Volumetric and Viscometric Studies of Nucleosides, Nucleotides and Furanose Sugar in Aqueous Medium from 288.15 to 298.15K

Document Type: Research Article

Authors

Chemistry Research Laboratory, Deshbandhu College, University of Delhi, New Delhi-110019, INDIA

Abstract

Density (r/g cm-3) and viscosity (h/10-2gcm-1s-1=1centipoise,CP) of guanosine monophosphate (GMP) and adenosine triphosphate (ATP) referred to as nucleotide, and 2-deoxy adenosine (DOA) and thymidine (TMD) as nucleoside along with their integral furanose sugar, 2-deoxy ribose (DOR) from 0.0004 to 0.0014mol kg-1 solution have been measured at 288.15, 293.15 and 298.15K at atmospheric pressure. The r was fitted into the Masson and h in Jones-Dole equationsfor apparentmolal volume  (Vf/cm3mol-1)  and  viscositycoefficient((hr-1)/m=B/kg mol-1=103gmol-1) data. The Vfand h werealso regressed forV0f and h0 values known as the limiting constants and illustrate solute-solvent and solute-solutein teractions of systems. The apparent molal volume of their various integral units like adenine, guanine and thymine of nucleotides and nucleosidesareestimatedbyV0fTheV0fh0andB values have been used to elucidate the hydrophilic and hydrophobic interactions. The V0f values are negative over the whole range of the compositions which infer greater intermolecular forces and the biomolecules as water structure breakers.

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[1] Enea, O and Jollcoeur, C., J. Phys. Chem., 86, 3870 (1982).

[2] Mishra, A. K. and Ahluwalia, J.C., J. Chem. Faraday Trans.1, 77, 1469(1981).

[3] Beretta, S., Chirico, G., Macromolecules, 33, 8663 (2000).

[4] Rialdi, G. and Biltonen, R.L. in International Review of science, Physical Chemistry, Series 2nd ed. H.A. Skinner, Butterworth, London, Vol.10, pp.144-189, (1975).

[5] Kauzmann, W., Adv. Protein Chem., 5, 491(1976).

[6] Gekko, K. and Timasheft ,S. N., Biochem., 20, 4667 (1981).

[7] Arakawa, T., Bhat ,R. and Timasheff, S.N., Biochem, 256,7193 (1981).

[8] Glukhov, A. I., Zimnik, O.V., Gordeev, S.E., Severin, S.E., Biochem, Biophys. Chem., 248, 368(1998).

[9] Allcock, R. H. and Lampe, F. W., Contemporary Polymer Chemistry, Prentice Hall, Englewood Cliffs, New Jersey Publication, 2nd ed. Chapt. 16, p. 1407.

[10] Arnett,  E. M., in Physico-chemical  Processes in Mixed aqueous solvents, ed. F. Franks, Heinemann, London, p.105 (1967).

[11] Yayanos ,A. A., J. Phys. Chem., 76,1783(1972).

[12] Chalikian, T.V., Sarvazyan A.P, Breslauer K.J., Biophys. Chem., 51,89 (1994).

[13] Pitera, J. W. and VanGunsteren, W. F., J. Am. Chem. Soc., 123, 3163(2001).

[14] Kauzmann, W., Adv. Protein Chem., 14, 1 (1959).

[15] Rashin, A.A., Prog.Biol., 60,73(1993).

[16] Ladbury, J.E., Chem.Biol., 3, 973 (1996).

[17] Nagele, G., Phys. Rep., 272, 215 (1996).

[18] Dickerson, R.E. and Drew, H.R., J.Mol.Biol., 149, 761 (1981).

[19] Tanford,  C. in “Advances in Protein  Chemistry”, Vol. 23, Parts A and B, Afinsen, C. B., Edsall, Jr. J. T. and Richards, F. M., Eds, Academic Press, New York, p.122; ibid, Vol.24, Part C, p. 2 (1968).

[20] Franks F. and Eagland, D., CRC. , Crit. Rev. Biochem.3, 165(1975).

[21] Brandts, J. F. in ‘’Structure and Stability of Bio-logical Macromolecules”, Timascheff, S. and Fasman, G D., Eds, Marcel Decker, New York, Chapt. 3, p. 213 (1969).

[22]  Leach, A., Molecular modeling, Principles and appli-cation, addision-Wesley Longman Ltd. Essex, p. 82(1996).

[23] Kierzek, A. M., Wolt, W.M. and Zielenkiewicz, P., Biophys. J.,73, 571(1997).

[24] Tamura, Y., Gekko, K., Biochemistry, 34,1878 (1995).

[25] Ashbaugh, H., Kaler, E, Pauliatis, M., J. Am. Chem. Soc., 121, 9243 (1999).

