[PyMOL] Surface not including methyl-lysine

[ahoneg <ann...@uz...>]

> 
> Message: 4
> Date: Wed, 24 May 2017 16:45:23 +0800 (GMT+08:00)
> From: ??? <liu...@si...>
> Subject: [PyMOL] show surface on pymol
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> Dear Madem/Sir,
> 
> I am a user of Pymol software. Pymol facilitates me a lot during my study. I have a problem and maybe need your help. I want to show surface of a ligand in which there is a methylated lysine. Other residues are OK except the methylated lysine. Could you help me to deal with this problem? Should I install any plugin that can recognize molecules like methylated lysine or anything? Thanks a lot.
> 
> Yanchao Liu
> 
> Shanghai Institute of Biochemistry and Cell Biology.
> 
> Shanghai Institutes for Biological Sciences.
> 
> Chinese Academy of Sciences. 
> 
> 320 Yueyang Road ,Shanghai 200031,China.

Dear Yanchao Liu

Try “set surface_mode,1”
With the default surface mode 0, heteroatom are not included in the surface, with surface mode 1 they are.
Of course, if you have other heterosexual-compounds like ligands and buffer components in the same object,
you might first want to either remove these or extract them to a different object.

Annemarie