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Journal of Physical Chemistry B

Volumn 116, Issue 29, 2012, Pages 8662-8691

Early events in helix unfolding under external forces: A milestoning analysis

(3) Kreuzer, Steven M a Elber, Ron b Moon, Tess J a,b

a The University of Texas at Austin (United States)

b UNIVERSITY OF TEXAS AT AUSTIN (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACIDS; HYDROGEN BONDS; MOLECULAR DYNAMICS;

END EFFECTS; EXTERNAL FORCE; HELIX LENGTH; LOAD LEVELS; MOLECULAR DYNAMICS SIMULATIONS; MOLECULAR MACHINES; ORDERS OF MAGNITUDE; STRUCTURAL ELEMENTS; TIME-SCALES;

LOADS (FORCES);

EID: 84864226320 PISSN: 15206106 EISSN: 15205207 Source Type: Journal
DOI: 10.1021/jp300788e Document Type: Article

Times cited : (22)

References (71)

1
- 78649599129
- Hegefeld, W. A.; Chen, S. E.; DeLeon, K. Y.; Kuczera, K.; Jas, G. S. J. Phys. Chem. A 2010, 12391-12402
- (2010) J. Phys. Chem. A , pp. 12391-12402
- Hegefeld, W.A.¹ Chen, S.E.² Deleon, K.Y.³ Kuczera, K.⁴ Jas, G.S.⁵

2
- 10044247242
- Jas, G. S.; Kuczera, K. Biophys. J. 2004, 87, 3786-3798
- (2004) Biophys. J. , vol.87 , pp. 3786-3798
- Jas, G.S.¹ Kuczera, K.²

3
- 0026773206
- Scholtz, J. M.; Baldwin, R. L. Annu. Rev. Biophys. Biom. 1992, 21, 95-118
- (1992) Annu. Rev. Biophys. Biom. , vol.21 , pp. 95-118
- Scholtz, J.M.¹ Baldwin, R.L.²

4
- 1642534352
- Cartailler, J.-P.; Luecke, H. Structure 2004, 12, 133-144
- (2004) Structure , vol.12 , pp. 133-144
- Cartailler, J.-P.¹ Luecke, H.²

5
- 33746615772
- Mikhonin, A. V.; Asher, S. A. J. Am. Chem. Soc. 2006, 128, 13789-13795
- (2006) J. Am. Chem. Soc. , vol.128 , pp. 13789-13795
- Mikhonin, A.V.¹ Asher, S.A.²

6
- 0000333671
- Lifson, S.; Roig, A. J. Chem. Phys. 1961, 34, 1963-1974
- (1961) J. Chem. Phys. , vol.34 , pp. 1963-1974
- Lifson, S.¹ Roig, A.²

7
- 0000668407
- Zimm, B. H.; Bragg, J. K. J. Chem. Phys. 1959, 31, 526-535
- (1959) J. Chem. Phys. , vol.31 , pp. 526-535
- Zimm, B.H.¹ Bragg, J.K.²

8
- 46749127364
- Best, R. B.; Buchete, N.-V.; Hummer, G. Biophys. J. 2008, 95, L07-L09
- (2008) Biophys. J. , vol.95
- Best, R.B.¹ Buchete, N.-V.² Hummer, G.³

9
- 67649601306
- Kuczera, K.; Jas, G. S.; Elber, R. J. Phys. Chem. A 2009, 113, 7461-7473
- (2009) J. Phys. Chem. A , vol.113 , pp. 7461-7473
- Kuczera, K.¹ Jas, G.S.² Elber, R.³

10
- 36749062973
- Ackbarow, T.; Chen, X.; Keten, S.; Buehler, M. J. Proc. Natl. Acad. Sci. U.S.A. 2007, 104, 16410
- (2007) Proc. Natl. Acad. Sci. U.S.A. , vol.104 , pp. 16410
- Ackbarow, T.¹ Chen, X.² Keten, S.³ Buehler, M.J.⁴

11
- 63649088105
- Ackbarow, T.; Keten, S.; Buehler, M. J. J. Phys.: Condens. Matter 2009, 21, 035111
- (2009) J. Phys.: Condens. Matter , vol.21 , pp. 035111
- Ackbarow, T.¹ Keten, S.² Buehler, M.J.³

12
- 84862285315
- [Online early access]. DOI: 10.1021/jp211645s. Published Online Feb 15
- Jas, G. S.; Hegefeld, W. A.; Majek, P.; Kuczera, K.; Elber, R. J. Phys. Chem. B [Online early access]. DOI: 10.1021/jp211645s. Published Online Feb 15, 2012.
- (2012) J. Phys. Chem. B
- Jas, G.S.¹ Hegefeld, W.A.² Majek, P.³ Kuczera, K.⁴ Elber, R.⁵

