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. 1982 Sep 11;10(17):5183–5196. doi: 10.1093/nar/10.17.5183

Structure-function relationship of Rous sarcoma virus leader RNA.

J L Darlix, M Zuker, P F Spahr
PMCID: PMC320864  PMID: 6292833

Abstract

Cells infected by RSV synthesize viral 35S RNA as well as subgenomic 28S and 22S RNAs coding for the Env and Src genes respectively. In addition, at least the 5' 101 nucleotides of the leader are also conserved and we have shown previously that this sequence contains a strong ribosome binding site (J.-L. Darlix et al., J. Virol. 29, 597). We now report the RNA sequence of Rous Sarcoma virus (RSV) leader RNA and propose a folding of this 5' untranslated region which brings the Cap, the initiation codon for Gag and the strong ribosome binding site close to each other. We also show that ribosomes protect a sequence just upstream from initiator Aug of Gag in vitro, and believed to interact with part of the strong ribosome binding site according to the folding proposed for the leader RNA.

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Selected References

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

  1. Ahlquist P., Dasgupta R., Shih D. S., Zimmern D., Kaesberg P. Two-step binding of eukaryotic ribosomes to brome mosaic virus RNA3. Nature. 1979 Sep 27;281(5729):277–282. doi: 10.1038/281277a0. [DOI] [PubMed] [Google Scholar]
  2. Baralle F. E. Structure-function relationship of 5' non-coding sequence of rabbit alpha- and beta-globin mRNA. Nature. 1977 May 19;267(5608):279–281. doi: 10.1038/267279a0. [DOI] [PubMed] [Google Scholar]
  3. Browning K. S., Leung D. W., Clark J. M., Jr Protection of satellite tobacco necrosis virus ribonucleic acid by wheat germ 40S and 80S ribosomes. Biochemistry. 1980 May 13;19(10):2276–2283. doi: 10.1021/bi00551a044. [DOI] [PubMed] [Google Scholar]
  4. Cordell B., Stavnezer E., Friedrich R., Bishop J. M., Goodman H. M. Nucleotide sequence that binds primer for DNA synthesis to the avian sarcoma virus genome. J Virol. 1976 Aug;19(2):548–558. doi: 10.1128/jvi.19.2.548-558.1976. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Darlix J. L., Bromley P. A., Spahr P. F. A model structure for Rous sarcoma virus genomic RNA and its implication for various functions of the viral RNA. Mol Biol Rep. 1981 May 22;7(1-3):127–133. doi: 10.1007/BF00778743. [DOI] [PubMed] [Google Scholar]
  6. Darlix J. L., Schwager M., Spahr P. F., Bromley P. A. Analysis of the secondary and tertiary structures of Rous sarcoma virus RNA. Nucleic Acids Res. 1980 Aug 11;8(15):3335–3354. doi: 10.1093/nar/8.15.3335. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Darlix J. L., Spahr P. F., Bromley P. A. Analysis of Rous sarcoma virus (RSV) RNA structure by means of specific nucleases. Virology. 1978 Oct 15;90(2):317–329. doi: 10.1016/0042-6822(78)90316-1. [DOI] [PubMed] [Google Scholar]
  8. Darlix J. L., Spahr P. F., Bromley P. A., Jaton J. C. In vitro, the major ribosome binding site on Rous sarcoma virus RNA does not contain the nucleotide sequence coding for the N-terminal amino acids of the gag gene product. J Virol. 1979 Feb;29(2):597–611. doi: 10.1128/jvi.29.2.597-611.1979. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Darlix J. L. Stimultaneous purification of Escherichia coli termination factor rho, RNAase III and RNAase H. Eur J Biochem. 1975 Feb 21;51(2):369–376. doi: 10.1111/j.1432-1033.1975.tb03937.x. [DOI] [PubMed] [Google Scholar]
