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Transient Protein-RNA Interactions Guide Nascent Ribosomal RNA Folding

47 Pages Posted: 11 Jul 2019 Sneak Peek Status: Review Complete

See all articles by Olivier Duss

Olivier Duss

The Scripps Research Institute - Department of Integrative Structural and Computational Biology

Dr. Galina A. Stepanyuk

The Scripps Research Institute - Department of Integrative Structural and Computational Biology

Dr. Joseph D. Puglisi

Stanford University

James R. Williamson

The Scripps Research Institute - Department of Integrative Structural and Computational Biology

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Abstract

Ribosome assembly is an efficient, but complex and heterogeneous process during which ribosomal proteins assemble on the nascent ribosomal RNA (rRNA) during transcription. Understanding how the interplay between nascent RNA folding and protein binding determines the fate of transcripts remains a major challenge. Here, using single-molecule fluorescence-microscopy, we follow assembly of the entire 3’domain of the bacterial small ribosomal subunit in real-time. We find that co-transcriptional rRNA folding is complicated by the formation of long-range RNA interactions, and that r-proteins self-chaperone the rRNA folding process prior to stable incorporation into a ribonucleoprotein complex (RNP). Assembly is initiated by transient rather than stable protein binding, and the protein-RNA binding dynamics gradually decrease during assembly. This work questions the paradigm of strictly sequential and cooperative ribosome assembly and proposes that transient binding of RNA binding proteins to cellular RNAs could provide a general mechanism to shape nascent RNA folding during RNP assembly.

Keywords: ribosome assembly, co-transcriptional RNA folding, single-molecule fluorescence microscopy, ribonucleoprotein assembly, protein-RNA dynamics, RNA chaperones, cooperativity, RNA misfolding, RNA biology, protein-RNA interactions

Suggested Citation

Duss, Olivier and Stepanyuk, Dr. Galina A. and Puglisi, Dr. Joseph D. and Williamson, James R., Transient Protein-RNA Interactions Guide Nascent Ribosomal RNA Folding (July 11, 2019). CELL-D-19-01853. Available at SSRN: https://ssrn.com/abstract=3417945 or http://dx.doi.org/10.2139/ssrn.3417945
This is a paper under consideration at Cell Press and has not been peer-reviewed.

Olivier Duss

The Scripps Research Institute - Department of Integrative Structural and Computational Biology ( email )

10550 North Torrey Pines Road
La Jolla, CA 92037
United States

Dr. Galina A. Stepanyuk

The Scripps Research Institute - Department of Integrative Structural and Computational Biology ( email )

10550 North Torrey Pines Road
La Jolla, CA 92037
United States

Dr. Joseph D. Puglisi

Stanford University ( email )

Stanford, CA 94305
United States

James R. Williamson (Contact Author)

The Scripps Research Institute - Department of Integrative Structural and Computational Biology ( email )

10550 North Torrey Pines Road
La Jolla, CA 92037
United States

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