SCOPUS 정보 검색 플랫폼

Journal of Physical Chemistry B

Volumn 113, Issue 10, 2009, Pages 3218-3226

ETNA: equilibrium transitions network and arrhenius equation for extracting folding kinetics from REMD simulations

(2) Muff, S a Caflisch, A a

a UNIVERSITY OF ZURICH (Switzerland)

Author keywords

[No Author keywords available]

Indexed keywords

AMINES; DYNAMICS; KINETIC ENERGY; MELTING POINT; MOLECULAR DYNAMICS;

ARRHENIUS EQUATIONS; ATOMISTIC SIMULATIONS; DENATURED STATE; EQUILIBRIUM TRANSITIONS; EXCHANGE-TIME; FOLDING KINETICS; KINETIC DATUM; KINETIC INFORMATIONS; MELTING TEMPERATURES; NATIVE STATE; NON NATIVES; REPLICA EXCHANGE MOLECULAR DYNAMICS; SHORT TIME SCALE; SIMULATION TECHNIQUES; TRANSITION TIME;

PROTEIN FOLDING;

EID: 63649158782 PISSN: 15206106 EISSN: None Source Type: Journal
DOI: 10.1021/jp807261h Document Type: Article

Times cited : (25)

References (44)

1
- 0036725277
- Karplus, M.; McCammon, J. A. Nat. Struct. Biol. 2002, 9, 646- 652.
- (2002) Nat. Struct. Biol , vol.9 , pp. 646-652
- Karplus, M.¹ McCammon, J.A.²

2
- 0030904524
- Berne, B. J.; Straub, J. E. Curr. Opin. Struct. Biol. 1997, 7, 181.
- (1997) Curr. Opin. Struct. Biol , vol.7 , pp. 181
- Berne, B.J.¹ Straub, J.E.²

3
- 0000032263
- E Hansmann, U. H.; Okamoto, Y. Phys. Rev. E 1997, 56, 2228- 2233.
- E Hansmann, U. H.; Okamoto, Y. Phys. Rev. E 1997, 56, 2228- 2233.

4
- 35548967122
- Molecular Simulations; Academic Press: San Diego, CA
- Frenkel, D.; Smit, B. Understanding Molecular Simulations; Academic Press: San Diego, CA, 2002.
- (2002) Understanding
- Frenkel, D.¹ Smit, B.²

5
- 0037038372
- Snow, D. C.; Nguyen, H.; Pande, V. S.; Gruebele, M. Nature 2002, 420, 102-106.
- (2002) Nature , vol.420 , pp. 102-106
- Snow, D.C.¹ Nguyen, H.² Pande, V.S.³ Gruebele, M.⁴

6
- 0037478676
- Paci, E.; Cavalli, A.; Vendruscolo, M.; Caflisch, A. Proc. Natl. Acad. Sci. U.S.A. 2003, 100, 8217-8222.
- (2003) Proc. Natl. Acad. Sci. U.S.A , vol.100 , pp. 8217-8222
- Paci, E.¹ Cavalli, A.² Vendruscolo, M.³ Caflisch, A.⁴

7
- 1542345514
- Settanni, G.; Gsponer, J.; Caflisch, A. Biophys. J. 2004, 86, 1691- 1701.
- (2004) Biophys. J , vol.86 , pp. 1691-1701
- Settanni, G.¹ Gsponer, J.² Caflisch, A.³

8
- 0037195097
- Ferst, A. R. Proc. Natl. Acad. Sci. U.S.A. 2002, 99, 14122-14125.
- (2002) Proc. Natl. Acad. Sci. U.S.A , vol.99 , pp. 14122-14125
- Ferst, A.R.¹

9
- 3142707288
- Singhal, N.; Snow, C. D.; Pande, V. S. J. Chem. Phys. 2004, 121, 415-425.
- (2004) J. Chem. Phys , vol.121 , pp. 415-425
- Singhal, N.¹ Snow, C.D.² Pande, V.S.³

