-
2
-
-
0031890195
-
-
10.1038/nsb0398-229
-
D. Perl, C. Welker, T. Schindler, K. Schröder, M. A. Marahiel, R. Jaenicke, and F. X. Schmid, Nat. Struct. Biol. 5, 229 (1998). 10.1038/nsb0398-229
-
(1998)
Nat. Struct. Biol.
, vol.5
, pp. 229
-
-
Perl, D.1
Welker, C.2
Schindler, T.3
Schröder, K.4
Marahiel, M.A.5
Jaenicke, R.6
Schmid, F.X.7
-
3
-
-
8844247109
-
-
10.1021/ja046209k
-
E. Rhoades, M. Cohen, B. Schuler, and G. Haran, J. Am. Chem. Soc. 126, 14686 (2004). 10.1021/ja046209k
-
(2004)
J. Am. Chem. Soc.
, vol.126
, pp. 14686
-
-
Rhoades, E.1
Cohen, M.2
Schuler, B.3
Haran, G.4
-
4
-
-
62449160383
-
-
10.1088/1478-3975/6/1/015001
-
D. Barrick, Phys. Biol. 6, 015001 (2009). 10.1088/1478-3975/6/1/015001
-
(2009)
Phys. Biol.
, vol.6
, pp. 015001
-
-
Barrick, D.1
-
6
-
-
0028947257
-
-
10.1002/prot.340210302
-
J. D. Bryngelson, J. Onuchic, N. D. Socci, and P. Wolynes, Proteins 21, 167 (1995). 10.1002/prot.340210302
-
(1995)
Proteins
, vol.21
, pp. 167
-
-
Bryngelson, J.D.1
Onuchic, J.2
Socci, N.D.3
Wolynes, P.4
-
9
-
-
0037073934
-
-
10.1126/science.1077809
-
M. M. Garcia-Mira, M. Sadqi, N. Fischer, J. M. Sanchez-Ruiz, and V. Muñoz, Science 298, 2191 (2002). 10.1126/science.1077809
-
(2002)
Science
, vol.298
, pp. 2191
-
-
Garcia-Mira, M.M.1
Sadqi, M.2
Fischer, N.3
Sanchez-Ruiz, J.M.4
Muñoz, V.5
-
12
-
-
3042814557
-
-
10.1529/biophysj.103.039040
-
W. Y. Yang and M. Gruebele, Biophys. J. 87, 596 (2004). 10.1529/biophysj.103.039040
-
(2004)
Biophys. J.
, vol.87
, pp. 596
-
-
Yang, W.Y.1
Gruebele, M.2
-
13
-
-
23944522022
-
-
10.1016/j.crvi.2005.02.007
-
M. Gruebele, C. R. Biol. 328, 701 (2005). 10.1016/j.crvi.2005.02.007
-
(2005)
C. R. Biol.
, vol.328
, pp. 701
-
-
Gruebele, M.1
-
14
-
-
24344464777
-
-
10.1021/jp052373y
-
H. Nguyen, M. Jager, J. W. Kelly, and M. Gruebele, J. Phys. Chem. B 109, 15182 (2005). 10.1021/jp052373y
-
(2005)
J. Phys. Chem. B
, vol.109
, pp. 15182
-
-
Nguyen, H.1
Jager, M.2
Kelly, J.W.3
Gruebele, M.4
-
16
-
-
34250161638
-
-
10.1016/j.jmb.2007.04.036
-
F. Liu and M. Gruebele, J. Mol. Biol. 370, 574 (2007). 10.1016/j.jmb.2007.04.036
-
(2007)
J. Mol. Biol.
, vol.370
, pp. 574
-
-
Liu, F.1
Gruebele, M.2
-
17
-
-
40649128566
-
-
10.1073/pnas.0711908105
-
F. Liu, D. Du, A. A. Fuller, J. E. Davoren, P. Wipf, J. W. Kelly, and M. Gruebele, Proc. Natl. Acad. Sci. U.S.A. 105, 2369 (2008). 10.1073/pnas. 0711908105
-
(2008)
Proc. Natl. Acad. Sci. U.S.A.
