EasyChem
Science, Chemistry, Software, Structural - EasyChem. Free Linux structure drawing program, designed with emphasis on press quality, speed of, precision, and ability to add arbitrary ornaments such as orbitals.
https://easychem.sourceforge.net/
JChemPaint
Science, Chemistry, Software, Structural - JChemPaint. Free, open-source editor for 2D chemical structures.
https://jchempaint.sourceforge.net/
Viewmol
Science, Chemistry, Software, Structural - Viewmol. An open-source graphical front end for computational chemistry programs such as Gaussian, Gamess, and Mopac.
https://viewmol.sourceforge.net/
ProteinScope
Science, Chemistry, Software, Structural - ProteinScope. ProteinScope is a free program to view and create animations of Protein Data Bank PDB files.
http://www.proteinscope.com
PyMOL Molecular Viewer - Home Page
Science, Chemistry, Software, Structural - Pymol. A free and flexible molecular graphics and modelling package which can be also used to generate animated sequences.
https://www.pymol.org/
RasMol and OpenRasMol
Science, Chemistry, Software, Structural - OpenRasMol. Provided for the convenience of users and software developers of open source versions of RasMol.
http://www.openrasmol.org/