Hi David, Chimera's definition of molecule models is that there are no covalent bonds between them, which is why you get the error message. I've created a short Python script (attached) which will take any selected molecule models and create a new model consisting of the union of the selected models. You will be able to make your bond in this new model. The script doesn't try to do anything smart about reconciling residue names/numbers or chain IDs. You might have to edit one of the source files for your models beforehand if this is problematic. You can run the script with "open dupMol.py" in the command line or by using "File...Open" with file type set to Python or one of the "all" types. The new model will completely overlap with the selected models, so you will have to hide/close/move the selected models to easily work with the new model. --Eric Eric Pettersen UCSF Computer Graphics Lab pett@cgl.ucsf.edu On Oct 25, 2005, at 12:31 AM, David Chenoweth wrote:
Hi!
I am trying to pull up two molecules in chimera and link them by forming a covalent bond between a N and C atom. I am selecting only the N of one molecule and the C of the other. When I go to command line and use the bond sel command I get the following error message.
Type error: Cannot form covalent bond joining two molecules.
Does anyone know how to get around this.
Thanks, David C.