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Volumn 135, Issue 12, 2011, Pages

Accelerating atomic-level protein simulations by flat-histogram techniques

Author keywords

[No Author keywords available]

Indexed keywords

ENZYMES; FREE ENERGY; GRAPHIC METHODS; OXYGEN; PROTEINS;

EID: 80053501774     PISSN: 00219606     EISSN: None     Source Type: Journal    
DOI: 10.1063/1.3643328     Document Type: Article
Times cited : (11)

References (49)
  • 4
  • 8
    • 78049317315 scopus 로고    scopus 로고
    • 10.1063/1.3503503
    • J. Kim and J. E. Straub, J. Chem. Phys. 133, 154101 (2010). 10.1063/1.3503503
    • (2010) J. Chem. Phys. , vol.133 , pp. 154101
    • Kim, J.1    Straub, J.E.2
  • 10
    • 0000106469 scopus 로고
    • 10.1016/0370-2693(91)91256-U
    • B. A. Berg and T. Neuhaus, Phys. Lett. B 267, 249 (1991). 10.1016/0370-2693(91)91256-U
    • (1991) Phys. Lett. B , vol.267 , pp. 249
    • Berg, B.A.1    Neuhaus, T.2
  • 13
    • 0038505989 scopus 로고    scopus 로고
    • Optimized Monte Carlo analysis for generalized ensembles
    • DOI 10.1140/epjb/e2002-00328-1
    • J. Ferkinghoff-Borg, Eur. Phys. J. B 29, 481 (2002). 10.1140/epjb/e2002- 00328-1 (Pubitemid 135695498)
    • (2002) European Physical Journal B , vol.29 , Issue.3 , pp. 481-484
    • Ferkinghoff-Borg, J.1
  • 14
    • 52949130165 scopus 로고    scopus 로고
    • 10.1063/1.2981800
    • M. K. Fenwick, J. Chem. Phys. 129, 125106 (2008). 10.1063/1.2981800
    • (2008) J. Chem. Phys. , vol.129 , pp. 125106
    • Fenwick, M.K.1
  • 16
    • 40149099893 scopus 로고    scopus 로고
    • Thermodynamics of peptide aggregation processes: An analysis from perspectives of three statistical ensembles
    • DOI 10.1063/1.2830233
    • C. Junghans, M. Bachmann, and W. Janke, J. Chem. Phys. 128, 085103 (2008). 10.1063/1.2830233 (Pubitemid 351328733)
    • (2008) Journal of Chemical Physics , vol.128 , Issue.8 , pp. 085103
    • Junghans, C.1    Bachmann, M.2    Janke, W.3
  • 17
    • 6644221271 scopus 로고    scopus 로고
    • Efficient, multiple-range random walk algorithm to calculate the density of states
    • DOI 10.1103/PhysRevLett.86.2050
    • F. Wang and D. P. Landau, Phys. Rev. Lett. 86, 2050 (2001). 10.1103/PhysRevLett.86.2050 (Pubitemid 32254758)
    • (2001) Physical Review Letters , vol.86 , Issue.10 , pp. 2050-2053
    • Wang, F.1    Landau, D.P.2
  • 18
    • 39749147672 scopus 로고    scopus 로고
    • 10.1103/PhysRevE.64.056101
    • F. Wang and D. P. Landau, Phys. Rev. E 64, 056101 (2001). 10.1103/PhysRevE.64.056101
    • (2001) Phys. Rev. e , vol.64 , pp. 056101
    • Wang, F.1    Landau, D.P.2
  • 22
    • 33745174827 scopus 로고    scopus 로고
    • Numerical comparison of Wang-Landau sampling and parallel tempering for met-enkephalin
    • DOI 10.1142/S012918310600931X, PII S012918310600931X
    • C. Junghans and U. H. E. Hansmann, Int. J. Mod. Phys. C 17, 817 (2006). 10.1142/S012918310600931X (Pubitemid 43893821)
    • (2006) International Journal of Modern Physics C , vol.17 , Issue.6 , pp. 817-824
    • Junghans, C.1    Hansmann, U.H.E.2
