Can VMD change its cartoon representation for secondary structure according to trajectories?

Asked Jan 30 '18 at 11:57

Active Nov 17 '20 at 11:57

Viewed 126 times

I am using VMD to visualise the secondary structure of protein here.

The trajectories are from my Gromacs simulation. Firstly I use File - New Molecule... to load the protein.gro file. Secondly I use File - Load Data into Molecule... to load my protein.xtc trajectories.

Then I use Cartoon to visulise the structure. As I drag the time frames, all the secondary structures (e.g. alpha-helix, beta-sheet) stay the same. But I am pretty sure some of them are changing, as I look into the Timeline analysis for secondary structure.

how do I use VMD to see the secondary structures at different time frames?
Is there an alternative software that can do this?

edited Nov 17 '20 at 11:57

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asked Jan 30 '18 at 11:57

lanselibai

Try here: https://mattermodeling.stackexchange.com/. There's way more VMD questions there. – user1271772 Dec 07 '20 at 02:55
Can I move my questions there? – lanselibai Dec 07 '20 at 15:35
copy and paste them. – user1271772 Dec 07 '20 at 16:00
I’m voting to close this question because it seems to be a better fit for another community. – gringer Jul 04 '21 at 04:53

Can VMD change its cartoon representation for secondary structure according to trajectories?

0 Answers0