The thermostat coupling term

[Haifa1]

Is conserved energy include the thermostat coupling term ?

[hess]

Yes, otherwise the conserved energy quantity wouldn’t be conserved.

[Haifa1]

Thanks a lot for your answer, actually when I used gmx energy to plot conserved energy this what I found:

[hess]

That looks normal. The drift you see is likely due to the finite verlet-buffer-tolerance and the accuracy of the constraint algorithm(s). This is nothing to worry about.

[Haifa1]

Thanks a lot hess, I appreciate your help

[Haifa1]

What about this, the figures represent the following:
Temperature, Conserved energy, and total energy