Multiscale Entanglement in Ring Polymers under Spherical Confinement

被引:54
作者
Tubiana, Luca [1 ]
Orlandini, Enzo [2 ,3 ]
Micheletti, Cristian [1 ]
机构
[1] SISSA, I-34136 Trieste, Italy
[2] Univ Padua, Dipartimento Fis G Galilei, I-35100 Padua, Italy
[3] Sezione Ist Nazl Fis Nucl, I-35100 Padua, Italy
关键词
KNOTS; DNA; PHYSICS; ORGANIZATION; CAPSIDS; GLOBULE; WALKS; MODEL;
D O I
10.1103/PhysRevLett.107.188302
中图分类号
O4 [物理学];
学科分类号
0702 ;
摘要
The interplay of geometrical and topological entanglement in semiflexible knotted polymer rings confined inside a spherical cavity is investigated by using advanced numerical methods. By using stringent and robust algorithms for locating knots, we characterize how the knot length l(k) depends on the ring contour length L(c) and the radius of the confining sphere R(c). In the no-and strong-confinement cases, we observe weak knot localization and complete knot delocalization, respectively. We show that the complex interplay of l(k), L(c), and R(c) that seamlessly bridges these two limits can be encompassed by a simple scaling argument based on deflection theory. The same argument is used to rationalize the multiscale character of the entanglement that emerges with increasing confinement.
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页数:4
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共 32 条
[11]   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
[12]   Tightness of random knotting [J].
Katritch, V ;
Olson, WK ;
Vologodskii, A ;
Dubochet, J ;
Stasiak, A .
PHYSICAL REVIEW E, 2000, 61 (05) :5545-5549
[13]   Geometry and physics of knots [J].
Katritch, V ;
Bednar, J ;
Michoud, D ;
Scharein, RG ;
Dubochet, J ;
Stasiak, A .
NATURE, 1996, 384 (6605) :142-145
[14]   EFFECT OF EXCLUDED VOLUME ON TOPOLOGICAL PROPERTIES OF CIRCULAR DNA [J].
KLENIN, KV ;
VOLOGODSKII, AV ;
ANSHELEVICH, VV ;
DYKHNE, AM ;
FRANKKAMENETSKII, MD .
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS, 1988, 5 (06) :1173-1185
[15]   Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome [J].
Lieberman-Aiden, Erez ;
van Berkum, Nynke L. ;
Williams, Louise ;
Imakaev, Maxim ;
Ragoczy, Tobias ;
Telling, Agnes ;
Amit, Ido ;
Lajoie, Bryan R. ;
Sabo, Peter J. ;
Dorschner, Michael O. ;
Sandstrom, Richard ;
Bernstein, Bradley ;
Bender, M. A. ;
Groudine, Mark ;
Gnirke, Andreas ;
Stamatoyannopoulos, John ;
Mirny, Leonid A. ;
Lander, Eric S. ;
Dekker, Job .
SCIENCE, 2009, 326 (5950) :289-293
[16]   Properties of knotted ring polymers. I. Equilibrium dimensions [J].
Mansfield, Marc L. ;
Douglas, Jack F. .
JOURNAL OF CHEMICAL PHYSICS, 2010, 133 (04)
[17]   Size of knots in ring polymers [J].
Marcone, B. ;
Orlandini, E. ;
Stella, A. L. ;
Zonta, F. .
PHYSICAL REVIEW E, 2007, 75 (04)
[18]   Biopolymer organization upon confinement [J].
Marenduzzo, D. ;
Micheletti, C. ;
Orlandini, E. .
JOURNAL OF PHYSICS-CONDENSED MATTER, 2010, 22 (28)
[19]  
Marenduzzo D, 2009, P NATL ACAD SCI USA, V106, P22269, DOI [10.1073/pnas.0907524106, 10.1073/pnas.0907S24106]
[20]   Knot-Controlled Ejection of a Polymer from a Virus Capsid [J].
Matthews, Richard ;
Louis, A. A. ;
Yeomans, J. M. .
PHYSICAL REVIEW LETTERS, 2009, 102 (08)