[Chimera-users] Connect and align duplicated models

Elaine Meng meng at cgl.ucsf.edu
Tue Oct 11 14:35:05 PDT 2011

One more idea if the crystal does contain the desired superstructure (which it might not) is to play around with the Options in the Unit Cell dialog.  Namely, whether the molecules are "packed" or not, and the number of cells in each direction to be built.


On Oct 11, 2011, at 1:04 PM, Joe Ping-Lin Hsiao wrote:

> Hi,
> I are trying to use Chimera to produce duplicates of one fibrinogen,
> rotate and move them, and concatenate together in a certain way.
> The fibrinogen looks like this (http://dl.dropbox.com/u/3757507/chimera1.png).
> I want to duplicate the model, and connect them in a chain
> (http://dl.dropbox.com/u/3757507/chimera2.png).
> The second image shows only two instances, but there will be more.
> Currently I do it by hand, including rotating and aligning them in
> correct z positions.
> But it take a lot of time to do it because the duplicates generated by
> using Tools/Higher-order structure/Unit Cell are not in the same
> plane. I have to look back and forth in different directions to make
> sure them are aligned.
> So I are wondering is there any way to automate this process, such as
> apply the previous transformation to a new duplicate?
> Thanks,
> Joe

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