13
- 33846305449
- Bai, D.; Elber, R. J. Chem. Theory Comput. 2006, 2, 484-494
- (2006) J. Chem. Theory Comput. , vol.2 , pp. 484-494
- Bai, D.¹ Elber, R.²

14
- 0033536183
- Visscher, K.; Schnitzer, M. J.; Block, S. M. Nature 1999, 400, 184-189
- (1999) Nature , vol.400 , pp. 184-189
- Visscher, K.¹ Schnitzer, M.J.² Block, S.M.³

15
- 0025222347
- Block, S. M.; Goldstein, L. S. B.; Schnapp, B. J. Nature 1990, 348, 348-352
- (1990) Nature , vol.348 , pp. 348-352
- Block, S.M.¹ Goldstein, L.S.B.² Schnapp, B.J.³

16
- 70349437416
- Hirokawa, N.; Noda, Y.; Tanaka, Y.; Niwa, S. Nat. Rev. Mol. Cell Biol. 2009, 10, 682-696
- (2009) Nat. Rev. Mol. Cell Biol. , vol.10 , pp. 682-696
- Hirokawa, N.¹ Noda, Y.² Tanaka, Y.³ Niwa, S.⁴

17
- 50349090965
- Hirokawa, N.; Noda, Y. Physiol. Rev. 2008, 88, 1089-1118
- (2008) Physiol. Rev. , vol.88 , pp. 1089-1118
- Hirokawa, N.¹ Noda, Y.²

18
- 0042092511
- Al-Khayat, H. A.; Hudson, L.; Reedy, M. K.; Irving, T. C.; Squire, J. M. Biophys. J. 2003, 85, 1063-1079
- (2003) Biophys. J. , vol.85 , pp. 1063-1079
- Al-Khayat, H.A.¹ Hudson, L.² Reedy, M.K.³ Irving, T.C.⁴ Squire, J.M.⁵

19
- 35648987097
- Burghardt, T. P.; Hu, J. Y.; Ajtai, K. Biophys. Chem. 2007, 131, 15-28
- (2007) Biophys. Chem. , vol.131 , pp. 15-28
- Burghardt, T.P.¹ Hu, J.Y.² Ajtai, K.³

20
- 0017873220
- Cooke, R.; Franks, K. E. J. Mol. Biol. 1978, 120, 361-373
- (1978) J. Mol. Biol. , vol.120 , pp. 361-373
- Cooke, R.¹ Franks, K.E.²

21
- 0033598782
- De La Cruz, E. M.; Wells, A. L.; Rosenfeld, S. S.; Ostap, E. M.; Sweeney, H. L. Proc. Natl. Acad. Sci. U.S.A. 1999, 96, 13726-13731
- (1999) Proc. Natl. Acad. Sci. U.S.A. , vol.96 , pp. 13726-13731
- De La Cruz, E.M.¹ Wells, A.L.² Rosenfeld, S.S.³ Ostap, E.M.⁴ Sweeney, H.L.⁵

22
- 77950432266
- Elber, R.; West, A. Proc. Natl. Acad. Sci. U.S.A. 2010, 107, 5001-5005
- (2010) Proc. Natl. Acad. Sci. U.S.A. , vol.107 , pp. 5001-5005
- Elber, R.¹ West, A.²

23
- 0028261701
- Finer, J. T.; Simmons, R. M.; Spudich, J. A. Nature 1994, 368, 113-119
- (1994) Nature , vol.368 , pp. 113-119
- Finer, J.T.¹ Simmons, R.M.² Spudich, J.A.³

24
- 52049092063
- Kee, Y.-S.; Robinson, D. N. Curr. Biol. 2008, 18, R860-R862
- (2008) Curr. Biol. , vol.18
- Kee, Y.-S.¹ Robinson, D.N.²

25
- 0035312645
- Isralewitz, B.; Gao, M.; Schulten, K. Curr. Opin. Struct. Biol. 2001, 11, 224-230
- (2001) Curr. Opin. Struct. Biol. , vol.11 , pp. 224-230
- Isralewitz, B.¹ Gao, M.² Schulten, K.³

26
- 0031848099
- Lu, H.; Isralewitz, B.; Krammer, A.; Vogel, V.; Schulten, K. Biophys. J. 1998, 75, 662-671
- (1998) Biophys. J. , vol.75 , pp. 662-671
- Lu, H.¹ Isralewitz, B.² Krammer, A.³ Vogel, V.⁴ Schulten, K.⁵

