Subboxing means deriving new particle positions and orientations from an existing set of positions and orientations.
The generated positions are usually centered on a region of interest within an existing reconstruction.
This process is useful for
simple recentering of particles
focussing on individual subunits in a complex
A typical use case is shown for the lattice structure of EMD-10160 in the image below.
In this image, each white density is a receptor dimer in a chemosensory array.
Arrays form of receptor trimer-of-dimers, the little triangles of three white dots. The blue particles are centered in the middle of hexagons of these trimer-of-dimers.
Subboxing has been used to derive the orange particle positions and orientations from the blue set of particles.