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.)
- 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:
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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.
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[Colleges & Dept's] [Chemistry Dept.] [Chem 406]
Warren Gallagher
Department of Chemistry
(715) 836-5388
wgallagh@uwec.edu
updated: Tuesday, December 19, 2000