9G2C

Yeast RNA polymerase I elongation complex stalled by an apurinic site, open state

9G2C の概要

• エントリーDOI: 10.2210/pdb9g2c/pdb
• 関連するPDBエントリー: 9g1v 9g1x 9g23 9g24 9g26 9g27 9g29 9g2b
• EMDBエントリー: 50972
• 分子名称: DNA-directed RNA polymerase I subunit RPA190, DNA-directed RNA polymerases I and III subunit RPAC2, DNA-directed RNA polymerases I, II, and III subunit RPABC4, ... (17 entities in total)
• 機能のキーワード: dna lesion, transcription
• 由来する生物種: Saccharomyces cerevisiae (brewer's yeast); 詳細
• タンパク質・核酸の鎖数: 16
• 化学式量合計: 602907.27

構造登録者

Santos-Aledo, A.,Plaza-Pegueroles, A.,Ruiz, F.M.,Fernandez-Tornero, C. (登録日: 2024-07-10, 公開日: 2025-06-18)

主引用文献

Santos-Aledo, A.,Plaza-Pegueroles, A.,Sanz-Murillo, M.,Ruiz, F.M.,Hou, P.,Xu, J.,Gil-Carton, D.,Wang, D.,Fernandez-Tornero, C.
Cryo-EM uncovers a sequential mechanism for RNA polymerase I pausing and stalling at abasic DNA lesions.
Nat Commun, 16:5254-5254, 2025

PubMed Abstract: During synthesis of the ribosomal RNA precursor, RNA polymerase I (Pol I) monitors DNA integrity but its response to DNA damage remains poorly studied. Abasic sites are among the most prevalent DNA lesions in eukaryotic cells, and their detection is critical for cell survival. We report cryo-EM structures of Pol I in different stages of stalling at abasic sites, supported by in vitro transcription studies. Slow nucleotide addition opposite abasic sites occurs through base sandwiching between the RNA 3'-end and the Pol I bridge helix. Templating abasic sites can also cause Pol I cleft opening, which enables the A12 subunit to access the active center. Nucleotide addition opposite the lesion induces a translocation intermediate where DNA bases tilt to form hydrogen bonds with the new RNA base. These findings reveal unique mechanisms of Pol I stalling at abasic sites, differing from arrest by bulky lesions or abasic site handling by RNA polymerase II.

PubMed: 40480971
DOI: 10.1038/s41467-025-60536-4

実験手法

ELECTRON MICROSCOPY (3.5 Å)