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RNA polymerase drives ribonucleotide excision DNA repair in E. coli.

Authors :
Hao Z
Gowder M
Proshkin S
Bharati BK
Epshtein V
Svetlov V
Shamovsky I
Nudler E
Source :
Cell [Cell] 2023 May 25; Vol. 186 (11), pp. 2425-2437.e21. Date of Electronic Publication: 2023 May 16.
Publication Year :
2023

Abstract

Ribonuclease HII (RNaseHII) is the principal enzyme that removes misincorporated ribonucleoside monophosphates (rNMPs) from genomic DNA. Here, we present structural, biochemical, and genetic evidence demonstrating that ribonucleotide excision repair (RER) is directly coupled to transcription. Affinity pull-downs and mass-spectrometry-assisted mapping of in cellulo inter-protein cross-linking reveal the majority of RNaseHII molecules interacting with RNA polymerase (RNAP) in E. coli. Cryoelectron microscopy structures of RNaseHII bound to RNAP during elongation, with and without the target rNMP substrate, show specific protein-protein interactions that define the transcription-coupled RER (TC-RER) complex in engaged and unengaged states. The weakening of RNAP-RNaseHII interactions compromises RER in vivo. The structure-functional data support a model where RNaseHII scans DNA in one dimension in search for rNMPs while "riding" the RNAP. We further demonstrate that TC-RER accounts for a significant fraction of repair events, thereby establishing RNAP as a surveillance "vehicle" for detecting the most frequently occurring replication errors.<br />Competing Interests: Declaration of interests The authors declare no competing interests.<br /> (Copyright © 2023 The Author(s). Published by Elsevier Inc. All rights reserved.)

Details

Language :
English
ISSN :
1097-4172
Volume :
186
Issue :
11
Database :
MEDLINE
Journal :
Cell
Publication Type :
Academic Journal
Accession number :
37196657
Full Text :
https://doi.org/10.1016/j.cell.2023.04.029