[Chimera-users] Curved helical filaments

[Tom Goddard]

Hi Andy,

   The "vop unbend" command can straighten the density from a curved 
filament.  The tricky part is you need a center-line path.  You could 
define that by placing 3 markers.

     http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/vop.html#unbend

   Bending a straight filament map to follow a curve is not available.  
This is the inverse of the vop unbend operation.  You can do a fake 
version of this by making a helical curve around the straight density 
map and then using vop unbend.  That won't center the filament on the 
helical path, but it will create something similar by straightening the 
helix which I think will twist the density.

     Tom

> Hi Tom-
>
> Not sure if there is an option for this -
>
> 1. can we bend an electron density map of a filament/tube by an small 
> angle ?
>
> 2. Can we generate an helix using a  density map of a filament.
> An example will be that of the bacterial flagella - it has the local 
> helical arrangement of the flagellin molecule and then thAT 
> ARRANGEMENT  extends over several micrometers like a "sinusoidal wave" 
> with different helical arrangement to the filament axis.
>
> Best
> Andy
>
>
> Dr. Anindito Sen (Ph.D)
>


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