[26] Gallicchio, E., Kubo, M. M., Levy, R.M., J. Phys. Chem.B, 104, 6271(2000).

[27] Chalikian, T. V., Gindikin, V.S., Breslauer, K.J., J. Mol. Biol., 250,291(1995).

[28] Chalikian, T.V., Volker, J, Arafi, D., Breslauer, K. J., J. Mol.Biol., 274,237(1997)

[29] Srinivasan, J., Cheatham, T.E., CiePlak, P., Kollman, P. A., Case, D.A., J. Am. Chem. Soc., 120, 9401 (1998).

[30] Hunenberger,  P. H., Helms,  V., Narayana, N., Taylor, S. S., McCammon, J. A., Biochemistry, 38, 2358 (1999).

[31] Reyes, C. M., Kollman, P.A., J. Mol.Biol., 297, 1145(2000).

[32] Stokes, R.H., Aust. J. Chem., 20,2087(1967).

[33] Frank, H.S. and Frank, F., J. Chem., Phys. 48, 4746 (1968).

[34] Enea, O. and Jollcoeur, C., J. Phys. Chem., 86, 3873 (1982).

[35] Muller, N., Acc., Chem. Res., 23, 23(1990).

[36] Skinner, H.A., Solvent effect, Chem.Series-2, Vol. 2.

[37] Masson, D.O., Philos. Mag., 8, 218(1929).

[38] Kensal, E., Hode, W. V., Johnson, C. P., Shing, H. Principles of Physical Biochemistry, Prentice Hall International Publication, International ed., Chapt. 3, p. 90 (1992).

[39] Ren, J., J.Am.Chem. Soc., 123,6743 (2001).

[40] Blackburn, G.M. and Gait, M. J., Nucleic acid in Chem. and biology (IRL press, Oxford Univ. Press Oxford, New York, Tokyo, (1990) and Zielenkiewicz, A., Journal of Solution Chem, 22,10 (1993).

[41] Casey, E.J. Biophysics, Concepts and mechanisms, Van Nostrand Reinholdd company New York, London, Toronto, and Melbourne. Affiliated East-West Press Pvt. Ltd. New Delhi, Chapt. 6, p. 148.

[42] Stryer, L., “Biochemistry”, Standford Univ. Bio-chem., 4th ed., W. H. Freeman and Co. New York, Chapt. 4, pp.75-76(1998).

[43] Gmeiner, W.H., Nucleosides, Nucleotides, Nucleic acids,19,1365 (2000).

[44] Pandey, J. D., Mishra, K., Thermochemical Acta, 117, 245 (1987).

[45]  Karplus, P.A., Protein Science, 5,1406(1996).

[46] Jayaram, B., and Beveridge, D.L., Annu. Phys., Biophysical, Biomol. Struc., 25, 367 (1996).

[47]  Meyer, E., Protein Sci., 1, 1543(1992).

[48] Connelly, J.C., Leau, D., Leach, D.R.F., Nucleic Acids Res., 27, 1039(1999).

[49]  Biggins, J.B., Prudent, J.R., Marshall, D.J., Ruppen, M., Thorson, J. S., Proc. Nalt. Acad. Sci., U.S.A., 97,13530 (2000).

[50] Skinner, H. A., Solvent effect, Chem.,Series 2,vol. 10.

[51] Gill, S. J., J. Solution Chem., 14, 827(1981).

[52] Han, F. and Chalikian, T.V., J. Am. Chem. Soc., 125 (24), 7219 (2003).

[53] Wadi, R. K. and Goyal, R. K., J.Chem.Engg.Data, 37, 377 (1992)

[54] Sintov, C. A. and Shapiro, L., J. of Controlled Release, 30, 1 (2004).

[55] Allcock, R. H. and Lampe, F. W. ,Contemporary polymer Chemistry, Prentice Hall, Englewood Cliffs, New Jersey Publication, 2nd  ed. p.185.

[56] Niece, L. K., J. Am. Chem. Soc., 125 (24), 7146 (2003).

[57]  Enea, O. and Jollcoeur C., J. Phys. Chem., 86, 3871 (1982).

[58] Frank, H.S. and Evans M.W., J. Chem. Phys., 13, 507(1945).

[59] Shoemaker, D., “Experiments in Physical Chemistry”, 2nd ed. (1962).

[60] Apelblat, A. and Manzurola,  E.  J., J. Thermo-dynamics, 31, 869 (1999).

[61] Levitt, B.P., “Practical Physical Chemistry”, 9th ed., pp. 14-18(1972).

[62] Jones, G.  and Dole ,M., J. Am. Chem. Soc., 51, 2950(1929).

[63] Terrasawa,  S.,  Irakawa, H., J. Phys.  Chem., 79, 2345(1975).

[64] Li, S., Chem. Rev., 92, 1457(1992).