10
- 2942567954
- Swope, W. C.; Pitera, J. W.; Suits, F. J. Phys. Chem. B 2004, 108, 6571-6581.
- (2004) J. Phys. Chem. B , vol.108 , pp. 6571-6581
- Swope, W.C.¹ Pitera, J.W.² Suits, F.³

11
- 17444389688
- Sriraman, S.; Kevrekidis, I. G.; Hummer, G. J. Phys. Chem. B 2005, 109, 6479-6484.
- (2005) J. Phys. Chem. B , vol.109 , pp. 6479-6484
- Sriraman, S.¹ Kevrekidis, I.G.² Hummer, G.³

12
- 34247338100
- Chodera, J. D.; Singhal, N.; Pande, V. S.; Dill, K.; Swope, W. C. J. Chem. Phys. 2007, 126, 155101.
- (2007) J. Chem. Phys , vol.126 , pp. 155101
- Chodera, J.D.¹ Singhal, N.² Pande, V.S.³ Dill, K.⁴ Swope, W.C.⁵

13
- 34247339716
- Noé, F.; Horenko, I.; Schuette, C.; Smith, J. C. J. Chem. Phys. 2007, 126, 155102.
- (2007) J. Chem. Phys , vol.126 , pp. 155102
- Noé, F.¹ Horenko, I.² Schuette, C.³ Smith, J.C.⁴

14
- 41549086176
- Buchete, N.-V.; Hummer, G. Phys. Rev. E 2007, 77, 030902.
- (2007) Phys. Rev. E , vol.77 , pp. 030902
- Buchete, N.-V.¹ Hummer, G.²

15
- 39749156392
- Muff, S.; Caflisch, A. Proteins: Struct., Funct., Bioinf. 2008, 70, 1185-1195.
- (2008) Proteins: Struct., Funct., Bioinf , vol.70 , pp. 1185-1195
- Muff, S.¹ Caflisch, A.²

16
- 0001616080
- Sugita, Y.; Okamoto, Y. Chem. Phys. Lett. 1999, 314, 141-151.
- (1999) Chem. Phys. Lett , vol.314 , pp. 141-151
- Sugita, Y.¹ Okamoto, Y.²

17
- 0041877561
- Rao, F.; Caflisch, A. J. Chem. Phys. 2003, 119, 4035-4042.
- (2003) J. Chem. Phys , vol.119 , pp. 4035-4042
- Rao, F.¹ Caflisch, A.²

18
- 10844230140
- Cecchini, M.; Rao, F.; Seeber, M.; Caflisch, A. J. Chem. Phys. 2004, 121, 10748-10756.
- (2004) J. Chem. Phys , vol.121 , pp. 10748-10756
- Cecchini, M.¹ Rao, F.² Seeber, M.³ Caflisch, A.⁴

19
- 18744366086
- Andrec, M.; Felts, A. K.; Gallicchio, E.; Levy, R. M. Proc. Natl. Acad. Sci. U.S.A. 2005, 102, 6801-6806.
- (2005) Proc. Natl. Acad. Sci. U.S.A , vol.102 , pp. 6801-6806
- Andrec, M.¹ Felts, A.K.² Gallicchio, E.³ Levy, R.M.⁴

20
- 33745184030
- van der Spoel, D.; Marvin Seibert, M. Phys. Rev. Lett. 2006, 96, 238102.
- (2006) Phys. Rev. Lett , vol.96 , pp. 238102
- van der Spoel, D.¹ Marvin Seibert, M.²

21
- 34548273698
- Yang, S.; Onuchic, J. N.; Garcia, A. E.; Levine, H. J. Mol. Biol. 2007, 372, 756-763.
- (2007) J. Mol. Biol , vol.372 , pp. 756-763
- Yang, S.¹ Onuchic, J.N.² Garcia, A.E.³ Levine, H.⁴

