Marvin

Marvin is a great alternative to the subscription based ChemDraw by CambridgeSoft. It is a collection of tools for drawing, displaying and characterizing chemical structures, substructures and reactions.

Free Mac OS X Windows Linux

ACD/ChemSketch

ACD/ChemSketch is a chemically intelligent drawing interface that allows you to draw almost any chemical structure including organics, organometallics, polymers, and Markush structures.

Free Personal Windows

BKchem

BKChem is a free (as in free software :o) chemical drawing program. It was conceived and written by Beda Kosata and is currently maintained by Reinis Danne. BKChem is written in Python, an interpreted and very nice programming language.

Free Open Source Mac OS X Windows Linux

ChemDraw

Communicate with the natural language of chemical structures, biological pathways, and models

Commercial Mac OS X Windows

JChemPaint

JChemPaint is an editor and viewer for chemical structures in 2D. It is free and open source software, written in Java and so it runs on Windows, Mac OS X, Linux and...

Free Open Source Mac OS X Windows Linux

MedChem Designer

Free chemical structure drawing program for Windows. Will also run in Linux using WINE. Produced by SimulationsPlus.

Free Windows