Quantum localization and protein-assisted vibrational energy flow in cofactors

New Journal of Physics

Volumn 12, Issue , 2010, Pages

  Leitner, David M ^a  

^a UNIVERSITY OF NEVADA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CLASSICAL MODELING; COFACTORS; DAMPING RATE; ENERGY FLOW; EXPERIMENTAL OBSERVATION; GASPHASE; GREEN FLUORESCENT PROTEIN; ORGANIC MOLECULES; QUANTUM COHERENCE EFFECTS; QUANTUM EFFECTS; QUANTUM LOCALIZATION; ROOM TEMPERATURE; RULE BASED; SOLVENT ENVIRONMENTS; TEMPERATURE DEPENDENCE; VIBRATIONAL DYNAMICS; VIBRATIONAL ENERGY FLOW; VIBRATIONAL MODES; VIBRATIONAL STATE;

BIOMOLECULES; CHROMOPHORES; DAMPING; QUANTUM ELECTRONICS; REACTION KINETICS;

PROTEINS;

EID: 77956608099     PISSN: 13672630     EISSN: None     Source Type: Journal    
DOI: 10.1088/1367-2630/12/8/085004     Document Type: Article

References (110)

1. Chandler D and Kuharski R A 1988 Faraday Discuss. Chem. Soc. 85 329
2. Nordholm S and Bäck A 2001 Phys. Chem. Chem. Phys. 3 2289
3. Berne B J, Borkovec M and Straub J E 1988 J. Phys. Chem. 92 3711
4. Keske J C and Pate B H 2000 Ann. Rev. Phys. Chem. 51 323
5. Leitner D M 1999 Int. J. Quantum Chem. 75 523
6. Leitner D M and Gruebele M 2008 Mol. Phys. 106 433
7. Crim F F 1993 Ann. Rev. Phys. Chem. 44 397
8. Barker J R, Stimac P J, King K D and Leitner D M 2006 J. Phys. Chem. A 110 2944
9. Onuchic J N and Wolynes P G 1988 J. Phys. Chem. 92 6495
10. Lin Z, Lawrence C M, Xiao D, Skourtis S S, Sessler J L, Beratan D N and Rubtsov I V 2009 J. Am. Chem. Soc. 131 18060
11. Miller R J D 1991 Ann. Rev. Phys. Chem. 42 581
12. Sagnella D E, Straub J E, Jackson T A, Lim M and Anfinrud P A 1999 Prot: Natl. Acad. Sci. USA 96 14324
13. Leitner D M 2008 Ann. Rev. Phys. Chem. 59 233
14. Nagy A M, Raicu V and Miller RJD 2005 Biochim. Biophys. Acta 1749 148
15. Agarwal P K 2005 J. Am. Chem. Soc. 127 15248
16. Ota N and Agard D A 2005 J. Mol. Biol. 351 345
17. Sharp K and Skinner J J 2006 Proteins: Struct. Funct. Bioinform. 65 347
18. Swain J F and Gierasch L M 2006 Curr. Opin. Struct. Biol. 16 102
19. Mataga N, Chosrowjan H, Taniguchi S, Hamada N, Tokunuga F, Imamoto Y and Kataoka M 2003 Phys. Chem. Chem. Phys. 5 2454
20. Winkler K, Linder J, Subramaniam V, Jovin T M and Vöhringer P 2002 Phys. Chem. Chem. Phys. 4 1072
21. Litvinenko K L and Meech S R 2004 Phys. Chem. Chem. Phys. 6 2012
22. Piazza F and Sanejouand Y H 2009 Phys. Biol. 6 046014
23. Leitner D M 2009 J. Chem. Phys. 130 195101
24. Kong Y and Karplus M 2009 Proteins: Struct. Funct. Bioinform. 74 145
25. Nguyen P H, Derreumaux P and Stock G 2009 J. Phys. Chem. B 113 9340
26. Leitner D M and Straub J E 2009 Proteins: Energy, Heat and Signal Flow (London: Taylor and Francis)
27. Rubtsov IV 2009 Acc. Chem. Res. 42 1385
28. Naraharisetty S R G, Kasyanenko V M and Rubtsov IV 2008 J. Chem. Phys. 128 104502
29. Kurochkin D V, Naraharisetty S R G and Rubtsov I V 2007 Proc. Natl Acad. Sci. USA 104 14209
