Topological sum rules in the knotting probabilities of DNA
被引:1
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作者:
Deguchi, Tetsuo
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机构:
Ochanomizu Univ, Fac Core Res, Dept Phys, Bunkyo Ku, 2-1-1 Ohtsuka, Tokyo 1128610, JapanOchanomizu Univ, Fac Core Res, Dept Phys, Bunkyo Ku, 2-1-1 Ohtsuka, Tokyo 1128610, Japan
Deguchi, Tetsuo
[1
]
Uehara, Erica
论文数: 0引用数: 0
h-index: 0
机构:
Ochanomizu Univ, Fac Core Res, Dept Phys, Bunkyo Ku, 2-1-1 Ohtsuka, Tokyo 1128610, JapanOchanomizu Univ, Fac Core Res, Dept Phys, Bunkyo Ku, 2-1-1 Ohtsuka, Tokyo 1128610, Japan
Uehara, Erica
[1
]
机构:
[1] Ochanomizu Univ, Fac Core Res, Dept Phys, Bunkyo Ku, 2-1-1 Ohtsuka, Tokyo 1128610, Japan
来源:
TOPOLOGY AND GEOMETRY OF BIOPOLYMERS
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2020年
/
746卷
关键词:
SEMIFLEXIBLE RINGS;
KNOTS;
POLYGONS;
POLYMERS;
D O I:
10.1090/conm/746/15002
中图分类号:
Q5 [生物化学];
Q7 [分子生物学];
学科分类号:
071010 ;
081704 ;
摘要:
We revisit a topological sum rule that the sum of the coefficients (or the amplitudes) of the knotting probabilities of self-avoiding polygons (SAP) over all prime knots is equal to 1. Here we define the coefficient as a fitting parameter of a formula expressing the knotting probability as a function of the number of segments, where the estimates of the fitting parameters are shown to be very close to those of the asymptotic expansion of the knotting probability. We numerically show these results for a model of semi-flexible ring polymers such as circular DNA consisting of cylindrical segments with radius rex of unit length by simulation with several values of rex. From the sum rule we argue that SAPs with the trefoil knot and its descendants are dominant among all SAPs if the excluded volume is large. We also suggest that the knot exponent of a prime knot is smaller than 1 if the excluded volume is very small and it gradually increases to 1 as the excluded volume increases.
机构:
SISSA Scuola Int Super Studi Avanzati, I-34136 Trieste, Italy
CNR IOM Democritos, I-34136 Trieste, ItalySISSA Scuola Int Super Studi Avanzati, I-34136 Trieste, Italy
Micheletti, Cristian
Orlandini, Enzo
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机构:
Univ Padua, Dipartimento Fis & Astron, I-35131 Padua, Italy
Univ Padua, Sez INFN, I-35131 Padua, ItalySISSA Scuola Int Super Studi Avanzati, I-34136 Trieste, Italy
机构:
Lanzhou Univ, Dept Chem, State Key Lab Appl Organ Chem, Lanzhou 730000, Peoples R ChinaLanzhou Univ, Dept Chem, State Key Lab Appl Organ Chem, Lanzhou 730000, Peoples R China
Hu, Guang
Wang, Ze
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机构:
Lanzhou Univ, Dept Chem, State Key Lab Appl Organ Chem, Lanzhou 730000, Peoples R ChinaLanzhou Univ, Dept Chem, State Key Lab Appl Organ Chem, Lanzhou 730000, Peoples R China
Wang, Ze
Qiu, Wen-Yuan
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h-index: 0
机构:
Lanzhou Univ, Dept Chem, State Key Lab Appl Organ Chem, Lanzhou 730000, Peoples R ChinaLanzhou Univ, Dept Chem, State Key Lab Appl Organ Chem, Lanzhou 730000, Peoples R China
机构:
Xiamen Univ, Sch Math Sci, Xiamen 361005, Fujian, Peoples R ChinaXiamen Univ, Sch Math Sci, Xiamen 361005, Fujian, Peoples R China
Jin, Xian'an
Cheng, Xiao-Sheng
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机构:
Xiamen Univ, Sch Math Sci, Xiamen 361005, Fujian, Peoples R China
Huizhou Univ, Dept Math, Huizhou 516007, Guangdong, Peoples R ChinaXiamen Univ, Sch Math Sci, Xiamen 361005, Fujian, Peoples R China