22
- 6944235051
- Krivov, S. V.; Karplus, M. Proc. Natl. Acad. Sci. U.S.A. 2004, 101, 14766-14770.
- (2004) Proc. Natl. Acad. Sci. U.S.A , vol.101 , pp. 14766-14770
- Krivov, S.V.¹ Karplus, M.²

23
- 4143090730
- Rao, F.; Caflisch, A. J. Mol. Biol. 2004, 342, 299-306.
- (2004) J. Mol. Biol , vol.342 , pp. 299-306
- Rao, F.¹ Caflisch, A.²

24
- 32344450229
- Caflisch, A. Curr. Opin. Struct. Biol. 2006, 16, 71-78.
- (2006) Curr. Opin. Struct. Biol , vol.16 , pp. 71-78
- Caflisch, A.¹

25
- 84906384362
- in press
- Buchete, N.-V.; Hummer, G. J. Phys. Chem. B, in press.
- J. Phys. Chem. B
- Buchete, N.-V.¹ Hummer, G.²

26
- 65249174675
- ACM: New York
- Apaydin, M.; Brutlag, D.; Guesttin, C.; Hsu, D.; Latombe, J. In International Conference on Computational Molecular Biology (RECOMB); ACM: New York, 2002.
- (2002) International Conference on Computational Molecular Biology (RECOMB)
- Apaydin, M.¹ Brutlag, D.² Guesttin, C.³ Hsu, D.⁴ Latombe, J.⁵

27
- 49149121255
- Krivov, S. V.; Muff, S.; Caflisch, A.; Karplus, M. J. Phys. Chem. B 2008, 112, 8701-8714.
- (2008) J. Phys. Chem. B , vol.112 , pp. 8701-8714
- Krivov, S.V.¹ Muff, S.² Caflisch, A.³ Karplus, M.⁴

28
- 33746567202
- Krivov, S. V.; Karplus, M. J. Phys. Chem. B 2006, 110, 12689- 12698.
- (2006) J. Phys. Chem. B , vol.110 , pp. 12689-12698
- Krivov, S.V.¹ Karplus, M.²

29
- 0034718553
- Ferrara, P.; Caflisch, A. Proc. Natl. Acad. Sci. U.S.A. 2000, 97, 10780-10785.
- (2000) Proc. Natl. Acad. Sci. U.S.A , vol.97 , pp. 10780-10785
- Ferrara, P.¹ Caflisch, A.²

30
- 0032917075
- De Alba, E.; Santoro, J.; Rico, M.; Jiménez, M. A. Protein Sci. 1999, 8, 854-865.
- (1999) Protein Sci , vol.8 , pp. 854-865
- De Alba, E.¹ Santoro, J.² Rico, M.³ Jiménez, M.A.⁴

31
- 0037093655
- Cavalli, A.; Ferrara, P.; Caflisch, A. Proteins: Struct., Funct., Bioinf. 2002, 47, 305-314.
- (2002) Proteins: Struct., Funct., Bioinf , vol.47 , pp. 305-314
- Cavalli, A.¹ Ferrara, P.² Caflisch, A.³

32
- 0041842498
- Cavalli, A.; Haberthür, U.; Paci, E.; Caflisch, A. Protein Sci. 2003, 12, 1801-1803.
- (2003) Protein Sci , vol.12 , pp. 1801-1803
- Cavalli, A.¹ Haberthür, U.² Paci, E.³ Caflisch, A.⁴

33
- 35748935079
- Seeber, M.; Cecchini, M.; Rao, F.; Settanni, G.; Caflisch, A. Bioinformatics 2007, 23, 2625-2627.
- (2007) Bioinformatics , vol.23 , pp. 2625-2627
- Seeber, M.¹ Cecchini, M.² Rao, F.³ Settanni, G.⁴ Caflisch, A.⁵