30. Chung H S, Ganim Z, Jones K C and Tokmakoff A 2007 Proc. Natl Acad. Sci. USA 104 14237
31. Hochstrasser R M 2007 Proc. Natl Acad. Sci. USA 104 14190
32. Shim S-H, Gupta R, Ling Y L, Strasfeld D B, Raleigh D P and Zanni M T 2009 Proc. Natl Acad. Sci. USA 106 6614
33. Hamm P, Helbing J and Bredenbeck J 2008 Ann. Rev. Phys. Chem. 59 291
34. Kim J E, Tauber M J and Mathies R A 2003 Biophys. J. 84 846
35. Kennis J T M, Larsen D S, Ohta K, Facciotti M T, Glaeser R M and Fleming G R 2002 J. Phys. Chem. B 106 6067
36. Ishikura T and Yamato T 2006 Chem. Phys. Lett. 432 533
37. Wang Q, Schoenlein R W, Peteanu L A, Mathies R A and Shank C V 1994 Science 266 422
38. Yu X and Leitner D M 2004 Chem. Phys. Lett. 391 181
39. Nakamura R, Hamada N, Ichida H, Tokunaga F and Kanematsu Y 2007 J. Chem. Phys. 127 215102
40. Fang C, Frontiera R R, Tran R and Mathies R A 2009 Nature 462 200
41. Elber R and Karplus M 1986 Phys. Rev. Lett. 56 394
42. Enright M B and Leitner D M 2005 Phys. Rev. E 71 011912
43. Enright M B, Yu X and Leitner D M 2006 Phys. Rev. E 73 051905
44. Yu X and Leitner D M 2003 J. Chem. Phys. 119 12673
45. Granek R and Klafter J 2005 Phys. Rev. Lett. 95 098106
46. Reuveni S, Granek R and Klafter J 2008 Phys. Rev. Lett. 100 208101
47. Bigwood R, Gruebele M, Leitner D M and Wolynes P G 1998 Proc. Natl Acad. Sci. USA 95 5960
48. Stuchebrukhov A A, Kuzmin M V, Bagratashvili V N and Lethokov V S 1986 Chem. Phys. 107 429
49. Leitner D M and Wolynes P G 1996 Phys. Rev. Lett. 76 216
50. Leitner D M and Wolynes P G 1997 J. Phys. Chem. A 101 541
51. Leitner D M and Wolynes P G 1996 J. Chem. Phys. 105 11226
52. Logan D E and Wolynes P G 1990 J. Chem. Phys. 93 4994
53. Agbo J K, Leitner D M, Evans D A and Wales D J 2005 J. Chem. Phys. 123 124304
54. Agbo J K, Leitner D M, Myshakin E M and Jordan K D 2007 J. Chem. Phys. 127 064315
55. Dian B C, Longarte A and Zwier T S 2002 Science 296 2369
56. Dian B C, Longarte A, Winter P R and Zwier T S 2004 J. Chem. Phys. 120 133
57. Lichtenberg A J and Lieberman M A 1983 Regular and Stochastic Motion (New York: Springer)
58. Toda M 2005 Adv. Chem. Phys. 130A 337
59. Leitner D M and Wolynes P G 1997 Chem. Phys. Lett. 276 289
60. Leitner D M and Wolynes P G 1997 Phys. Rev. Lett. 79 55
61. Bigwood R and Gruebele M 1995 Chem. Phys. Lett. 235 604
62. Gruebele M 1996 J. Phys. Chem. 100 12183
63. Leitner D M 2005 Adv. Chem. Phys. 130B 205
64. Bohigas O, Tomsovic S and Ullmo D 1993 Phys. Rep. 223 43
65. Leitner D M 1993 Phys. Rev. E 48 2536
66. Leitner D M, Koppel H and Cederbaum L S 1994 Phys. Rev. Lett. 73 2970
67. Anderson P W 1958 Phys. Rev. 109 1492
68. Abou-Chacra R, Anderson P W and Thouless D J 1973 J. Phys. C.: Solid State Phys. 6 1734
69. Leitner D M and Wolynes P G 1996 Chem. Phys. Lett. 258 18
70. Schofield S and Wolynes P G 1993 J. Chem. Phys. 98 1123
