[Chimera-users] 3D projection of eigen vectors

Rebecca Swett rswett at chem.wayne.edu
Fri Mar 22 10:56:05 PDT 2013

One way you can show those in chimera is a broadened ribbon image, or 
morphed animation. Generate several pdbs of your protein with 
per-residue displacement along the eigenvectors in something like R, and 
then open them all in chimera, displace as backbone trace rounded 
ribbon.  the overlay will show the eigenvectors and eigenvalues as 
broadened stacks of ribbons in the direction and magnitude of the 
motion. If you morph between the conformations, you'll get a nice 
animation of the displacement along any principal component.

Rebecca Swett
Wayne State University
357 Chemistry
Detroit, MI 48201

Lab Phone 313-577-0552
Cell Phone 906-235-0768

On 3/22/2013 9:47 AM, Prasanna Venkatesh wrote:
> Dear support member,
>    I would like to know the steps or command lines that I should 
> follow to make 3D projection of eigen vectors like Tube representation 
> or porcupine plots in Chimera. Thank you in advance.
> Regards,
> Prasanna
> Ph.D student
> Ajou university, South Korea
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