MathMol Molecular Library:Contains water, carbons, hydrocarbons, molecules of life and drugs.
Smell Database:Structures and properties of smelling molecules.
Pomona University:Structures of Molecules Discussed in Class (Chemistry 1).
Widener University:Visualizing Molecules. This page contains a set of Lewis Dot structures, Hyperchem 3D renderings, and Protein Databank files (*.pdb) for a variety of molecules. These were developed for teaching molecular structure in General Chemistry at Widener University.
University of the West Indies, Mona Campus:Jamaican themes for Lecture Material: “The extraction of alumina from bauxite”, “The Chemistry of spices”, “Jamaican Blue Mountain coffee”, “What is at the fruit and vegetable market?”, “Jamaican Rum from sugar cane”, “Synfuel from Ethanol”, “Marine Natural Products”, “Herbal remedies”. PDB molecules are found in context in the lecture material.

Molecules of the Month:Links toMOTM Oxford,MOTM Bristol, andMOTM University of Erlangen-Nuernberg. Each month a new molecule will be added to the list on this page. The links will take you to a page at one of the Web sites at a University Chemistry Department or commercial site in the UK, the US, or anywhere in the world, where useful (and hopefully entertaining!), information can be found about a particularly interesting molecule.
Die Organik-Galerie:A selection of organic molecule images obtained by raytracing as well as .pdb and .wrl downloadable structure formats.
WWU Virtual Molecular Model Kit:A variety of instructional organic molecules.
Molecular Animations with Re View
A variety of molecular animations/simulations are available at this site, covering conformational analyses, reactions, vibrations, etc. Both animations and multistructure XYZ files are provided, enabling movies or ‘4D’-simulations to be viewed. The latter will require a special player such asReView[demo] orXMol.
Molecular Animations of Large Molecules
AVI movies of large, biological molecules (hemoglobins, agarose, DNA, collagen and more).
Molecular Dynamics Simulations on Large Systems
The objective of this project is to perform molecular dynamics simulations on extremely large systems, consisting of up to 106atoms, and to analyze the results in real time.
Molecular Models for Biochemistry at CMU
The linked pages described here have tutorials and quizzes that are based onChimeandRasMolimages of the molecules and macromolecules found in biochemistry. They are intended to complement standard biochemistry texts where more explanation is provided, but where interactive 3-D images of the molecules are not available.
Molecular Movies
Nine interactive animations describing nucleophilic substitutions, eliminations, electrophilic additions, electrophilic aromatic substitution, nucleophilic addition, and nucleophilic substitution on acid derivatives. Three demo files are playable in a web browser, if theShockwave plug-inis installed.
Molecule of the Month
Each month a new molecule will be added to the list on this page. The links will take you to a page at one of the Web sites at a University Chemistry Department or commercial site in the UK, the US, or anywhere in the world, where useful (and hopefully entertaining!), information can be found about a particularly interesting molecule.
Molecules in 3D
A few examples of molecules to be viewed in 3D. A 3D effect requires red-blue glasses.
Molecules-R-Us
A hypertext-based table of contents of the Brookhaven Protein Databank. Allows on-the-fly generation of 3D-images in various formats from the enormous database.
MolPOV
MolPOV is a graphics file converter that reads Brookhaven Protein Data Bank formated files and produces a ready-to-render input file for thePersistence of Vision (POV) ray tracer. The PDB files can be from the Brookhaven PDB itself or from any molecular modeling program that can store structures in the PDB format. Both programs are freeware.
NanoWorld
Images from the Center for Microscopy and Microanalysis, University of Queensland, Australia, an interdisciplinary research and service facility dedicated to an understanding of the structure and composition of all materials at atomic, molecular, cellular and macromolecular scales.

NIH Molecular Modeling Home Page
Intended as a centralized source of information concerning the methods and biological applications of molecular modeling.
Normal Modes oftrans-1,2-Dichloroethylene
Click on a peak in the IR spectrum and view the corresponding vibrational mode. RequiresChemscape ChimeandJavaScriptmust be enabled.
Nucleic Acid Database
The Nucleic Acid Database Project (NDB)assembles and distributes structural information about nucleic acids.
Orbital Viewer
Lots of atomic orbitals, arranged by quantum number and shape. The orbitals images are produced with theOrbital Viewer, an amazing software for drawing and viewing orbitals in 3D, which may be downloaded for free from this site.
Persistence of Vision Raytracer
The Persistence of Vision Raytracer is a high-quality, totally free tool for creating stunning three-dimensional graphics. It is available in official versions for Microsoft Windows 3.1/Win32s and Windows 95/NT, DOS, the Macintosh, i86 Linux, SunOS, and Amiga. The source code is available for those wanting to do their own ports.
Protein Science Kinemages
A ‘kinemage’ [kinetic image] is a scientific illustration presented as an interactive computer display. Operations on the displayed kinemage respond within a fraction of a second: the entire image can be rotated in real time, parts of the display can be turned on or off, any point can be identified by picking it, and the change between different forms can be animated. Kinemages are proposed as a subtype of thechemical MIME standardwith the specification “chemical/x-kinemage” and file extension “kin”. Kinemages, their history, and the proposed MIME standard are described in mime_kin.txt in theMIME_kin directoryof theProtein Sciencegopher server.
RasMol Home Page
RasMol is free molecular visualization software, great for small molecules but is especially amazing for macromolecules (proteins, DNA, RNA) or macromolecular assemblies (viruses, lipid bilayers). This site provides the software itself, a gallery of images produced by RasMol, educational scripts (movies) for projection in lectures or for self-study, links to class web sites which employ RasMol, and to other free molecular visualization software.
Representation of Molecular Models Rendering Techniques
This is a nice tutorial on the ways that molecules can be represented by computer imaging. Includes discussion on structures, surfaces, rendering, etc.
Scanning Tunneling Microscopy
An STM image gallery and more from The Visualization lab of IBM.
Senses Bureau – The Wilson Group
Contains visualisations related to teaching of general and physical chemistry at the University of California at San Diego.
Silicon Graphics Teaching Laboratory
Contains a course on molecular modelling and information on MacroModel.

TORVS Chemical Internet Services
Contains searchable databases with 3D coordinates, GIFS, and VMRL scenes for Chemical Structures as well as chemical database browsers.

UK SuperJanet Demonstrations
QuickTimemovies, playable on either Mac or MS Windows using appropriate software.

Virtual Chemistry Lab at the University of Oxford
A virtual reality chemistry lab that includes a three dimensional simulation of the University of Oxford’s inorganic chemistry teaching lab and interactive on-line experiments. Examples of material available now or in the process of being built include aQuickTime3 VR tour of a laboratory, preparation of a superconductor (with videos of the special properties of such materials), and exploring the aqueous chemistry of common metal ions. This site makes extensive use of plug-ins and multimedia. You’ll need Netscape Navigator 3.0 or Internet Explorer 3.0 to view it successfully. It’s a good site to see what is possible with many emerging technologies including VRML,QuickTime,QuickTime VR, Real VR, and Macromedia Shockwave.