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Volumn 49, Issue 9, 2010, Pages 1843-1853

Dependence of RNA tertiary structural stability on Mg2+ concentration: Interpretation of the hill equation and coefficient

Author keywords

[No Author keywords available]

Indexed keywords

ELECTROSTATIC INTERACTIONS; HILL COEFFICIENT; HILL EQUATION; ION UPTAKE; PREFERENTIAL INTERACTION; RIBOSWITCHES; RNA STRUCTURES; RNA TERTIARY STRUCTURE; SITE BINDING; SOLUTION CONDITIONS; SPECIFIC SITES; STRUCTURAL STABILITIES;

EID: 77749286433     PISSN: 00062960     EISSN: 15204995     Source Type: Journal    
DOI: 10.1021/bi902036j     Document Type: Article
Times cited : (50)

References (41)
  • 1
    • 0015497450 scopus 로고
    • Conformational changes of transfer ribonucleic acid. Equilibrium phase diagrams
    • Cole, P. E., Yang, S. K., and Crothers, D. M. (1972) Conformational Changes of Transfer Ribonucleic Acid. Equilibrium Phase Diagrams. Biochemistry 11, 4358-4368.
    • (1972) Biochemistry , vol.11 , pp. 4358-4368
    • Cole, P.E.1    Yang, S.K.2    Crothers, D.M.3
  • 2
    • 0017295709 scopus 로고
    • Conformational changes of transfer RNA. the role of magnesium(II)
    • Stein, A., and Crothers, D. M. (1976) Conformational changes of transfer RNA. The role of magnesium(II). Biochemistry 15, 160-168.
    • (1976) Biochemistry , vol.15 , pp. 160-168
    • Stein, A.1    Crothers, D.M.2
  • 3
    • 0024359787 scopus 로고
    • Defining the inside and outside of a catalytic RNA molecule
    • Latham, J. A., and Cech, T. R. (1989) Defining the Inside and Outside of a Catalytic RNA Molecule. Science 245, 276-282.
    • (1989) Science , vol.245 , pp. 276-282
    • Latham, J.A.1    Cech, T.R.2
  • 4
    • 0016255781 scopus 로고
    • Interaction of manganese with fragments, Complementary fragment recombinations, and whole molecules of yeast phenylalanine specific transfer RNA
    • Schreier, A. A., and Schimmel, P. R. (1974) Interaction of Manganese with Fragments, Complementary Fragment Recombinations, and Whole Molecules of Yeast Phenylalanine Specific Transfer RNA. J. Mol. Biol. 86, 601-620.
    • (1974) J. Mol. Biol. , vol.86 , pp. 601-620
    • Schreier, A.A.1    Schimmel, P.R.2
  • 5
    • 0003043542 scopus 로고
    • The possible effects of the aggregation of the molecules of hemoglobin on its dissociation curves
    • Hill, A, V. (1910) The possible effects of the aggregation of the molecules of hemoglobin on its dissociation curves. J. Physiol. 40 (Suppl.), 4-7.
    • (1910) J. Physiol. , vol.40 , Issue.SUPPL. , pp. 4-7
    • Hill, A.V.1
  • 8
    • 0344653612 scopus 로고    scopus 로고
    • Responses of E. coli to osmotic stress: Large changes in amounts of cytoplasmic solutes and water
    • Record, M. T., Courtenay, E. S., Cayley, S., and Guttman, H. J. (1998) Responses of E. coli to osmotic stress: Large changes in amounts of cytoplasmic solutes and water. Trends Biochem. Sci. 23, 143-148.
    • (1998) Trends Biochem. Sci. , vol.23 , pp. 143-148
    • Record, M.T.1    Courtenay, E.S.2    Cayley, S.3    Guttman, H.J.4
  • 9
    • 33749032381 scopus 로고    scopus 로고
