Sequence dependence of the binding energy in chaperone-driven polymer translocation through a nanopore
We study the translocation of stiff polymers through a nanopore, driven by the chemical-
potential gradient exerted by binding proteins (chaperones) on the trans side of the pore …
potential gradient exerted by binding proteins (chaperones) on the trans side of the pore …
Chaperone-assisted translocation of flexible polymers in three dimensions
PM Suhonen, RP Linna - Physical Review E, 2016 - APS
Polymer translocation through a nanometer-scale pore assisted by chaperones binding to
the polymer is a process encountered in vivo for proteins. Studying the relevant models by …
the polymer is a process encountered in vivo for proteins. Studying the relevant models by …
A Brownian ratchet for protein translocation including dissociation of ratcheting sites
A Depperschmidt, N Ketterer, P Pfaffelhuber - Journal of mathematical …, 2013 - Springer
We study a model for the translocation of proteins across membranes through a nanopore
using a ratcheting mechanism. When the protein enters the nanopore it diffuses in and out of …
using a ratcheting mechanism. When the protein enters the nanopore it diffuses in and out of …
Competing islands limit the rate of adaptation in structured populations
C Pokalyuk, LA Mathew, D Metzler… - Theoretical population …, 2013 - Elsevier
Beneficial mutations can co-occur when population structure slows down adaptation. Here,
we consider the process of adaptation in asexual populations distributed over several …
we consider the process of adaptation in asexual populations distributed over several …
Asymptotic properties of certain diffusion ratchets with locally negative drift
A Depperschmidt, S Götz - arXiv preprint arXiv:1202.1001, 2012 - arxiv.org
We consider two reflecting diffusion processes $(X_t) _ {t\ge 0} $ with a moving reflection
boundary given by a non-decreasing pure jump Markov process $(R_t) _ {t\ge 0} $. Between …
boundary given by a non-decreasing pure jump Markov process $(R_t) _ {t\ge 0} $. Between …
Realistic extensions of a Brownian ratchet for protein translocation
A Depperschmidt, N Ketterer, P Pfaffelhuber - arXiv preprint arXiv …, 2011 - arxiv.org
We study a model for the translocation of proteins across membranes through a nanopore
using a ratcheting mechanism. When the protein enters the nanopore it diffuses in and out of …
using a ratcheting mechanism. When the protein enters the nanopore it diffuses in and out of …