-
2
-
-
0001925271
-
-
10.1146/annurev.pc.32.100181.000453
-
D. W. Oxtoby, Annu. Rev. Phys. Chem. 32, 77 (1981). 10.1146/annurev.pc. 32.100181.000453
-
(1981)
Annu. Rev. Phys. Chem.
, vol.32
, pp. 77
-
-
Oxtoby, D.W.1
-
3
-
-
0002643574
-
-
10.1016/0370-1573(91)90140-H
-
T. Uzer and W. H. Miller, Phys. Rep. 199, 73 (1991). 10.1016/0370- 1573(91)90140-H
-
(1991)
Phys. Rep.
, vol.199
, pp. 73
-
-
Uzer, T.1
Miller, W.H.2
-
6
-
-
43949129091
-
Energy flow in proteins
-
DOI 10.1146/annurev.physchem.59.032607.093606
-
D. M. Leitner, Annu. Rev. Phys. Chem. 59, 233 (2008). 10.1146/annurev.physchem.59.032607.093606 (Pubitemid 351703386)
-
(2008)
Annual Review of Physical Chemistry
, vol.59
, pp. 233-259
-
-
Leitner, D.M.1
-
8
-
-
0030696821
-
Femtosecond mid-IR pump-probe spectroscopy of liquid water: Evidence for a two-component structure
-
DOI 10.1126/science.278.5338.658
-
S. Woutersen, U. Emmerichs, and H. J. Bakker, Science 278, 658 (1997). 10.1126/science.278.5338.658 (Pubitemid 27464958)
-
(1997)
Science
, vol.278
, Issue.5338
, pp. 658-660
-
-
Woutersen, S.1
Emmerichs, U.2
Bakker, H.J.3
-
10
-
-
0001115796
-
-
10.1063/1.451690
-
E. J. Heilweil, M. P. Casassa, R. R. Cavanagh, and J. C. Stephenson, J. Chem. Phys. 85, 5004 (1986). 10.1063/1.451690
-
(1986)
J. Chem. Phys.
, vol.85
, pp. 5004
-
-
Heilweil, E.J.1
Casassa, M.P.2
Cavanagh, R.R.3
Stephenson, J.C.4
-
11
-
-
0037150656
-
Watching vibrational energy transfer in liquids with atomic spatial resolution
-
DOI 10.1126/science.1071293
-
Z. Wang, A. Pakoulev, and D. D. Dlott, Science 296, 2201 (2002). 10.1126/science.1071293 (Pubitemid 34680300)
-
(2002)
Science
, vol.296
, Issue.5576
, pp. 2201-2203
-
-
Wang, Z.1
Pakoulev, A.2
Dlott, D.D.3
-
12
-
-
60549117400
-
-
10.1021/jp8062228
-
Y. Fang, S. Shigeto, N.-H. Seong, and D. D. Dlott, J. Phys. Chem. A 113, 75 (2008). 10.1021/jp8062228
-
(2008)
J. Phys. Chem. A
, vol.113
, pp. 75
-
-
Fang, Y.1
Shigeto, S.2
Seong, N.-H.3
Dlott, D.D.4
-
13
-
-
49349092459
-
-
10.1021/jp711046e
-
E. H. G. Backus, P. H. Nguyen, V. Botan, R. Pfister, A. Moretto, M. Crisma, C. Toniolo, G. Stock, and P. Hamm, J. Phys. Chem. B 112, 9091 (2008). 10.1021/jp711046e
-
(2008)
J. Phys. Chem. B
, vol.112
, pp. 9091
-
-
Backus, E.H.G.1
Nguyen, P.H.2
Botan, V.3
Pfister, R.4
Moretto, A.5
Crisma, M.6
Toniolo, C.7
Stock, G.8
Hamm, P.9
-
14
-
-
0000998870
-
-
10.1021/jp982398f
-
K. A. Peterson, C. W. Rella, J. R. Engholm, and H. A. Schwettman, J. Phys. Chem. B 103, 557 (1999). 10.1021/jp982398f
-
(1999)
J. Phys. Chem. B
, vol.103
, pp. 557
-
-
Peterson, K.A.1
Rella, C.W.2
Engholm, J.R.3
Schwettman, H.A.4
-
15
-
-
42449110311
-
-
10.1021/ar700188n
-
Z. Ganim, H. S. Chung, A. W. Smith, L. P. DeFlores, K. C. Jones, and A. Tokmakoff, Acc. Chem. Res. 41, 432 (2008). 10.1021/ar700188n
-
(2008)
Acc. Chem. Res.
