8KCB

Complex of DDM1-nucleosome(H2A) complex with DDM1 bound to SHL2

8KCB の概要

• エントリーDOI: 10.2210/pdb8kcb/pdb
• EMDBエントリー: 37098
• 分子名称: Histone H2B.10, Histone H3.1, Histone H4, ... (9 entities in total)
• 機能のキーワード: ddm1, nucleosome, h2a, structural protein
• 由来する生物種: Arabidopsis thaliana (thale cress); 詳細
• タンパク質・核酸の鎖数: 11
• 化学式量合計: 304586.46

構造登録者

Zhang, H.,Zhang, Y. (登録日: 2023-08-07, 公開日: 2024-06-26, 最終更新日: 2024-08-21)

主引用文献

Zhang, H.,Gu, Z.,Zeng, Y.,Zhang, Y.
Mechanism of heterochromatin remodeling revealed by the DDM1 bound nucleosome structures.
Structure, 32:1222-1230.e4, 2024

PubMed Abstract: The SWI/SNF2 chromatin remodeling factor decreased DNA methylation 1 (DDM1) is essential for the silencing of transposable elements (TEs) in both euchromatic and heterochromatic regions. Here, we determined the cryo-EM structures of DDM1-nucleosome and DDM1-nucleosome complexes at near-atomic resolution in the presence of the ATP analog ADP-BeFx. The structures show that nucleosomal DNA is unwrapped more on the surface of the histone octamer containing histone H2A than that containing histone H2A.W. DDM1 embraces one DNA gyre of the nucleosome and interacts with the N-terminal tails of histone H4. Although we did not observe DDM1-H2A.W interactions in our structures, the results of the pull-down experiments suggest a direct interaction between DDM1 and the core region of histone H2A.W. Our work provides mechanistic insights into the heterochromatin remodeling process driven by DDM1 in plants.

PubMed: 38870940
DOI: 10.1016/j.str.2024.05.013

実験手法

ELECTRON MICROSCOPY (3.17 Å)