    • 2+-RNA interaction free energies and their relationship to the folding of RNA tertiary structures
    • 2+-RNA interaction free energies and their relationship to the folding of RNA tertiary structures. Proc. Natl. Acad. Sci. U.S.A. 103, 14003-14008.
    • (2006) Proc. Natl. Acad. Sci. U.S.A. , vol.103 , pp. 14003-14008
    • Grilley, D.1    Soto, A.2    Draper, D.E.3
  • 10
    • 78049451210 scopus 로고    scopus 로고
    • Ion-RNA interactions: Thermodynamic analysis of the effects of mono- And divalent ions on RNA conformational equilibria
    • Leipply, D., Lambert, D., and Draper, D. E. (2009) Ion-RNA interactions: Thermodynamic analysis of the effects of mono- and divalent ions on RNA conformational equilibria. Methods Enzymol. 469, 427-457.
    • (2009) Methods Enzymol. , vol.469 , pp. 427-457
    • Leipply, D.1    Lambert, D.2    Draper, D.E.3
  • 11
    • 84985666936 scopus 로고
    • Cation effects on the denaturation of DNA
    • Dove, W. F., and Davidson, N. (1962) Cation Effects on the Denaturation of DNA. J. Mol. Biol. 5, 467-478.
    • (1962) J. Mol. Biol. , vol.5 , pp. 467-478
    • Dove, W.F.1    Davidson, N.2
  • 12
    • 67650040559 scopus 로고
    • Linked functions and reciprocal effects in hemoglobin: A second look
    • Wyman, J. J. (1964) Linked functions and reciprocal effects in hemoglobin: A second look. Adv. Protein Chem. 19, 223-286.
    • (1964) Adv. Protein Chem. , vol.19 , pp. 223-286
    • Wyman, J.J.1
  • 14
    • 78651189765 scopus 로고
    • On the nature of allosteric transitions: A plausible model
    • Monod, J., Wyman, J., and Changeux, J. P. (1965) On the Nature of Allosteric Transitions: A Plausible Model. J. Mol. Biol. 12, 88-11.8.
    • (1965) J. Mol. Biol. , vol.12 , pp. 88-118
    • Monod, J.1    Wyman, J.2    Changeux, J.P.3
  • 15
    • 0028237035 scopus 로고
    • Stabilization of RNA structure by Mg ions: Specific and non-specific effects
    • Laing,L.G.,Gluick,T.C.,andDraper,D.E.(1994) StabilizationofRNAStructurebyMgIons:SpecificandNon-specificEffects.J.Mol.Biol. 237,577-587.(Pubitemid124002425)
    • (1994) Journal of Molecular Biology , vol.237 , Issue.5 , pp. 577-587
    • Laing, L.G.1    Gluick, T.C.2    Draper, D.E.3
  • 16
    • 0033529336 scopus 로고    scopus 로고
    • Energetics and cooperativity of tertiary hydrogen bonds in RNA stracture
    • Silverman,S.K.,andCech,T.R.(1999) EnergeticsandCooperativityofTertiaryHydrogenBondsinRNAStructure.Biochemistry38, 8691-8702.(Pubitemid129515199)
    • (1999) Biochemistry , vol.38 , Issue.27 , pp. 8691-8702
    • Silverman, S.K.1    Cech, T.R.2
  • 17
    • 24044545541 scopus 로고    scopus 로고
    • Structure of a folding intermediate reveals the interplay between core and peripheral elements in RNA flding
    • DOI 10.1016/j.jmb.2005.07.010, PII S0022283605007874
    • Baird, N. J., Westhof, E., Qin, H., Pan, T., and Sosnick, T. R. (2005) Structure of a Folding Intermediate Reveals the Interplay Between Core and Peripheral Elements in RNA Folding. J. Mol. Biol. 352, 712-722. (Pubitemid 41225480)
    • (2005) Journal of Molecular Biology , vol.352 , Issue.3 , pp. 712-722
