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normal Visualizing helix in CG structure

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4 years 3 months ago #8398 by bond_007
Visualizing helix in CG structure was created by bond_007
Hi,
I am trying to visualize the MARTINI coarse grained structure using the scripts: cg_bonds-v5.tcl and cg_secondary_structure.tcl.

The scripts work fine, but I was wondering if it can be modified to give a better representation of the secondary structure. The protein I am using has 4 helices and all of them have a curved surface. However, the MARTINI helices are all straight. I am assuming this is because the helix is fit around the CG beads which does not capture the curved nature.

Can the helix structure in the CG description be changed to resemble the atomistic helix more closely?

Thanks,
Adip

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4 years 3 months ago #8400 by riccardo
Replied by riccardo on topic Visualizing helix in CG structure
I really have no experience with this but.. if it's a visualization problem then maybe UnityMol can do it better? Ssee this tweet by Matthieu Chavent:

https://twitter.com/Matth_Chavent/status/1145727900286693376?s=20

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4 years 3 months ago #8408 by bond_007
Replied by bond_007 on topic Visualizing helix in CG structure
Thanks! This looks interesting.

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