Chem 406: Biophysical Chemistry, Fall 1999
Molecular Modeling


Sources for Searching and Downloading Files from the Protein Data Bank:

Protein Data Bank
Front-end for accessing structure files from the Protein Data Bank
Molecules R Us
Simple front-end for accessing structure files from the Protein Data Bank

Rasmol and Chime Manuals, Tutorials and Demonstrations:

Rasmol/Chime site
This site contains many resources for learning to use both Rasmol and Chime
Rasmole 2.7 Manual
Chime Tutorials and Demonstrations
Chime 2.0 - Attributes for Embed tags
(Most of the attributes described can be used with Chime 1.02.)
Chime 2.0 - Additional Chime Specific Rasmol Commands.
Protein Secondary Structure
Requires Netscape and Chime
Oxymyoglobin
A demostration of using interactive scripts with Chime (Requires Netscape and Chime)
Hemoglobin Structure
An interactive tutorial on the structure of hemogolobin using Chime
Antibody Structure
An interactive tutorial on the structure of immunoglobulins using Chime
Interactive Biochemistry
Glycolysis:

Download Sites:

Netscape
Site for downloading a copy of the Netscape internet browser. Netscape Navigator is a browser only, whereas Netscape Communicator, among other things, contains a web page authoring tool. Versions are available for both MacOS and Windows.
RasMol
Site for downloading a copy of the Rasmol molelcular graphics program. Versions are available for both MacOS and Windows. This program accepts Protein Data Bank files as input for viewing biological macromolecules.
RasMol manual
An online version of the Rasmol manual. This is a good read if you wish to fully utilize the capabilities of Rasmol
Chime
This is a plug-in that allows Netscape Navigator, Netscape Communicator and Internet Explorer to display 3-dimensional models of biological macromolecules. It looks very much like Rasmol. When used, the browser must be configured to invoke the Chime plug-in when it encounters a files that is tagged with the "chemical/x-pdb" MIME type. Versions are available for both MacOS and Windows, however Version 1.0 does not work with Internet Explorer, Version 2.0 does not work with the MacOS version of Internet Explorer.


[UWEC Web]  [Colleges & Dept's] [Chemistry Dept.] [Chem 406]

Warren Gallagher
Department of Chemistry
(715) 836-5388
wgallagh@uwec.edu

updated: Tuesday, December 19, 2000