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Many theoretical works have attempted to coarse grain gene expression at thelevel of transcription and translation via frameworks based on exclusionprocesses. Usually in these models the three-dimensional conformation of thesubstrates (DNA and mRNA) is neglected, and particles move on a staticunidimensional lattice in contact to an infinite reservoir. In this work wegeneralise the paradigmatic exclusion process and study the transport ofparticles along a unidimensional polymer-like flexible lattice immersed in athree-dimensional particle reservoir. We study the recycling of particles inthe reservoir, how the transport is influenced by the global conformation ofthe lattice and, in turn, how particle density dictates the structure of thepolymer.

Driven transport on a flexible polymer with particle recycling: a model inspired by transcription and translation