Functional evidence for D- and T-loop interactions in tmRNA |
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Authors: | Barends Sharief Björk Karl Gultyaev Alexander P de Smit Maarten H Pleij Cornelis W A Kraal Barend |
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Institution: | Department of Biochemistry, Leiden Institute of Chemistry, Leiden University, P.O. Box 9502, 2300 RA, Leiden, The Netherlands. |
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Abstract: | During bacterial protein synthesis, stalled ribosomes can be rescued by tmRNA, a molecule with both tRNA and mRNA features. The tRNA region of tmRNA has sequence similarity with tRNA(Ala) and also has a clover-leaf structure folded similarly as in canonical tRNAs. Here we propose the L-shape of tmRNA to be stabilized by two tertiary interactions between its D- and T-loop on the basis of phylogenetic and experimental evidence. Mutational analysis clearly demonstrates a tertiary interaction between G(13) and U(342). Strikingly, this in evolution conserved interaction is not primarily important for tmRNA alanylation and for binding to elongation factor Tu, but especially for a proper functioning of SmpB. |
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Keywords: | tmRNA Ala-tRNA synthetase Elongation factor Tu SmpB tRNA folding trans-Translation |
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