, vol.41
, pp. 432
-
-
Ganim, Z.1
Chung, H.S.2
Smith, A.W.3
Deflores, L.P.4
Jones, K.C.5
Tokmakoff, A.6
-
17
-
-
20544452788
-
Amide I vibrational dynamics of N-methylacetamide in polar solvents: The role of electrostatic interactions
-
DOI 10.1021/jp050257p
-
M. F. DeCamp, L. DeFlores, J. M. McCracken, A. Tokmakoff, K. Kwac, and M. Cho, J. Phys. Chem. B 109, 11016 (2005). 10.1021/jp050257p (Pubitemid 40844539)
-
(2005)
Journal of Physical Chemistry B
, vol.109
, Issue.21
, pp. 11016-11026
-
-
DeCamp, M.F.1
DeFlores, L.2
McCracken, J.M.3
Tokmakoff, A.4
Kwac, K.5
Cho, M.6
-
18
-
-
33749615287
-
The anharmonic vibrational potential and relaxation pathways of the amide I and II modes of N-methylacetamide
-
DOI 10.1021/jp0603334
-
L. P. DeFlores, Z. Ganim, S. F. Ackley, H. S. Chung, and A. Tokmakoff, J. Phys. Chem. B 110, 18973 (2006). 10.1021/jp0603334 (Pubitemid 44547284)
-
(2006)
Journal of Physical Chemistry B
, vol.110
, Issue.38
, pp. 18973-18980
-
-
DeFlores, L.P.1
Ganim, Z.2
Ackley, S.F.3
Chung, H.S.4
Tokmakoff, A.5
-
19
-
-
0035949625
-
Subpicosecond conformational dynamics of small peptides probed by two-dimensional vibrational spectroscopy
-
DOI 10.1073/pnas.201169498
-
S. Woutersen, Y. Mu, G. Stock, and P. Hamm, Proc. Natl. Acad. Sci. U.S.A. 98, 11254 (2001). 10.1073/pnas.201169498 (Pubitemid 32928715)
-
(2001)
Proceedings of the National Academy of Sciences of the United States of America
, vol.98
, Issue.20
, pp. 11254-11258
-
-
Woutersen, S.1
Mu, Y.2
Stock, G.3
Hamm, P.4
-
20
-
-
78650988138
-
-
10.1007/s00214-010-0834-3
-
J. Skinner, Theor. Chem. Acc. 128, 147 (2011). 10.1007/s00214-010-0834-3
-
(2011)
Theor. Chem. Acc.
, vol.128
, pp. 147
-
-
Skinner, J.1
-
21
-
-
0037136808
-
Ab initio and improved empirical potentials for the calculation of the anharmonic vibrational states and intramolecular mode coupling of N-methylacetamide
-
DOI 10.1021/jp025633+
-
S. K. Gregurick, G. M. Chaban, and R. B. Gerber, J. Phys. Chem. A 106, 8696 (2002). 10.1021/jp025633+ (Pubitemid 35382432)
-
(2002)
Journal of Physical Chemistry A
, vol.106
, Issue.37
, pp. 8696-8707
-
-
Gregurick, S.K.1
Chaban, G.M.2
Gerber, R.B.3
-
22
-
-
49349110042
-
-
10.1063/1.2961020
-
R. Bloem, A. G. Dijkstra, T. l. C. Jansen, and J. Knoester, J. Chem. Phys. 129, 055101 (2008). 10.1063/1.2961020
-
(2008)
