Equilibration of light and dark state

Here is our first movie from the modeling, showing the behavior of the protein in the dark state condition: Dark State

Dark state

After having modified some parameters in the parameter files, here is our second movie, concerning the light state of the protein this time, with the FMN: Light State

Light state

Analysis

• Maxwell-Boltzmann Energy Distribution

We obtain the following histogramm!

• Temperature

Using EXCEL, we obtain the following graph, which represents the evolution of the temperature in function of time:

The first part corresponds the the heating, then we let the system reach an equilibrium (NPT state), a NVT portion, and finally a NPT portion again.

• Density

Using EXCEL, we obtain the following graph, which represents the evolution of the density in function of time:

<img src="">

The first part corresponds the the heating, then we let the system reach an equilibrium (NPT state), a NVT portion, and finally a NPT portion again.

Differential analysis