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Methods

Volumn 34, Issue 1, 2004, Pages 144-150

Computational methods for generating models of denatured and partially folded proteins

(1) Smith, Lorna J a

a UNIVERSITY OF OXFORD (United Kingdom)

Author keywords

Computer simulation; Denatured state; Molecular dynamics; Molten globule; Protein folding

Indexed keywords

ARTICLE; ATOM; CIRCULAR DICHROISM; FLUORESCENCE; LIGHT SCATTERING; MATHEMATICAL COMPUTING; MATHEMATICAL MODEL; MOLECULAR DYNAMICS; PRIORITY JOURNAL; PROTEIN AGGREGATION; PROTEIN ANALYSIS; PROTEIN CONFORMATION; PROTEIN DENATURATION; PROTEIN FOLDING;

ANIMALS; APROTININ; CATTLE; COMPUTATIONAL BIOLOGY; COMPUTER SIMULATION; HUMANS; LACTALBUMIN; MODELS, MOLECULAR; PROTEIN DENATURATION; PROTEIN FOLDING; SOLVENTS; TEMPERATURE;

EID: 3342889416 PISSN: 10462023 EISSN: None Source Type: Journal
DOI: 10.1016/j.ymeth.2004.03.011 Document Type: Article

Times cited : (16)

References (58)

1
- 0001931668
- Dobson C.M. Curr. Opin. Struct. Biol. 2:1992;6-12
- (1992) Curr. Opin. Struct. Biol. , vol.2 , pp. 6-12
- Dobson, C.M.¹

2
- 0029124248
- Ptitsyn O.B. Adv. Protein Chem. 47:1995;83-299
- (1995) Adv. Protein Chem. , vol.47 , pp. 83-299
- Ptitsyn, O.B.¹

3
- 0034581327
- Arai M., Kuwajima K. Adv. Protein Chem. 53:2000;209-282
- (2000) Adv. Protein Chem. , vol.53 , pp. 209-282
- Arai, M.¹ Kuwajima, K.²

4
- 0025856806
- Dill K.A., Shortle D. Annu. Rev. Biochem. 60:1991;795-825
- (1991) Annu. Rev. Biochem. , vol.60 , pp. 795-825
- Dill, K.A.¹ Shortle, D.²

5
- 0030032461
- Shortle D. FASEB J. 10:1996;27-34
- (1996) FASEB J. , vol.10 , pp. 27-34
- Shortle, D.¹

6
- 0030320442
- Smith L.J., Fiebig K.M., Schwalbe H., Dobson C.M. Folding and Design. 1:1996;R95-R106
- (1996) Folding and Design , vol.1 , pp. 95-R106
- Smith, L.J.¹ Fiebig, K.M.² Schwalbe, H.³ Dobson, C.M.⁴

7
- 0032749078
- Wright P.E., Dyson H.J. J. Mol. Biol. 293:1999;321-331
- (1999) J. Mol. Biol. , vol.293 , pp. 321-331
- Wright, P.E.¹ Dyson, H.J.²

8
- 0034867975
- Dunker A.K., Obradovic Z. Nat. Biotechnol. 19:2001;805-806
- (2001) Nat. Biotechnol. , vol.19 , pp. 805-806
- Dunker, A.K.¹ Obradovic, Z.²

9
- 0035957228
- Khurana R., Gillespie J.R., Talapatra A., Minert L.J., Ionescu-Zanetti C., Millett I., Fink A.L. Biochemistry. 40:2001;3525-3535
- (2001) Biochemistry , vol.40 , pp. 3525-3535
- Khurana, R.¹ Gillespie, J.R.² Talapatra, A.³ Minert, L.J.⁴ Ionescu-Zanetti, C.⁵ Millett, I.⁶ Fink, A.L.⁷

10
- 0035961329
- Dobson C.M. Philos. Trans. R. Soc. Lond. B Biol. Sci. 356:2001;133-145
- (2001) Philos. Trans. R. Soc. Lond. B Biol. Sci. , vol.356 , pp. 133-145
- Dobson, C.M.¹

11
- 0035919635
- Shortle D., Ackerman M.S. Science. 293:2001;487-489
- (2001) Science , vol.293 , pp. 487-489
- Shortle, D.¹ Ackerman, M.S.²

12
- 0036389787
- Lietzow M.A., Jamin M., Dyson H.J., Wright P.E. J. Mol. Biol. 322:2002;655-662
- (2002) J. Mol. Biol. , vol.322 , pp. 655-662
- Lietzow, M.A.¹ Jamin, M.² Dyson, H.J.³ Wright, P.E.⁴

