Aditi Borkar wrote:
Dear Rui,
Thanx for the explanation. I did not know that VMD only calculates the
secondary structure fort he first frame only. Is there an option to
calculate the secondary structure (say in New cartoon representation)
of all the frames in the trajectory?
You can use th
Dear Rui,
Thanx for the explanation. I did not know that VMD only calculates the
secondary structure fort he first frame only. Is there an option to
calculate the secondary structure (say in New cartoon representation)
of all the frames in the trajectory?
On Thu, Sep 24, 2009 at 5:39 PM, J. Rui
Dear Aditi,
What do you mean with "evolution of the protein structure"? Are you referring to
*secondary structure*? By default, VMD only calculates it for the first
trajectory frame.
--Rui
On Thu, 24 Sep 2009 10:51:04 +0530, Aditi Borkar wrote
> Dear All,
>
> When I am loading the GROMACS tra
Thanx Omer.
I have already tried both ways suggested by you here. But they do not
seem to work.
On Thu, Sep 24, 2009 at 1:23 PM, Omer Markovitch wrote:
> How do you run vmd?
> The first argument should be a GRO or PDB file, and the second argument is
> the TRR or XTC trajectory.
> Alternatively,
How do you run vmd?
The first argument should be a GRO or PDB file, and the second argument is
the TRR or XTC trajectory.
Alternatively, you can open a new molecule in vmd and than load data into
that molecule.
--Omer.
On Thu, Sep 24, 2009 at 08:21, Aditi Borkar wrote:
> Dear All,
>
> When I am
Dear All,
When I am loading the GROMACS trajectory in VMD, I cannot the
evolution of the protein structure with time.
When I am creating pdb files from the trajectory at different time
steps using the dump option, I do see changes in the protein structure
with time. My final structure after the M
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