[PyMOL] Coordination bonds

Dear PyMol users! Using present -> ligand sites context menu I would like to display possible non-covalent contacts between ions embedded within the protein. First I tried to rename ATOM to HETATM record corresponds to ions however pymol still don't recognize ions as ligand. Will be very thankfu

Re: [PyMOL] coordination bonds

Thank you for your help. However, I have 4 Mg ions in the au, so all Mg ions (and all coordinated ligands) got connected. I need only coordination for one Mg. Maia Nathaniel Echols wrote: > On Sun, May 23, 2010 at 3:55 PM, Maia Cherney > wrote: > > I would like

Re: [PyMOL] coordination bonds

On Sun, May 23, 2010 at 6:33 PM, Maia Cherney wrote: > Thank you for your help. However, I have 4 Mg ions in the au, so all Mg > ions (and all coordinated ligands) got connected. I need only coordination > for one Mg. > Then you need to qualify the selection with the residue number, and repeat

Re: [PyMOL] coordination bonds

I found a similar command dist 1, elem mg, elem o, 2.2 Nathaniel Echols wrote: > On Sun, May 23, 2010 at 3:55 PM, Maia Cherney > wrote: > > I would like to show coordination bonds between Mg ion and its ligands > (oxygens) as broken lines, the distance of Mg-O b

Re: [PyMOL] coordination bonds

On Sun, May 23, 2010 at 3:55 PM, Maia Cherney wrote: > I would like to show coordination bonds between Mg ion and its ligands > (oxygens) as broken lines, the distance of Mg-O bond is between 1.9-2.2 A. > dist elem mg, (all within 2.2 of elem mg) Might need to try a slightly longer length to ca

Re: [PyMOL] coordination bonds

I would like to show coordination bonds between Mg ion and its ligands (oxygens) as broken lines, the distance of Mg-O bond is between 1.9-2.2 A. Maia -- ___ PyMOL-users mai