27
- 33748046806
- Dietz, H.; Berkemeier, F.; Bertz, M.; Rief, M. Proc. Natl. Acad. Sci. U.S.A. 2006, 103, 12724-12728
- (2006) Proc. Natl. Acad. Sci. U.S.A. , vol.103 , pp. 12724-12728
- Dietz, H.¹ Berkemeier, F.² Bertz, M.³ Rief, M.⁴

28
- 40849142370
- Dietz, H.; Rief, M. Phys. Rev. Lett. 2008, 100, 98101
- (2008) Phys. Rev. Lett. , vol.100 , pp. 98101
- Dietz, H.¹ Rief, M.²

29
- 21444445531
- Schwaiger, I.; Schleicher, M.; Noegel, A. A.; Rief, M. EMBO J. 2005, 6, 46
- (2005) EMBO J. , vol.6 , pp. 46
- Schwaiger, I.¹ Schleicher, M.² Noegel, A.A.³ Rief, M.⁴

30
- 84955266913
- Suzuki, Y.; Dudko, O. K. Phys. Rev. Lett. 2010, 104, 048101
- (2010) Phys. Rev. Lett. , vol.104 , pp. 048101
- Suzuki, Y.¹ Dudko, O.K.²

31
- 34548101355
- Kirmizialtin, S. J. Chem. Phys. 2005, 122, 234915
- (2005) J. Chem. Phys. , vol.122 , pp. 234915
- Kirmizialtin, S.¹

32
- 79951529367
- Graham, T. G. W.; Best, R. B. J. Phys. Chem. B 2011, 115, 1546-1561
- (2011) J. Phys. Chem. B , vol.115 , pp. 1546-1561
- Graham, T.G.W.¹ Best, R.B.²

33
- 44949091394
- Best, R. B.; Paci, E.; Hummer, G.; Dudko, O. K. J. Phys. Chem. B 2008, 112, 5968-5976
- (2008) J. Phys. Chem. B , vol.112 , pp. 5968-5976
- Best, R.B.¹ Paci, E.² Hummer, G.³ Dudko, O.K.⁴

34
- 34547853938
- West, D. K.; Olmsted, P. D.; Paci, E. J. Chem. Phys. 2006, 124, 154909
- (2006) J. Chem. Phys. , vol.124 , pp. 154909
- West, D.K.¹ Olmsted, P.D.² Paci, E.³

35
- 33645004171
- Dudko, O. K.; Hummer, G.; Szabo, A. Phys. Rev. Lett. 2006, 96, 108101
- (2006) Phys. Rev. Lett. , vol.96 , pp. 108101
- Dudko, O.K.¹ Hummer, G.² Szabo, A.³

36
- 3042545299
- Faradjian, A. K.; Elber, R. J. Chem. Phys. 2004, 120, 10880-10889
- (2004) J. Chem. Phys. , vol.120 , pp. 10880-10889
- Faradjian, A.K.¹ Elber, R.²

37
- 79959945891
- Kirmizialtin, S.; Elber, R. J. Phys. Chem. A 2011, 6137-6148
- (2011) J. Phys. Chem. A , pp. 6137-6148
- Kirmizialtin, S.¹ Elber, R.²

38
- 77953311061
- Májek, P.; Elber, R. J. Chem. Theory Comput. 2010, 6, 1805-1817
- (2010) J. Chem. Theory Comput. , vol.6 , pp. 1805-1817
- Májek, P.¹ Elber, R.²

39
- 84906364784
- Ron, E. Biophys. J. 2007, 92, L85-L87
- (2007) Biophys. J. , vol.92
- Ron, E.¹

40
- 55949099868
- Vanden-Eijnden, E.; Venturoli, M.; Ciccotti, G.; Elber, R. J. Chem. Phys. 2008, 129, 174102-174113
- (2008) J. Chem. Phys. , vol.129 , pp. 174102-174113
- Vanden-Eijnden, E.¹ Venturoli, M.² Ciccotti, G.³ Elber, R.⁴

41
- 34247210226
- West, A. M. A.; Elber, R.; Shalloway, D. J. Chem. Phys. 2007, 126, 145104
- (2007) J. Chem. Phys. , vol.126 , pp. 145104
- West, A.M.A.¹ Elber, R.² Shalloway, D.³

42
- 34247338100
- Chodera, J. D.; Singhal, N.; Pande, V. S.; Dill, K. A.; Swope, W. C. J. Chem. Phys. 2007, 126, 155101-155117
- (2007) J. Chem. Phys. , vol.126 , pp. 155101-155117
- Chodera, J.D.¹ Singhal, N.² Pande, V.S.³ Dill, K.A.⁴ Swope, W.C.⁵

