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Volumn 119, Issue 22, 2003, Pages 11998-12010

Expanded ensemble and replica exchange methods for simulation of protein-like systems

Author keywords

[No Author keywords available]

Indexed keywords

APPROXIMATION THEORY; COMPUTER SIMULATION; CONFORMATIONS; EXTRAPOLATION; FREE ENERGY; HAMILTONIANS; ITERATIVE METHODS; MATRIX ALGEBRA; PROBABILITY; TEMPERATURE;

EID: 0345790274     PISSN: 00219606     EISSN: None     Source Type: Journal    
DOI: 10.1063/1.1624822     Document Type: Article
Times cited : (49)

References (65)
  • 48
  • 49
    • 0347194096 scopus 로고    scopus 로고
    • note
    • The canonical transition probabilities are given by the Metropolis functions described by Bennett (Ref. 42), which in the optimized version of the acceptance ratio method are replaced by Fermi functions.
  • 52
    • 0346564050 scopus 로고    scopus 로고
    • note
    • Factors of 1/2 were used in Eq. (10) when appropriate, such as for moves involving end states.
  • 53
    • 0346564051 scopus 로고    scopus 로고
    • note
    • ∞.
  • 54
    • 0347194095 scopus 로고    scopus 로고
    • note
    • 7 steps, respectively.
  • 55
    • 0346564052 scopus 로고    scopus 로고
    • note
    • In practice, one would normally ignore the energies gathered from the earliest MC steps, when equilibration has not yet been established within the macrostates.
  • 56
    • 0346564053 scopus 로고    scopus 로고
    • note
    • Slight differences in the amounts of data recorded per macrostate result only because the EXE-based runs did not yield perfectly uniform macrostate distributions.
  • 57
    • 0346564054 scopus 로고    scopus 로고
    • note
    • 4 MC steps.
  • 61
    • 0347824305 scopus 로고    scopus 로고
    • note
    • 2, especially near the transition (e.g., T = 1.36).
  • 64
    • 0347194094 scopus 로고    scopus 로고
    • note
    • However, Socci and Onuchic show that T = 1.36 yields comparable folding times.


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.