9L4C

ATR Spiral -ATRIP bound with RP-3500

9L4C の概要

• エントリーDOI: 10.2210/pdb9l4c/pdb
• EMDBエントリー: 62809
• 分子名称: Serine/threonine-protein kinase ATR, ATR-interacting protein, ZINC ION (3 entities in total)
• 機能のキーワード: atr spiral atrip rp-3500, cell cycle
• 由来する生物種: Homo sapiens (human); 詳細
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 775525.71

構造登録者

Wang, G. (登録日: 2024-12-20, 公開日: 2025-05-21, 最終更新日: 2025-07-09)

主引用文献

Wang, G.,Wang, P.,Zheng, Z.,Zhang, Q.,Xu, C.,Xu, X.,Jian, L.,Zhao, Z.,Cai, G.,Wang, X.
Molecular architecture and inhibition mechanism of human ATR-ATRIP.
Sci Bull (Beijing), 70:2137-2146, 2025

PubMed Abstract: The ataxia telangiectasia-mutated and Rad3-related (ATR) kinase is a master regulator of DNA damage response and replication stress in humans. Targeting ATR is the focus of oncology drug pipelines with a number of potent, selective ATR inhibitors currently in clinical development. Here, we determined the cryo-EM structures of the human ATR-ATRIP complex in the presence of VE-822 and RP-3500, two ATR inhibitors currently in Phase II clinical trials, achieving an overall resolution of approximately 3 Å. These structures yield a near-complete atomic model of the ATR-ATRIP complex, revealing subunit stoichiometry, intramolecular and intermolecular interactions, and critical regulatory sites including an insertion in the PIKK regulatory domain (PRD). Structural comparison provides insights into the modes of action and selectivity of ATR inhibitors. The divergent binding modes near the solvent side and in the rear pocket area of VE-822 and RP-3500, particularly their disparate binding orientations, lead to varying conformational changes in the active site. Surprisingly, one ATR-ATRIP complex binds four VE-822 molecules, with two in the ATR active site and two at the ATR-ATR dimer interface. The binding and selectivity of RP-3500 depend on two bound water molecules, which may be further enhanced by the substitution of these bound waters. Our study provides a structural framework for understanding ATR regulation and holds promise for assisting future efforts in rational drug design targeting ATR.

PubMed: 40379520
DOI: 10.1016/j.scib.2025.05.009

実験手法

ELECTRON MICROSCOPY (4.06 Å)