[gmx-users] Water removed from system and visualizing protein alone in VMD. But problem in visualization of all frames

[sun]

If I change the representation then the problem occurs actually. Its fine with trajectory, for 10ns, 1001 frames are loaded in VMD. But when I play to visualize, the protein does not move at all. I mean, only one conformation remains in all frames which is not possible, I believe. This error never occured before. One more thing, i have saved cluster.pdb, it goes nice in pymol and all different structures can be viewed. What happens when i change representation?

Sent from my iPhone

> On 05-Feb-2016, at 3:20 pm, Mark Abraham <mark.j.abraham at gmail.com> wrote:
> 
> Hi,
> 
> That works, but only if your full trajectory is small enough to fit in
> memory!
> 
> Mark
> 
>> On Fri, 5 Feb 2016 09:05 Nikhil Maroli <scinikhil at gmail.com> wrote:
>> 
>> HI,
>> simple way is to load the full trajectory and gro file then  change the
>> water draw style and protein draw style,so that you can have a nice look
>> on the structure,separately ..no need to remove anything from the .gro and
>> tpr or xtc
>> Regards
>> Nikhil
>> 
>> 
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