Progress and prospects in permeation

Journal of General Physiology

Volumn 113, Issue 6, 1999, Pages 773-782

  Nonner, Wolfgang ^a   Chen, Duan P ^b   Eisenberg, Bob ^b  

^a UNIVERSITY OF MIAMI MILLER SCHOOL OF MEDICINE   (United States)

^b RUSH MEDICAL COLLEGE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CALCIUM; ION; LITHIUM; POTASSIUM; SODIUM;

ANALYTICAL ERROR; CHEMICAL INTERACTION; ELECTRICITY; ION CURRENT; ION PERMEABILITY; ION TRANSPORT; MODEL; MOLECULAR DYNAMICS; REVIEW; SIMULATION; STRUCTURE ACTIVITY RELATION; THEORY;

EID: 0033014096     PISSN: 00221295     EISSN: None     Source Type: Journal    
DOI: 10.1085/jgp.113.6.773     Document Type: Review

References (49)

1. Andersen, O.S., and R.E. Koeppe. 1992. Molecular determinants of channel function. Physiol. Rev. 72:S89-S157.
2. Barcilon, V., D. Chen, R. Eisenberg, and M. Ratner. 1993. Barrier crossing with concentration boundary conditions in biological channels and chemical reactions. J. Chem. Phys. 98:1193-1211.
3. Beck, C., and F. Schlögl. 1995. Thermodynamics of Chaotic Systems. Cambridge University Press, New York.
4. Berry, S.R., S.A. Rice, and J. Ross. 1980. Physical Chemistry. John Wiley & Sons Inc., New York. p. 1156.
5. Blum, L., M.F. Holovko, and I.A. Protsykevych. 1996. A solution of the multiple-binding mean spherical approximation for ionic mixtures. J. Stat. Phys. 84:191-203.
6. Catacuzzeno, L., W. Nonner, and B. Eisenberg. 1999. PNP2 links crystallographic structure and conduction in K channels. Biophys. J. 76:A79.
7. Chen, D., L. Xu, A. Tripathy, G. Meissner, and B. Eisenberg. 1999. Selectivity and permeation in calcium release channel of cardiac muscle: alkali metal ions. Biophys. J. 76:1346-1366.
8. Chen, D., L. Xu, A. Tripathy, G. Meissner, and R. Eisenberg. 1997a. Permeation through the calcium release channel of cardiac muscle. Biophys. J. 73:1337-1354.
9. Chen, D.P., and R.S. Eisenberg. 1993. Charges, currents and potentials in ionic channels of one conformation. Biophys. J. 64:1405-1421.
10. Chen, D.P., J. Lear, and R.S. Eisenberg. 1997b. Permeation through an open channel. Poisson-Nernst-Planck theory of a synthetic ionic channel. Biophys. J. 72:97-116.
11. Chen, D.P., W. Nonner, and R.S. Eisenberg. 1995. PNP theory fits current-voltage (IV) relations of a neuronal anion channel in 13 solutions. Biophys. J. 68:A370.
12. Chiu, S.W., and E. Jakobsson. 1989. Stochastic theory of singly occupied ion channels. II. Effects of access resistance and potential gradients extending into the bath. Biophys. J. 55:147-157.
13. Cooper, K., E. Jakobsson, and P. Wolynes. 1985. The theory of ion transport through membrane channels. Prog. Biophys. Mol. Biol. 46:51-96.
14. Cooper, K.E., P.Y. Gates, and R.S. Eisenberg. 1988a. Diffusion theory and discrete rate constants in ion permeation. J. Membr. Biol. 109:95-105.
15. Cooper, K.E., P.Y. Gates, and R.S. Eisenberg. 1988b. Surmounting barriers in ionic channels. Q. Rev. Biophys. 21:331-364.
16. Crouzy, S., T.B. Woolf, and B. Roux. 1994. A molecular dynamics study of gating in dioxolane-linked gramicidin A channels, Biophys. J. 67:1370-1386.
17. Dang, T.X., and E.W. McCleskey. 1998. Ion channel selectivity through stepwise changes in binding affinity. J. Gen. Physiol. 111: 185-193.
18. Eisenberg, B. 1998. Ionic channels in biological membranes. Electrostatic analysis of a natural nanotube. Contemp. Phys. 39:447-466.
19. Eisenberg, R.S., M.M. Klosek, and Z. Schuss. 1995. Diffusion as a chemical reaction: stochastic trajectories between fixed concentrations. J. Chem. Phys. 102:1767-1780.
20. Elber, R., D. Chen, D. Rojewska, and R.S. Eisenberg. 1995. Sodium in gramicidin: an example of a permion. Biophys. J. 68:906-924.
21. Feynman, R.P., R.B. Leighton, and M. Sands. 1963. The Feynman: Lectures on Physics, Mainly Electromagnetism and Matter. Addison-Wesley Publishing Co., New York.
