Usage:
scipionshell modelId radius outModelId orientation XXXX sphereFactor YYY
The command scipionshell shows the density of a
3D Map on a quasy-spherical shell of the map at a given radius.
where
- modelId: model id of the 3D map to be analyzed
- radius: radius at which the density is going to be shown (Angstroms)
- outModelId: id of the output icosahedron showing the density surface
- orientation: symmetry used to create the icosahedron used to define the surface to be shown
- sphereFactor: weight of the sphere component in an interpolation between an icosahedron and a sphere of equal radius (1.0: sphere; 0.0: icosahedron)
Examples
scipionshell #1 250 10 orientation 222r sphereFactor 0.7
will display the density values of the model #1 at the surface defined by the
spherical icosahedron with symmetry 222r and sphereFactor 0.7. The model id of the output will be 10.
Remark
- In case the 3D map and the icosahedron do not fit, select center in Origin index
of Map Coordinates menu.
- Although orthoplanes is the visualization option by default, you can select plane instead in the
Volume Viewer menu to see only the transversal plane.
- The plane/orthoplanes can be moved using the right
mouse button
scipion@cnb.csic.es