Energy relaxation of the amide-I mode in hydrogen-bonded peptide units: A route to conformational change

Journal of Chemical Physics

Volumn 128, Issue 6, 2008, Pages

  Pouthier, Vincent ^a  

^a UNIVERSITÉ DE FRANCHE COMTÉ   (France)

Author keywords

[No Author keywords available]

Indexed keywords

BOLTZMANN EQUATION; CONFORMATIONS; EIGENVALUES AND EIGENFUNCTIONS; EXCITED STATES; FERMI LEVEL; HYDROGEN BONDS; PEPTIDES; PHONONS;

DAVYDOV MODEL; FERMI RESONANCE; VIBRON DECAYS;

RELAXATION PROCESSES;

AMIDE; PEPTIDE;

ARTICLE; CHEMICAL MODEL; CHEMISTRY; CONFORMATION; HYDROGEN BOND; QUANTUM THEORY; THERMODYNAMICS; TIME;

AMIDES; HYDROGEN BONDING; MODELS, CHEMICAL; MOLECULAR CONFORMATION; PEPTIDES; QUANTUM THEORY; THERMODYNAMICS; TIME FACTORS;

EID: 39349113447     PISSN: 00219606     EISSN: None     Source Type: Journal    
DOI: 10.1063/1.2831508     Document Type: Article

References (49)