22. Fleming, G., and P. Hänggi. 1993. Activated barrier crossing: applications in physics, chemistry and biology. World Scientific Publishing Co., Inc., River Edge, NJ. 327 pp.
23. Frauenfelder, H., and P. Wolynes. 1985. Rate theories and puzzles of hemeprotein kinetics. Science. 229:337-345.
24. Frenkel, D., and B. Smit. 1996. Understanding Molecular Simulation. Academic Press, Inc., New York. 62-63.
25. Hänggi, P., P. Talkner, and M. Borokovec. 1990. Reaction-rate theory: fifty years after Kramers. Rev. Mod. Phys. 62:251-341.
26. Heckmann, K. 1972. Single-file diffusion. In Passive Permeability of Cell Membranes. F. Kreuzer and J.F.G. Siegers, editors. Plenum Publishing Corp., New York. p. 127.
27. Henderson, D. 1983. Recent progress in the theory of the electric double layer. Prog. Surf. Sci. 13:197-224.
28. Henderson, D. 1992. Fundamentals of Inhomogeneous Fluids. Marcel Dekker, New York.
29. Henderson, D., L. Blum, and J.L. Lebowitz. 1979. An exact formula for the contact value of the density profile of a system of charged hard spheres near a charged wall. The Journal of Electroanalytical Chemistry. 102:315-319.
30. Hill, T.L. 1976. Diffusion frequency factors in some simple examples of transition-state rate theory. Proc. Natl. Acad. Sci. USA. 73: 679-683.
31. Hille, B. 1992. Ionic Channels of Excitable Membranes. Sinauer Associates Inc., Sunderland, MA. 607 pp.
32. Hollerbach, U., D. Chen, W. Nonner, and B. Eisenberg. 1999. Three-dimensional Poisson-Nernst-Planck Theory of Open Channels. Biophys. J. 76:A205.
33. Kramers, H.A. 1940. Brownian motion in a field of force and the diffusion model of chemical reactions. Physica. 7:284-304.
34. Kurnikova, M.G., R.D. Coalson, P. Graf, and A. Nitzan. 1999. A lattice relaxation algorithm for 3D Poisson-Nernst-Planck theory with application to ion transport through the gramicidin A channel. Biophys. J. 76:642-656.
35. Läuger, P. 1991. Electrogenic Ion Pump. Sinauer Associates Inc., Sunderland, MA.
36. Lundstrom, M. 1992. Fundamentals of Carrier Transport. Addison-Wesley Publishing Co., New York. 308 pp.
37. Newman, J.S. 1991. Electrochemical Systems. 2nd ed. Prentice Hall, Englewood Cliffs, NJ. 560 pp.
38. Nonner, W., D.P. Chen, and B. Eisenberg. 1998. Anomalous mole fraction effect, electrostatics, and binding in ionic channels. Biophys. J. 74:2327-2334.
39. Nonner, W., and B. Eisenberg. 1998. Ion permeation and glutamate residues linked by Poisson-Nernst-Planck theory in L-type calcium channels. Biophys. J. 75:1287-1305.
40. Ott, E. 1997. Chaos in Dynamical Systems. Cambridge University Press, New York. 385 pp.
41. Pollak, E., A. Berezhkovskii, and Z. Schuss. 1994. Activated rate processes: a relation between Hamiltonian and stochastic theories. J. Chem. Phys. 100:334-339.
42. Rapoport, D.C. 1997. The Art of Molecular Dynamics Simulations. Cambridge University Press, New York. p. 70.
43. Roux, B., and M. Karplus. 1991. Ion transport in a gramicidin-like channel: dynamics and mobility. J. Phys. Chem. 95:4856-4868.
44. Roux, B., and M. Karplus. 1994. Molecular dynamics simulations of the gramicidin channel. Annu. Rev. Biophys. Biomol. Struct. 23: 731-761.
45. Simonin, J.-P., O. Bernard, and L. Blum. 1999. Ionic solutions in the binding mean spherical approximation. Thermodynamic properties of mixtures of associating electrolytes. J. Phys. Chem. B. 103:699-704.
46. Tang, J., D. Chen, N. Saint, J. Rosenbusch, and R. Eisenberg. 1997. Permeation through porin and its mutant G119D. Biophys. J. 72: A108.
47. van den Brink, J., and G.A. Sawatzky. 1998. Non-conventional screening of the Coulomb interaction. In Electronic Properties of Novel Materials: Progress in Molecular Nanostructures. H. Kuzmany, editor. American Institute of Physics, New York. 152 pp.
48. Wolynes, P. 1980. Dynamics of electrolyte solutions. Annu. Rev. Phys. Chem. 31:345-376.
49. Wynne-Jones, W.F.K., and H. Eyring. 1935. The absolute rate of reactions in condensed phases. J. Chem. Phys. 3:492-502.