Topological and entropic repulsion in biopolymers

被引：32

作者：

Marenduzzo, D. ^{[1
]}

Orlandini, E.

机构：

[1] Univ Edinburgh, Sch Phys, SUPA, Edinburgh EH9 3JZ, Midlothian, Scotland

来源：

JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT | 2009年

基金：

英国工程与自然科学研究理事会;

关键词：

motif finding (theory); structures and conformations (theory); SPATIAL-ORGANIZATION; POLYGONS; POLYMERS; LINKING;

D O I：

10.1088/1742-5468/2009/09/L09002

中图分类号：

O3 [力学];

学科分类号：

08 ; 0801 ;

摘要：

We estimate numerically the entropic repulsion felt by two or more approaching polymers with fixed topology. Our results complement field theory estimates valid for infinitely long chains. For two loops, the steric contributions to repulsion outweigh the topological one. When many loops come together, the entropy loss scales nonlinearly with their number. This could set a thermodynamic size for a 'rosette', a putative organizing motif of interphase chromosomes.

引用

收藏

页数：11

相关论文

共 25 条

[1] Linking of uniform random polygons in confined spaces [J].

Arsuaga, J. ;

Blackstone, T. ;

Diao, Y. ;

Karadayi, E. ;

Saito, M. .

JOURNAL OF PHYSICS A-MATHEMATICAL AND THEORETICAL, 2007, 40 (09) :1925-1936

[2] Intermingling of chromosome territories in interphase suggests role in translocations and transcription-dependent associations [J].

Branco, Miguel R. ;

Pombo, Ana .

PLOS BIOLOGY, 2006, 4 (05) :780-788

[3] Molecular biology - The organization of replication and transcription [J].

Cook, PR .

SCIENCE, 1999, 284 (5421) :1790-1795

[4]

DEGUCHI T, 1997, LECT KNOT96

[5] STATISTICAL-MECHANICS OF POLYMER NETWORKS OF ANY TOPOLOGY [J].

DUPLANTIER, B .

JOURNAL OF STATISTICAL PHYSICS, 1989, 54 (3-4) :581-680

[6] POLYMER NETWORK OF FIXED TOPOLOGY - RENORMALIZATION, EXACT CRITICAL EXPONENT GAMMA IN 2 DIMENSIONS, AND D=4-EPSILON [J].

DUPLANTIER, B .

PHYSICAL REVIEW LETTERS, 1986, 57 (08) :941-948

[7] OPTIMIZED MONTE-CARLO DATA-ANALYSIS [J].

FERRENBERG, AM ;

SWENDSEN, RH .

PHYSICAL REVIEW LETTERS, 1989, 63 (12) :1195-1198

[8]

GROSBERG AY, 1982, MAKROMOL CHEM-RAPID, V3, P709

[9] Entropy loss in long-distance DNA looping [J].

Hanke, A ;

Metzler, R .

BIOPHYSICAL JOURNAL, 2003, 85 (01) :167-173

[10] Entropy-driven spatial organization of highly confined polymers: Lessons for the bacterial chromosome [J].

Jun, Suckjoon ;

Mulder, Bela .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2006, 103 (33) :12388-12393