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Avogadro - Avogadro is a free, fantastically easy to use molecule editor.
Ptable - Interactive periodic table with dynamic layouts showing names, electrons, oxidation, trend visualization, orbitals, isotopes, and compound search. Full descriptions from write-up sources.
BKchem - BKChem is a free (as in free software :o) chemical drawing program.
Periodic-table.io - Interactive periodic table of the chemical elements in 38 languages - Includes properties, history, name origin, facts, applications, hazards, isotopes and more
pymol - PyMOL is a powerful and comprehensive molecular visualization product for rendering and animating...
Kalzium - Kalzium (German for: Calcium) is a periodic table of the elements for KDE SC 4.