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  Perturbation of ribosomal subunit dynamics by inhibitors of tRNA translocation

Belardinelli, R., Sharma, H., Peske, F., & Rodnina, M. V. (2021). Perturbation of ribosomal subunit dynamics by inhibitors of tRNA translocation. RNA, 27(9), 981-990. doi:10.1261/rna.078758.121.

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 Creators:
Belardinelli, R.1, Author              
Sharma, H.2, Author              
Peske, F.1, Author              
Rodnina, M. V.1, Author              
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1Department of Physical Biochemistry, MPI for biophysical chemistry, Max Planck Society, ou_578598              
2Department of Physical Biochemistry, MPI for Biophysical Chemistry, Max Planck Society, ou_578598              

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Free keywords: translation elongation; antibiotics; rapid kinetics; EF-G; ribosome subunit rotation; ribosome head domain swiveling
 Abstract: Many antibiotics that bind to the ribosome inhibit translation by blocking the movement of tRNAs and mRNA or interfering with ribosome dynamics, which impairs the formation of essential translocation intermediates. Here we show how translocation inhibitors viomycin (Vio), neomycin (Neo), paromomycin (Par), kanamycin (Kan), spectinomycin (Spc), hygromycin B (HygB), and streptomycin (Str, an antibiotic that does not inhibit tRNA movement), affect principal motions of the small ribosomal subunits (SSU) during EF-G-promoted translocation. Using ensemble kinetics, we studied the SSU body domain rotation and SSU head domain swiveling in real time. We show that although antibiotics binding to the ribosome can favor a particular ribosome conformation in the absence of EF-G, their kinetic effect on the EF-G-induced transition to the rotated/swiveled state of the SSU is moderate. The antibiotics mostly inhibit backward movements of the SSU body and/or the head domains. Vio, Spc, and high concentrations of Neo completely inhibit the backward movements of the SSU body and head domain. Kan, Par, HygB, and low concentrations of Neo slow down both movements, but their sequence and coordination are retained. Finally, Str has very little effect on the backward rotation of the SSU body domain, but retards the SSU head movement. The data underscore the importance of ribosome dynamics for tRNA-mRNA translocation and provide new insights into the mechanism of antibiotic action.

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Language(s): eng - English
 Dates: 2021-06-112021-09
 Publication Status: Published in print
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 Rev. Type: Peer
 Identifiers: DOI: 10.1261/rna.078758.121
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Title: RNA
Source Genre: Journal
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Pages: - Volume / Issue: 27 (9) Sequence Number: - Start / End Page: 981 - 990 Identifier: -