chimera

UCSF Chimera is a highly extensible program for interactive visualization and analysis of molecular structures and related data, including density maps, supramolecular assemblies, sequence alignments, docking results, trajectories, and conformational ensembles. (Summary from the program web page.)

The official web page: http://www.cgl.ucsf.edu/chimera/.

Typical usage:

$ module add chimera
$ chimera