The radial distribution function of worm-like chains

被引:49
作者
Becker, N. B. [1 ]
Rosa, A. [2 ]
Everaers, R. [1 ]
机构
[1] Univ Lyon, Phys Lab, Ecole Normale Super Lyon, CNRS,UMR 5672, F-69364 Lyon 07, France
[2] Inst Biocomputat & Phys Complex Syst BIFI, Zaragoza 50009, Spain
关键词
SEMIFLEXIBLE POLYMERS; FREE-ENERGY; DNA; ELASTICITY;
D O I
10.1140/epje/i2010-10596-0
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
Thermal conformations of semiflexible macromolecules are generically described by the worm-like chain model. The end-to-end distance distribution, a fundamental quantity of the model, is not yet known in closed form. We provide a solution to the practical problem of choosing an appropriate approximation. First, a comprehensive review of existing approximations and exact limiting results is given. We then propose an explicit expression which interpolates between all relevant limiting cases. We show that it accurately reproduces, at no computational cost, high-precision Monte Carlo data, covering a wide range from stiff to flexible chains and from looped to fully stretched configurations. Using this result we quantify the enhancement of short worm-like loop formation by (protein) bridges.
引用
收藏
页码:53 / 69
页数:17
相关论文
共 30 条
[1]   Geometry of mediating protein affects the probability of loop formation in DNA [J].
Agrawal, Neerai J. ;
Radhakrishnan, Ravi ;
Purohit, Prashant K. .
BIOPHYSICAL JOURNAL, 2008, 94 (08) :3150-3158
[2]   10 Years of Tension on Chromatin: Results from Single Molecule Force Spectroscopy [J].
Chien, Fan-Tso ;
van Noort, John .
CURRENT PHARMACEUTICAL BIOTECHNOLOGY, 2009, 10 (05) :474-485
[3]  
DANIELS HE, 1952, P ROY SOC EDINB A, V63, P290, DOI DOI 10.1017/S0080454100007160
[4]   Effective medium theory of semiflexible filamentous networks [J].
Das, Moumita ;
MacKintosh, F. C. ;
Levine, Alex J. .
PHYSICAL REVIEW LETTERS, 2007, 99 (03)
[5]   Triple minima in the free energy of semiflexible polymers [J].
Dhar, A ;
Chaudhuri, D .
PHYSICAL REVIEW LETTERS, 2002, 89 (06) :065502/1-065502/4
[6]   Protein-mediated DNA loops: Effects of protein bridge size and kinks [J].
Douarche, N ;
Cocco, S .
PHYSICAL REVIEW E, 2005, 72 (06)
[7]   OPTIMIZED MONTE-CARLO DATA-ANALYSIS [J].
FERRENBERG, AM ;
SWENDSEN, RH .
PHYSICAL REVIEW LETTERS, 1989, 63 (12) :1195-1198
[8]  
HEBISCH W, 1992, J REINE ANGEW MATH, V423, P1
[9]  
KRATKY O, 1949, RECL TRAV CHIM PAY B, V68, P1106
[10]   Apparent persistence length renormalization of bent DNA [J].
Kulic, IM ;
Mohrbach, H ;
Lobaskin, V ;
Thaokar, R ;
Schiessel, H .
PHYSICAL REVIEW E, 2005, 72 (04)