- PDB-4cz6: Truncated tetramerization domain of zebrafish p53 (crystal form II) -
+
データを開く
IDまたはキーワード:
読み込み中...
-
基本情報
登録情報
データベース: PDB / ID: 4cz6
タイトル
Truncated tetramerization domain of zebrafish p53 (crystal form II)
要素
CELLULAR TUMOR ANTIGEN P53
キーワード
ANTITUMOR PROTEIN / 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 / 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 / hematopoietic stem cell homeostasis / programmed cell death involved in cell development / epidermis morphogenesis / apoptotic process involved in blood vessel morphogenesis / negative regulation of cell division / retrotransposon silencing / apoptotic process involved in development / regulation of double-strand break repair / 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 / erythrocyte development / negative regulation of angiogenesis / positive regulation of cell cycle / response to UV / intrinsic apoptotic signaling pathway / transforming growth factor beta receptor signaling pathway / DNA damage checkpoint signaling / promoter-specific chromatin binding / protein tetramerization / regulation of protein stability / cellular senescence / autophagy / positive regulation of neuron apoptotic process / cellular response to hypoxia / regulation of cell population proliferation / spermatogenesis / sequence-specific DNA binding / DNA-binding transcription factor activity, RNA polymerase II-specific / RNA polymerase II cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / positive regulation of apoptotic process / DNA damage response / regulation of transcription by RNA polymerase II / positive regulation of DNA-templated transcription / chromatin / apoptotic process / positive regulation of transcription by RNA polymerase II / mitochondrion / 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
-
実験情報
-
実験
実験
手法: X線回折 / 使用した結晶の数: 1
-
試料調製
結晶
マシュー密度: 3.1 Å3/Da / 溶媒含有率: 60 % / 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: 7 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: 50% (W/V) POLYETHYLENE GLYCOL 200, 100 MM TRIS, PH 7.0
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: 1.53→28.8 Å / Num. obs: 28720 / % possible obs: 100 % / Observed criterion σ(I): 2 / 冗長度: 8 % / Rmerge(I) obs: 0.04 / Net I/σ(I): 25.8
反射 シェル
解像度: 1.53→1.61 Å / 冗長度: 7.5 % / Rmerge(I) obs: 0.53 / Mean I/σ(I) obs: 3.5 / % possible all: 100
-
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 開始モデル: NONE 解像度: 1.53→49.82 Å / Cor.coef. Fo:Fc: 0.972 / Cor.coef. Fo:Fc free: 0.963 / SU B: 1.786 / SU ML: 0.03 / 交差検証法: THROUGHOUT / ESU R: 0.058 / ESU R Free: 0.057 / 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
0.18365
1448
5 %
RANDOM
Rwork
0.14831
-
-
-
obs
0.15003
27232
99.97 %
-
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