Dear Mohammad
I will look into this.
In the meantime, you should be able to run it on the command line
pymol -r PDB_plugin.py -- mmCIF_file=YOUR_MMCIF_FILE
where YOUR_MMCIF_FILE is a mmCIF file downloaded from the PDB.
Regards
John
From: Mohammad Goodarzi [mailto:mohammad.goda...@gmail.com]
Sent: 16 August 2018 20:58
To: j...@ebi.ac.uk
Cc: pymol-users@lists.sourceforge.net
Subject: Re: [PyMOL] Color change of different domain
Hi John,
How can I add this to pymol on Mac? I don't see any plugin manager for mac
version, can you please put a comment ?
Thanks
Mohammad
On Thu, Aug 16, 2018 at 1:24 AM John Berrisford <j...@ebi.ac.uk
<mailto:j...@ebi.ac.uk> > wrote:
Dear Mohammad
Please see the PDB plugin which colours each sequence or structural domain
differently.
https://pymolwiki.org/index.php/PDB_plugin
This is used to produce the images on the PDBe web pages.
For example see a titin with multiple copies of a CATH domain.
https://www.ebi.ac.uk/pdbe/entry/pdb/2rjm/biology
Regards
John
From: Mohammad Goodarzi [mailto:mohammad.goda...@gmail.com
<mailto:mohammad.goda...@gmail.com> ]
Sent: 08 August 2018 16:13
To: pymol-users@lists.sourceforge.net
<mailto:pymol-users@lists.sourceforge.net>
Subject: [PyMOL] Color change of different domain
I have a protein in PDB called "3E9D"
I first get the seqeuence then I go here
https://www.ncbi.nlm.nih.gov/Structure/cdd/wrpsb.cgi
and I find the domains. Now I am trying to change the color accordingly
Now I am trying to change the color of each domain with different color
first I change the background to white
bg_color white
show cartoon
hide lines
Can you please tell me how to change the color of each domain to different
colors ?
Thanks
Mohammad
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