[Chimera-users] superimposing two vrml files ?

Thomas Goddard goddard at cgl.ucsf.edu
Wed Jun 9 10:18:27 PDT 2010

There is no way to make a best fit of a VRML surface to anything else 
(other VRML, density map, molecule) in Chimera.  VRML surfaces in 
Chimera are essentially only useful for display, not any kind of 
analysis in Chimera.  You could move one VRML model and align it by eye 
but this is difficult and the resulting alignment will be rather subjective.

The best approach is to ask the lab that did the EM work for the density 


> Hi,
> Here is a question raised by a colleague on the ccp4 bulletin board.
> Since Chimera was mentioned in his post I thought you guys might have an
> answer to his question (positive or negative), hence I'm posting his
> message here.
> Cheers,
> Boaz
> Hello,
> I am working on a protein whose EM model has been built long time ago.
> The crystal structure has been solved recently and I want to know the
> difference between the crystal structure and EM model. Unfortunately
> there is no data in the EM data base, so I can not use Chimera or Phaser
> to fit the crystal structure into the EM electron density directly. My
> friend downloaded the VRML file of the EM model ,which can be viewed
> using Cosmo player. And I can make VRML file from my crystal structure
> using Pymol or Chimera. My questions is: can I superpose two VRML files
> which come from EM and crystal models? If so, how can I do that?
> Thanks in advance!
> Best wishes
> leo
> Boaz Shaanan, Ph.D.
> Dept. of Life Sciences
> Ben-Gurion University of the Negev
> Beer-Sheva 84105
> Israel

More information about the Chimera-users mailing list