Discretizing elastic chains for coarse-grained polymer models

被引:28
作者
Koslover, Elena F. [1 ]
Spakowitz, Andrew J. [1 ,2 ]
机构
[1] Stanford Univ, Biophys Program, Stanford, CA 94305 USA
[2] Stanford Univ, Chem Engn Dept, Stanford, CA 94305 USA
基金
美国国家科学基金会;
关键词
BEAD-SPRING CHAINS; WORM-LIKE CHAIN; PERSISTENCE LENGTH; STRETCHING DNA; RING-CLOSURE; MOLECULE; SIMULATIONS; STATISTICS; MECHANICS; CHROMATIN;
D O I
10.1039/c3sm50311a
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
Studying the statistical and dynamic behavior of semiflexible polymers under complex conditions generally requires discretizing the polymer into a sequence of beads for purposes of simulation. We present a novel approach for generating coarse-grained, discretized polymer models designed to reproduce the polymer statistics at intermediate to long lengths. Our versatile model allows for an arbitrary discretization length and is accurate over a larger range of length scales than the traditional bead-rod and bead-spring models. In its generality, the discrete, stretchable, shearable wormlike chain (dssWLC) model incorporates the anisotropic elasticity inherent in a semielastic chain on intermediate length scales. We demonstrate quantitatively the statistical accuracy of this model at different discretizations, thereby allowing for efficient selection of the number of segments to be simulated. The approach presented in this work provides a systematic procedure for generating coarse-grained discrete models to probe physical properties of a semielastic polymer at arbitrary length scales.
引用
收藏
页码:7016 / 7027
页数:12
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