7MEX

Structure of yeast Ubr1 in complex with Ubc2 and N-degron

7MEX の概要

• エントリーDOI: 10.2210/pdb7mex/pdb
• EMDBエントリー: 23806 23807
• 分子名称: Ubiquitin, Ubiquitin-conjugating enzyme E2 2, N-degron, ... (5 entities in total)
• 機能のキーワード: ubiquitin e3 ligase, ubiquitination, ubr1, ubc2, degron, n-end rule, transferase
• 由来する生物種: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast); 詳細
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 255958.15

構造登録者

Pan, M.,Zheng, Q.,Wang, T.,Liang, L.,Yu, Y.,Liu, L.,Zhao, M. (登録日: 2021-04-08, 公開日: 2021-11-24, 最終更新日: 2024-05-29)

主引用文献

Pan, M.,Zheng, Q.,Wang, T.,Liang, L.,Mao, J.,Zuo, C.,Ding, R.,Ai, H.,Xie, Y.,Si, D.,Yu, Y.,Liu, L.,Zhao, M.
Structural insights into Ubr1-mediated N-degron polyubiquitination.
Nature, 600:334-338, 2021

PubMed Abstract: The N-degron pathway targets proteins that bear a destabilizing residue at the N terminus for proteasome-dependent degradation. In yeast, Ubr1-a single-subunit E3 ligase-is responsible for the Arg/N-degron pathway. How Ubr1 mediates the initiation of ubiquitination and the elongation of the ubiquitin chain in a linkage-specific manner through a single E2 ubiquitin-conjugating enzyme (Ubc2) remains unknown. Here we developed chemical strategies to mimic the reaction intermediates of the first and second ubiquitin transfer steps, and determined the cryo-electron microscopy structures of Ubr1 in complex with Ubc2, ubiquitin and two N-degron peptides, representing the initiation and elongation steps of ubiquitination. Key structural elements, including a Ubc2-binding region and an acceptor ubiquitin-binding loop on Ubr1, were identified and characterized. These structures provide mechanistic insights into the initiation and elongation of ubiquitination catalysed by Ubr1.

PubMed: 34789879
DOI: 10.1038/s41586-021-04097-8

実験手法

ELECTRON MICROSCOPY (3.35 Å)