Molecular Visualization Freeware -- Resources for Teachers

This document provides an overview of free molecular visualization resources of interest to teachers, all of which are available at:

http://www.umass.edu/microbio/rasmol

If you are reading this document from paper, you may prefer to read it from the web so you can click on the links below. Start at http://www.umass.edu/microbio/rasmol/teachers.htm

RasMol Quick Start: tells beginners how to use RasMol, also where and how to download any molecule of interest (large or small) for viewing in RasMol. http://www.umass.edu/microbio/rasmol/rasquick.htm

What questions can you answer about a protein/DNA molecule with RasMol? http://www.umass.edu/microbio/rasmol/raswhat.htm Walks beginners step by step thru methods for answering questions including:

How to save selected views of molecules for use in your teaching. This document explains how to use RasMol's powerful save script filename command, and provides troubleshooting if needed. http://www.umass.edu/microbio/chime/prsswc/prssft.htm     This document also explains how to create a master script which plays back your RasMol-saved scripts smoothly, in the desired order.

Putting your teaching presentation on the web. Explains how to incorporate your RasMol-saved scripts into a Chime-based presentation on the web. A downloadable Chime template is provided. You need merely change a few lines in it with a text editor -- no programming is involved! An example of such a teaching presentation, showing the gal4 transcriptional regulator complexed to DNA, is provided. http://www.umass.edu/microbio/chime/prsswc/template.htm

A ready-to-use tutorial on basic DNA structure is designed for self-directed (nonlinear) exploration by students, with an easy-to-use, fun, push-button interface. http://www.umass.edu/microbio/chime/dna/index.htm     Downloadable for local installation.

A 10-minute lecture segment on protein secondary structure (using lysozyme as an example, matched to Campbell's Biology textbook) can be illustrated with a ready-to-run (linear) presentation viewable, then downloadable (for projection from a computer without an Internet connection) from http://www.umass.edu/microbio/chime/protsecs/index.htm

Web-based visualization tutorials on over 30 other molecules are indexed at the World Index of Animated Tutorials on Biomolecular Structures at http://www.umass.edu/microbio/rasmol/tutbymol.htm

Quelques scripts RasMol ont été traduits en Français par l'Institut National de Recherche Pédagogique de la France. Thèmes d'étude: Structure du tétramère de l'hémoglobine, de ADN, de CMH, et de antigène-anticorps. http://www.umass.edu/microbio/rasmol/nonengli.htm

Español. Contactar con José Miguel Fernández-Fernández, en la Universidad de Granada, España (jmfernan@goliat.ugr.es). El manual del "RasMol" y otros guías ("scripts") están actualmente siendo traducidos.