    • Baird, N.J.1    Westhof, E.2    Qin, H.3    Pan, T.4    Sosnick, T.R.5
  • 21
    • 32244435935 scopus 로고    scopus 로고
    • Thermal methods for the analysis of RNA folding pathways
    • (Beaucage, S. L., Bergstrom, D. E., Glick, G. D., and Jones, R. A, Eds.) John Wiley & Sons, New York.
    • Draper, D. E., Bukhman, Y. V., and Gluick, T. C. (2000) Thermal Methods for the Analysis of RNA Folding Pathways. In Current Protocols in Nucleic Acid Chemistry (Beaucage, S. L., Bergstrom, D. E., Glick, G. D., and Jones, R. A, Eds.) pp 1-13, John Wiley & Sons, New York.
    • (2000) Current Protocols in Nucleic Acid Chemistry , pp. 1-13
    • Draper, D.E.1    Bukhman, Y.V.2    Gluick, T.C.3
  • 22
    • 4243320011 scopus 로고
    • Complex Formation and Fluorescence Part I: Complexes of 8-Hydroxyquinoline-5-sulfonic acid
    • Bishop, J. A. (1963) Complex Formation and Fluorescence Part I: Complexes of 8-Hydroxyquinoline-5-sulfonic acid. Anal. Chim. Acta 29, 172-177.
    • (1963) Anal. Chim. Acta , vol.29 , pp. 172-177
    • Bishop, J.A.1
  • 23
    • 0842334528 scopus 로고    scopus 로고
    • Adenine riboswitches and gene activation by disruption of a transcription terminator
    • Mandai, M., and Breaker, R. R. (2004) Adenine riboswitches and gene activation by disruption of a transcription terminator. Nat. Struct. Mol. Biol. 11, 29-35.
    • (2004) Nat. Struct. Mol. Biol. , vol.11 , pp. 29-35
    • Mandai, M.1    Breaker, R.R.2
  • 24
    • 0027320139 scopus 로고
    • Analysis of oligonucleotide structure using hyperchromism measurements at long wavelengths
    • Testa, S. M., and Gilliam, P. T. (1993) Analysis of oligonucleotide structure using hyperchromism measurements at long wavelengths. Nucleic Acids Res. 21, 3907-3908.
    • (1993) Nucleic Acids Res. , vol.21 , pp. 3907-3908
    • Testa, S.M.1    Gilliam, P.T.2
  • 25
    • 0016233090 scopus 로고
    • Cooperative binding of magnesium to transfer ribonucleic acid studied by a fluorescent probe
    • Lynch, D. C., and Schimmel, P. R. (1974) Cooperative Binding of Magnesium to Transfer Ribonucleic Acid Studied by a Fluorescent Probe. Biochemistry 13, 1841-1852.
    • (1974) Biochemistry , vol.13 , pp. 1841-1852
    • Lynch, D.C.1    Schimmel, P.R.2
  • 26
    • 0025963132 scopus 로고
    • Visualizing the higher order folding of a catalytic RNA molecule
    • Celander, D. W., and Cech, T. R. (1991) Visualizing the higher order folding of a catalytic RNA molecule. Science 251, 401.-407.
    • (1991) Science , vol.251 , pp. 401-407
    • Celander, D.W.1    Cech, T.R.2
  • 27
    • 0027991626 scopus 로고
    • Kinetic intermediates in RNA folding
    • Zarrinkar, P. P., and Williamson, J. R. (1994) Kinetic Intermediates in RNA Folding. Science 265, 918-924.
    • (1994) Science , vol.265 , pp. 918-924
    • Zarrinkar, P.P.1    Williamson, J.R.2
  • 28
    • 0037035555 scopus 로고    scopus 로고
    • Linkage of monovalent and divalent ion binding in the folding of the P4-P6 domain of the Tetrahymena ribozyme
    • DOI 10.1021/bi020042v
