Structural basis of transcriptional regulation by a nascent RNA element, HK022 putRNA

Seungha Hwang, Paul Dominic B. Olinares, Jimin Lee, Jinwoo Kim, Brian T. Chait, Rodney A. King and Jin Young Kang ()
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Seungha Hwang: Korea Advanced Institute of Science and Technology (KAIST)
Paul Dominic B. Olinares: The Rockefeller University
Jimin Lee: Korea Advanced Institute of Science and Technology (KAIST)
Jinwoo Kim: Korea Advanced Institute of Science and Technology (KAIST)
Brian T. Chait: The Rockefeller University
Rodney A. King: Western Kentucky University
Jin Young Kang: Korea Advanced Institute of Science and Technology (KAIST)

Nature Communications, 2022, vol. 13, issue 1, 1-14

Abstract: Abstract Transcription, in which RNA polymerases (RNAPs) produce RNA from DNA, is the first step of gene expression. As such, it is highly regulated either by trans-elements like protein factors and/or by cis-elements like specific sequences on the DNA. Lambdoid phage HK022 contains a cis-element, put, which suppresses pausing and termination during transcription of the early phage genes. The putRNA transcript solely performs the anti-pausing/termination activities by interacting directly with the E.coli RNAP elongation complex (EC) by an unknown structural mechanism. In this study, we reconstituted putRNA-associated ECs and determined the structures using cryo-electron microscopy. The determined structures of putRNA-associated EC, putRNA-absent EC, and σ70-bound EC suggest that the putRNA interaction with the EC counteracts swiveling, a conformational change previously identified to promote pausing and σ70 might modulate putRNA folding via σ70-dependent pausing during elongation.

Date: 2022
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DOI: 10.1038/s41467-022-32315-y

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