Hi Berk,
I used weak berendsen temperature coupling with tau_t = 0.1 and a ref_t
of 298.15 K. My average temperature during the NPT run (disregarding the
first 100 ps) is ca. 298.20 K (as given by g_energy).
I had another question to you, Berk, in my last mail to the list maybe
two hours ago, regarding your Orientation Restraints algorithm. Have you
seen this or should I repost it?
Best regards,
Andreas
Berk Hess wrote:
------------------------------------------------------------------------
> Date: Wed, 12 Mar 2008 12:31:12 +0100
> From: [EMAIL PROTECTED]
> To: gmx-users@gromacs.org
> Subject: [gmx-users] Re: DMSO G53a6 FF in Gromacs
>
> Hi Berk,
>
> Thanks for replying so quick. I made it rigid in that way that I used
> bonded interactions also for the groups that are not directly connected
> (FF parameters gb_49 & gb_50) and then applied all-bond SHAKE. For the
> other bonds I used gb_41, gb42 and for the three angles ga_45 and ga_46.
>
> Andreas
There could be another issue.
With reaction-field you always introduce integration errors.
With water this leads to a temperature of 305 K when Berendsen coupling
to 300 K with tau_t=0.1 ps and the Gromos cut-off setup.
In Gromos there is/was a problem with inconsistent ways of determining
the temperature. Therefore the effective temperature in the simulation
can be several degrees higher than the one reported in the paper.
What coupling method did you use and what is your real temperature?
Berk.
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