EMDB/PDB/SASBDBから引用されている文献のデータベース

キーワード
構造解析手法	All X線回折 NMR 電子顕微鏡小角散乱中性子線回折線維回折粉末回折赤外分光 EPR FRET 理論モデルハイブリッド
著者・登録者
ジャーナル
IF	>30 >20 >10 >5 all

タイトル	Molecular basis of chromatin remodelling by DDM1 involved in plant DNA methylation.
ジャーナル・号・ページ	Nat Plants, Vol. 10, Issue 3, Page 374-380, Year 2024
掲載日	2024年2月27日
著者	Yue Liu / Zhihui Zhang / Hongmiao Hu / Wei Chen / Fan Zhang / Qian Wang / Changshi Wang / Kaige Yan / Jiamu Du /
PubMed 要旨	Eukaryotic gene regulation occurs at the chromatin level, which requires changing the chromatin structure by a group of ATP-dependent DNA translocases-namely, the chromatin remodellers. In plants, ...Eukaryotic gene regulation occurs at the chromatin level, which requires changing the chromatin structure by a group of ATP-dependent DNA translocases-namely, the chromatin remodellers. In plants, chromatin remodellers function in various biological processes and possess both conserved and plant-specific components. DECREASE IN DNA METHYLATION 1 (DDM1) is a plant chromatin remodeller that plays a key role in the maintenance DNA methylation. Here we determined the structures of Arabidopsis DDM1 in complex with nucleosome in ADP-BeF-bound, ADP-bound and nucleotide-free conformations. We show that DDM1 specifically recognizes the H4 tail and nucleosomal DNA. The conformational differences between ADP-BeF-bound, ADP-bound and nucleotide-free DDM1 suggest a chromatin remodelling cycle coupled to ATP binding, hydrolysis and ADP release. This, in turn, triggers conformational changes in the DDM1-bound nucleosomal DNA, which alters the nucleosome structure and promotes DNA sliding. Together, our data reveal the molecular basis of chromatin remodelling by DDM1.
リンク	Nat Plants / PubMed:38413824
手法	EM (単粒子)
解像度	3.17 - 4.05 Å
構造データ	37529 8wh5 EMDB-37529, PDB-8wh5: Structure of DDM1-nucleosome complex in the apo state 手法: EM (単粒子) / 解像度: 3.58 Å 37533 8wh8 EMDB-37533, PDB-8wh8: Structure of DDM1-nucleosome complex in ADP state 手法: EM (単粒子) / 解像度: 3.6 Å 37535 8wh9 EMDB-37535, PDB-8wh9: Structure of DDM1-nucleosome complex in ADP-BeFx state 手法: EM (単粒子) / 解像度: 3.31 Å 37537 8wha EMDB-37537, PDB-8wha: Structure of DDM1-nucleosome complex in the ADP-BeFx state with DDM1 bound to SHL2 and SHL-2 手法: EM (単粒子) / 解像度: 4.05 Å 37538 8whb EMDB-37538, PDB-8whb: Structure of nucleosome core particle of Arabidopsis thaliana 手法: EM (単粒子) / 解像度: 3.17 Å
化合物	ChemComp-ADP: ADENOSINE-5'-DIPHOSPHATE / ADP / ADP, エネルギー貯蔵分子YM / アデノシン二リン酸 ChemComp-BEF*: BERYLLIUM TRIFLUORIDE ION
由来	arabidopsis thaliana (シロイヌナズナ) synthetic construct (人工物)
キーワード	GENE REGULATION (遺伝子発現の調節) / complex / nucleosome (ヌクレオソーム) / chromatin remodeling (クロマチンリモデリング) / structural protein-hydrolase-dna complex (構造) / chromatin (クロマチン) / histone (ヒストン) / protein dna interaction / nucleoprotein (核タンパク質)