Two-piece tmRNA in cyanobacteria and its structural analysis
Open Access
- 1 May 2002
- journal article
- Published by Oxford University Press (OUP) in Nucleic Acids Research
- Vol. 30 (9), 2018-2024
- https://doi.org/10.1093/nar/30.9.2018
Abstract
TmRNA acts to rescue stalled bacterial ribosomes while encoding a peptide tag added trans-translationally to the nascent peptide, targeting it for proteolysis. The permuted gene structure found in a group of cyanobacteria is shown to produce a two-piece mature tmRNA, as had been observed previously for the independently permuted gene of α-proteobacteria. The pieces have been mapped onto the gene sequence and aligned for the permuted cyanobacterial tmRNA sequences, including four novel sequences. Structural probing and base pair co-variations support a secondary structure model in which two pairings in the tRNA-like domain hold the two pieces together, and the coding piece bearing the tag reading frame additionally contains a single transient pseudoknot and three other stem–loops. This represents a dramatic reduction in pseudoknot number from the five present in one-piece cyanobacterial tmRNA.Keywords
This publication has 24 references indexed in Scilit:
- Eubacterial tmRNAs: everywhere except the alpha-Proteobacteria?Biochimica et Biophysica Acta (BBA) - Gene Structure and Expression, 1999
- SmpB, a unique RNA-binding protein essential for the peptide-tagging activity of SsrA (tmRNA)The EMBO Journal, 1999
- Functional and structural analysis of a pseudoknot upstream of the tag-encoded sequence in E. coli tmRNAJournal of Molecular Biology, 1999
- A nickel complex cleaves uridine in folded RNA structures: application to E. coli tmRNA and related engineered moleculesJournal of Molecular Biology, 1998
- 3′ Exoribonucleolytic trimming is a common feature of the maturation of small, stable RNAs in Escherichia coliProceedings of the National Academy of Sciences, 1998
- Probing the structure of the Escherichia coli 10Sa RNA (tmRNA).1997
- Phylogenetic analysis of tmRNA secondary structure.1996
- l0Sa RNA complements the temperature-sensitive phenotype caused by a mutation in the phosphoribosyl pyrophosphate synthetase (prs) gene in Escherichia coli.Genes & Genetic Systems, 1996
- Solution Structure of the 3′-End of Brome Mosaic Virus Genomic RNAs: Conformational Mimicry with Canonical tRNAsJournal of Molecular Biology, 1994
- Nonenzymatic hydrolysis of oligoribonucleotidesNucleic Acids Research, 1992