Simulation of polymer translocation through protein channels

Proceedings of the National Academy of Sciences of the United States of America

Volumn 103, Issue 14, 2006, Pages 5273-5278

  Muthukumar, M ^a   Kong, C Y ^a  

^a UNIVERSITY OF MASSACHUSETTS   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALPHA HEMOLYSIN; HEMOLYSIN; POLYMER; SINGLE STRANDED DNA; UNCLASSIFIED DRUG;

ALGORITHM; ARTICLE; BETA CHAIN; CONFORMATIONAL TRANSITION; ION CURRENT; ION TRANSPORT; MOLECULAR DYNAMICS; PRIORITY JOURNAL; SEQUENCE ANALYSIS;

ALGORITHMS; COMPUTER SIMULATION; POLYMERS; PROTEINS; THERMODYNAMICS;

EID: 33645765294     PISSN: 00278424     EISSN: None     Source Type: Journal    
DOI: 10.1073/pnas.0510725103     Document Type: Article

References (33)

1. Macara, I. G. (2001) Microbiol. Mol. Biol. Rev. 65, 570-594.
2. Dreyfuss, G., Kim, V. N. & Kataoka, N. (2002) Nat. Rev. Mol. Cell Biol. 3, 195-205.
3. Cullen, B. R. (2003) J. Cell Sci. 116, 587-597.
4. Kasianowiez, J. J., Brandin, E., Branton, D. & Deamer, D. W. (1996) Proc. Natl. Acad. Sci. USA 93, 13770-13773.
5. Bezrukov, S. M., Vodyanoy, I., Brutyan, R. A. & Kasianowicz, J. J. (1996) Macromolecules 29, 8517-8522.
6. Akeson, M., Branton, D., Kasianowicz, J. J., Brandin, E. & Deamer, D. W. (1999) Biophys. J. 77, 3227-3233.
7. Henrickson, S. E., Misakian, M., Robertson, B. & Kasianowicz, J. J. (2000) Phys. Rev. Lett. 85, 3057-3060.
8. Meiler, A., Nivon, L., Brandin, E., Golovchenko, J. & Branton, D. (2000) Proc. Natl. Acad. Sci. USA 97, 1079-1084.
9. Meller, A., Nivon, L. & Branton, D. (2001) Phys. Rev. Lett. 86, 3435-3438.
10. Meller, A. & Branton, D. (2002) Electrophoresis 23, 2583-2591.
11. Vercoutere, W. A., Winters-Hilt, S., DeGuzman, V. S., Deamer, D., Ridino, S. E., Rodgers, J. T., Olsen, H. E., Marziali, A. & Akeson, M. (2003) Nucleic Acids Res. 31, 1311-1318.
12. Song, L. Z., Hobaugh, M. R., Shustak, C., Cheley, S., Bayley, H. & Gouaux, J. E. (1996) Science 274, 1859-1866.
13. Sung, W. & Park, P. J. (1996) Phys. Rev. Lett. 77, 783-786.
14. Lubensky, D. K. & Nelson, D. R. (1999) Biophys. J. 77, 1824-1838.
15. Muthukumar, M. (1999) J. Chem. Phys. 111, 10371-10374.
16. Muthukumar, M. (2001) Phys. Rev. Lett. 86, 3188-3191.
17. Chern, S. S., Cardenas, A. E. & Coalson, R. D. (2001) J. Chem. Phys. 115, 7772-7782.
18. Muthukumar, M. (2002) Electrophoresis 23, 1417-1420.
19. Ambjornsson, T., Apell, S. P., Konkoli, Z., Di Marzio, E. A. & Kasianowicz, J. J. (2002) J. Chem. Phys. 117, 4063-4073.
20. Kong, C. Y. & Muthukumar, M. (2002) Electrophoresis 23, 2697-2703.
21. Slonkina, E. & Kolomeisky, A. B. (2003) J. Chem. Phys. 118, 7112-7118.
22. Muthukumar, M. & Baumgärtner, A. (1989) Macromolecules 22, 1937-1941.
23. Korchev, Y. E., Bashford, C. L., Alder, G. M., Kasianowicz, J. J. & Pasternak, C. A. (1995) J. Membr. Biol. 147, 233-239.
24. Achter, E. K. & Felsenfe, G. (1971) Biopolymers 10, 1625-1634.
25. Smith, S. B., Cui, Y. J. & Bustamante, C. (1996) Science 271, 795-799.
26. Tinland, B., Pluen, A., Sturm, J. & Weill, G. (1997) Macromolecules 30, 5763-5765.
27. Allen, M. P. & Tildesley, D. J. (1987) Computer Simulation of Liquids (Oxford Univ. Press, Oxford).
28. Eisenberg, R. S. (1996) J. Membr. Biol. 150, 1-25.
29. Kurnikova, M. G., Coalson, R. D., Graf, P. & Nitzan, A. (1999) Biophys. J. 76, 642-656.
30. Corry, B., Kuyucak, S. & Chung, S. H. (2000) Biophys. J. 78, 2364-2381.
31. Wang, H., Dunning, J. E., Huang, A. P. H., Nyamwanda, J. A. & Branton, D. (2004) Proc. Natl. Acad. Sci. USA 101, 13472-13477.
32. Mathe, J., Aksimentiev, A., Nelson, D. R., Schulten, K. & Meller, A. (2005) Proc. Natl. Acad. Sci. USA 102, 12377-12382.
33. Xie, H. Z., Braha, O., Gu, L. Q., Cheley, S. & Bayley, H. (2005) Chem. Biol. 12, 109-120.