, vol.105
, pp. 2369
-
-
Liu, F.1
Du, D.2
Fuller, A.A.3
Davoren, J.E.4
Wipf, P.5
Kelly, J.W.6
Gruebele, M.7
-
19
-
-
0036681932
-
-
10.1016/S0010-4655(02)00201-1
-
M. E. J. Newman, Comput. Phys. Commun. 147, 40 (2002). 10.1016/S0010-4655(02)00201-1
-
(2002)
Comput. Phys. Commun.
, vol.147
, pp. 40
-
-
Newman, M.E.J.1
-
20
-
-
84903369853
-
-
Complexity theory has not traditionally focused on this topic, but the tools are there for its investigation. See, e.g.
-
Complexity theory has not traditionally focused on this topic, but the tools are there for its investigation. See, e.g.
-
-
-
-
23
-
-
84903369854
-
-
It should be noted that we do not wish to show this converse holds in general. We suspect that there exist systems that are thermodynamically two-state, but under certain conditions will display multi-exponential kinetics
-
It should be noted that we do not wish to show this converse holds in general. We suspect that there exist systems that are thermodynamically two-state, but under certain conditions will display multi-exponential kinetics.
-
-
-
-
24
-
-
0029049321
-
-
10.1038/nsb0895-663
-
T. Schindler, M. Herrler, M. A. Marahiel, and F. X. Schmid, Nat. Struct. Biol. 2, 663 (1995). 10.1038/nsb0895-663
-
(1995)
Nat. Struct. Biol.
, vol.2
, pp. 663
-
-
Schindler, T.1
Herrler, M.2
Marahiel, M.A.3
Schmid, F.X.4
-
25
-
-
0030915264
-
-
10.1073/pnas.94.11.5622
-
M. Jacob, T. Schindler, J. Balbach, and F. X. Schmid, Proc. Natl. Acad. Sci. U.S.A. 94, 5622 (1997). 10.1073/pnas.94.11.5622
-
(1997)
Proc. Natl. Acad. Sci. U.S.A.
, vol.94
, pp. 5622
-
-
Jacob, M.1
Schindler, T.2
Balbach, J.3
Schmid, F.X.4
-
27
-
-
0042130544
-
-
10.1002/prot.10506
-
H. Kaya and H. S. Chan, Proteins 52, 510 (2003). 10.1002/prot.10506
-
(2003)
Proteins
, vol.52
, pp. 510
-
-
Kaya, H.1
Chan, H.S.2
-
28
-
-
0036304480
-
-
10.1006/jmbi.2001.5266
-
H. Kaya and H. S. Chan, J. Mol. Biol. 315, 899 (2002). 10.1006/jmbi.2001.5266
-
(2002)
J. Mol. Biol.
, vol.315
, pp. 899
-
-
Kaya, H.1
Chan, H.S.2
-
30
-
-
84903369844
-
-
One additional possibility has been suggested by Robert McGibbon: it could be that two-state systems are considered "typical" by the folding community, and non-two state systems are thought of as pathological and therefore not studied. For the purposes of this paper we ignore this possibility, but it is important that those working in the field keeit in mind
-
One additional possibility has been suggested by Robert McGibbon: it could be that two-state systems are considered "typical" by the folding community, and non-two state systems are thought of as pathological and therefore not studied. For the purposes of this paper we ignore this possibility, but it is important that those working in the field keep it in mind.
-
-
-
-
32
-
-
78149330136
-
-
10.1103/PhysRevLett.105.198101
-
V. S. Pande, Phys. Rev. Lett. 105, 198101 (2010). 10.1103/PhysRevLett. 105.198101
-
(2010)
Phys. Rev. Lett.
, vol.105
, pp. 198101
-
-
Pande, V.S.1
-
37
-
-
0000711216
-
-
10.1146/annurev.pc.31.100180.003051
-
E. T. Jaynes, Annu. Rev. Phys. Chem. 31, 579 (1980). 10.1146/annurev.pc. 31.100180.003051
-
(1980)
Annu. Rev. Phys. Chem.
, vol.31
, pp. 579
-
-
Jaynes, E.T.1
-
39
-
-
79957488000
-
-
10.1063/1.3565032
-
J.-H. Prinz, H. Wu, M. Sarich, B. Keller, M. Senne, M. Held, J. D. Chodera, C. Schütte, and F. Noé, J. Chem. Phys. 134, 174105 (2011). 10.1063/1.3565032
-
(2011)
J. Chem. Phys.
, vol.134
, pp. 174105
-
-
Prinz, J.-H.1
Wu, H.2
Sarich, M.3
Keller, B.4
Senne, M.5
Held, M.6
Chodera, J.D.7
Schütte, C.8
Noé, F.9
-
40
-
-
84903369845
-
-
3
-
3.
