[chimerax-users] Cartoon “Highlight color” and “Suppress false” Feature

[Gupta, Arun]

Hello Elaine,

Thanks for your reply. Now, I know what was going wrong in my script for NMR ensemble models. I was giving the "cartoon suppress false " command before  the "show " command.

My wording was probably wrong which might have confused you. Actually, I was interested to know whether  the following "Cartoon highlight color" feature has been  updated in the newer version of the ChimeraX ?

https://pymolwiki.org/index.php/Cartoon_highlight_color
Cartoon highlight color - PyMOLWiki<https://pymolwiki.org/index.php/Cartoon_highlight_color>
Overview. This setting allows one to specify a contrasting color for the interior face of helices and the side faces of strands. Settings
pymolwiki.org

Thanks & Regards
Arun

Arun Gupta PhD, MRSC
Research Fellow
Challis & Lewandowski Group
Chemistry Department
University of Warwick
Gibbet Hill Road
Coventry CV4 7AL
United Kingdom
________________________________
From: Elaine Meng <meng at cgl.ucsf.edu>
Sent: Tuesday, May 10, 2022 5:50 PM
To: Gupta, Arun <Arun.Gupta at warwick.ac.uk>
Cc: ChimeraX-users at cgl.ucsf.edu <chimerax-users at cgl.ucsf.edu>
Subject: Re: [chimerax-users] Cartoon “Highlight color” and “Suppress false” Feature

Hello Arun,
There is nothing called "Pymol Cartoon highlight color" in ChimeraX, but maybe if you explain what it is, you can do the same coloring in ChimeraX.

"cartoon suppress false" works fine for me on NMR models, but be advised that it does not turn on the display of the backbone atoms... you still have to display the ones you actually want to show.  E.g.

open 1g1p
show :1-5 at n,ca,c,o
cartoon suppress false
tile
undo

I hope this helps,
Elaine
-----
Elaine C. Meng, Ph.D.
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco

> On May 10, 2022, at 8:53 AM, Gupta, Arun via ChimeraX-users <chimerax-users at cgl.ucsf.edu> wrote:
>
> Hello ChimeraX team,
> I am just wondering whether the “Pymol Cartoon highlight color” feature of helix and strand has been brought in the newer or the daily build versions of the ChimeraX. Someone has been just recently verbally referring to me that this feature has been updated in the newer versions of ChimeraX, but I couldn’t locate the mention in the ChimeraX mailing list.
>
> Also, I have noticed that “cartoon suppress false” command doesn’t work for the NMR ensemble PDBs I think it's more to do with specifying the “cartoon suppress false” command for the individual PDB model within ensemble PDBs. I did try to play around with selection notation for individual model with “cartoon suppress false” command but couldn’t get it right.  Can you please specify the exact command notation to work around with NMR ensemble PDBs
> Thanks!
> Arun

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