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A. M. Astakhov

Publications and source records attributed to A. M. Astakhov.

2 recordsLinked to original sources

Fractional Brownian motion meets topology: statistical and topological properties of globular macromolecules with volume interactions

In the paper we investigate statistical and topological properties of fractional Brownian polymer chains, equipped with the short-range volume interactions. The attention is paid to statistical properties of collapsed conformations with the fractal dimension $D_f\ge 2$ in the three-dimensional space, which are analyzed both numerically and \textit{via} the mean-field Flory approach. Our study is motivated by an attempt to mimic the conformational statistics of collapsed unknotted polymer rings, which are known to form compact hierarchical crumpled globules (CG) with $D_f=3$ at large scales. Replacing the topologically-stabilized CG state by a self-avoiding fractal path adjusted to the fractal dimension $D_f=3$ we tremendously simplify the problem of generating compact self-avoiding conformations since we wash out the topological constraints from the consideration. We make use of the Monte-Carlo simulations to prepare the equilibrium ensemble of swollen chains with various fractal dimensions. A combination of the Flory arguments with statistical analysis of the conformations from simulations allows one to infer the dependence of the critical exponent of the swollen chains on the fractal dimension of the seed chain. We show that with the increase of $D_f$, typical conformations become more territorial and less knotted. Distributions of the knot complexity, $P(χ)$ for various fractal dimensions of the swollen chains suggest a close relationship between statistical and topological properties of fractal paths with volume interactions.

cond-mat.soft↗

Statistical Properties of a Polymer Globule Formed during Collapse with the Irreversible Coalescence of Units

Collapse of the polymer chain upon the sharp decrease of solvent quality is studied. During collapse, any pair of polymer units appearing in a sufficiently close vicinity in space has the possibility with a certain probability to form an irreversible crosslink, thereby preventing the interpenetration of chain material between the forming clusters. Globular structures having different spatial chain packing at various scales are obtained by computer simulations. It is shown that the dependence of probability of contact between two monomers in space , where s is a distance between monomers along chain, reproduces a number of characteristic features observed previously in experiments on the analysis of three-dimensional chromatin packing. The cluster analysis of intramolecular contact maps makes it possible to express the hypothesis that there are characteristic discrete hierarchical levels in polymer packing associated with the number-theoretic origin of rare-event statistics and inherent to individual maps of intra- and interchromosomal contacts.

cond-mat.soft↗