1. L. Cruzeiro, J. Phys.: Condens. Matter JCOMEL 0953-8984 10.1088/0953-8984/17/50/005 17, 7833 (2005).
2. P. A. S. Silva and L. Cruzeiro, Phys. Rev. E PLEEE8 1063-651X 10.1103/PhysRevE.74.021920 74, 021920 (2006).
3. P. A. S. Silva and L. Cruzeiro-Hansson, Phys. Lett. A PYLAAG 0375-9601 315/6, 447 (2003).
4. L. Cruzeiro-Hansson and P. A. S. Silva, J. Biol. Phys. JBPHBZ 0092-0606 27, S6 (2001).
5. C. W. F. McClare, Ann. N.Y. Acad. Sci. ANYAA9 0077-8923 10.1111/j.1749-6632.1974.tb14374.x 227, 74 (1974).
6. A. S. Davydov and N. I. Kisluka, Phys. Status Solidi B PSSBBD 0370-1972 10.1002/pssb.2220590212 59, 465 (1973); A. S. Davydov and N. I. Kisluka, Zh. Eksp. Teor. Fiz. ZETFA7 0044-4510 71, 1090 (1976) A. S. Davydov and N. I. Kisluka, [Sov. Phys. JETP SPHJAR 0038-5646 44, 571 (1976)].
7. A. C. Scott, Phys. Rep. PRPLCM 0370-1573 10.1016/0370-1573(92)90093-F 217, 1 (1992).
8. A. C. Scott, Nonlinear Science (Oxford University Press, New York, 2003).
9. D. W. Brown and Z. Ivic, Phys. Rev. B PRBMDO 0163-1829 10.1103/PhysRevB.40.9876 40, 9876 (1989).
10. D. W. Brown, K. Lindenberg, and X. Wang, in Davydov's Soliton Revisited, edited by, P. L. Christiansen, and, A. C. Scott, (Plenum, New York, 1990).
11. Z. Ivic, D. Kapor, M. Skrinjar, and Z. Popovic, Phys. Rev. B PRBMDO 0163-1829 10.1103/PhysRevB.48.3721 48, 3721 (1993).
12. Z. Ivic, D. Kostic, Z. Przulj, and D. Kapor, J. Phys.: Condens. Matter JCOMEL 0953-8984 10.1088/0953-8984/9/2/010 9, 413 (1997).
13. J. Tekic, Z. Ivic, S. Zekovic, and Z. Przulj, Phys. Rev. E PLEEE8 1063-651X 10.1103/PhysRevE.60.821 60, 821 (1999).
14. V. Pouthier, Phys. Rev. E PLEEE8 1063-651X 10.1103/PhysRevE.68.021909 68, 021909 (2003).
15. V. Pouthier and C. Falvo, Phys. Rev. E PLEEE8 1063-651X 10.1103/PhysRevE.69.041906 69, 041906 (2004).
16. C. Falvo and V. Pouthier, J. Chem. Phys. JCPSA6 0021-9606 10.1063/1.2101569 123, 184709 (2005).
17. C. Falvo and V. Pouthier, J. Chem. Phys. JCPSA6 0021-9606 10.1063/1.2101570 123, 184710 (2005).
18. D. V. Tsivlin and V. May, J. Chem. Phys. JCPSA6 0021-9606 10.1063/1.2402171 125, 224902 (2006).
19. D. V. Tsivlin, H. Meyer, and V. May, J. Chem. Phys. JCPSA6 0021-9606 10.1063/1.2180247 124, 134907 (2006).
20. J. Edler, R. Pfister, V. Pouthier, C. Falvo, and P. Hamm, Phys. Rev. Lett. PRLTAO 0031-9007 10.1103/PhysRevLett.93.106405 93, 106405 (2004).
21. J. Edler, V. Pouthier, C. Falvo, R. Pfister, and P. Hamm, in Ultrafast Phenomena XIV, Springer Series in Chemical Physics Vol. 79, edited by, T. Kobayashi, T. Okada, T. Kobayashi, K. Nelson, S. De Silvesti, (Springer, Berlin, 2005).
22. L. Cruzeiro-Hansson and S. Takeno, Phys. Rev. E PLEEE8 1063-651X 10.1103/PhysRevE.56.894 56, 894 (1997).
23. V. Pouthier, Physica D PDNPDT 0167-2789 10.1016/j.physd.2006.06.014 221, 13 (2006).
24. V. Pouthier, Phys. Rev. E PLEEE8 1063-651X 10.1103/PhysRevE.75.061910 75, 061910 (2007).
25. V. Pouthier, Physica D PDNPDT 0167-2789 237, 106 (2008).
26. K. A. Peterson, J. R. Engholm, C. W. Rella, and H. H. Schwettman, Proc. SPIE PSISDG 0277-786X 3153, 147 (1997).
27. K. A. Peterson, C. W. Rella, J. R. Engholm, and H. H. Schwettman, J. Phys. Chem. B JPCBFK 1089-5647 203, 557 (1999).
28. R. H. Austin, A. Xie, L. Van der Meer, M. Shinn, and G. Neil, Nucl. Instrum. Methods Phys. Res. A NIMAER 0168-9002 10.1016/S0168-9002(03)00919-7 507, 561 (2003).
29. A. Xie, L. Van der Meer, W. Hoff, and R. H. Austin, Phys. Rev. Lett. PRLTAO 0031-9007 10.1103/PhysRevLett.84.5435 84, 5435 (2000).
30. P. Hamm, M. Lim, and R. M. Hochstrasser, J. Phys. Chem. B JPCBFK 1089-5647 10.1021/jp9813286 102, 6123 (1998).
31. P. Hamm, M. Lim, W. F. DeGrado, and R. M. Hochstrasser, J. Chem. Phys. JCPSA6 0021-9606 10.1063/1.480772 112, 1907 (2000).
32. S. Woutersen and P. Hamm, J. Chem. Phys. JCPSA6 0021-9606 10.1063/1.1407842 115, 7737 (2001).
33. J. Edler and P. Hamm, J. Chem. Phys. JCPSA6 0021-9606 10.1063/1.1487376 117, 2415 (2002).
34. M. F. DeCamp, L. DeFlores, J. M. MacCracken, A. Tokmakoff, K. Kwac, and M. Cho, J. Phys. Chem. B JPCBFK 1089-5647 10.1021/jp050257p 109, 11016 (2006).
35. K. Moritsugu, O. Miyashita, and K. Kidera, Phys. Rev. Lett. PRLTAO 0031-9007 10.1103/PhysRevLett.85.3970 85, 3970 (2000).
36. H. Fujisaki, Y. Zhang, and J. E. Straub, J. Chem. Phys. JCPSA6 0021-9606 10.1063/1.2191038 124, 144910 (2006).
37. I. G. Lang and Yu. A. Firsov, Sov. Phys. JETP SPHJAR 0038-5646 16, 1293 (1962).
38. N. G. Mirkin and S. Krimm, J. Mol. Struct. JMOSB4 0022-2860 10.1016/0022-2860(95)09141-6 377, 219 (1996).
39. P. Derreumaux and G. Veroten, J. Chem. Phys. JCPSA6 0021-9606 10.1063/1.468848 102, 8586 (1995).
40. G. M. Chaban and R. B. Gerber, J. Chem. Phys. JCPSA6 0021-9606 10.1063/1.1379040 115, 1340 (2001).
41. R. Zwanzig, Lect. Theor. Phys. LTHPAU 0081-9360 3, 106 (1961); R. Zwanzig, Physica (Amsterdam) PHYSAG 0031-8914 10.1016/0031-8914(64)90102-8 30, 1109 (1964); R. Zwanzig, J. Chem. Phys. JCPSA6 0021-9606 10.1063/1.1731409 33, 1338 (1960).
42. H. Mori, Prog. Theor. Phys. PTPKAV 0033-068X 10.1143/PTP.33.423 33, 423 (1965); H. Mori, Prog. Theor. Phys. PTPKAV 0033-068X 10.1143/PTP.34.399 34, 399 (1965).
43. V. May and O. Kuhn, Charge and Energy Transfer Dynamics in Molecular Systems (Wiley-VCH, Berlin, 2000).
44. F. Shibata, Y. Takahashi, and N. Hashitsume, J. Stat. Phys. JSTPBS 0022-4715 10.1007/BF01040100 17, 171 (1977).
45. C. Uchiyama and F. Shibata, Phys. Rev. E PLEEE8 1063-651X 10.1103/PhysRevE.60.2636 60, 2636 (1999).
46. B. Nie, J. Stutzman, and A. Xie, Biophys. J. BIOJAU 0006-3495 10.1529/biophysj.104.047639 88, 2833 (2005).
47. S. Y. Sheu, D. Y. Yang, H. L. Selzle, and E. W. Schlag, Proc. Natl. Acad. Sci. U.S.A. PNASA6 0027-8424 10.1073/pnas.2133366100 100, 12683 (2003).
48. J. M. Scholtz, S. Marqusee, R. L. Baldwin, E. J. York, J. M. Stewart, M. Santoro, and D. W. Bolen, Proc. Natl. Acad. Sci. U.S.A. PNASA6 0027-8424 10.1073/pnas.88.7.2854 88, 2854 (1991).
49. B. Honig and A. S. Yang, Adv. Protein Chem. APCHA2 0065-3233 46, 27 (1995).