8ZDB

Cryo-EM structure of the human ubiquitylated 40S ribosome with RIOK3

8ZDB の概要

• エントリーDOI: 10.2210/pdb8zdb/pdb
• EMDBエントリー: 39956
• 分子名称: 18S rRNA, Small ribosomal subunit protein uS17, Small ribosomal subunit protein uS15, ... (37 entities in total)
• 機能のキーワード: ubiquitylation, ribosome, riok3
• 由来する生物種: Homo sapiens (human); 詳細
• タンパク質・核酸の鎖数: 38
• 化学式量合計: 1320776.20

構造登録者

Huang, Z.,Wang, M.,Li, Y.,Beckmann, R.,Cheng, J. (登録日: 2024-05-01, 公開日: 2025-02-12, 最終更新日: 2025-03-12)

主引用文献

Huang, Z.,Diehl, F.F.,Wang, M.,Li, Y.,Song, A.,Chen, F.X.,Rosa-Mercado, N.A.,Beckmann, R.,Green, R.,Cheng, J.
RIOK3 mediates the degradation of 40S ribosomes.
Mol.Cell, 85:802-, 2025

PubMed Abstract: Cells tightly regulate ribosome homeostasis to adapt to changing environments. Ribosomes are degraded during stress, but the mechanisms responsible remain unclear. Here, we show that starvation induces the selective depletion of 40S ribosomes following their ubiquitylation by the E3 ligase RNF10. The atypical kinase RIOK3 specifically recognizes these ubiquitylated 40S ribosomes through a unique ubiquitin-interacting motif, visualized by cryoelectron microscopy (cryo-EM). RIOK3 binding and ubiquitin recognition are essential for 40S ribosome degradation during starvation. RIOK3 induces the degradation of ubiquitylated 40S ribosomes through progressive decay of their 18S rRNA beginning at the 3' end, as revealed by cryo-EM structures of degradation intermediates. Together, these data define a pathway and mechanism for stress-induced degradation of 40S ribosomes, directly connecting ubiquitylation to regulation of ribosome homeostasis.

PubMed: 39947183
DOI: 10.1016/j.molcel.2025.01.013

実験手法

ELECTRON MICROSCOPY (3.6 Å)