Monte Carlo update for chain molecules:: Biased Gaussian steps in torsional space

被引:93
作者
Favrin, G [1 ]
Irbäck, A [1 ]
Sjunnesson, F [1 ]
机构
[1] Univ Lund, Dept Theoret Phys, Complex Syst Div, S-22362 Lund, Sweden
关键词
D O I
10.1063/1.1364637
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
We develop a new elementary move for simulations of polymer chains in torsion angle space. The method is flexible and easy to implement. Tentative updates are drawn from a (conformation-dependent) Gaussian distribution that favors approximately local deformations of the chain. The degree of bias is controlled by a parameter b. The method is tested on a reduced model protein with 54 amino acids and the Ramachandran torsion angles as its only degrees of freedom, for different b. Without excessive fine tuning, we find that the effective step size can be increased by a factor of 3 compared to the unbiased b=0 case. The method may be useful for kinetic studies, too. (C) 2001 American Institute of Physics.
引用
收藏
页码:8154 / 8158
页数:5
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