NOTICE: All files are provided as is without warranty. All files are published under the GNU public license 2.0 (see LICENSE). They are free to be used or modified. If you use these files, please cite the respective manuscript.
This repository contains two versions of the integrase models.
In directory "fullModel" the MATLAB files are provided to simulate the in vitro experiments with and without Reaction Directionality Factors (RDFs), which were presented in the manuscript:
Pokhilko et al (2016). The mechanism of ϕC31 integrase directionality: experimental analysis and computational modelling. Nucleic Acids Res. 44(15):7360-72. doi: 10.1093/nar/gkw616.
In the directory "minimalModel" a highly reduced model is presented, which illustrates the principles how the reversibility is achieved without violating fundamental thermodynamic principles. The paper is currently under revision.