71. Schofield S A and Wolynes P G 1996 Dynamics of Molecules and Chemical Reactions ed R E Wyatt and JZH Zhang (New York: Marcel Dekker)
72. Gruebele M 1998 Proc. Natl Acad. Sci. USA 95 5965
73. Gruebele M 2000 Adv. Chem. Phys. 114 193
74. Gruebele M and Bigwood R 1998 Int. Rev. Phys. Chem. 17 91
75. Semparithi A and Keshavamurthy S 2006 J. Chem. Phys. 125 141101
76. Keshavamurthy S 1999 Chem. Phys. Lett. 300 281
77. Leitner D M, Levine B, Quenneville J, Martinez T J and Wolynes P G 2003 J. Phys. Chem. A 107 10706
78. Leitner D M and Wolynes P G 1997 Chem. Phys. Lett. 280 411
79. Leitner D M and Wolynes P G 2006 Chem. Phys. 329 163
80. Dian B C, Brown G G, Douglass K O, Rees F S, Johns J E, Nair P, Suenram R D and Pate B H 2008 Proc. Natl Acad. Sci. USA 105 12696
81. Weston R E and Barker J R 2006 J. Phys. Chem. A 110 7888
82. Baer T and Potts A R 2000 J. Phys. Chem. A 104 9397
83. Felker P M, Lambert W R and Zewail A H 1985 J. Chem. Phys. 82 3003
84. Maradudin A A and Fein A E 1962 Phys. Rev. 128 2589
85. Stuchebrukhov A A 1986 Sov. Phys.-JETP 64 1195
86. Kenkre V M, Tokmakoff A and Fayer M D 1994 J. Chem. Phys. 101 10618
87. Elber R, Roitberg A, Simmerling C, Goldstein R, Li H, Verkhivker G, Kaesar C, Zhang J and Ulitsky A 1995 Comput. Phys. Commun. 91 159
88. Peterson K A, Relia C W, Engholm J R and Schwettman H A 1999 J. Phys. Chem. B 103 557
89. Fayer M D 2001 Ann. Rev. Phys. Chem. 52 315
90. Rector K D, Relia C W, Hill J R, Kwok A S, Sligar S G, Chien E Y T, Dlott D D and Fayer M D 1997 J. Phys. Chem. B 101 1468
91. Bell R J and Dean P 1970 Discuss. Faraday Soc. 50 3328
92. Moritsugu K, Miyashita O and Kidera A 2000 Phys. Rev. Lett. 85 3970
93. Leitner D M 2001 Phys. Rev. Lett. 87 188102
94. Leitner D M 2001 Phys. Rev. B 64 094201
95. Yu X and Leitner D M 2003 J. Phys. Chem. B 107 1698
96. Yu X and Leitner D M 2005 J. Chem. Phys. 122 054902
97. Stock G 2009 Phys. Rev. Lett. 112 118301
98. Logan D E and Wolynes P G 1987 J. Chem. Phys. 87 7199
99. Logan D E and Wolynes P G 1987 Phys. Rev. B 36 4135
100. Voth G A 1988 J. Chem. Phys. 88 5547
101. Maisuradze G G, Yu X and Leitner D M 2007 J. Biol. Phys. Chem. 7 25
102. Engel G S, Calhoun T R, Read E L, Ahn T-K, Mancai T, Cheng Y-C, Blankenship R E and Fleming G R 2007 Nature 446 782
103. Ishizaki A and Fleming G R 2009 Proc. Natl Acad. Sci. USA 106 17255
104. Wolynes P G 2009 Proc. Natl Acad. Sci USA 106 17247
105. Rebentrost P, Mohseni M, Kassal I, Lloyd S and Aspuru-Guzik A 2009 New J. Phys. 11 033003
106. Plenio M B and Huelga S F 2008 New J. Phys. 11 113019
107. Baer T and Hase W L 1996 Unimolecular Reaction Dynamics (New York: Oxford University Press)
108. Backus E H G, Nguyen P H, Botan V, Moretto A, Crisma M, Toniolo C, Zerbe O, Stock G and Hamm P 2008 J. Phys. Chem. B 112 15487
109. Backus E H, Bloem R, Pfister R, Moretto A, Crisma M, Toniolo C and Hamm P 2009 J. Phys. Chem. B 113 13405
110. Nguyen P H, Park S M and Stock G 2010 J. Chem. Phys. 132 025102