13
- 18244364614
- Klein-Seetharaman J., Oikawa M., Grimshaw S.B., Wirmer J., Duchardt E., Ueda T., Imoto T., Smith L.J., Dobson C.M., Schwalbe H. Science. 295:2002;1719-1722
- (2002) Science , vol.295 , pp. 1719-1722
- Klein-Seetharaman, J.¹ Oikawa, M.² Grimshaw, S.B.³ Wirmer, J.⁴ Duchardt, E.⁵ Ueda, T.⁶ Imoto, T.⁷ Smith, L.J.⁸ Dobson, C.M.⁹ Schwalbe, H.¹⁰

14
- 0036400715
- Dyson H.J., Wright P.E. Adv. Protein Chem. 62:2002;311-340
- (2002) Adv. Protein Chem. , vol.62 , pp. 311-340
- Dyson, H.J.¹ Wright, P.E.²

15
- 0344301982
- Dobson C.M., Sali A., Karplus M. Angewandte Chemie-Inter Ed. 37:1998;868-893
- (1998) Angewandte Chemie-Inter Ed. , vol.37 , pp. 868-893
- Dobson, C.M.¹ Sali, A.² Karplus, M.³

16
- 0035996980
- Huynh T., Smith J.C., Sanson A. Biophys. J. 83:2002;681-698
- (2002) Biophys. J. , vol.83 , pp. 681-698
- Huynh, T.¹ Smith, J.C.² Sanson, A.³

17
- 0024533979
- Baum J., Dobson C.M., Evans P.A., Hanley C. Biochemistry. 28:1989;7-13
- (1989) Biochemistry , vol.28 , pp. 7-13
- Baum, J.¹ Dobson, C.M.² Evans, P.A.³ Hanley, C.⁴

18
- 0030768045
- Schulman B.A., Kim P.S., Dobson C.M., Redfield C. Nat. Struct. Biol. 4:1997;630-634
- (1997) Nat. Struct. Biol. , vol.4 , pp. 630-634
- Schulman, B.A.¹ Kim, P.S.² Dobson, C.M.³ Redfield, C.⁴

19
- 0031465967
- Lazaridis T., Karplus M. Science. 278:1997;1928-1931
- (1997) Science , vol.278 , pp. 1928-1931
- Lazaridis, T.¹ Karplus, M.²

20
- 0033135638
- Lazaridis T., Karplus M. Proteins. 35:1999;133-152
- (1999) Proteins , vol.35 , pp. 133-152
- Lazaridis, T.¹ Karplus, M.²

21
- 0029963345
- Li A.J., Daggett V. J. Mol. Biol. 257:1996;412-429
- (1996) J. Mol. Biol. , vol.257 , pp. 412-429
- Li, A.J.¹ Daggett, V.²

22
- 0026694167
- Daggett V., Levitt M. Proc. Natl. Acad. Sci. USA. 89:1992;5142-5146
- (1992) Proc. Natl. Acad. Sci. USA , vol.89 , pp. 5142-5146
- Daggett, V.¹ Levitt, M.²

23
- 0026630480
- Mark A.E., van Gunsteren W.F. Biochemistry. 31:1992;7745-7748
- (1992) Biochemistry , vol.31 , pp. 7745-7748
- Mark, A.E.¹ Van Gunsteren, W.F.²

24
- 0034628913
- Wong K.B., Clarke J., Bond C.J., Neira J.L., Freund S.M.V., Fersht A.R., Daggett V. J. Mol. Biol. 296:2000;1257-1282
- (2000) J. Mol. Biol. , vol.296 , pp. 1257-1282
- Wong, K.B.¹ Clarke, J.² Bond, C.J.³ Neira, J.L.⁴ Freund, S.M.V.⁵ Fersht, A.R.⁶ Daggett, V.⁷

25
- 0035836687
- Kazmirski S.L., Wong K.B., Freund S.M.V., Tan Y.J., Fersht A.R., Daggett V. Proc. Natl. Acad. Sci. USA. 98:2001;4349-4354
- (2001) Proc. Natl. Acad. Sci. USA , vol.98 , pp. 4349-4354
- Kazmirski, S.L.¹ Wong, K.B.² Freund, S.M.V.³ Tan, Y.J.⁴ Fersht, A.R.⁵ Daggett, V.⁶

26
- 0032571391
- Kazmirski S.L., Daggett V. J. Mol. Biol. 277:1998;487-506
- (1998) J. Mol. Biol. , vol.277 , pp. 487-506
- Kazmirski, S.L.¹ Daggett, V.²

