Re: [PyMOL] Fe in heme disappears

Hi,

Indeed I could not show the iron as nb_spheres but I managed to use
spheres instead.

fetch 4WMZ
as spheres, elem FE
set sphere_scale, 0.4, elem FE

(I am using the open-source version of PyMOL 3.1.0 installed using brew)

Best regards,

Takanori Nakane

On 2025/07/31 12:47, Joel Tyndall via PyMOL-users wrote:
> Hi All,
> 
> I’m trying to make a pretty picture of a protein containing  a heme and 
> ligand. Previously I could delete the bonds (using builderthat pymol 
> shows for coordination as I prefer to not show them as stick form and 
> then “show nb_sphere” to show the metal ion. I can no longer do this (Fe 
> doesn’t show as nb_sphere). When I select the HEM in SEQ view, it is 
> still there but I cant . It is part of the HEM residue no a single ion.
> 
> Using 4WMZ; PyMOL 3.1.3
> 
> Any suggestions?
> 
> J
> 
> University of Otago
> 
> 	
> 
> *Professor Joel Tyndall*
> 
> BSc(Hons) PhD
> 
> School of Pharmacy | He Rau Kawakawa
> University of Otago | Ōtākou Whakaihu Waka
> Mobile//Waea pūkoro/ +64 21 051 0940
> 
> Dunedin| Ōtepoti
> PO Box 56, Dunedin 9054
> New Zealand | Aotearoa
> 
> 
> 
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