34
- 84986512474
- Brooks, B. R.; Bruccoleri, R. E.; Olafson, B. D.; States, D. J.; Swaminathan, S.; Karplus, M. J. Comput. Chem. 1983, 4, 187-217.
- (1983) J. Comput. Chem , vol.4 , pp. 187-217
- Brooks, B.R.¹ Bruccoleri, R.E.² Olafson, B.D.³ States, D.J.⁴ Swaminathan, S.⁵ Karplus, M.⁶

35
- 0000036869
- Neria, E.; Fischer, S.; Karplus, M. J. Chem. Phys. 1996, 105, 1902- 1921.
- (1996) J. Chem. Phys , vol.105 , pp. 1902-1921
- Neria, E.¹ Fischer, S.² Karplus, M.³

36
- 0036138028
- Ferrara, P.; Apostolakis, J.; Caflisch, A. Proteins: Struct., Funct., Bioinf. 2002, 46, 24-33.
- (2002) Proteins: Struct., Funct., Bioinf , vol.46 , pp. 24-33
- Ferrara, P.¹ Apostolakis, J.² Caflisch, A.³

37
- 0001767031
- Ferrara, P.; Apostolakis, J.; Caflisch, A. J. Phys. Chem. B 2000, 104, 5000-5010.
- (2000) J. Phys. Chem. B , vol.104 , pp. 5000-5010
- Ferrara, P.¹ Apostolakis, J.² Caflisch, A.³

38
- 14144255497
- Settanni, G.; Rao, F.; Caflisch, A. Proc. Natl. Acad. Sci. U.S.A. 2005, 102, 628-633.
- (2005) Proc. Natl. Acad. Sci. U.S.A , vol.102 , pp. 628-633
- Settanni, G.¹ Rao, F.² Caflisch, A.³

39
- 47749149231
- Ihalainen, J. A.; Paoli, B.; Muff, S.; Backus, E.; Bredenbeck, J.; Woolley, G. A.; Caflisch, A.; Hamm, P. Proc. Natl. Acad. Sci. U.S.A. 2008, 105, 9588-9593.
- (2008) Proc. Natl. Acad. Sci. U.S.A , vol.105 , pp. 9588-9593
- Ihalainen, J.A.¹ Paoli, B.² Muff, S.³ Backus, E.⁴ Bredenbeck, J.⁵ Woolley, G.A.⁶ Caflisch, A.⁷ Hamm, P.⁸

40
- 0004185151
- Wiley: New York
- Hartigan, J. A. Clustering Algorithms; Wiley: New York, 1975.
- (1975) Clustering Algorithms
- Hartigan, J.A.¹

41
- 33845189399
- Hubner, I. A.; Deeds, E. J.; Shakhnovich, E. I. Proc. Natl. Acad. Sci. U.S.A. 2006, 103, 17747-17752.
- (2006) Proc. Natl. Acad. Sci. U.S.A , vol.103 , pp. 17747-17752
- Hubner, I.A.¹ Deeds, E.J.² Shakhnovich, E.I.³

42
- 15744367365
- Chekmarev, S. F.; Krivov, S. V.; Karplus, M. J. Phys. Chem. B 2005, 109, 5312-5330.
- (2005) J. Phys. Chem. B , vol.109 , pp. 5312-5330
- Chekmarev, S.F.¹ Krivov, S.V.² Karplus, M.³

43
- 49149126628
- Andersen, C. A. F.; Palmer, A. G.; Brunak, S.; Rost, B. Structure 2002, 10, 174-184.
- (2002) Structure , vol.10 , pp. 174-184
- Andersen, C.A.F.¹ Palmer, A.G.² Brunak, S.³ Rost, B.⁴

44
- 40549111613
- Haberthür, U.; Caflisch, A. J. Comput. Chem. 2008, 29, 701-715.
- (2008) J. Comput. Chem , vol.29 , pp. 701-715
- Haberthür, U.¹ Caflisch, A.²

* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.