J. Chem. Phys.
, vol.129
, pp. 055101
-
-
Bloem, R.1
Dijkstra, A.G.2
Jansen L. T, C.3
Knoester, J.4
-
24
-
-
67749106316
-
-
10.1021/ja8094922
-
L. P. DeFlores, Z. Ganim, R. A. Nicodemus, and A. Tokmakoff, J. Am. Chem. Soc. 131, 3385 (2009). 10.1021/ja8094922
-
(2009)
J. Am. Chem. Soc.
, vol.131
, pp. 3385
-
-
Deflores, L.P.1
Ganim, Z.2
Nicodemus, R.A.3
Tokmakoff, A.4
-
26
-
-
77953585601
-
-
10.1063/1.3435212
-
A. Bastida, M. A. Soler, J. Ziga, A. Requena, A. Kalstein, and S. Fernndez-Alberti, J. Chem. Phys. 132, 224501 (2010). 10.1063/1.3435212
-
(2010)
J. Chem. Phys.
, vol.132
, pp. 224501
-
-
Bastida, A.1
Soler, M.A.2
Ziga, J.3
Requena, A.4
Kalstein, A.5
Fernndez-Alberti, S.6
-
27
-
-
34447291585
-
Quantum dynamics of N-methylacetamide studied by the vibrational configuration interaction method
-
DOI 10.1016/j.cplett.2007.06.067, PII S0009261407008123
-
H. Fujisaki, K. Yagi, K. Hirao, and J. E. Straub, Chem. Phys. Lett. 443, 6 (2007). 10.1016/j.cplett.2007.06.067 (Pubitemid 47042702)
-
(2007)
Chemical Physics Letters
, vol.443
, Issue.1-3
, pp. 6-11
-
-
Fujisaki, H.1
Yagi, K.2
Hirao, K.3
Straub, J.E.4
-
30
-
-
63549100665
-
-
10.1103/PhysRevLett.102.118301
-
G. Stock, Phys. Rev. Lett. 102, 118301 (2009). 10.1103/PhysRevLett.102. 118301
-
(2009)
Phys. Rev. Lett.
, vol.102
, pp. 118301
-
-
Stock, G.1
-
31
-
-
84988129057
-
-
10.1002/jcc.540100208
-
J. J. P. Stewart, J. Comput. Chem. 10, 209 (1989). 10.1002/jcc.540100208
-
(1989)
J. Comput. Chem.
, vol.10
, pp. 209
-
-
Stewart, J.J.P.1
-
32
-
-
0041687472
-
-
10.1016/0022-2860(91)87133-3
-
N. G. Mirkin and S. Krimm, J. Mol. Struct. 242, 143 (1991). 10.1016/0022-2860(91)87133-3
-
(1991)
J. Mol. Struct.
, vol.242
, pp. 143
-
-
Mirkin, N.G.1
Krimm, S.2
-
33
-
-
0000705676
-
-
10.1063/1.446044
-
P. H. Berens, D. H. J. Mackay, G. M. White, and K. R. Wilson, J. Chem. Phys. 79, 2375 (1983). 10.1063/1.446044
-
(1983)
J. Chem. Phys.
, vol.79
, pp. 2375
-
-
Berens, P.H.1
MacKay, D.H.J.2
White, G.M.3
Wilson, K.R.4
-
34
-
-
83455210405
-
-
AMBER 11 (University of California, San Francisco)
-
D. A. Case, T. A. Darden, T. E. Cheatham III, C. L. Simmerling, J. Wang, R. E. Duke, R. Luo, R. C. Walker, W. Zhang, K. M. Merz, B. Roberts, B. Wang, S. Hayik, A. Roitberg, G. Seabra, I. Kolossvry, K. F. Wong, F. Paesani, J. Vanicek, X. Wu, S. R. Brozell, T. Steinbrecher, H. Gohlke, Q. Cai, X. Ye, J. Wang, M.-J. Hsieh, G. Cui, D. R. Roe, D. H. Mathews, M. G. Seetin, C. Sagui, V. Babin, T. Luchko, S. Gusarov, A. Kovalenko, and P. A. Kollman, AMBER 11 (University of California, San Francisco, 2010).
