Diffusion of Molecules at the Interface of Water-Membrane Structures

Article Preview

Abstract:

The distributions and transfer energies of several molecules and atomic groups between water and a structured hydrophobic phase were calculated by the molecular dynamics method. The coefficients of oxygen diffusion in a tetradecane membrane were estimated. The transfer energy of charged atomic groups was found to correlate with changes in the Born solvation energy. The contributions of atoms to the transfer energy of functional groups were shown to be non-additive. The steered dynamics method for estimating the kinetic parameters of the penetration of molecules through interphase boundaries was developed. Heterogeneous microviscosity of a membrane was calculated for a hydrated l-palmitoyl-2-oleoyl-sn-glycero-3-phosphatidylcholine bilayer. Effects of the chemical properties of penetrant molecule on its translocation through the membrane were studied.

You might also be interested in these eBooks

Info:

Periodical:

Defect and Diffusion Forum (Volumes 261-262)

Pages:

109-126

Citation:

Online since:

January 2007

Export:

Price:

Permissions CCC:

Permissions PLS:

Сopyright:

© 2007 Trans Tech Publications Ltd. All Rights Reserved

Share:

Citation:

[1] S. Tristram-Nagle, H.I. Petrache and J.F. Nagle: Biophys. J. 75 (1998), pp.917-925.

DOI: 10.1016/s0006-3495(98)77580-0

Google Scholar

[2] S. Tristram-Nagle, Y. Liu, J. Legleiter and J.F. Nagle: Biophys. J. 83 (2002), pp.3324-3335.

DOI: 10.1016/s0006-3495(02)75333-2

Google Scholar

[3] H. Heller, M. Schaefer and K. Schulten: J. Phys. Chem. 97 (1993), pp.8343-8360.

Google Scholar

[4] K.V. Shaitan and P.P. Pustoshilov: Biophysics (transl. from Russ. ) 44 (1999), pp.429-434.

Google Scholar

[5] N.K. Balabaev, A.L. Rabinovich, P.O. Ripatti and V.V. Kornilov: Russ. J. Phys. Chem. (transl. from Russ. ) 72 (1998), pp.595-598.

Google Scholar

[6] A.L. Rabinovich, P.O. Ripatti and N.K. Balabaev: J. Biol. Phys. 25 (1999), pp.245-262.

Google Scholar

[7] A.L. Rabinovich, P.O. Ripatti, N.K. Balabaev and F.A.M. Leermakers: Phys. Rev. E 67 (2003), p.011909.

Google Scholar

[8] F.A.M. Leermakers, A.L. Rabinovich and N.K. Balabaev: Phys. Rev. E 67 (2003), p.011910.

Google Scholar

[9] A.L. Rabinovich, P.O. Ripatti and N.K. Balabaev: Russ. J. Phys. Chem. (transl. from Russ. ) 76 (2002), pp.1824-1828.

Google Scholar

[10] O. Edholm and F. Jänig: Biophys. Chem. 30 (1998), pp.279-292.

Google Scholar

[11] R.G. Efremov, P.E. Volynsky, D.E. Nolde, G. Vergoten and A.S. Arseniev: Theor. Chem. Acc. 106 (2001), pp.48-54.

Google Scholar

[12] D.P. Tieleman, S.J. Marrink and H.J. Berendsen: Biochim. Biophys. Acta 1331 (1997), p.235270.

Google Scholar

[13] A.S. Lemak and N.K. Balabaev: Mol. Simul. 15 (1995), pp.223-231.

Google Scholar

[14] A.S. Lemak and N.K. Balabaev: J. Comput. Chem. 17 (1996), pp.1685-1695.

Google Scholar

[15] K.V. Shaitan and S.S. Saraikin: Russ. J. Phys. Chem. (transl. from Russ. ) Vol. 76 (2002), pp.987-992.

