Length-dependent residence time of contacts in simple polymeric models
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arXiv
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| Autori principali: | , |
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| Natura: | Preprint |
| Pubblicazione: |
2024
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| _version_ | 1866916529668358144 |
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| author | Marchi, E. Tiana, G. |
| author_facet | Marchi, E. Tiana, G. |
| contents | Starting from the reported experimental evidence that the residence time of contacts between the ends of biopolymers is length dependent, we investigate the kinetics of contact breaking in simple polymer models from a theoretical point of view. We solved Kramers equation first for an ideal chain and then for a polymer with attracting ends, and compared the predictions with the results of molecular dynamics simulations. We found that the mean residence time always shows a power--law dependence on the length of the polymer with exponent $-1$, although is significantly smaller when obtained from the analysis of a single trajectory than when calculated from independent initial conformations. Only when the interaction is strong (>>kT) and the interaction range is small (of the order of the distance between consecutive monomers) does the residence time converge to that of the Arrhenius equation, independent of the length. We are able to provide expressions of the mean residence time for cases when the exact definition of contact is not available a priori, expressions that can be useful in typical cases of microscopy experiments. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2412_13563 |
| institution | arXiv |
| publishDate | 2024 |
| record_format | arxiv |
| spellingShingle | Length-dependent residence time of contacts in simple polymeric models Marchi, E. Tiana, G. Soft Condensed Matter Biomolecules Starting from the reported experimental evidence that the residence time of contacts between the ends of biopolymers is length dependent, we investigate the kinetics of contact breaking in simple polymer models from a theoretical point of view. We solved Kramers equation first for an ideal chain and then for a polymer with attracting ends, and compared the predictions with the results of molecular dynamics simulations. We found that the mean residence time always shows a power--law dependence on the length of the polymer with exponent $-1$, although is significantly smaller when obtained from the analysis of a single trajectory than when calculated from independent initial conformations. Only when the interaction is strong (>>kT) and the interaction range is small (of the order of the distance between consecutive monomers) does the residence time converge to that of the Arrhenius equation, independent of the length. We are able to provide expressions of the mean residence time for cases when the exact definition of contact is not available a priori, expressions that can be useful in typical cases of microscopy experiments. |
| title | Length-dependent residence time of contacts in simple polymeric models |
| topic | Soft Condensed Matter Biomolecules |
| url | https://arxiv.org/abs/2412.13563 |