[Chimera-users] how to make a bond

Eric Pettersen pett at cgl.ucsf.edu
Thu Nov 15 10:49:53 PST 2007

On Nov 15, 2007, at 9:47 AM, Elaine Meng wrote:

> If you really care that it is considered a bond and not a pseudobond,
> you could hide the pseudobond (or close its group in the Pseudobond
> Panel), select the 2 atoms, and then use the command
> bond sel

Keep in mind that if you put in a "real"(covalent) bond then Chimera 
will probably get the atom typing of the bonded atoms wrong and some 
chemistry-related functionality may not work as well.  In particular, 
Add Charge may fail to work with the covalently bonded metal.  But if 
all you care about is the depiction and don't intend to use any 
chemistry-dependent functions, then creating a covalent bond is okay.


	Eric Pettersen
	UCSF Computer Graphics Lab

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