B: 1.039 / SU ML: 0.023 / 交差検証法: THROUGHOUT / ESU R: 0.026 / ESU R Free: 0.026 / 立体化学のターゲット値: MAXIMUM LIKELIHOOD / 詳細: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS.
Rfactor
反射数
%反射
Selection details
Rfree
0.17846
2982
5.1 %
RANDOM
Rwork
0.15759
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obs
0.15866
56018
99.71 %
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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