[gmx-users] Angle parameters in Amber port and in Gromacs
lindahl at cbr.su.se
Sun Jun 17 14:01:48 CEST 2007
If you convert the unit to kcal/mol you'll find that both potentials
are likely coarse approximations - roughly 120 degrees equilibrium
angle, and roughly 70kcal/mol for the force constant.
On Jun 16, 2007, at 6:55 AM, Mark Abraham wrote:
>> While performing simulations of urea in water using the AMBER
>> for GROMACS, I noticed that the harmonic angle potential
>> parameters in
>> AMBER99 port (in ffamber99bon.itp) for the angle HNH
>> (hydrogen-nitrogen-hydrogen) are (120,292.88), which are exactly the
>> same parameters used by GROMACS but for the angle CNH
>> (carbon-nitrogen-hydrogen) in the urea.itp file in the /top folder!
>> I was just wondering if the values in AMBER port are correct or if
>> is any possibility that the line with these parameters was written in
>> the wrong place in the ffamber99bon.itp .
> Don't know, but if you read the paper that describes the
> development of
> these parameters, you'd find out.
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