27
- 0037456298
- Mayor U., Guydosh N.R., Johnson C.M., Grossmann J.G., Sato S., Jas G.S., Freund S.M.V., Alonso D.O.V., Daggett V., Fersht A.R. Nature. 421:2003;863-867
- (2003) Nature , vol.421 , pp. 863-867
- Mayor, U.¹ Guydosh, N.R.² Johnson, C.M.³ Grossmann, J.G.⁴ Sato, S.⁵ Jas, G.S.⁶ Freund, S.M.V.⁷ Alonso, D.O.V.⁸ Daggett, V.⁹ Fersht, A.R.¹⁰

28
- 0033516512
- Kazmirski S.L., Li A.J., Daggett V. J. Mol. Biol. 290:1999;283-304
- (1999) J. Mol. Biol. , vol.290 , pp. 283-304
- Kazmirski, S.L.¹ Li, A.J.² Daggett, V.³

29
- 0036280693
- Brooks C.L. Acc. Chem. Res. 35:2002;447-454
- (2002) Acc. Chem. Res. , vol.35 , pp. 447-454
- Brooks, C.L.¹

30
- 0037165750
- Prompers J.J., Brüschweiler R. J. Am. Chem. Soc. 124:2002;4522-4534
- (2002) J. Am. Chem. Soc. , vol.124 , pp. 4522-4534
- Prompers, J.J.¹ Brüschweiler, R.²

31
- 0001744683
- Ferrara P., Apostolakis J., Caflisch A. J. Phys. Chem. B. 104:2000;4511-4518
- (2000) J. Phys. Chem. B , vol.104 , pp. 4511-4518
- Ferrara, P.¹ Apostolakis, J.² Caflisch, A.³

32
- 0028926875
- Hunenberger P.H., Mark A.E., van Gunsteren W.F. Proteins. 21:1995;196-213
- (1995) Proteins , vol.21 , pp. 196-213
- Hunenberger, P.H.¹ Mark, A.E.² Van Gunsteren, W.F.³

33
- 0035895427
- Paci E., Smith L.J., Dobson C.M., Karplus M. J. Mol. Biol. 306:2001;329-347
- (2001) J. Mol. Biol. , vol.306 , pp. 329-347
- Paci, E.¹ Smith, L.J.² Dobson, C.M.³ Karplus, M.⁴

34
- 0033531973
- Paci E., Karplus M. J. Mol. Biol. 288:1999;441-459
- (1999) J. Mol. Biol. , vol.288 , pp. 441-459
- Paci, E.¹ Karplus, M.²

35
- 0033568777
- Ringhofer S., Schreiber H., Steinhauser O. Phys. Chem. Chem. Phys. 1:1999;4355-4370
- (1999) Phys. Chem. Chem. Phys. , vol.1 , pp. 4355-4370
- Ringhofer, S.¹ Schreiber, H.² Steinhauser, O.³

36
- 0033548540
- Smith L.J., Dobson C.M., van Gunsteren W.F. J. Mol. Biol. 286:1999;1567-1580
- (1999) J. Mol. Biol. , vol.286 , pp. 1567-1580
- Smith, L.J.¹ Dobson, C.M.² Van Gunsteren, W.F.³

37
- 0034142113
- Wrabl J.O., Shortle D., Woolf T.B. Proteins. 38:2000;123-133
- (2000) Proteins , vol.38 , pp. 123-133
- Wrabl, J.O.¹ Shortle, D.² Woolf, T.B.³

38
- 0030727330
- Williams M.A., Thornton J.M., Goodfellow J.M. Protein Eng. 10:1997;895-903
- (1997) Protein Eng. , vol.10 , pp. 895-903
- Williams, M.A.¹ Thornton, J.M.² Goodfellow, J.M.³

39
- 0030939289
- TiradoRives J., Orozco M., Jorgensen W.L. Biochemistry. 36:1997;7313-7329
- (1997) Biochemistry , vol.36 , pp. 7313-7329
- Tiradorives, J.¹ Orozco, M.² Jorgensen, W.L.³

40
- 0033134665
- Caflisch A., Karplus M. Struct. Fold. Des. 7:1999;477-488
- (1999) Struct. Fold. Des. , vol.7 , pp. 477-488
- Caflisch, A.¹ Karplus, M.²

41
- 0038370011
- Bennion B.J., Daggett V. Proc. Natl. Acad. Sci. USA. 100:2003;5142-5147
- (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 5142-5147
- Bennion, B.J.¹ Daggett, V.²

42
- 0037171124
- Paci E. Biochim. Biophys. Acta. 1595:2002;185-200
- (2002) Biochim. Biophys. Acta , vol.1595 , pp. 185-200
- Paci, E.¹

