2017/05/09 by Moumita Ganguly, Ganguly, Moumita, Aniruddha Chakraborty +1
Biochemistry, Genetics and Molecular Biology · Chemistry · Engineering · Mathematics · #Advanced Physical and Chemical Molecular Interactions #DNA and Nucleic Acid Chemistry #Differential Equations and Boundary Problems #FOS: Physical sciences #Molecular Junctions and Nanostructures #Numerical methods for differential equations #Protein Structure and Dynamics #Soft Condensed Matter (cond-mat.soft)
paper · pdf · doi:10.48550/arxiv.1705.08238
openalex publication_date 2017/05/09 · openalex created_date 2022/10/03 · openalex updated_date 2026/07/28
In this paper, the looping kinetics of a long polymer chain in solution has\nbeen investigated by using two state model, where one state represents open\nchain polymer molecule and the other represents closed chain polymer molecule.\nThe dynamics of end-to end distance of both open chain and closed chain polymer\nis represented by a Smoluchowski-like equation for a single particle under two\ndifferent harmonic potentials. The coupling between these two potentials are\nassumed to be a Dirac Delta function in our model. We evaluate two rate\nconstants, the long term and the average rate constant. We have also\nincorporated the effect of all other chemical reactions involving at least one\nend of the open chain polymer molecule - on rate of end-to-end loop formation.\nThe closed chain polymer molecule can be converted to a open chain molecule by\nbreaking of any bond - the effect of this reaction on the rate of end-to-end\nloop formation is also considered in our model.\n