  10. 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]
  11. Hackett P. B., Swanstrom R., Varmus H. E., Bishop J. M. The leader sequence of the subgenomic mRNA's of Rous sarcoma virus is approximately 390 nucleotides. J Virol. 1982 Feb;41(2):527–534. doi: 10.1128/jvi.41.2.527-534.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Hindley J., Staples D. H. Sequence of a ribosome binding site in bacteriophage Q-beta-RNA. Nature. 1969 Dec 6;224(5223):964–967. doi: 10.1038/224964a0. [DOI] [PubMed] [Google Scholar]
  13. Kaempfer R., Rosen H., Israeli R. Translational control: recognition of the methylated 5' end and an internal sequence in eukaryotic mRNA by the initiation factor that binds methionyl-tRNAfMet. Proc Natl Acad Sci U S A. 1978 Feb;75(2):650–654. doi: 10.1073/pnas.75.2.650. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Kitamura N., Kitamura A., Toyoshima K., Hirayama Y., Yoshida M. Avian sarcoma virus Y73 genome sequence and structural similarity of its transforming gene product to that of Rous sarcoma virus. Nature. 1982 May 20;297(5863):205–208. doi: 10.1038/297205a0. [DOI] [PubMed] [Google Scholar]
  15. Maxam A. M., Gilbert W. A new method for sequencing DNA. Proc Natl Acad Sci U S A. 1977 Feb;74(2):560–564. doi: 10.1073/pnas.74.2.560. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Oppermann H., Bishop J. M., Varmus H. E., Levintow L. A joint produce of the genes gag and pol of avian sarcoma virus: a possible precursor of reverse transcriptase. Cell. 1977 Dec;12(4):993–1005. doi: 10.1016/0092-8674(77)90164-7. [DOI] [PubMed] [Google Scholar]
  17. Simoncsits A., Brownlee G. G., Brown R. S., Rubin J. R., Guilley H. New rapid gel sequencing method for RNA. Nature. 1977 Oct 27;269(5631):833–836. doi: 10.1038/269833a0. [DOI] [PubMed] [Google Scholar]
  18. Sonenberg N., Morgan M. A., Testa D., Colonno R. J., Shatkin A. J. Interaction of a limited set of proteins with different mRNAs and protection of 5'-caps against pyrophosphatase digestion in initiation complexes. Nucleic Acids Res. 1979 Sep 11;7(1):15–29. doi: 10.1093/nar/7.1.15. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Steitz J. A. Polypeptide chain initiation: nucleotide sequences of the three ribosomal binding sites in bacteriophage R17 RNA. Nature. 1969 Dec 6;224(5223):957–964. doi: 10.1038/224957a0. [DOI] [PubMed] [Google Scholar]
  20. Stoltzfus C. M., Kuhnert L. K. Evidence for the identity of shared 5'-terminal sequences between genome RNA and subgenomic mRNA's of B77 avian sarcoma virus. J Virol. 1979 Nov;32(2):536–545. doi: 10.1128/jvi.32.2.536-545.1979. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Swanstrom R., Varmus H. E., Bishop J. M. Nucleotide sequence of the 5' noncoding region and part of the gag gene of Rous sarcoma virus. J Virol. 1982 Feb;41(2):535–541. doi: 10.1128/jvi.41.2.535-541.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Weiss S. R., Varmus H. E., Bishop J. M. The size and genetic composition of virus-specific RNAs in the cytoplasm of cells producing avian sarcoma-leukosis viruses. Cell. 1977 Dec;12(4):983–992. doi: 10.1016/0092-8674(77)90163-5. [DOI] [PubMed] [Google Scholar]
  23. de Wachter R., Fiers W. Preparative two-dimensional polyacrylamide gel electrophoresis of 32 P-labeled RNA. Anal Biochem. 1972 Sep;49(1):184–197. doi: 10.1016/0003-2697(72)90257-6. [DOI] [PubMed] [Google Scholar]

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