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. 1998 Jan 1;26(1):163–165. doi: 10.1093/nar/26.1.163

The tmRNA Website.

K P Williams 1, D P Bartel 1
PMCID: PMC147250  PMID: 9399824

Abstract

tmRNA (also known as 10Sa RNA) is so-named for its dual tRNA-like and mRNA-like nature. It is employed in a remarkable trans -translation process to add a C-terminal peptide tag to the incomplete protein product of a broken mRNA; the tag targets the abnormal protein for proteolysis. tmRNA sequences have been identified in genomes of diverse bacterial phyla, including the most deeply branching. They have also been identified in plastids of the 'red' lineage. The tmRNA Website (http://www.wi.mit. edu/bartel/tmRNA/home ) contains a database currently including sequences from 37 species, with provisional alignments, as well as the tentatively predicted proteolysis tag sequences. A brief review and guide to the literature is also provided.

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Selected References

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  1. Altschul S. F., Madden T. L., Schäffer A. A., Zhang J., Zhang Z., Miller W., Lipman D. J. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 1997 Sep 1;25(17):3389–3402. doi: 10.1093/nar/25.17.3389. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Amann R. I., Ludwig W., Schleifer K. H. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev. 1995 Mar;59(1):143–169. doi: 10.1128/mr.59.1.143-169.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Ando H., Kitabatake M., Inokuchi H. 10Sa RNA complements the temperature-sensitive phenotype caused by a mutation in the phosphoribosyl pyrophosphate synthetase (prs) gene in Escherichia coli. Genes Genet Syst. 1996 Feb;71(1):47–50. doi: 10.1266/ggs.71.47. [DOI] [PubMed] [Google Scholar]
  4. Atkins J. F., Gesteland R. F. A case for trans translation. Nature. 1996 Feb 29;379(6568):769–771. doi: 10.1038/379769a0. [DOI] [PubMed] [Google Scholar]
  5. Brown J. W., Haas E. S., Pace N. R. Characterization of ribonuclease P RNAs from thermophilic bacteria. Nucleic Acids Res. 1993 Feb 11;21(3):671–679. doi: 10.1093/nar/21.3.671. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Brown J. W., Nolan J. M., Haas E. S., Rubio M. A., Major F., Pace N. R. Comparative analysis of ribonuclease P RNA using gene sequences from natural microbial populations reveals tertiary structural elements. Proc Natl Acad Sci U S A. 1996 Apr 2;93(7):3001–3006. doi: 10.1073/pnas.93.7.3001. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Felden B., Himeno H., Muto A., McCutcheon J. P., Atkins J. F., Gesteland R. F. Probing the structure of the Escherichia coli 10Sa RNA (tmRNA). RNA. 1997 Jan;3(1):89–103. [PMC free article] [PubMed] [Google Scholar]
  8. Francklyn C., Schimmel P. Aminoacylation of RNA minihelices with alanine. Nature. 1989 Feb 2;337(6206):478–481. doi: 10.1038/337478a0. [DOI] [PubMed] [Google Scholar]
  9. Jain S. K., Gurevitz M., Apirion D. A small RNA that complements mutants in the RNA processing enzyme ribonuclease P. J Mol Biol. 1982 Dec 15;162(3):515–533. doi: 10.1016/0022-2836(82)90386-2. [DOI] [PubMed] [Google Scholar]
  10. Jentsch S. When proteins receive deadly messages at birth. Science. 1996 Feb 16;271(5251):955–956. doi: 10.1126/science.271.5251.955. [DOI] [PubMed] [Google Scholar]
  11. Keiler K. C., Sauer R. T. Sequence determinants of C-terminal substrate recognition by the Tsp protease. J Biol Chem. 1996 Feb 2;271(5):2589–2593. doi: 10.1074/jbc.271.5.2589. [DOI] [PubMed] [Google Scholar]
  12. Keiler K. C., Waller P. R., Sauer R. T. Role of a peptide tagging system in degradation of proteins synthesized from damaged messenger RNA. Science. 1996 Feb 16;271(5251):990–993. doi: 10.1126/science.271.5251.990. [DOI] [PubMed] [Google Scholar]
  13. Kirby J. E., Trempy J. E., Gottesman S. Excision of a P4-like cryptic prophage leads to Alp protease expression in Escherichia coli. J Bacteriol. 1994 Apr;176(7):2068–2081. doi: 10.1128/jb.176.7.2068-2081.1994. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Komine Y., Kitabatake M., Yokogawa T., Nishikawa K., Inokuchi H. A tRNA-like structure is present in 10Sa RNA, a small stable RNA from Escherichia coli. Proc Natl Acad Sci U S A. 1994 Sep 27;91(20):9223–9227. doi: 10.1073/pnas.91.20.9223. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Oh B. K., Apirion D. 10Sa RNA, a small stable RNA of Escherichia coli, is functional. Mol Gen Genet. 1991 Sep;229(1):52–56. doi: 10.1007/BF00264212. [DOI] [PubMed] [Google Scholar]
  16. Ray B. K., Apirion D. Characterization of 10S RNA: a new stable rna molecule from Escherichia coli. Mol Gen Genet. 1979 Jul 2;174(1):25–32. doi: 10.1007/BF00433301. [DOI] [PubMed] [Google Scholar]
  17. Retallack D. M., Friedman D. I. A role for a small stable RNA in modulating the activity of DNA-binding proteins. Cell. 1995 Oct 20;83(2):227–235. doi: 10.1016/0092-8674(95)90164-7. [DOI] [PubMed] [Google Scholar]
  18. Retallack D. M., Johnson L. L., Friedman D. I. Role for 10Sa RNA in the growth of lambda-P22 hybrid phage. J Bacteriol. 1994 Apr;176(7):2082–2089. doi: 10.1128/jb.176.7.2082-2089.1994. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Reysenbach A. L., Giver L. J., Wickham G. S., Pace N. R. Differential amplification of rRNA genes by polymerase chain reaction. Appl Environ Microbiol. 1992 Oct;58(10):3417–3418. doi: 10.1128/aem.58.10.3417-3418.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Shi J. P., Schimmel P. Aminoacylation of alanine minihelices. "Discriminator" base modulates transition state of single turnover reaction. J Biol Chem. 1991 Feb 15;266(5):2705–2708. [PubMed] [Google Scholar]
  21. Tu G. F., Reid G. E., Zhang J. G., Moritz R. L., Simpson R. J. C-terminal extension of truncated recombinant proteins in Escherichia coli with a 10Sa RNA decapeptide. J Biol Chem. 1995 Apr 21;270(16):9322–9326. doi: 10.1074/jbc.270.16.9322. [DOI] [PubMed] [Google Scholar]
  22. Ushida C., Himeno H., Watanabe T., Muto A. tRNA-like structures in 10Sa RNAs of Mycoplasma capricolum and Bacillus subtilis. Nucleic Acids Res. 1994 Aug 25;22(16):3392–3396. doi: 10.1093/nar/22.16.3392. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Williams K. P., Bartel D. P. Phylogenetic analysis of tmRNA secondary structure. RNA. 1996 Dec;2(12):1306–1310. [PMC free article] [PubMed] [Google Scholar]

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