Computational observation of an ion permeation through a channel protein

Bioscience Reports

Volumn 18, Issue 1, 1998, Pages 39-48

  Suenaga, Atushi ^a   Komeiji, Yuto ^b   Uebayasi, Masami ^c   Meguro, Toshiyuki ^a   Saito, Minoru ^d   Yamato, Ichiro ^a  

^a TOKYO UNIVERSITY OF SCIENCE   (Japan)

^b ELECTROTECHNICAL LABORATORY   (Japan)

^c NATL INST BIOSCI HUM TECHNOL   (Japan)

^d Real World Computing Partnership   (Japan)

Author keywords

Channel activity; Channel protein; Ion permeation process; Molecular dynamics

Indexed keywords

ION CHANNEL; OUTER MEMBRANE PROTEIN; PORIN; SODIUM ION;

ARTICLE; CELL MEMBRANE POTENTIAL; CONTROLLED STUDY; CRYSTAL STRUCTURE; ELECTRIC FIELD; ESCHERICHIA COLI; ION TRANSPORT; MEMBRANE PERMEABILITY; MOLECULAR DYNAMICS; PROTEIN STRUCTURE; SODIUM TRANSPORT; X RAY CRYSTALLOGRAPHY;

BACTERIAL PROTEINS; COMPUTER SIMULATION; ION TRANSPORT; MODELS, MOLECULAR; PORINS;

EID: 0002534287     PISSN: 01448463     EISSN: None     Source Type: Journal    
DOI: 10.1023/A:1022292801256     Document Type: Article

References (23)

1. Cronan, J. E., Gennis, R. B., and Maloy, S. R. (1987) in: Escherichia coli and Salmonella typhimurium (F. C. Neidhardt et al., eds.), American Society for Microbiology, Washington, DC, pp. 24-30.
2. Nikaido, H. and Vaara, M. (1987) in: Escherichia coli and Salmonea typhimurium (F. C. Neidhardt et al., eds.), American Society for Microbiology, Washington, DC, pp. 7-22.
3. Hancock, R. E. W. (1987) J. Bacteriol. 169:929-933.
4. Rosenbusch, J. P. (1990) Experientia 46:167-173.
5. Cowan, S. W. et al. (1992) Nature 358:727-733.
6. Benson, S. A., Occi, J. L. L., and Sampson, B. A. (1988) J. Mol. Biol. 203:961-970.
7. Misra, R. and Benson, S. A. (1988) J. Bacteriol. 170:3611-3617.
8. Lou, K.-L. et al. (1996) J. Biol. Chem. 271:20669-20675.
9. Schindler, H. and Rosenbusch, J. P. (1981) Proc. Natl. Acad. Sci. USA 78:2302-2306.
10. Bjorksten, J., Soares, C. M., Nilsson, O., and Tapia, O. (1994) Prot. Engng 74:487-493.
11. Soares, C. M., Bjorksten, J., and Tapia, O. (1995) Prot. Engng. 8:5-12.
12. Watanabe, M., Rosenbusch, J. P., Schirmer, T., and Karplus, M. (1997) Biophys. J. 72:2094-2102.
13. Jorgensen, W. L., Chandrasekhar, J., Madura, J. D., Impey, R. W., and Klein, M. L. (1983) J. Chem. Phys. 79:926-935.
14. Gennis, R. B. (1989) in: Biomembranes (C. R. Cantor, ed.), Springer-Verlag, New York, pp. 36-84.
15. Seibel, G., Singh, U. C., Weiner, P. K., Caldwell, J., and Kollman, P. A. (1989) AMBER 3.0 Revision A, University of California, San Francisco, CA.
16. Weiner, S. J., Kollman, P. A., Nguyen, D., and Case, D. A. (1986) J. Comput. Chem. 23: 230-252.
17. Ryckaert, J., Ciccotti, G., and Berendsen, H. J. C. (1977) J. Comput, Phys. 23:327-341.
18. Komeiji, Y., Uebayasi, M., Someya, J., and Yamato, I. (1991) Prot. Engng 4:871-875.
19. Saint, N., Lou, K.-L., Widmer, C., Luckey, M., Schirmer, T., and Rosenbusch, J. P. (1996) J. Biol. Chem. 271:20676-20680.
20. Buehler, L. K., Kusumoto, S., Zhang, H., and Rosenbusch, J. P. (1991) J. Biol. Chem, 266:24446-24450.
21. Suenaga, A., Yamato, I., and Saito, M. (1997) in: Progress in Cell Research (M. Sokabe, A. Auerbach, and F. Sigworth, eds.), Towards molecular biophysics of ion channels, Elsevier Sci. Pub., Amsterdam. Vol. 6, pp. 217-232.
22. Moore, W. J. (1962) in: Physical chemistry, 3rd ed., Prentice-Hall, NJ, USA.
23. Karshikoff, A., Spassov, V., Cowan, S. W., Ladenstein, R., and Schirmer, T. (1994) J. Mol. Biol. 240:372-384.