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. 1977 Aug;4(8):2811–2820. doi: 10.1093/nar/4.8.2811

RNA-ligant interactions. (I) Magnesium binding sites in yeast tRNAPhe.

S R Holbrook, J L Sussman, R W Warrant, G M Church, S H Kim
PMCID: PMC342610  PMID: 333395

Abstract

X-ray crystallagraphic studies studies indicate that there are at least four site-specifically bound hydrated Mg2+ ions, [Mg(H2O)n]2+, in yeast tRNAPhe. The size and the octahedral coordination geometry, rather than the charge, of [Mg(H2O)N]2+ appear to be the primary reasons for the specificity of magnesium ions in site-binding and in the stabilization of the tertiary structure of tRNA.

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Selected References

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

  1. Cohn M., Danchin A., Grunberg-Manago M. Proton magnetic relaxation studies of marganous complexes of transfer RNA and related compounds. J Mol Biol. 1969 Jan 14;39(1):199–217. doi: 10.1016/0022-2836(69)90342-8. [DOI] [PubMed] [Google Scholar]
  2. Danchin A. A new method for specific labelling of tRNA: preliminary results on yeast tRNA Phe . Biochimie. 1972;54(3):333–337. doi: 10.1016/s0300-9084(72)80212-8. [DOI] [PubMed] [Google Scholar]
  3. Danchin A., Guéron M. Cooperative binding of manganese (II) to transfer RNA. Eur J Biochem. 1970 Nov;16(3):532–536. doi: 10.1111/j.1432-1033.1970.tb01113.x. [DOI] [PubMed] [Google Scholar]
  4. Danchin A. tRNA structure and binding sites for cations. Biopolymers. 1972;11(7):1317–1333. doi: 10.1002/bip.1972.360110702. [DOI] [PubMed] [Google Scholar]
  5. Fresco J. R., Adams A., Ascione R., Henley D., Lindahl T. Tertiary structure in transfer ribonucleic acids. Cold Spring Harb Symp Quant Biol. 1966;31:527–537. doi: 10.1101/sqb.1966.031.01.068. [DOI] [PubMed] [Google Scholar]
  6. Jack A., Ladner J. E., Rhodes D., Brown R. S., Klug A. A crystallographic study of metal-binding to yeast phenylalanine transfer RNA. J Mol Biol. 1977 Apr 15;111(3):315–328. doi: 10.1016/s0022-2836(77)80054-5. [DOI] [PubMed] [Google Scholar]
  7. Jones C. R., Kearns D. R. Investigation of the structure of yeast tRNAphe by nuclear magnetic resonance: paramagnetic rare earth ion probes of structure. Proc Natl Acad Sci U S A. 1974 Oct;71(10):4237–4240. doi: 10.1073/pnas.71.10.4237. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Kayne M. S., Cohn M. Cation requirements of isoleucyl-tRNA synthetase from Escherichia coli. Biochem Biophys Res Commun. 1972 Feb 16;46(3):1285–1291. doi: 10.1016/s0006-291x(72)80114-1. [DOI] [PubMed] [Google Scholar]
  9. Kayne M. S., Cohn M. Enhancement of Tb(III) and Eu(III) fluorescence in complexes with Escherichia coli tRNA. Biochemistry. 1974 Sep 24;13(20):4159–4165. doi: 10.1021/bi00717a014. [DOI] [PubMed] [Google Scholar]
  10. Kim S. H., Quigley G., Suddath F. L., Rich A. High-resolution x-ray diffraction patterns of crystalline transfer RNA that show helical regions. Proc Natl Acad Sci U S A. 1971 Apr;68(4):841–845. doi: 10.1073/pnas.68.4.841. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Kim S. H., Suddath F. L., Quigley G. J., McPherson A., Sussman J. L., Wang A. H., Seeman N. C., Rich A. Three-dimensional tertiary structure of yeast phenylalanine transfer RNA. Science. 1974 Aug 2;185(4149):435–440. doi: 10.1126/science.185.4149.435. [DOI] [PubMed] [Google Scholar]
  12. Lindahl T., Adams A., Fresco J. R. Renaturation of transfer ribonucleic acids through site binding of magnesium. Proc Natl Acad Sci U S A. 1966 Apr;55(4):941–948. doi: 10.1073/pnas.55.4.941. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Rialdi G., Levy J., Biltonen R. Thermodynamic studies of transfer ribonucleic acids. I. Magnesium binding to yeast phenylalanine transfer ribonucleic acid. Biochemistry. 1972 Jun 20;11(13):2472–2479. doi: 10.1021/bi00763a014. [DOI] [PubMed] [Google Scholar]
  14. Römer R., Hach R. tRNA conformation and magnesium binding. A study of a yeast phenylalanine-specific tRNA by a fluorescent indicator and differential melting curves. Eur J Biochem. 1975 Jun 16;55(1):271–284. doi: 10.1111/j.1432-1033.1975.tb02160.x. [DOI] [PubMed] [Google Scholar]
  15. Schreier A. A., Schimmel P. R. Interaction of manganese with fragments, complementary fragment recombinations, and whole molecules of yeast phenylalanine specific transfer RNA. J Mol Biol. 1974 Jul 5;86(3):601–620. doi: 10.1016/0022-2836(74)90183-1. [DOI] [PubMed] [Google Scholar]
  16. Stein A., Crothers D. M. Equilibrium binding of magnesium(II) by Escherichia coli tRNAfMet. Biochemistry. 1976 Jan 13;15(1):157–160. doi: 10.1021/bi00646a024. [DOI] [PubMed] [Google Scholar]
  17. Suddath F. L., Quigley G. J., McPherson A., Sneden D., Kim J. J., Kim S. H., Rich A. Three-dimensional structure of yeast phenylalanine transfer RNA at 3.0angstroms resolution. Nature. 1974 Mar 1;248(5443):20–24. doi: 10.1038/248020a0. [DOI] [PubMed] [Google Scholar]
  18. Sussman J. L., Kim S. H. Idealized atomic coordinates of yeast phenylalanine transfer RNA. Biochem Biophys Res Commun. 1976 Jan 12;68(1):89–96. doi: 10.1016/0006-291x(76)90014-0. [DOI] [PubMed] [Google Scholar]
  19. Wolfson J. M., Kearns D. R. Europium as a fluorescent probe of transfer RNA structure. Biochemistry. 1975 Apr 8;14(7):1436–1444. doi: 10.1021/bi00678a014. [DOI] [PubMed] [Google Scholar]

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