Skip to main content
NCBI home page
Nucleic Acids Research logoLink to Nucleic Acids Research
. 1983 Nov 11;11(21):7569–7577. doi: 10.1093/nar/11.21.7569

Unusual structural features of the 5S ribosomal RNA from Streptococcus cremoris.

H Neimark, J Andersen, N Delihas
PMCID: PMC326503  PMID: 6647030

Abstract

The nucleotide sequence of the 5S ribosomal RNA of Streptococcus cremoris has been determined. The sequence is 5' (sequence in text) 3'. Comparison of the S. cremoris 5S RNA sequence to an updated prokaryotic generalized 5S RNA structural model shows that this 5S RNA contains some unusual structural features. These features result largely from uncommon base substitutions in helices I, II and IV. Some of these unusual structural features are shared by several of the known 5S RNA sequences from mycoplasmas. However, the characteristic bloc of deletions found in helix V of these mycoplasma 5S RNAs is not present in the 5S RNA of S. cremoris.

Full text

PDF
7569

Selected References

These references are in PubMed. This may not be the complete list of references from this article.

  1. Andersen J., Andresini W., Delihas N. On the phylogeny of Phycomyces blakesleeanus. Nucleotide sequence of 5 S ribosomal RNA. J Biol Chem. 1982 Aug 10;257(15):9114–9118. [PubMed] [Google Scholar]
  2. Dams E., Vandenberghe A., De Wachter R. Sequences of the 5S rRNAs of Azotobacter vinelandii, Pseudomonas aeruginosa and Pseudomonas fluorescens with some notes on 5S RNA secondary structure. Nucleic Acids Res. 1983 Mar 11;11(5):1245–1252. doi: 10.1093/nar/11.5.1245. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. De Wachter R., Chen M. W., Vandenberghe A. Conservation of secondary structure in 5 S ribosomal RNA: a uniform model for eukaryotic, eubacterial, archaebacterial and organelle sequences is energetically favourable. Biochimie. 1982 May;64(5):311–329. doi: 10.1016/s0300-9084(82)80436-7. [DOI] [PubMed] [Google Scholar]
  4. Delihas N., Andersen J. Generalized structures of the 5S ribosomal RNAs. Nucleic Acids Res. 1982 Nov 25;10(22):7323–7344. doi: 10.1093/nar/10.22.7323. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Delihas N., Andresini W., Andersen J., Berns D. Structural features unique to the 5 S ribosomal RNAs of the thermophilic cyanobacterium Synechococcus lividus II and the green plant chloroplasts. J Mol Biol. 1982 Dec 15;162(3):721–727. doi: 10.1016/0022-2836(82)90401-6. [DOI] [PubMed] [Google Scholar]
  6. Donis-Keller H., Maxam A. M., Gilbert W. Mapping adenines, guanines, and pyrimidines in RNA. Nucleic Acids Res. 1977 Aug;4(8):2527–2538. doi: 10.1093/nar/4.8.2527. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Erdmann V. A., Huysmans E., Vandenberghe A., De Wachter R. Collection of published 5S and 5.8S ribosomal RNA sequences. Nucleic Acids Res. 1983 Jan 11;11(1):r105–r133. [PMC free article] [PubMed] [Google Scholar]
  8. Erdmann V. A. Structure and function of 5S and 5.8 S RNA. Prog Nucleic Acid Res Mol Biol. 1976;18:45–90. [PubMed] [Google Scholar]
  9. Fox G. E., Woese C. R. 5S RNA secondary structure. Nature. 1975 Aug 7;256(5517):505–507. doi: 10.1038/256505a0. [DOI] [PubMed] [Google Scholar]
  10. Hori H., Osawa S. Evolutionary change in 5S RNA secondary structure and a phylogenic tree of 54 5S RNA species. Proc Natl Acad Sci U S A. 1979 Jan;76(1):381–385. doi: 10.1073/pnas.76.1.381. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Hori H., Osawa S., Murao K., Ishikura H. The nucleotide sequence of 5S ribosomal RNA from Micrococcus lysodeikticus. Nucleic Acids Res. 1980 Nov 25;8(22):5423–5426. doi: 10.1093/nar/8.22.5423. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Hori H., Sawada M., Osawa S., Murao K., Ishikura H. The nucleotide sequence of 5S rRNA from Mycoplasma capricolum. Nucleic Acids Res. 1981 Oct 24;9(20):5407–5410. doi: 10.1093/nar/9.20.5407. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Küntzel H., Heidrich M., Piechulla B. Phylogenetic tree derived from bacterial, cytosol and organelle 5S rRNA sequences. Nucleic Acids Res. 1981 Mar 25;9(6):1451–1461. doi: 10.1093/nar/9.6.1451. