EMDB/PDB/SASBDBから引用されている文献のデータベース

キーワード
構造解析手法	All X線回折 NMR 電子顕微鏡小角散乱中性子線回折線維回折粉末回折赤外分光 EPR FRET 理論モデルハイブリッド
著者・登録者
ジャーナル
IF	>30 >20 >10 >5 all

タイトル	Cryo-EM uncovers a sequential mechanism for RNA polymerase I pausing and stalling at abasic DNA lesions.
ジャーナル・号・ページ	Nat Commun, Vol. 16, Issue 1, Page 5254, Year 2025
掲載日	2025年6月6日
著者	Alicia Santos-Aledo / Adrián Plaza-Pegueroles / Marta Sanz-Murillo / Federico M Ruiz / Peini Hou / Jun Xu / David Gil-Carton / Dong Wang / Carlos Fernández-Tornero /
PubMed 要旨	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 ...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.
リンク	Nat Commun / PubMed:40480971 / PubMed Central
手法	EM (単粒子)
解像度	2.7 - 3.5 Å
構造データ	50955 9g1v EMDB-50955, PDB-9g1v: Yeast RNA polymerase I elongation complex stalled by an apurinic site 手法: EM (単粒子) / 解像度: 2.7 Å 50956 9g1x EMDB-50956, PDB-9g1x: Yeast RNA polymerase I elongation complex stalled by an apurinic site, 11-subunit 手法: EM (単粒子) / 解像度: 3.5 Å 50962 9g23 EMDB-50962, PDB-9g23: Yeast RNA polymerase I elongation complex stalled by an apurinic site bound to nucleotide analog AMPCPP at A-site 手法: EM (単粒子) / 解像度: 3.4 Å 50963 9g24 EMDB-50963, PDB-9g24: Yeast RNA polymerase I elongation complex stalled by an apurinic site bound to nucleotide analog AMPCPP at E-site 手法: EM (単粒子) / 解像度: 3.5 Å 50965 9g26 EMDB-50965, PDB-9g26: Yeast RNA polymerase I elongation complex stalled by an apurinic site, closed state 手法: EM (単粒子) / 解像度: 3.4 Å 50966 9g27 EMDB-50966, PDB-9g27: Yeast RNA polymerase I elongation complex stalled by an apurinic site, pre-translocation state 手法: EM (単粒子) / 解像度: 2.8 Å 50970 9g29 EMDB-50970, PDB-9g29: Yeast RNA polymerase I elongation complex stalled by an apurinic site with the C-terminal of A12 in the funnel 手法: EM (単粒子) / 解像度: 3.3 Å 50971 9g2b EMDB-50971, PDB-9g2b: Yeast RNA polymerase I elongation complex stalled by an apurinic site, 12-subunit 手法: EM (単粒子) / 解像度: 3.2 Å 50972 9g2c EMDB-50972, PDB-9g2c: Yeast RNA polymerase I elongation complex stalled by an apurinic site, open state 手法: EM (単粒子) / 解像度: 3.5 Å
化合物	ChemComp-MG: Unknown entry / マグネシウムジカチオン ChemComp-ZN: Unknown entry ChemComp-APC: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER / α,β-メチレンATP / AMP-CPP, エネルギー貯蔵分子類似体*YM
由来	saccharomyces cerevisiae (パン酵母)
キーワード	TRANSCRIPTION / DNA lesion