Characteristic length of the knotting probability revisited.
We present a self-avoiding polygon (SAP) model for circular DNA in which the radius of impermeable cylindrical segments corresponds to the screening length of double-stranded DNA surrounded by counter ions. For the model we evaluate the probability for a generated SAP with N segments having a given knot K through simulation. We call it the knotting probability of a knot K with N segments for the SAP model. We show that when N is large the most significant factor in the knotting probability is given by the exponentially decaying part exp(-N/NK), where the estimates of parameter NK are consistent with the same value for all the different knots we investigated. We thus call it the characteristic length of the knotting probability. We give formulae expressing the characteristic length as a function of the cylindrical radius rex, i.e. the screening length of double-stranded DNA.
Department of Physics, Graduate School of Humanities and Sciences, Ochanomizu University 2-1-1 Ohtsuka, Bunkyo-ku, Tokyo 112-8610, Japan.
Erica
E
Uehara
Tetsuo
T
Deguchi
D000465:Algorithms; D003198:Computer Simulation; D004247:DNA / Q000737:chemistry*; D004270:DNA, Circular / Q000737:chemistry*; D006801:Humans; D008956:Models, Chemical; D009010:Monte Carlo Method; D009690:Nucleic Acid Conformation
D004270:DNA, Circular; D004247:DNA