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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