[chimerax-users] ChimeraX morphing examples

[Elaine Meng]

Hi Ryan,
There are at least a couple of examples on the ChimeraX website:

(1) This "morphing movie" example links to ChimeraX command files (.cxc files):
<https://www.rbvi.ucsf.edu/chimerax/features.html#morphing>

(2) The ChimeraX "structure analysis and comparison" tutorial has morphing at the end:
<https://rbvi.github.io/chimera-tutorials/presentations/modules/chimerax-comp-structures/index.html#/>

Best,
Elaine
-----
Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco


> On Apr 29, 2022, at 11:00 AM, Tom Goddard via ChimeraX-users <chimerax-users at cgl.ucsf.edu> wrote:
> 
> Hi Ryan,
> 
>   ChimeraX has a "morph" command.  Here's an example using it
> 
> 	open 2vaa
> 	open 2vab
> 	matchmaker #2 to #1
> 	morph #1,2
> 	save morph.pdb model #3 allCoordsets true
> 
> Morphing of course only contains the atoms that are in both structures.  So if you have an unbound and a bound state, and the bound Y is only in one structure then it will not be included in the morph since there is nothing to morph it to in the unbound state.  You can delete chains that the two structures do not have in common before morphing, or you can use the same true option to the morph command "morph #1,2 same true" which will ignore chains which do not appear in both structures.
> 
> 	Tom
> 
> 
>> On Apr 29, 2022, at 9:28 AM, Kissinger, Ryan (NIH/NIAID) [C] <ryan.kissinger at nih.gov> wrote:
>> 
>> Hi Tom,
>>  
>> I’m trying to create a morph animation in ChimeraX and I am having a lot of trouble finding decent tutorials online. I have pdb entries for unbound X and Y and bound X and Y. If possible I would like to morph between the bound and unbound forms. I would like to do this with ribbon and the atomic models. Any advice?
>>  
>> Best Regards,
>>  
>> Ryan