无纽结和有纽结环状DNA的超螺旋能量、沉降常数和回转半径的蒙特卡罗计算 - Suppr

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Monte Carlo computation of the supercoiling energy, the sedimentation constant, and the radius of gyration of unknotted and knotted circular DNA.

作者信息

Le Bret M

出版信息

Biopolymers. 1980 Mar;19(3):619-37. doi: 10.1002/bip.1980.360190312.

DOI:10.1002/bip.1980.360190312

PMID:7357072

Abstract

摘要

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Monte Carlo computation of the supercoiling energy, the sedimentation constant, and the radius of gyration of unknotted and knotted circular DNA.

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相似文献

Monte Carlo computation of the supercoiling energy, the sedimentation constant, and the radius of gyration of unknotted and knotted circular DNA.

Biopolymers. 1980 Mar;19(3):619-37. doi: 10.1002/bip.1980.360190312.

Monte Carlo simulations of supercoiling free energies for unknotted and trefoil knotted DNAs.

Biophys J. 1995 Feb;68(2):619-33. doi: 10.1016/S0006-3495(95)80223-7.

Thermodynamics of the first transition in writhe of a small circular DNA by Monte Carlo simulation.

Biopolymers. 1996 Apr;38(4):493-503. doi: 10.1002/(SICI)1097-0282(199604)38:4%3C493::AID-BIP5%3E3.0.CO;2-O.

DNA supercoiling inhibits DNA knotting.

Nucleic Acids Res. 2008 Sep;36(15):4956-63. doi: 10.1093/nar/gkn467. Epub 2008 Jul 25.

Effect of anisotropy of the bending rigidity on the supercoiling free energy of small circular DNAs.

Biopolymers. 1995 Nov;36(5):633-41. doi: 10.1002/bip.360360509.

Monte Carlo analysis of the conformation of DNA catenanes.

J Mol Biol. 1993 Aug 20;232(4):1130-40. doi: 10.1006/jmbi.1993.1465.

Effect of spontaneous twist on DNA minicircles.

Biophys J. 2010 Nov 3;99(9):2987-94. doi: 10.1016/j.bpj.2010.08.021.

Effects of Na+ and Mg2+ on the structures of supercoiled DNAs: comparison of simulations with experiments.

J Mol Biol. 1996 Sep 20;262(2):105-28. doi: 10.1006/jmbi.1996.0502.

[Study of the interaction between DNA and the medium by the Monte Carlo method].

Dokl Akad Nauk SSSR. 1980;252(2):479-82.

Denaturation of supercoiled DNA: a Monte Carlo study.

Biophys Chem. 1998 Dec 14;75(3):177-86. doi: 10.1016/s0301-4622(98)00204-x.

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Biophys J. 2011 Sep 21;101(6):1403-11. doi: 10.1016/j.bpj.2011.08.011. Epub 2011 Sep 20.

Temperature dependence of DNA persistence length.

Nucleic Acids Res. 2011 Mar;39(4):1419-26. doi: 10.1093/nar/gkq932. Epub 2010 Oct 15.

Tightness of knots in a polymer chain.

Phys Rev E Stat Nonlin Soft Matter Phys. 2010 Apr;81(4 Pt 1):041806. doi: 10.1103/PhysRevE.81.041806. Epub 2010 Apr 26.

Simulation of DNA catenanes.

Phys Chem Chem Phys. 2009 Dec 7;11(45):10543-52. doi: 10.1039/b910812b. Epub 2009 Oct 23.

DNA knots reveal a chiral organization of DNA in phage capsids.

Proc Natl Acad Sci U S A. 2005 Jun 28;102(26):9165-9. doi: 10.1073/pnas.0409323102. Epub 2005 Jun 15.

Simulations of action of DNA topoisomerases to investigate boundaries and shapes of spaces of knots.

Biophys J. 2004 Nov;87(5):2968-75. doi: 10.1529/biophysj.104.045864. Epub 2004 Aug 23.

Equilibrium distributions of topological states in circular DNA: interplay of supercoiling and knotting.

Proc Natl Acad Sci U S A. 1999 Nov 9;96(23):12974-9. doi: 10.1073/pnas.96.23.12974.

Configurational transitions in Fourier series-represented DNA supercoils.

Biophys J. 1997 Oct;73(4):1742-62. doi: 10.1016/S0006-3495(97)78205-5.