Hi Martin,

that's what edit mode is for. Right-click on the mouse mode panel,
choose "3-Button Editing", pick the two atoms and type "unbond".

Cheers,
  Thomas

Martin Hediger wrote, On 07/30/13 14:40:
> Dear PyMOL users
> 
> Sometimes PyMOL draws bonds between atoms which are not supposed to be 
> connected. I know it is possible to unbond them using "unbond atom1, 
> atom2", however this requires to always select the atoms and rename the 
> selections to "atom1" and "atom2", respectively. It would be great if I 
> could just click two atoms (using the "Atoms" selection quantifier) and 
> then have them unbonded. How could I do that?
> 
> Thanks a lot for any hints.
> Martin

-- 
Thomas Holder
PyMOL Developer
Schrödinger Contractor

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