  • 26
    • 77952404209 scopus 로고    scopus 로고
    • 10.1103/PhysRevLett.104.190601
    • M. Bonomi and M. Parrinello, Phys. Rev. Lett. 104, 190601 (2010). 10.1103/PhysRevLett.104.190601
    • (2010) Phys. Rev. Lett. , vol.104 , pp. 190601
    • Bonomi, M.1    Parrinello, M.2
  • 29
    • 36148982687 scopus 로고    scopus 로고
    • Wang-Landau algorithm: A theoretical analysis of the saturation of the error
    • DOI 10.1063/1.2803061
    • R. E. Belardinelli and V. D. Pereyra, J. Chem. Phys. 127, 184105 (2007). 10.1063/1.2803061 (Pubitemid 350115910)
    • (2007) Journal of Chemical Physics , vol.127 , Issue.18 , pp. 184105
    • Belardinelli, R.E.1    Pereyra, V.D.2
  • 30
    • 55149087287 scopus 로고    scopus 로고
    • 10.1103/PhysRevE.78.046705
    • C. Zhou and J. Su, Phys. Rev. E 78, 046705 (2008). 10.1103/PhysRevE.78. 046705
    • (2008) Phys. Rev. e , vol.78 , pp. 046705
    • Zhou, C.1    Su, J.2
  • 33
    • 22244479388 scopus 로고    scopus 로고
    • Copper-zinc superoxide dismutase and amyotrophic lateral sclerosis
    • DOI 10.1146/annurev.biochem.72.121801.161647
    • J. Valentine, P. Doucette, and S. Potter, Annu. Rev. Biochem. 74, 563 (2005). 10.1146/annurev.biochem.72.121801.161647 (Pubitemid 40995518)
    • (2005) Annual Review of Biochemistry , vol.74 , pp. 563-593
    • Valentine, J.S.1    Doucette, P.A.2    Potter, S.Z.3
  • 39
    • 0035826575 scopus 로고    scopus 로고
    • Monte Carlo update for chain molecules: Biased Gaussian steps in torsional space
    • DOI 10.1063/1.1364637
    • G. Favrin, A. Irbck, and F. Sjunnesson, J. Chem. Phys. 114, 8154 (2001). 10.1063/1.1364637 (Pubitemid 32486731)
    • (2001) Journal of Chemical Physics , vol.114 , Issue.18 , pp. 8154-8158
    • Favrin, G.1    Irback, A.2    Sjunnesson, F.3
  • 40
    • 33748604047 scopus 로고    scopus 로고
    • PROFASI: A Monte Carlo simulation package for protein folding and aggregation
    • DOI 10.1002/jcc.20452
    • A. Irbck and S. Mohanty, J. Comput. Chem. 27, 1548 (2006). 10.1002/jcc.20452 (Pubitemid 44375668)
    • (2006) Journal of Computational Chemistry , vol.27 , Issue.13 , pp. 1548-1555
    • Irback, A.1    Mohanty, S.2
  • 41
    • 0015971972 scopus 로고
    • 10.1093/biomet/61.1.1
    • R. G. Miller, Biometrika 61, 1 (1974). 10.1093/biomet/61.1.1
    • (1974) Biometrika , vol.61 , pp. 1
    • Miller, R.G.1
  • 45
    • 17844365851 scopus 로고    scopus 로고
    • Molecular mechanism for stabilizing a short helical peptide studied by generalized-ensemble simulations with explicit solvent
    • DOI 10.1529/biophysj.104.049429
    • Y. Sugita and Y. Okamoto, Biophys. J. 88, 3180 (2005). 10.1529/biophysj.104.049429 (Pubitemid 40586571)
    • (2005) Biophysical Journal , vol.88 , Issue.5 , pp. 3180-3190
    • Sugita, Y.1    Okamoto, Y.2
  • 47
    • 77649241611 scopus 로고    scopus 로고
    • 10.1038/nmeth0310-187
    • M. Oliveberg, Nat. Methods 7, 187 (2010). 10.1038/nmeth0310-187
    • (2010) Nat. Methods , vol.7 , pp. 187
    • Oliveberg, M.1


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