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Küntzel H., Piechulla B., Hahn U. Consensus structure and evolution of 5S rRNA. Nucleic Acids Res. 1983 Feb 11;11(3):893–900. doi: 10.1093/nar/11.3.893. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Neimark H., London J. Origins of the mycoplasmas: sterol-nonrequiring mycoplasmas evolved from streptococci. J Bacteriol. 1982 Jun;150(3):1259–1265. doi: 10.1128/jb.150.3.1259-1265.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Newhouse N., Nicoghosian K., Cedergren R. J. The nucleotide sequence of phenylalanine tRNA and 5S RNA from Rhodospirillum rubrum. Can J Biochem. 1981 Nov-Dec;59(11-12):921–932. doi: 10.1139/o81-130. [DOI] [PubMed] [Google Scholar]
  17. Nishikawa K., Takemura S. Structure and function of 5S ribosomal ribonucleic acid from Torulopsis utilis. II. Partial digestion with ribonucleases and derivation of the complete sequence. J Biochem. 1974 Nov;76(5):935–947. [PubMed] [Google Scholar]
  18. Pirtle R., Kashdan M., Pirtle I., Dudock B. The nucleotide sequence of a major species of leucine tRNA from bovine liver. Nucleic Acids Res. 1980 Feb 25;8(4):805–815. [PMC free article] [PubMed] [Google Scholar]
  19. Sankoff D., Cedergren R. J., McKay W. A strategy for sequence phylogeny research. Nucleic Acids Res. 1982 Jan 11;10(1):421–431. doi: 10.1093/nar/10.1.421. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Schwartz R. M., Dayhoff M. O. Origins of prokaryotes, eukaryotes, mitochondria, and chloroplasts. Science. 1978 Jan 27;199(4327):395–403. doi: 10.1126/science.202030. [DOI] [PubMed] [Google Scholar]
  21. Silberklang M., Prochiantz A., Haenni A. L., Rajbhandary U. L. Studies on the sequence of the 3'-terminal region of turnip-yellow-mosaic-virus RNA. Eur J Biochem. 1977 Feb;72(3):465–478. doi: 10.1111/j.1432-1033.1977.tb11270.x. [DOI] [PubMed] [Google Scholar]
  22. Simoncsits A. 3' Terminal labelling of RNA of RNA with beta-32P-pyrophosphate group and its application to the sequence analysis of 5S RNA from Streptomyces griseus. Nucleic Acids Res. 1980 Sep 25;8(18):4111–4124. doi: 10.1093/nar/8.18.4111. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Stahl D. A., Luehrsen K. R., Woese C. R., Pace N. R. An unusual 5S rRNA, from Sulfolobus acidocaldarius, and its implications for a general 5S rRNA structure. Nucleic Acids Res. 1981 Nov 25;9(22):6129–6137. doi: 10.1093/nar/9.22.6129. [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Stanley J., Vassilenko S. A different approach to RNA sequencing. Nature. 1978 Jul 6;274(5666):87–89. doi: 10.1038/274087a0. [DOI] [PubMed] [Google Scholar]
  25. Studnicka G. M., Eiserling F. A., Lake J. A. A unique secondary folding pattern for 5S RNA corresponds to the lowest energy homologous secondary structure in 17 different prokaryotes. Nucleic Acids Res. 1981 Apr 24;9(8):1885–1904. doi: 10.1093/nar/9.8.1885. [DOI] [PMC free article] [PubMed] [Google Scholar]
  26. Traub W., Sussman J. L. Adenine-guanine base pairing ribosomal RNA. Nucleic Acids Res. 1982 Apr 24;10(8):2701–2708. doi: 10.1093/nar/10.8.2701. [DOI] [PMC free article] [PubMed] [Google Scholar]
  27. Walker R. T., Chelton E. T., Kilpatrick M. W., Rogers M. J., Simmons J. The nucleotide sequence of the 5S rRNA from Spiroplasma species BC3 and Mycoplasma mycoides sp. capri PG3. Nucleic Acids Res. 1982 Oct 25;10(20):6363–6367. doi: 10.1093/nar/10.20.6363. [DOI] [PMC free article] [PubMed] [Google Scholar]
  28. Woese C. R., Luehrsen K. R., Pribula C. D., Fox G. E. Sequence characterization of 5S ribosomal RNA from eight gram positive procaryotes. J Mol Evol. 1976 Aug 3;8(2):143–153. doi: 10.1007/BF01739100. [DOI] [PubMed] [Google Scholar]
  29. Woese C. R., Maniloff J., Zablen L. B. Phylogenetic analysis of the mycoplasmas. Proc Natl Acad Sci U S A. 1980 Jan;77(1):494–498. doi: 10.1073/pnas.77.1.494. [DOI] [PMC free article] [PubMed] [Google Scholar]
  30. Zimmermann R. A. Protein-RNA interactions in the bacterial ribosome. Methods Enzymol. 1979;59:551–583. doi: 10.1016/0076-6879(79)59113-7. [DOI] [PubMed] [Google Scholar]

Articles from Nucleic Acids Research are provided here courtesy of Oxford University Press

RESOURCES