-
(2010)
-
-
Case, D.A.1
Darden, T.A.2
Cheatham III, T.E.3
Simmerling, C.L.4
Wang, J.5
Duke, R.E.6
Luo, R.7
Walker, R.C.8
Zhang, W.9
Merz, K.M.10
Roberts, B.11
Wang, B.12
Hayik, S.13
Roitberg, A.14
Seabra, G.15
Kolossvry, I.16
Wong, K.F.17
Paesani, F.18
Vanicek, J.19
Wu, X.20
Brozell, S.R.21
Steinbrecher, T.22
Gohlke, H.23
Cai, Q.24
Ye, X.25
Wang, J.26
Hsieh, M.-J.27
Cui, G.28
Roe, D.R.29
Mathews, D.H.30
Seetin, M.G.31
Sagui, C.32
Babin, V.33
Luchko, T.34
Gusarov, S.35
Kovalenko, A.36
Kollman, P.A.37
more..
-
35
-
-
30744437399
-
Flexible simple point-charge water model with improved liquid-state properties
-
DOI 10.1063/1.2136877, 024503
-
Y. Wu, H. L. Tepper, and G. A. Voth, J. Chem. Phys. 124, 024503 (2006). 10.1063/1.2136877 (Pubitemid 43100215)
-
(2006)
Journal of Chemical Physics
, vol.124
, Issue.2
, pp. 1-12
-
-
Wu, Y.1
Tepper, H.L.2
Voth, G.A.3
-
36
-
-
34547511107
-
Implementation of the SCC-DFTB method for hybrid QM/MM simulations within the Amber molecular dynamics package
-
DOI 10.1021/jp070071l
-
G. d.M. Seabra, R. C. Walker, M. Elstner, D. A. Case, and A. E. Roitberg, J. Phys. Chem. A 111, 5655 (2007). 10.1021/jp070071l (Pubitemid 47178745)
-
(2007)
Journal of Physical Chemistry A
, vol.111
, Issue.26
, pp. 5655-5664
-
-
Seabra, G.D.M.1
Walker, R.C.2
Elstner, M.3
Case, D.A.4
Roitberg, A.E.5
-
38
-
-
0003589741
-
-
2nd ed. (Springer-Verlag, Berlin)
-
R. Kubo, M. Toda, and N. Hashitsume, Statistical Physics II, Nonequilibrium Statistical Mechanics, 2nd ed. (Springer-Verlag, Berlin, 1991).
-
(1991)
Statistical Physics II, Nonequilibrium Statistical Mechanics
-
-
Kubo, R.1
Toda, M.2
Hashitsume, N.3
-
40
-
-
83455220090
-
-
AZARA 2.8 (Department of Biochemistry, University of Cambridge)
-
W. Boucher, AZARA 2.8 (Department of Biochemistry, University of Cambridge, 2010).
-
(2010)
-
-
Boucher, W.1
-
41
-
-
36148997683
-
On the calculation of velocity-dependent properties in molecular dynamics simulations using the leapfrog integration algorithm
-
DOI 10.1063/1.2779878
-
M. A. Cuendet and W. F. v. Gunsteren, J. Chem. Phys. 127, 184102 (2007). 10.1063/1.2779878 (Pubitemid 350115907)
-
(2007)
Journal of Chemical Physics
, vol.127
, Issue.18
, pp. 184102
-
-
Cuendet, M.A.1
Van Gunsteren, W.F.2
-
43
-
-
0001366536
-
-
10.1021/j100010a017
-
X. G. Chen, R. Schweitzer-Stenner, S. A. Asher, N. G. Mirkin, and S. Krimm, J. Phys. Chem. 99, 3074 (1995). 10.1021/j100010a017
-
(1995)
