positive regulation of chromatin binding / histone H3K9me2/H3K9me3 demethylase activity / [histone H3]-trimethyl-L-lysine9 demethylase / positive regulation of double-strand break repair via nonhomologous end joining / histone H3K9 demethylase activity / histone demethylase activity / pericentric heterochromatin / cellular response to ionizing radiation / regulation of protein phosphorylation / double-strand break repair via homologous recombination ...positive regulation of chromatin binding / histone H3K9me2/H3K9me3 demethylase activity / [histone H3]-trimethyl-L-lysine9 demethylase / positive regulation of double-strand break repair via nonhomologous end joining / histone H3K9 demethylase activity / histone demethylase activity / pericentric heterochromatin / cellular response to ionizing radiation / regulation of protein phosphorylation / double-strand break repair via homologous recombination / HDMs demethylate histones / chromatin DNA binding / site of double-strand break / regulation of gene expression / damaged DNA binding / blood microparticle / inflammatory response / chromatin remodeling / chromatin / nucleoplasm / nucleus / metal ion binding 類似検索 - 分子機能
JmjN domain / jmjN domain / JmjN domain profile. / Small domain found in the jumonji family of transcription factors / Cupin / JmjC domain, hydroxylase / A domain family that is part of the cupin metalloenzyme superfamily. / JmjC domain / JmjC domain profile. / Jelly Rolls ...JmjN domain / jmjN domain / JmjN domain profile. / Small domain found in the jumonji family of transcription factors / Cupin / JmjC domain, hydroxylase / A domain family that is part of the cupin metalloenzyme superfamily. / JmjC domain / JmjC domain profile. / Jelly Rolls / Sandwich / Mainly Beta 類似検索 - ドメイン・相同性
LYSINE-SPECIFICDEMETHYLASE4D / JMJC DOMAIN-CONTAINING HISTONE DEMETHYLATION PROTEIN 3D / JUMONJI DOMAIN-CONTAINING PROTEIN 2D / ...JMJC DOMAIN-CONTAINING HISTONE DEMETHYLATION PROTEIN 3D / JUMONJI DOMAIN-CONTAINING PROTEIN 2D / HUMAN LYSINE-SPECIFIC DEMETHYLASE 4D / JMJD2D
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: 1.54178 Å / 相対比: 1
反射
解像度: 2.04→26.92 Å / Num. obs: 25133 / % possible obs: 98.4 % / Observed criterion σ(I): 2 / 冗長度: 4.4 % / Rmerge(I) obs: 0.11 / Net I/σ(I): 10.8
反射 シェル
解像度: 2.04→2.15 Å / 冗長度: 4.8 % / Rmerge(I) obs: 0.38 / Mean I/σ(I) obs: 4.1 / % possible all: 97.7
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解析
ソフトウェア
名称
バージョン
分類
REFMAC
5.6.0117
精密化
MOSFLM
データ削減
SCALA
データスケーリング
精密化
構造決定の手法: 分子置換 開始モデル: NONE 解像度: 2→64.52 Å / Cor.coef. Fo:Fc: 0.957 / Cor.coef. Fo:Fc free: 0.931 / SU B: 6.36 / SU ML: 0.094 / 交差検証法: THROUGHOUT / ESU R: 0.17 / ESU R Free: 0.151 / 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
0.20707
1356
5 %
RANDOM
Rwork
0.16375
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obs
0.16591
25647
99.44 %
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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: BABINET MODEL WITH MASK