43
- 77956841151
- Sarich, M.; Noé, F.; Schütte, C. Multiscale Model. Simul. 2010, 8, 1154-1177
- (2010) Multiscale Model. Simul. , vol.8 , pp. 1154-1177
- Sarich, M.¹ Noé, F.² Schütte, C.³

44
- 79958151345
- Schutte, C.; Noe, F.; Lu, J.; Sarich, M.; Vanden-Eijnden, E. J. Chem. Phys. 2011, 134, 204105-204115
- (2011) J. Chem. Phys. , vol.134 , pp. 204105-204115
- Schutte, C.¹ Noe, F.² Lu, J.³ Sarich, M.⁴ Vanden-Eijnden, E.⁵

45
- 0003692531
- Bruce, J. Berne, G. C. Coker, D. F. World Scientific: Singapore
- Valleau, J. In Classical and quantum dynamics in condensed phase simulations; Bruce, J.; Berne, G. C.; Coker, D. F., Eds.; World Scientific: Singapore, 1998.
- (1998) Classical and Quantum Dynamics in Condensed Phase Simulations
- Valleau, J.¹

46
- 0037865691
- Hummer, G.; Kevrekidis, I. G. J. Chem. Phys. 2003, 118, 10762-10773
- (2003) J. Chem. Phys. , vol.118 , pp. 10762-10773
- Hummer, G.¹ Kevrekidis, I.G.²

47
- 32044445540
- Shalloway, D.; Faradjian, A. K. J. Chem. Phys. 2006, 124, 54112-54120
- (2006) J. Chem. Phys. , vol.124 , pp. 54112-54120
- Shalloway, D.¹ Faradjian, A.K.²

48
- 33845230991
- Blankenfeldt, W.; Thomä, N. H.; Wray, J. S.; Gautel, M.; Schlichting, I. Proc. Natl. Acad. Sci. U.S.A. 2006, 103, 17713-17717
- (2006) Proc. Natl. Acad. Sci. U.S.A. , vol.103 , pp. 17713-17717
- Blankenfeldt, W.¹ Thomä, N.H.² Wray, J.S.³ Gautel, M.⁴ Schlichting, I.⁵

49
- 46249092554
- Hess, B.; Kutzner, C.; van der Spoel, D.; Lindahl, E. J. Chem. Theory Comput. 2008, 4, 435-447
- (2008) J. Chem. Theory Comput. , vol.4 , pp. 435-447
- Hess, B.¹ Kutzner, C.² Van Der Spoel, D.³ Lindahl, E.⁴

50
- 4444282928
- Oostenbrink, C.; Villa, A.; Mark, A. E.; Van Gunsteren, W. F. J. Comput. Chem. 2004, 25, 1656-1676
- (2004) J. Comput. Chem. , vol.25 , pp. 1656-1676
- Oostenbrink, C.¹ Villa, A.² Mark, A.E.³ Van Gunsteren, W.F.⁴

51
- 38749123962
- Hess, B. J. Chem. Theory Comput. 2007, 4, 116-122
- (2007) J. Chem. Theory Comput. , vol.4 , pp. 116-122
- Hess, B.¹

52
- 33750587438
- Berendsen, H. J. C.; Postma, J. P. M; van Gunsteren, W. F.; DiNola, A.; Haak, J. R. J. Chem. Phys. 1984, 81, 3684-3690
- (1984) J. Chem. Phys. , vol.81 , pp. 3684-3690
- Berendsen, H.J.C.¹ Postma, J.P.M.² Van Gunsteren, W.F.³ Dinola, A.⁴ Haak, J.R.⁵

53
- 34547809547
- Nose, S. J. Chem. Phys. 1984, 81, 511-519
- (1984) J. Chem. Phys. , vol.81 , pp. 511-519
- Nose, S.¹

54
- 0001538909
- Hoover, W. G. Phys. Rev. A 1985, 31, 1695-1697
- (1985) Phys. Rev. A , vol.31 , pp. 1695-1697
- Hoover, W.G.¹

55
- 0019707626
- Parrinello, M.; Rahman, A. J. Appl. Phys. 1981, 52, 7182-7190
- (1981) J. Appl. Phys. , vol.52 , pp. 7182-7190
- Parrinello, M.¹ Rahman, A.²

56
- 33645961739
- Essmann, U.; Perera, L.; Berkowitz, M. L.; Darden, T.; Lee, H.; Pedersen, L. G. J. Chem. Phys. 1995, 103, 8577-8593
- (1995) J. Chem. Phys. , vol.103 , pp. 8577-8593
- Essmann, U.¹ Perera, L.² Berkowitz, M.L.³ Darden, T.⁴ Lee, H.⁵ Pedersen, L.G.⁶

