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.

subboxing example

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.