J. Phys. Chem.
, vol.99
, pp. 3074
-
-
Chen, X.G.1
Schweitzer-Stenner, R.2
Asher, S.A.3
Mirkin, N.G.4
Krimm, S.5
-
44
-
-
0004161838
-
-
2nd ed. (Cambridge University Press, Cambridge, England)
-
W. H. Press, S. A. Teukolsky, W. T. Vetterling, and B. P. Flannery, Numerical Recipes in C, 2nd ed. (Cambridge University Press, Cambridge, England, 1992).
-
(1992)
Numerical Recipes in C
-
-
Press, W.H.1
Teukolsky, S.A.2
Vetterling, W.T.3
Flannery, B.P.4
-
45
-
-
0004152689
-
-
(Argonne National Laboratory, Argonne)
-
J. J. Moré, D. C. Sorensen, K. E. Hillstrom, and B. S. Garbow, Minpack (Argonne National Laboratory, Argonne, 1980).
-
(1980)
Minpack
-
-
Moré, J.J.1
Sorensen, D.C.2
Hillstrom, K.E.3
Garbow, B.S.4
-
46
-
-
0038626673
-
-
Revision C. 02, Gaussian, Inc., Wallingford, CT
-
M. J. Frisch, G. W. Trucks, H. B. Schlegel, GAUSSIAN 03, Revision C. 02, Gaussian, Inc., Wallingford, CT, 2004.
-
(2004)
Gaussian 03
-
-
Frisch, M.J.1
Trucks, G.W.2
Schlegel, H.B.3
-
47
-
-
67650500988
-
-
10.1002/jcc.21287
-
B. R. Brooks, C. L. Brooks III, A. D. Mackerell Jr., L. Nilsson, R. J. Petrella, B. Roux, Y. Won, G. Archontis, C. Bartels, S. Boresch, A. Caflisch, L. Caves, Q. Cui, A. R. Dinner, M. Feig, S. Fischer, J. Gao, M. Hodoscek, W. Im, K. Kuczera, T. Lazaridis, J. Ma, V. Ovchinnikov, E. Paci, R. W. Pastor, C. B. Post, J. Z. Pu, M. Schaefer, B. Tidor, R. M. Venable, H. L. Woodcock, X. Wu, W. Yang, D. M. York, and M. Karplus, J. Comput. Chem. 30, 1545 (2009). 10.1002/jcc.21287
-
(2009)
J. Comput. Chem.
, vol.30
, pp. 1545
-
-
Brooks, B.R.1
Brooks III, C.L.2
MacKerell Jr., A.D.3
Nilsson, L.4
Petrella, R.J.5
Roux, B.6
Won, Y.7
Archontis, G.8
Bartels, C.9
Boresch, S.10
Caflisch, A.11
Caves, L.12
Cui, Q.13
Dinner, A.R.14
Feig, M.15
Fischer, S.16
Gao, J.17
Hodoscek, M.18
Im, W.19
Kuczera, K.20
Lazaridis, T.21
Ma, J.22
Ovchinnikov, V.23
Paci, E.24
Pastor, R.W.25
Post, C.B.26
Pu, J.Z.27
Schaefer, M.28
Tidor, B.29
Venable, R.M.30
Woodcock, H.L.31
Wu, X.32
Yang, W.33
York, D.M.34
Karplus, M.35
more..
-
49
-
-
67649803356
-
-
10.1002/qua.22061
-
H. Fujisaki, K. Yagi, J. E. Straub, and G. Stock, Int. J. Quantum Chem. 109, 2047 (2009). 10.1002/qua.22061
-
(2009)
Int. J. Quantum Chem.
, vol.109
, pp. 2047
-
-
Fujisaki, H.1
Yagi, K.2
Straub, J.E.3
Stock, G.4
|