43
- 0026672305
- Neri D., Billeter M., Wider G., Wüthrich K. Science. 257:1992;1559-1563
- (1992) Science , vol.257 , pp. 1559-1563
- Neri, D.¹ Billeter, M.² Wider, G.³ Wüthrich, K.⁴

44
- 0031585992
- Gillespie J.R., Shortle D. J. Mol. Biol. 268:1997;170-184
- (1997) J. Mol. Biol. , vol.268 , pp. 170-184
- Gillespie, J.R.¹ Shortle, D.²

45
- 0031585990
- Gillespie J.R., Shortle D. J. Mol. Biol. 268:1997;158-169
- (1997) J. Mol. Biol. , vol.268 , pp. 158-169
- Gillespie, J.R.¹ Shortle, D.²

46
- 0035906650
- Choy W.Y., Forman-Kay J.D. J. Mol. Biol. 308:2001;1011-1032
- (2001) J. Mol. Biol. , vol.308 , pp. 1011-1032
- Choy, W.Y.¹ Forman-Kay, J.D.²

47
- 0034193509
- Feldman H.J., Hogue C.W.V. Proteins. 39:2000;112-131
- (2000) Proteins , vol.39 , pp. 112-131
- Feldman, H.J.¹ Hogue, C.W.V.²

48
- 0037032294
- Lyon C.E., Suh E.S., Dobson C.M., Hore P.J. J. Am. Chem. Soc. 124:2002;13018-13024
- (2002) J. Am. Chem. Soc. , vol.124 , pp. 13018-13024
- Lyon, C.E.¹ Suh, E.S.² Dobson, C.M.³ Hore, P.J.⁴

49
- 0027536094
- Alexandrescu A.T., Evans P.A., Pitkeathly M., Baum J., Dobson C.M. Biochemistry. 32:1993;1707-1718
- (1993) Biochemistry , vol.32 , pp. 1707-1718
- Alexandrescu, A.T.¹ Evans, P.A.² Pitkeathly, M.³ Baum, J.⁴ Dobson, C.M.⁵

50
- 0036428782
- Zagrovic B., Snow C.D., Shirts M.R., Pande V.S. J. Mol. Biol. 323:2002;927-937
- (2002) J. Mol. Biol. , vol.323 , pp. 927-937
- Zagrovic, B.¹ Snow, C.D.² Shirts, M.R.³ Pande, V.S.⁴

51
- 0033407049
- Saito M. Protein Eng. 12:1999;1097-1104
- (1999) Protein Eng. , vol.12 , pp. 1097-1104
- Saito, M.¹

52
- 0003742069
- University College London: Departments of Biochemistry and Molecular Biology
- Hubbard S.J., Thornton J.M. NACCESS Computer Program. 1993;Departments of Biochemistry and Molecular Biology, University College London
- (1993) NACCESS Computer Program
- Hubbard, S.J.¹ Thornton, J.M.²

53
- 0037022794
- Ackerman M.S., Shortle D. Biochemistry. 41:2002;3089-3095
- (2002) Biochemistry , vol.41 , pp. 3089-3095
- Ackerman, M.S.¹ Shortle, D.²

54
- 0041846681
- Crowhurst K.A., Forman-Kay J.D. Biochemistry. 42:2003;8687-8695
- (2003) Biochemistry , vol.42 , pp. 8687-8695
- Crowhurst, K.A.¹ Forman-Kay, J.D.²

55
- 0037441481
- Gruia A.D., Fischer S., Smith J.C. Proteins. 50:2003;507-515
- (2003) Proteins , vol.50 , pp. 507-515
- Gruia, A.D.¹ Fischer, S.² Smith, J.C.³

56
- 0037225277
- Onufriev A., Case D.A., Bashford D. J. Mol. Biol. 325:2003;555-567
- (2003) J. Mol. Biol. , vol.325 , pp. 555-567
- Onufriev, A.¹ Case, D.A.² Bashford, D.³

57
- 0345598912
- Vendruscolo M., Paci E., Karplus M., Dobson C.M. Proc. Natl. Acad. Sci. USA. 100:2003;14817-14821
- (2003) Proc. Natl. Acad. Sci. USA , vol.100 , pp. 14817-14821
- Vendruscolo, M.¹ Paci, E.² Karplus, M.³ Dobson, C.M.⁴

58
- 0043269234
- Tarek M., Neumann D.A., Tobias D.J. Chem Phys. 292:2003;435-443
- (2003) Chem Phys , vol.292 , pp. 435-443
- Tarek, M.¹ Neumann, D.A.² Tobias, D.J.³

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