Google Scholar

[16] V.L. Golo and K.V. Shaitan: Biophysics (transl. from Russ. ) 47 (2002), pp.567-573.

Google Scholar

[17] V.L. Golo, V.N. Salnikov and K.V. Shaitan: Phys. Rev. E 70 (2004), p.046130.

Google Scholar

[18] S. Park and K. Schulten: J. Chem. Phys. 120 (2004), pp.5946-5961.

Google Scholar

[19] B. Isralewitz, M. Gao and K. Schulten: Curr. Opin. Struct. Biol. 11 (2001), pp.224-230.

Google Scholar

[20] K.V. Shaitan: Biophysics (transl. from Russ. ) 39 (1994), pp.993-1011.

Google Scholar

[21] K.V. Shaitan, M.D. Ermolaeva, N.K. Balabaev, A.S. Lemak and M.V. Orlov: Biophysics 42 (1997), pp.558-566.

Google Scholar

[22] J. Wang, P. Cieplak and P.A. Kollman: J. Comput. Chem. 21 (2000), pp.1049-1074.

Google Scholar

[23] P.A. Hyslop, B. Morel and R.D. Sauerheber: Biochemistry1990), pp.1025-1038.

Google Scholar

[24] G. Pabst, M. Rappolt, H. Amenitsch and P. Laggner: Phys. Rev. E 62 (2000), pp.4000-4009.

Google Scholar

[25] J.M. Smaby, M.M. Mornsen, H.L. Brockman and R.E. Brown: Biophys. J. 73 (1997), p.14921505.

Google Scholar

[26] R.W. Evans, M.A. Williams and J. Tinoco: Biochem. J. 245 (1987), pp.455-462.

Google Scholar

[27] T.R. Stouch, K.B. Ward, A. Altieri and A.T. Hagler: J. Comput. Chem. 12 (1991), pp.1033-1046.

Google Scholar

[28] S.E. Feller, D. Yin, R.W. Pastor and A.D. Mackerell, Jr.: Biophys. J. 73 (1997), pp.2269-2279.

Google Scholar

[29] M. Schlenkrich, J. Brickmann, A.D. Mackerell, Jr. and M. Karplus, in Biological membranes: a molecular perspective from computation and experiment, edited by K. M. Merz, Jr. and B. Roux, Birkhauser, Boston (1996).

DOI: 10.1007/978-1-4684-8580-6_2

Google Scholar

[30] K. Murzyn, T. Rуg, G. Jezierski, Y. Takaoka and M. Pasenkiewicz-Gierula: Biophys. J. 81 (2001), pp.170-183.

DOI: 10.1016/s0006-3495(01)75689-5

Google Scholar

[31] H.J.C. Berendsen, J.P.M. Postma, W.F. van Gunsteren, A. DiNola and J.R. Haak: J. Chem. Phys. 81 (1984), pp.3684-3690.

DOI: 10.1063/1.448118

Google Scholar

[32] S.W. Chiu, M. Clark, V. Balaji, S. Subramaniam, H.L. Scott and E. Jakobsson: Biophys. J. 69 (1995), pp.1230-1245.

Google Scholar

[33] A. Lavi, H. Weitman, R.T. Holmes, K.M. Smith and B. Ehrenberg: Biophys. J. 82 (2002), pp.2101-2110.

Google Scholar

[34] M. Roslaniec, H. Weitman, D. Freedman, Y. Mazur and B. Ehrenberg: J. Photochem. Photobiol. B 57 (2000), pp.149-158.

Google Scholar

[35] A. Ligeza, A.N. Tikhonov, J.S. Hyde and W.K. Subczynski: Biochim. Biophys. Acta 1365 (1998), pp.453-463.

Google Scholar

[36] D. Marsh: Proc. Natl. Acad. Sci. USA 98 (2001), pp.7777-7782.

Google Scholar

[37] B.G. Dzikovski, V.A. Livshits and D. Marsh: Biophys. J. 85 (2003), pp.1005-1012.

