Hi,
On Wed., 12 Jun. 2019, 07:47 Prasanth G, Research Scholar, <
prasanthgha...@sssihl.edu.in> wrote:
> Dear Bratin,
>
> Thank you for your prompt response. would using an isotropic pcoupletype
> have any effect on a membrane protein simulation?
>
It will keep the box vectors in the same ratio,
Dear Bratin,
Thank you for your prompt response. would using an isotropic pcoupletype
have any effect on a membrane protein simulation?
If we provide same ref_p values for all three axis (as in the above case)in
a semiisotropic treatment, would this have the same effect as isotropic
treatment?
I w
Hi
This is happening because in ... pressure coupling you mentioned
semi-isotropic ...where the pressure will be uniform in x-y box vector..not
the z direction... that's why your box is becoming rectangular. You can use
isotropic pressure coupling for maintaining the sqare shape of the
box...gen
Dear all,
I am carrying out a simulation of membrane protein with a ligand. I am
using DPPC [slipids (http://www.fos.su.se/~sasha/SLipids/Downloads.html)].
I had modified amber 03 ff by including the non-bonded and bonded
parameters from slipids website as suggested in the tutorial by Justin (
ht