[PyMOL] HELIX and SHEET records not read by Pymol

Dear All, Pymol seems to ignore the HELIX and SHEET records in my coordinate file, and instead assigns secondary structural features according to the default method. Unless my understanding is flawed, these records should override Pymol's assignment...? I generated the records with the Stride

Re: [PyMOL] HELIX and SHEET records not read by Pymol

ad stride.pdb and raw.pdb with PyMOL > -> Result: Cartoons differ > > Cheers, > Thomas > > > On Aug 20, 2019, at 11:05 AM, Chris Fage wrote: > > > > Dear All, > > > > Pymol seems to ignore the HELIX and SHEET records in my coordinate file, >

Re: [PyMOL] [EXTERNAL] Apply valence settings to an object

Biomedical Research Center (BRC) Rm. 466 > 975 NE 10th Street, BRC 466 > Oklahoma City, OK 73104-5419 > > > From: Chris Fage [fage...@gmail.com] > Sent: Friday, April 10, 2020 2:00 PM > To: pymol-users@lists.sourceforge.net > Subject: [EXTERNAL] [PyMOL] Apply

[PyMOL] Apply valence settings to an object

Dear Pymol Fanatics, I would like to show the valence of ligand bonds only and not those of the surrounding amino acid residues. Is there any easy way to do this, aside from manually editing every bond? I’m also curious how one would set the stick_ball setting for a single object and not the rest

Re: [PyMOL] Coloring different carbons differently

Hello, You can always change the selection mode from residues to atoms (Mouse > Selection Mode > Atoms, at least in my version of Pymol). Then, select the appropriate atoms and change the color for that selection. I'm sure there are more sophisticated ways of doing this with the command line, but

Re: [PyMOL] Coloring different carbons differently

Hello again, Here’s a simple command for selecting four specific atoms in the ligand hemoglobin (HEM): sele resn HEM & n. C1A+C3A+CHA+C4D sele = select resn = residue name n. = atom name Best, Chris On Tue, May 5, 2020 at 10:38 Chris Fage wrote: > Hello, > > You can

[PyMOL] STRIDE plugin for Pymol

Dear All, Does anyone use the STRIDE plugin here with any version of Pymol? Installing it with the plugin manager in Pymol 1.3 or 2.3.1 doesn't seem to work for me. Unfortunately, the original STRIDE server seems to be inaccessible these days.

Re: [PyMOL] STRIDE plugin for Pymol

ith PyMOL 2.5.2. I've installed > stride from https://anaconda.org/ostrokach-forge/stride and the plugin > with the plugin manager using the > https://pymolwiki.org/index.php/DSSP_Stride URL. > > Cheers, > Thomas > > On Sat, Oct 29, 2022 at 4:29 PM Chris Fage wrote: > >