In this study, translocation of a semi flexible polymer through a cylindrical channel have been investigated. A two-dimensional Monte Carlo simulation was employed, by utilizing the bond fluctuation method (BFM) to investigate the translocation processes of a chain length N. To surmount the entropic barrier, the middle monomers of the polymer have been positioned at the center of the pore, which is situated between the CIS and TRANS regions. Consequently, the static properties of a semi-flexible polymer by calculating the mean square end-to-end distance ‹R2› and the mean square radius of gyration ‹R^{g}2› as functions of the chain length (N) have been examined. The mean square end-to-end distance and the mean square radius of gyration are proportional to the number of monomers N as ‹R2› ~ N1.496 and ‹R2g› ~ N1.505 correspondingly for a short cylindrical channel length L = 2, which aligns with the theoretically predicted. These finding indicates that the relationships between ‹R2› and ‹R^{g}2› and the polymer chain size N are strongly influenced by the channel length L. The dynamic properties by analyzing the translocation time of the polymers also studied. Additionally, the relationship between the escape time τ and the polymer chain length N depends on the pore width W, which is equivalent to the diameter of the cylindrical channel. These research demonstrates that the escape time τ decreases as the width increases and escape time τ increases as the chain stiffness increases.
Published in | American Journal of Polymer Science and Technology (Volume 10, Issue 3) |
DOI | 10.11648/j.ajpst.20241003.12 |
Page(s) | 57-66 |
Creative Commons |
This is an Open Access article, distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution and reproduction in any medium or format, provided the original work is properly cited. |
Copyright |
Copyright © The Author(s), 2024. Published by Science Publishing Group |
Semiflexible Polymer, Translocation, MC, BFM, Chain Stiffness
DNA | Deoxyribonucleic Acid |
RNA | Ribonucleic Acid |
EV | Excluded Volume |
MC | Monte Carlo |
MD | Molecular Dynamics |
SAW | Self Avoiding Walk |
BFM | Bond Fluctuating Method |
R | End-to-End Distance |
Rg | Radius of Gyration |
kB | Boltzmann Constant |
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APA Style
Furi, A. T., Asfaw, S. N., Mekonen, G. D. (2024). A Semiflexible Polymer Translocation Through a Cylindrical Channel. American Journal of Polymer Science and Technology, 10(3), 57-66. https://doi.org/10.11648/j.ajpst.20241003.12
ACS Style
Furi, A. T.; Asfaw, S. N.; Mekonen, G. D. A Semiflexible Polymer Translocation Through a Cylindrical Channel. Am. J. Polym. Sci. Technol. 2024, 10(3), 57-66. doi: 10.11648/j.ajpst.20241003.12
AMA Style
Furi AT, Asfaw SN, Mekonen GD. A Semiflexible Polymer Translocation Through a Cylindrical Channel. Am J Polym Sci Technol. 2024;10(3):57-66. doi: 10.11648/j.ajpst.20241003.12
@article{10.11648/j.ajpst.20241003.12, author = {Adugna Terecha Furi and Solomon Negash Asfaw and Gutu Dereje Mekonen}, title = {A Semiflexible Polymer Translocation Through a Cylindrical Channel }, journal = {American Journal of Polymer Science and Technology}, volume = {10}, number = {3}, pages = {57-66}, doi = {10.11648/j.ajpst.20241003.12}, url = {https://doi.org/10.11648/j.ajpst.20241003.12}, eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ajpst.20241003.12}, abstract = {In this study, translocation of a semi flexible polymer through a cylindrical channel have been investigated. A two-dimensional Monte Carlo simulation was employed, by utilizing the bond fluctuation method (BFM) to investigate the translocation processes of a chain length N. To surmount the entropic barrier, the middle monomers of the polymer have been positioned at the center of the pore, which is situated between the CIS and TRANS regions. Consequently, the static properties of a semi-flexible polymer by calculating the mean square end-to-end distance ‹R2› and the mean square radius of gyration ‹Rg2› as functions of the chain length (N) have been examined. The mean square end-to-end distance and the mean square radius of gyration are proportional to the number of monomers N as ‹R2› ~ N1.496 and ‹R2g› ~ N1.505 correspondingly for a short cylindrical channel length L = 2, which aligns with the theoretically predicted. These finding indicates that the relationships between ‹R2› and ‹Rg2› and the polymer chain size N are strongly influenced by the channel length L. The dynamic properties by analyzing the translocation time of the polymers also studied. Additionally, the relationship between the escape time τ and the polymer chain length N depends on the pore width W, which is equivalent to the diameter of the cylindrical channel. These research demonstrates that the escape time τ decreases as the width increases and escape time τ increases as the chain stiffness increases. }, year = {2024} }
TY - JOUR T1 - A Semiflexible Polymer Translocation Through a Cylindrical Channel AU - Adugna Terecha Furi AU - Solomon Negash Asfaw AU - Gutu Dereje Mekonen Y1 - 2024/08/15 PY - 2024 N1 - https://doi.org/10.11648/j.ajpst.20241003.12 DO - 10.11648/j.ajpst.20241003.12 T2 - American Journal of Polymer Science and Technology JF - American Journal of Polymer Science and Technology JO - American Journal of Polymer Science and Technology SP - 57 EP - 66 PB - Science Publishing Group SN - 2575-5986 UR - https://doi.org/10.11648/j.ajpst.20241003.12 AB - In this study, translocation of a semi flexible polymer through a cylindrical channel have been investigated. A two-dimensional Monte Carlo simulation was employed, by utilizing the bond fluctuation method (BFM) to investigate the translocation processes of a chain length N. To surmount the entropic barrier, the middle monomers of the polymer have been positioned at the center of the pore, which is situated between the CIS and TRANS regions. Consequently, the static properties of a semi-flexible polymer by calculating the mean square end-to-end distance ‹R2› and the mean square radius of gyration ‹Rg2› as functions of the chain length (N) have been examined. The mean square end-to-end distance and the mean square radius of gyration are proportional to the number of monomers N as ‹R2› ~ N1.496 and ‹R2g› ~ N1.505 correspondingly for a short cylindrical channel length L = 2, which aligns with the theoretically predicted. These finding indicates that the relationships between ‹R2› and ‹Rg2› and the polymer chain size N are strongly influenced by the channel length L. The dynamic properties by analyzing the translocation time of the polymers also studied. Additionally, the relationship between the escape time τ and the polymer chain length N depends on the pore width W, which is equivalent to the diameter of the cylindrical channel. These research demonstrates that the escape time τ decreases as the width increases and escape time τ increases as the chain stiffness increases. VL - 10 IS - 3 ER -