The photophysics of isolated protein chromophores

European Physical Journal D

Volumn 51, Issue 1, 2009, Pages 5-14

  Andersen, L H ^a   Bochenkova, A V ^b  

^a AARHUS UNIVERSITY   (Denmark)

^b MOSCOW STATE UNIVERSITY   (Russian Federation)

Author keywords

[No Author keywords available]

Indexed keywords

CHROMOPHORES; GROUND STATE; HEAVY IONS; PERTURBATION TECHNIQUES; PHOTOPHYSICS; STORAGE RINGS;

ABSORPTION WAVELENGTHS; EFFECTIVE HAMILTONIAN; GREEN FLUORESCENT PROTEIN; HEAVY-ION STORAGE RING; LINEAR RESPONSE METHOD; PERTURBATION THEORY; PHOTOACTIVE PROTEINS; SECOND ORDER PERTURBATION THEORY;

PROTEINS;

EID: 58849154499     PISSN: 14346060     EISSN: 14346079     Source Type: Journal    
DOI: 10.1140/epjd/e2008-00144-9     Document Type: Article

References (72)

1. E.L. Mertz, L.I. Krishtalik, Proc. Natl. Acad. Sci. USA 97, 2081 (2000)
2. S.B. Nielsen, A. Lapierre, J.U. Andersen, U.V. Pedersen, S. Tomita, L.H. Andersen, Phys. Rev. Lett. 87, 228102 (2001)
3. L. Lammich, M.A. Petersen, M.B. Nielsen, L.H. Andersen, Biophys. J. 92, 201 (2007)
4. I.B. Nielsen, S. Boyé-Peronne, M.O.A. El Ghazaly, M.B. Kristensen, S. Brøndsted Nielsen, L.H. Andersen, Biophys. J. 89, 2597 (2005)
5. G. Wald, Science 162, 230 (1968)
6. M.A. Elslinger, R.M. Wachter, G.T. Hanson, K. Kallio, S.J. Remington, Biochemistry 38, 5296 (1999)
7. L.H. Andersen, I.B. Nielsen, M.B. Kristensen, M.O.A. El Ghazaly, S. Haacke, M.B. Nielsen, M.Å. Petersen, J. Am. Chem. Soc. 127, 12347 (2005)
8. N.S. Bayliss, J. Chem. Phys. 16, 287 (1948)
9. J.C.A. Boeyens, S.D. Travlos, J. Cryst. Spectrosc. Res. 20, 433 (1990)
10. A. Cembran, R. Gonzalez-Luque, P. Altoe, M. Merchan, F. Bernardi, M. Olivucci, M. Garavelli, J. Phys. Chem. A 109, 6597 (2005)
11. H. Torii, J. Am. Chem. Soc. 124, 9272 (2002)
12. N. Ferre, M. Olivucci, J. Am. Chem. Soc. 125, 6868 (2003)
13. K. Fujimoto, J.Y. Hasegawa, S. Hayashi, S. Kato, H. Nakatsuji, Chem. Phys. Lett. 414, 239 (2005)
14. S. Sekharan, O. Weingart, V. Buss, Biophys. J. 91, L7 (2006)
15. M. Schreiber, M. Sugihara, T. Okada, V. Buss, Angewante Chemie-International Edition 45, 4274 (2006)
16. P.B. Coto, A. Strambi, N. Ferre, M. Olivucci, Proc. Natl. Acad. Sci. USA 103, 17154 (2006)
17. M. Wanko, M. Hoffmann, P. Strodel, A. Koslowski, W. Thiel, F. Neese, T. Frauenheim, M. Elstner, J. Phys. Chem. B 109, 3606 (2005)
18. V. Molina, M. Merchan, Proc. Natl. Acad. Sci. USA 98, 4299 (2001)
