7VYW

Crystal structure of the chromodomain of Arabidopsis LHP1 in complex with methylated histone H3K9 peptide

7VYW の概要

• エントリーDOI: 10.2210/pdb7vyw/pdb
• 分子名称: Chromo domain-containing protein LHP1, methylated histone H3K9 peptide, SULFATE ION, ... (4 entities in total)
• 機能のキーワード: transcription
• 由来する生物種: Arabidopsis thaliana (Mouse-ear cress); 詳細
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 7579.52

構造登録者

Liu, Y.,Zhang, M.,Min, J. (登録日: 2021-11-15, 公開日: 2022-02-02, 最終更新日: 2023-11-29)

主引用文献

Liu, Y.,Yang, X.,Zhou, M.,Yang, Y.,Li, F.,Yan, X.,Zhang, M.,Wei, Z.,Qin, S.,Min, J.
Structural basis for the recognition of methylated histone H3 by the Arabidopsis LHP1 chromodomain.
J.Biol.Chem., 298:101623-101623, 2022

PubMed Abstract: Arabidopsis LHP1 (LIKE HETEROCHROMATIN PROTEIN 1), a unique homolog of HP1 in Drosophila, plays important roles in plant development, growth, and architecture. In contrast to specific binding of the HP1 chromodomain to methylated H3K9 histone tails, the chromodomain of LHP1 has been shown to bind to both methylated H3K9 and H3K27 histone tails, and LHP1 carries out its function mainly via its interaction with these two epigenetic marks. However, the molecular mechanism for the recognition of methylated histone H3K9/27 by the LHP1 chromodomain is still unknown. In this study, we characterized the binding ability of LHP1 to histone H3K9 and H3K27 peptides and found that the chromodomain of LHP1 binds to histone H3K9me2/3 and H3K27me2/3 peptides with comparable affinities, although it exhibited no binding or weak binding to unmodified or monomethylated H3K9/K27 peptides. Our crystal structures of the LHP1 chromodomain in peptide-free and peptide-bound forms coupled with mutagenesis studies reveal that the chromodomain of LHP1 bears a slightly different chromodomain architecture and recognizes methylated H3K9 and H3K27 peptides via a hydrophobic clasp, similar to the chromodomains of human Polycomb proteins, which could not be explained only based on primary structure analysis. Our binding and structural studies of the LHP1 chromodomain illuminate a conserved ligand interaction mode between chromodomains of both animals and plants, and shed light on further functional study of the LHP1 protein.

PubMed: 35074427
DOI: 10.1016/j.jbc.2022.101623

実験手法

X-RAY DIFFRACTION (1.6 Å)