    • Uchida, T., He, Q., Ralston, C. Y., Brenowitz, M., and Chance, M. R. (2002) Linkage of Monovalent and Divalent Ion Binding in the Folding of the P4-P6 Domain of the Tetrahymena Ribozyme. Biochemistry 41, 5799-5806. (Pubitemid 34462700)
    • (2002) Biochemistry , vol.41 , Issue.18 , pp. 5799-5806
    • Uchida, T.1    He, Q.2    Ralston, C.Y.3    Brenowitz, M.4    Chance, M.R.5
  • 29
    • 0026409841 scopus 로고
    • Characterization of the cytoplasm of Escherichia coli K-12 as a function of external osmolarity: Implications for protein-DNA interactions in vivo
    • Cayley,S.,Lewis,B.A.,Guttman,H.J.,andRecord,M.T.(1991) CharacterizationoftheCytoplasmofEscherichiacoliK- 12asaFunctionofExternalOsmolality:ImplicationsforProtein-DNAInteractionsinVivo. J.Mol.Biol.222,281-300.(Pubitemid121004007)
    • (1991) Journal of Molecular Biology , vol.222 , Issue.2 , pp. 281-300
    • Cayley, S.1    Lewis, B.A.2    Guttman, H.J.3    Record Jr., M.T.4
  • 30
    • 0026036451 scopus 로고
    • Methods for measurement of intracellular magnesium: NMR and fluorescence
    • London, R. E. (1991) Methods for Measurement of Intracellular Magnesium: NMR and Fluorescence. Annu. Rev. Physiol. 53, 241-258.
    • (1991) Annu. Rev. Physiol. , vol.53 , pp. 241-258
    • London, R.E.1
  • 34
    • 0031567680 scopus 로고    scopus 로고
    • Affinities and selectivities of divalent cation binding sites within an RNA tertiary structure
    • Bukhman, Y. V., and Draper, D. E. (1997) Affinities and selectivities of divalent cation binding sites within an RNA tertiary structure. J. Mol. Biol. 273, 1020-1031.
    • (1997) J. Mol. Biol. , vol.273 , pp. 1020-1031
    • Bukhman, Y.V.1    Draper, D.E.2
  • 36
    • 0036295964 scopus 로고    scopus 로고
    • The linkage between magnesium binding and RNA folding
    • Misra, V. K., and Draper, D. E. (2002) The linkage between magnesium binding and RNA folding. J. Mol. Biol. 317, 507-521.
    • (2002) J. Mol. Biol. , vol.317 , pp. 507-521
    • Misra, V.K.1    Draper, D.E.2
  • 37
    • 33645226091 scopus 로고    scopus 로고
    • Metal Ion dependence, thermodynamics, and kinetics for intramolecular docking of a GAAA tetraloop and receptor connected by a flexible linker
    • Downey, C. D., Fiore, J. L., Stoddard, C. D., Hodak, J. H., Nesbitt, D. J., and Pardi, A. (2006) Metal Ion Dependence, Thermodynamics, and Kinetics for Intramolecular Docking of a GAAA Tetraloop and Receptor Connected by a Flexible Linker, Biochemistry 45, 3664-3673.
    • (2006) Biochemistry , vol.45 , pp. 3664-3673
    • Downey, C.D.1    Fiore, J.L.2    Stoddard, C.D.3    Hodak, J.H.4    Nesbitt, D.J.5    Pardi, A.6
  • 38
    • 50649108803 scopus 로고    scopus 로고
    • The Complete VS Ribozyme in solution studied by smallAngle X-ray scattering
    • Lipfert, J., Ouellet, J., Norman, D. G., Doniach, S., and Lilley, D. (2008) The Complete VS Ribozyme in Solution Studied by SmallAngle X-ray Scattering. Structure 16, 1357-1367.
    • (2008) Structure , vol.16 , pp. 1357-1367
    • Lipfert, J.1    Ouellet, J.2    Norman, D.G.3    Doniach, S.4    Lilley, D.5


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