[Chimera-users] morphing

Elaine Meng meng at cgl.ucsf.edu
Mon Mar 30 09:56:08 PDT 2020

Hi Francesco,
You just need to get the correct chains paired up for morphing. Chain pairing is described here:

In this case, with both structures having chains A-D, the automatic pairing for morphing is A with A, B with B, etc.  However, that is not the same pairing that you have spatially.  Spatially you have A on top of C (and vice versa), B on top of D (and vice versa).  So before doing the morphing, you need to change the chain IDs of one of the structures so that A is on top of A, B is on top of B, etc.

There is a Change Chain IDs tool in menu under Tools... Structure Editing.  

However, in this e-mail message I can describe it more concisely with a command.  I believe this will do the necessary renaming in your case:

changechains A,B,C,D  C,D,A,B  #1


Then you can make the morph correctly.

Happy teaching, and you stay safe and well too!

I hope this helps,
Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco

> On Mar 29, 2020, at 3:28 AM, Francesco Malatesta <francesco.malatesta at uniroma1.it> wrote:
> Hello
> I am trying, for teaching purposes, to morph deoxy hemoglobin 1HBA and oxy hemoglobin 1BBB to show the O2-linked quaternary change. I get an obviously wrong morph, attached. Chimera is probably pairing different subunits?
> Do you think this morph can be done?
> Thank you 
> Stay safe and well
> Francesco

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