Dear Gromacs users,
I am trying to evaluate entropic contributions for a protein-protein
complex using the gmx covar module and then gmx anaeig. When I directly run
the command "gmx covar -f prod.xtc -s prod.tpr -n index.ndx -o eigenval.xvg
-v eigenval.trr -av average.pdb -l covar.log", the progra
Dear Gromacs Users,
I am working on a protein, which is known to cleave few GPI-anchor proteins
(Glycosylphosphatidylinisotol). Also, I know that there are several other
candidate GPI-anchor proteins which may or may not be cleaved by my protein
of interest. I was wondering, if there is any tool/m
Thanks a lot Justin. It worked :)
On Wed, May 21, 2014 at 5:45 PM, Justin Lemkul wrote:
>
>
> On 5/21/14, 8:13 AM, Aditya Padhi wrote:
>
>> Dear Justin,
>> Thank you for the reply. I was using my 50 ns trajectory for
>> generating the .xpm and .eps fil
files. Please suggest me.
Thanking you,
Regards
Aditya.
On Wed, May 21, 2014 at 5:32 PM, Justin Lemkul wrote:
>
>
> On 5/21/14, 7:56 AM, Aditya Padhi wrote:
>
>> Dear Gromacs users,
>> When I am using the DSSP program to generate the secondary
>> structure c
Dear Gromacs users,
When I am using the DSSP program to generate the secondary
structure changes of my protein (23 amino acids) and its mainchain, I am
getting the results in the form of .eps file and using Ghostview, I
visualized and saved in .jpeg format. But the figure looks blurred and