57
- 0031256658
- Huo, S.; Straub, J. E. J. Chem. Phys. 1997, 107, 5000-5006
- (1997) J. Chem. Phys. , vol.107 , pp. 5000-5006
- Huo, S.¹ Straub, J.E.²

58
- 17844406890
- Noe, F.; Ille, F.; Smith, J. C.; Fischer, S. Proteins: Struct., Funct., Bioinf. 2005, 59, 534-544
- (2005) Proteins: Struct., Funct., Bioinf. , vol.59 , pp. 534-544
- Noe, F.¹ Ille, F.² Smith, J.C.³ Fischer, S.⁴

59
- 0000191981
- Czerminski, R.; Elber, R. J. Chem. Phys. 1990, 92, 5580-6502
- (1990) J. Chem. Phys. , vol.92 , pp. 5580-6502
- Czerminski, R.¹ Elber, R.²

60
- 0026237127
- Soman, K. V.; Karimi, A.; Case, D. A. Biopolymers 1991, 31, 1351-1361
- (1991) Biopolymers , vol.31 , pp. 1351-1361
- Soman, K.V.¹ Karimi, A.² Case, D.A.³

61
- 70349918273
- Mohammed, O. F.; Jas, G. S.; Lin, M. M.; Zewail, A. H. Angew. Chem., Int. Ed. 2009, 48, 5628-5632
- (2009) Angew. Chem., Int. Ed. , vol.48 , pp. 5628-5632
- Mohammed, O.F.¹ Jas, G.S.² Lin, M.M.³ Zewail, A.H.⁴

62
- 0037126425
- Margulis, C. J.; Stern, H. A.; Berne, B. J. J. Phys. Chem. B 2002, 106, 10748-10752
- (2002) J. Phys. Chem. B , vol.106 , pp. 10748-10752
- Margulis, C.J.¹ Stern, H.A.² Berne, B.J.³

63
- 0033384878
- Bolin, K. A.; Millhauser, G. L. Acc. Chem. Res. 1999, 32, 1027-1033
- (1999) Acc. Chem. Res. , vol.32 , pp. 1027-1033
- Bolin, K.A.¹ Millhauser, G.L.²

64
- 0029658119
- Rohl, C. A.; Doig, A. J. Protein Sci. 1996, 5, 1687-1696
- (1996) Protein Sci. , vol.5 , pp. 1687-1696
- Rohl, C.A.¹ Doig, A.J.²

65
- 0033978466
- Weaver, T. M. Protein Sci. 2000, 9, 201-206
- (2000) Protein Sci. , vol.9 , pp. 201-206
- Weaver, T.M.¹

66
- 0036276409
- Fodje, M. N.; Al-Karadaghi, S. Protein Eng. 2002, 15, 353-358
- (2002) Protein Eng. , vol.15 , pp. 353-358
- Fodje, M.N.¹ Al-Karadaghi, S.²

67
- 0038245156
- Armen, R.; Alonso, D. O. V.; Daggett, V. Protein Sci. 2003, 12, 1145-1157
- (2003) Protein Sci. , vol.12 , pp. 1145-1157
- Armen, R.¹ Alonso, D.O.V.² Daggett, V.³

68
- 78649930507
- Riek, R. P.; Graham, R. M. J. Struct. Biol. 2011, 173, 153-160
- (2011) J. Struct. Biol. , vol.173 , pp. 153-160
- Riek, R.P.¹ Graham, R.M.²

69
- 67649227952
- Prezhdo, O. V.; Pereverzev, Y. V., Accounts Chem. Res. 2009, 42, 693-703
- (2009) Accounts Chem. Res. , vol.42 , pp. 693-703
- Prezhdo, O.V.¹ Pereverzev, Y.V.²

70
- 4444351490
- Mackerell, A. D. J. Comput. Chem. 2004, 25, 1584-1604
- (2004) J. Comput. Chem. , vol.25 , pp. 1584-1604
- MacKerell, A.D.¹

71
- 33748518255
- Hornak, V.; Abel, R.; Okur, A.; Strockbine, B.; Roitberg, A.; Simmerling, C. Proteins: Struct., Funct., Bioinf. 2006, 65, 712-725
- (2006) Proteins: Struct., Funct., Bioinf. , vol.65 , pp. 712-725
- Hornak, V.¹ Abel, R.² Okur, A.³ Strockbine, B.⁴ Roitberg, A.⁵ Simmerling, C.⁶

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