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. 1978 Dec;5(12):4933–4947. doi: 10.1093/nar/5.12.4933

RNA-RNA interactions in the binding site of protein L24 on 23S ribosomal RNA of E. coli. II. Sequence analysis of the interacting fragments.

A Krol, M A Machatt, C Branlant, J P Ebel
PMCID: PMC342799  PMID: 370782

Abstract

A ribonucleoprotein complex containing several RNA subfragments from the 5' part of 23S RNA was recovered after digestion of the reconstituted complex between 23S RNA and protein L24. It was suggested in the preceding paper that the RNA subfragments 4B, 10A and 9, which are widely separated in the sequence, strongly interact. These subfragments were previously partially sequenced by the classical fingerprinting methods. Their sequences have now been completed with rapid new RNA sequencing methods. We propose here a base-pairing model showing how these subfragments may interact with one another.

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Selected References

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

  1. Branlant C., Sri Widada J., Krol A., Ebel J. P. RNA sequences in ribonucleoprotein fragments of the complex formed from ribosomal 23-S RNA and ribosomal protein L24 of Escherichia coli. Eur J Biochem. 1977 Mar 15;74(1):155–170. doi: 10.1111/j.1432-1033.1977.tb11377.x. [DOI] [PubMed] [Google Scholar]
  2. Branlant C., Widada J. S., Krol A., Ebel J. P. Extensions of the known sequences at the 3' and 5' ends of 23S ribosomal RNA from Escherichia coli, possible base pairing between these 23S RNA regions and 16S ribosomal RNA. Nucleic Acids Res. 1976 Jul;3(7):1671–1687. doi: 10.1093/nar/3.7.1671. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Branlant C., Widada J. S., Krol A., Ebel J. P. Studies on the primary structure of the ribosomal 23S RNA of Escherichia coli: II. A characterisation and an alignment of 24 sections spanning the entire molecule and its application to the localisation of specific fragments. Nucleic Acids Res. 1977 Dec;4(12):4323–4345. doi: 10.1093/nar/4.12.4323. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Branlant C., Widada J. S., Krol A., Fellner P., Ebel J. P. Nucleotide sequences of the T1 and pancreatic ribonuclease digestion products from some large fragments of the 23S RNA of Escherichia coli. Biochimie. 1975;57(2):175–225. doi: 10.1016/s0300-9084(75)80168-4. [DOI] [PubMed] [Google Scholar]
  5. Cole M. D., Beer M., Koller T., Strycharz W. A., Nomura M. Electron microscopic determination of the binding sites of ribosomal proteins S4 and S8 on 16S RNA. Proc Natl Acad Sci U S A. 1978 Jan;75(1):270–274. doi: 10.1073/pnas.75.1.270. [DOI] [PMC free article] [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. Herr W., Noller H. F. Nucleotide sequences of accessible regions of 23S RNA in 50S ribosomal subunits. Biochemistry. 1978 Jan 24;17(2):307–315. doi: 10.1021/bi00595a018. [DOI] [PubMed] [Google Scholar]
  8. Lillehaug J. R., Kleppe K. Effect of salts and polyamines on T4 polynucleotide kinase. Biochemistry. 1975 Mar 25;14(6):1225–1229. doi: 10.1021/bi00677a021. [DOI] [PubMed] [Google Scholar]
  9. McReynolds L., O'Malley B. W., Nisbet A. D., Fothergill J. E., Givol D., Fields S., Robertson M., Brownlee G. G. Sequence of chicken ovalbumin mRNA. Nature. 1978 Jun 29;273(5665):723–728. doi: 10.1038/273723a0. [DOI] [PubMed] [Google Scholar]
  10. Ross A., Brimacombe R. Application of a rapid gel method to the sequencing of fragments of 16S ribosomal RNA from Escherichia coli. Nucleic Acids Res. 1978 Jan;5(1):241–256. doi: 10.1093/nar/5.1.241. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Sanger F., Brownlee G. G., Barrell B. G. A two-dimensional fractionation procedure for radioactive nucleotides. J Mol Biol. 1965 Sep;13(2):373–398. doi: 10.1016/s0022-2836(65)80104-8. [DOI] [PubMed] [Google Scholar]
  12. 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]
  13. Sloof P., Hunter J. B., Garrett R. A., Branlant C. RNA-RNA interactions in the binding site of protein L24 on 23S ribosomal RNA of Escherichia coli: 1. Evidence for their occurrence between widely separated sequence regions. Nucleic Acids Res. 1978 Oct;5(10):3503–3513. doi: 10.1093/nar/5.10.3503. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Ungewickell E., Ehresmann C., Stiegler P., Garrett R. Evidence for tertiary structural RNA-RNA interactions within the protein S4 binding site at the 5'-end of 16S ribosomal RNA of Escherichia coli.+. Nucleic Acids Res. 1975 Oct;2(10):1867–1888. doi: 10.1093/nar/2.10.1867. [DOI] [PMC free article] [PubMed] [Google Scholar]

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