19. E.V. Gromov, I. Burghardt, H. Koppel, L.S. Cederbaum, J. Am. Chem. Soc. 129, 6798 (2007)
20. R.J. Trabanino, N. Vaidehi, W.A. Goddard III, J. Phys. Chem. B. 110, 17230 (2006)
21. K. Bravaya, A. Bochenkova, A. Granovsky, A. Nemukhin, J. Am. Chem. Soc. 129, 13035 (2007)
22. L. Kessel, I.B. Nielsen, A.V. Bochenkova, K.B. Bravaya, L.H. Andersen, J. Phys. Chem. A 111, 10537 (2007)
23. L.A. Gross, G.S. Baird, R.C. Hoffman, K.K. Baldridge, R.Y. Tsien, Proc. Natl. Acad. Sci. USA 97, 11990 (2000)
24. S. Boyé, H. Krogh, I.B. Nielsen, S.B. Nielsen, S.U. Pedersen, U.V. Pedersen, L.H. Andersen, A.F. Bell, X. He, P.J. Tonge, Phys. Rev. Lett. 90, 118103 (2003)
25. M. Andresen, M.C. Wahl, A.C. Stiel, F. Grater, L.V. Schafer, S. Trowitzsch, G. Weber, C. Eggeling, H. Grubmuller, S.W. Hell, S. Jakobs, Proc. Natl. Acad. Sci. USA 102, 13070 (2005)
26. K. Fujimoto, S. Hayashi, J. Hasegawa, H. Nakatsuji, J. Chem. Theor. Comput. 3, 605 (2007)
27. I.B. Nielsen, M.A. Petersen, L. Lammich, M.B. Nielsen, L.H. Andersen, J. Phys. Chem. A 110, 12592 (2006)
28. R.M. Wachter, M.-A. Elsliger, K. Kallio, G.T. Hanson, S.J. Remington, Structure 6, 1267 (1998)
29. W.L. Ryan, D.J. Gordon, D.H. Levy, J. Am. Chem. Soc. 124, 6194 (2002)
30. J.B. Fenn, M. Mann, C.K. Meng, S.F. Wong, C.M. Whitehouse, Science 246, 64 (1989)
31. J.U. Andersen, P. Hvelplund, S.B. Nielsen, S. Tomita, H. Wahlgreen, S.P. Moller, U.V. Pedersen, J.S. Forster, T.J.D. Jørgensen. Rev. Sci. Instrum. 73, 1284 (2002)
32. S.P. Moller, Nucl. Instrum. Meth. A 394, 281 (1997)
33. L.H. Andersen, A. Lapierre, I.B. Nielsen, S.B. Nielsen, U.V. Pedersen, S.U. Pedersen, S. Tomita, Nucl. Phys. Rev. 19, 176 (2002)
34. L.H. Andersen, H. Bluhme, S. Boyé, T.J.D. Jørgensen, H. Krogh, I.B. Nielsen, S. Brøndsted Nielsen, A. Svendsen, Phys. Chem. Chem. Phys. 6, 2617 (2004)
35. O.V. Boyarkin, S.R. Mercier, A. Kamariotis, T.R. Rizzo, J. Am. Chem. Soc. 128, 2816 (2006)
36. S.R. Mercier, O.V. Boyarkin, A. Kamariotis, M. Guglielmi, I. Tavernelli, M. Cascella, U. Rothlisberger, T.R. Rizzo, J. Am. Chem. Soc. 128, 16938 (2006)
37. L.H. Andersen, O. Heber, D. Zajfman, J. Phys. B 37, R57 (2004)
38. L. Joly, R. Antoine, A.-R. Allouche, M. Broyer, J. Lemoine, P. Dugourd, J. Am. Chem. Soc. 129, 8428 (2007)
39. L. Lammich, I.B. Nielsen, H. Sand, A. Svendsen, L.H. Andersen, J. Phys. Chem. A 111, 4567 (2007)
40. J.U. Andersen, E. Bonderup, K. Hansen, J. Chem. Phys. 114, 6518 (2001)
