Module 6: Structure-Function Relationships
Protein Modeling and Structure Visualization
- The tertiary structures of proteins can be viewed as three-dimensional figures that can be manipulated by user
interaction. Additionally, quarternary structures such as those containing different protein sub-units or protein-DNA
complexes can also be visualized using certain algorithms. RasMol and Chime are the most common of those tools.
- RasMol is a popular interactive visualization and
manipulation software available from and maintained at the University of Massachusetts. Each molecule to be viewed with
RasMol needs an atomic coordinate file which is a file in the PDB (Protein Data Bank) format.
- Chime is similar to Rasmol except that the molecules
are shown using a Web Browser plug-in. Chime shows only the molecules written into the web page by its author. One can
use the Chime software to develop web-based online tutorials on biomolecules with highly visual and interactive figures.