Google Scholar

[38] M.W. Merx, U. Flögel, T. Stumpe, A. Gödecke, U.K. Decking and J. Schrader: FASEB J. 15 (2001), pp.1077-1079.

DOI: 10.1096/fsb2fj000497fje

Google Scholar

[39] S.J. McKinnon, S.L. Whittenburg and B. Brooks: J. Phys. Chem. 96 (1992), p.10506.

Google Scholar

[40] S. Th. Bouwer, L. Hoofd and F. Kreuzer: Biochim. Biophys. Acta: Prot. Struct. Mol. Enzym. 1997), pp.127-136.

Google Scholar

[41] T. Itoh, K. Yaegashi, T. Kosaka and H. Fukushima: Biorheology 33 (1996), p.80.

Google Scholar

[42] C.E. St-Denis and C.J. Fell: Canad. J. Chem. Eng. 49 (1971), p.885.

Google Scholar

[43] M.W. Mahoney and W.L. Jorgensen: J. Chem. Phys. 114 (2001), pp.363-366.

Google Scholar

[44] H.S. Park, T. Chang and S.H. Lee: J. Chem. Phys. 113 (2000), pp.5502-5510.

Google Scholar

[45] J.L. Fauchère and V. Pliska: Eur. J. Med. Chem. Chim. Ther. 18 (1986), pp.369-375.

Google Scholar

[46] G.E. Schulz and R.H. Schirmer, Principles of protein structure, Springer-Verlag, New York- Heidelberg-Berlin (1979).

Google Scholar

[47] K. Wu, M.J. Iedema and J.P. Cowin: Science 286 (1999), pp.2482-2485.

Google Scholar

[48] Ye.V. Tourleigh, K.V. Shaitan and N.K. Balabaev: Biologicheskie Membrany (in Russ. ) 22 (2005), pp.491-502.

Google Scholar

[49] R. Rand and V. Parsegian: Biochim. Biophys. Acta 998 (1989), pp.351-376.

Google Scholar

[50] G. Pabst: Langmuir 16 (2000), pp.8994-9001.

Google Scholar

[51] Z. Salamon, G. Lindblom, L. Rilfors, K. Linde and G. Tollin: Biophys. J. 78 (2000), p.14001412.

Google Scholar

[52] J. Seelig and A. Seelig: Q. Rev. Bioph. 13 (1980), pp.19-61.

Google Scholar

[53] D. Huster, P. Müler, K. Arnold and A. Herrmann: Biophys. J. 80 (2001).

Google Scholar

[54] M. Lafleur, P.R. Cullis and M. Bloom: Eur. Biophys. J. 19 (1990), pp.55-62.

Google Scholar

[55] M.J. Schneider and S.E. Feller: J. Phys. Chem. B 105 (2001), pp.1331-1337.

Google Scholar

[56] R.A. Böckmann, A. Hac, T. Heimburg and H. Grubmüller: Biophys. J. 85 (2003), p.16471655.

Google Scholar

[57] G.K. Batchelor, in Theoretical and Applied Mechanics. IUTAM Congress, edited by W. T. Koiter, North Holland-Elsevier Science Publishers, Amsterdam-New York-Oxford (1976).

Google Scholar

[58] C.E. Kung and J.K. Reed: Biochemistry 25 (1986), pp.6114-6121.

Google Scholar

[59] W.R. Dunham, R.H. Sands, S.B. Klein, E.A. Duelli, L.M. Rhodes and C.L. Marcelo: Spectrochim. Acta A 52 (1996), pp.1357-1368.

Google Scholar

[60] M. Sinensky: Proc. Natl. Acad. Sci. USA 71 (1974), pp.522-525.

Google Scholar

[61] A. Sonnleitner, G.J. Schütz and Th. Schmidt: Biophys. J. 77 (1999), pp.2638-2642.

Google Scholar