18 citations · 29 across the 3 of their papers we have counts for
3 papers · 1 filter
Facilitated diffusion of DNA-binding proteins: Efficient simulation with the method of excess collisions (MEC)
Holger Merlitz, Konstantin V. Klenin, Chen-Xu Wu +1
In this paper, a new method to efficiently simulate diffusion controlled second order chemical reactions is derived and applied to site-specific DNA-binding proteins. The protein e…
In silicio stretching of chromatin
Frank Aumann, Filip Lankas, Maiwen Caudron +1
We present Monte-Carlo (MC) simulations of the stretching of a single 30 nm chromatin fiber. The model approximates the DNA by a flexible polymer chain with Debye-Hückel electrosta…
Facilitated diffusion of DNA-binding proteins
Konstantin V. Klenin, Holger Merlitz, Joerg Langowski +1
The diffusion-controlled limit of reaction times for site-specific DNA-binding proteins is derived from first principles. We follow the generally accepted concept that a protein pr…