8KA3

Arabidopsis AP endonuclease ARP complex with 22bp THF-containing DNA

8KA3 の概要

• エントリーDOI: 10.2210/pdb8ka3/pdb
• 分子名称: DNA-(apurinic or apyrimidinic site) endonuclease, chloroplastic, DNA (43-MER), NICKEL (II) ION, ... (5 entities in total)
• 機能のキーワード: ap, abasic site, endonuclease, arabidopsis, hydrolase/dna, hydrolase-dna complex
• 由来する生物種: Arabidopsis thaliana (Mouse-ear cress); 詳細
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 73754.46

構造登録者

Guo, W.T.,Wu, B.X. (登録日: 2023-08-02, 公開日: 2024-02-21, 最終更新日: 2024-06-19)

主引用文献

Guo, W.,Wu, W.,Wen, Y.,Gao, Y.,Zhuang, S.,Meng, C.,Chen, H.,Zhao, Z.,Hu, K.,Wu, B.
Structural insights into the catalytic mechanism of the AP endonuclease AtARP.
Structure, 32:780-794.e5, 2024

PubMed Abstract: Base excision repair (BER) is a critical genome defense pathway that copes with a broad range of DNA lesions induced by endogenous or exogenous genotoxic agents. AP endonucleases in the BER pathway are responsible for removing the damaged bases and nicking the abasic sites. In plants, the BER pathway plays a critical role in the active demethylation of 5-methylcytosine (5mC) DNA modification. Here, we have determined the crystal structures of Arabidopsis AP endonuclease AtARP in complex with the double-stranded DNA containing tetrahydrofuran (THF) that mimics the abasic site. We identified the critical residues in AtARP for binding and removing the abasic site and the unique residues for interacting with the orphan base. Additionally, we investigated the differences among the three plant AP endonucleases and evaluated the general DNA repair capacity of AtARP in a mammalian cell line. Our studies provide further mechanistic insights into the BER pathway in plants.

PubMed: 38503293
DOI: 10.1016/j.str.2024.02.014

実験手法

X-RAY DIFFRACTION (3 Å)