-
-
-
-
41
-
-
58549088131
-
-
10.1073/pnas.0802986106
-
P. Li, F. Y. Oliva, A. N. Naganathan, and V. Muñoz, Proc. Natl. Acad. Sci. U.S.A. 106, 103 (2008). 10.1073/pnas.0802986106
-
(2008)
Proc. Natl. Acad. Sci. U.S.A.
, vol.106
, pp. 103
-
-
Li, P.1
Oliva, F.Y.2
Naganathan, A.N.3
Muñoz, V.4
-
42
-
-
84903369846
-
-
preprint arXiv:1301.4302v1
-
T. J. Lane and V. S. Pande, preprint arXiv:1301.4302v1 (2013).
-
(2013)
-
-
Lane, T.J.1
Pande, V.S.2
-
44
-
-
0038288925
-
-
10.1021/ja028752b
-
M. Wang, Y. Tang, S. Sato, L. Vugmeyster, C. J. McKnight, and D. P. Raleigh, J. Am. Chem. Soc. 125, 6032 (2003). 10.1021/ja028752b
-
(2003)
J. Am. Chem. Soc.
, vol.125
, pp. 6032
-
-
Wang, M.1
Tang, Y.2
Sato, S.3
Vugmeyster, L.4
McKnight, C.J.5
Raleigh, D.P.6
-
45
-
-
33646759974
-
-
10.1016/j.jmb.2006.03.034
-
J. Kubelka, T. K. Chiu, D. R. Davies, W. A. Eaton, and J. Hofrichter, J. Mol. Biol. 359, 546 (2006). 10.1016/j.jmb.2006.03.034
-
(2006)
J. Mol. Biol.
, vol.359
, pp. 546
-
-
Kubelka, J.1
Chiu, T.K.2
Davies, D.R.3
Eaton, W.A.4
Hofrichter, J.5
-
47
-
-
84903369837
-
-
We have only carried out the perturbation to first order. The perturbations we want to consider are small, since large perturbations stray too far from the entropy maximum solution and therefore are expected to imply work done by biology
-
We have only carried out the perturbation to first order. The perturbations we want to consider are small, since large perturbations stray too far from the entropy maximum solution and therefore are expected to imply work done by biology.
-
-
-
-
49
-
-
84903369838
-
-
Because of the spreading of the eigenvalues, this gawill be smaller than before. One could calculate the probabilistic difference from the Tracy-Widom distribution, but we have not undertaken this task (yet)
-
Because of the spreading of the eigenvalues, this gap will be smaller than before. One could calculate the probabilistic difference from the Tracy-Widom distribution, but we have not undertaken this task (yet).
-
-
-
-
51
-
-
84903369839
-
-
Note that this expression requires ε∼O(1/N), which for large state number N makes ε very small
-
Note that this expression requires ε∼O(1/N), which for large state number N makes ε very small.
-
-
-
-
52
-
-
4143090730
-
-
10.1016/j.jmb.2004.06.063
-
F. Rao and A. Caflisch, J. Mol. Biol. 342, 299 (2004). 10.1016/j.jmb.2004.06.063
-
(2004)
J. Mol. Biol.
, vol.342
, pp. 299
-
-
Rao, F.1
Caflisch, A.2
-
53
-
-
80755172456
-
-
10.1021/ja207470h
-
T. J. Lane, G. R. Bowman, K. Beauchamp, V. A. Voelz, and V. S. Pande, J. Am. Chem. Soc. 133, 18413 (2011). 10.1021/ja207470h
-
(2011)
J. Am. Chem. Soc.
, vol.133
, pp. 18413
-
-
Lane, T.J.1
Bowman, G.R.2
Beauchamp, K.3
Voelz, V.A.4
Pande, V.S.5
-
54
-
-
84903369840
-
How long does it take to equilibrate the unfolded state of a protein?
-
(published online)
-
R. M. Levy, W. Dai, N.-j. Deng, and D. E. Makarov, " How long does it take to equilibrate the unfolded state of a protein?," Protein Sci. (published online).
-
Protein Sci.
-
-
Levy, R.M.1
Dai, W.2
Deng, N.-J.3
Makarov, D.E.4
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