41. C.E. Klots, J. Chem. Phys. 93, 2513 (1990)
42. S.E. Stein, B.S. Rabinovitch, J. Chem. Phys. 58, 2438 (1973)
43. K. Stockel et al., Rev. Sci. Intrum. 79, 023107 (2008)
44. K. Andersson, P. Malmqvist, B.O. Roos, A.J. Sadlej, K. Wolinski, J. Phys. Chem. 94, 5483 (1990)
45. K. Andersson, P. Malmqvist, B.O. Roos, J. Chem. Phys. 96, 1218 (1992)
46. K. Hirao, Chem. Phys. Lett. 190, 374 (1992)
47. H. Nakano, K. Hirao, Bull. Korean Chem. Soc. 24, 812 (2003)
48. H. Nakano, J. Chem. Phys. 99, 7983 (1993)
49. J. Finley, P. Malmqvist, B.O. Roos, L. Serrano-Andres, Chem. Phys. Lett. 288, 299 (1998)
50. J. Geertsen, M. Rittby, R.J. Bartlett, Chem. Phys. Lett. 164, 57 (1989)
51. J.F. Stanton, R.J. Bartlett, J. Chem. Phys. 98, 7029 (1993)
52. O. Christiansen, H. Koch, P. Jørgensen, Chem. Phys. Lett. 243, 409 (1995)
53. E.K.U. Gross, W. Kohn, Phys. Rev. Lett. 55, 2850 (1985)
54. A.K. Das, J.-Y. Hasegawa, T. Miyahara, M. Ehara, H. Nakatsuji, J. Comp. Chem. 24, 1421 (2003)
55. A. Sergi, M. Gruning, M. Ferrario, F. Buda, J. Phys. Chem. B 105, 4386 (2001)
56. M.A.L. Marques, X. Lopez, D. Varsano, A. Castro, A. Rubio, Phys. Rev. Lett. 90, 258101 (2003)
57. R. Send, D. Sundholm, Phys. Chem. Chem. Phys. 9, 2862 (2007)
58. D.J. Tozer, R.D. Amos, N.C. Handy, B.J. Roos, L. Serrano-Andres, Molec. Phys. 97, 859 (1999)
59. A.L. Sobolewski, W. Domcke, Chem. Phys. 294, 73 (2003)
60. A. Dreuw, M. Head-Gordon, J. Am. Chem. Soc. 126, 4007 (2004)
61. Z.-L. Cai, K. Sendt, J.R. Reimers, J. Chem. Phys. 117, 5543 (2002)
62. S. Grimme, M. Parac, Chem. Phys. Chem. 4, 292 (2003)
63. H. Koch, O. Christiansen, P. Jorgensen, J. Olsen, Chem. Phys. Lett. 244, 75 (1995)
64. O. Christiansen, H. Koch, P. Jorgensen, J. Olsen, Chem. Phys. Lett. 256, 185 (1996)
65. M. Wanko, M. Hoffmann, P. Strodel, A. Koslowski, W. Thiel, F. Neese, T. Frauenheim, M. Elstner, J. Phys. Chem. B 109, 3606 (2005)
66. S. Fantacci, A. Migani, M. Olivucci, J. Phys. Chem. A 108, 1208 (2004)
67. C.S. Page, M. Olivucci, J. Comp. Chem. 24, 298 (2003)
68. I.B. Nielsen, L. Lammich, L.H. Andersen, Phys. Rev. Lett. 96, 018304 (2006)
69. A. Cembran, R. Gonzalez-Luque, L. Serrano-Andres, M. Merchan, M. Garavelli, Theor. Chem. Acc. 118, 173 (2007)
70. M. Sun, Y. Ding, G. Cui, Y. Liu, J. Phys. Chem. A 111, 2946 (2007)
71. K. Nakayama, H. Nakano, K. Hirao, Int. J. Quant. Chem. 66, 157 (1998)
72. A.V. Nemukhin, A.V. Bochenkova, K.B. Bravaya, A.A. Granovsky, Proc. SPIE 6449, 64490N (2007)