Material Detail
Protein Explorer
Protein Explorer became non-operational about 2008. It is replaced with FirstGlance.Jmol.Org (for guided exploration of any macromolecule), and Proteopedia.Org (for authoring customized molecular scenes that are immediately online to share worldwide).
Protein Explorer provides a user interface to the Chime plugin allowing easy manipulation and viewing of PDB structure files. Includes most RasMol commands and has a command line, but has buttons and menus for many useful commands. Includes a comparator funciton that allows comparisons between two structures, molecules in the structure can be selected in a sequence window and there is a non-covalent bond finder function.
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Comments
Diana Morarescu (Student)
This is a great tool, easy to visualize protein structure, with and without ligands. It is useful for first year Biochemistry students, who may have trouble putting proteins in a 3D perspective without visual aids
Eric Martz (Faculty)
Comment by Eric Martz (author of Protein Explorer): Since Protein Explorer was reviewed by MERLOT, a new version has been released that works in Internet Explorer 5.5 as well as in Netscape 4.x.
John Colicelli (Faculty)
This is a terrific source for protein and small biomolecule structures (lipids, carbohydrates). The site has a tremendous amount of useful material that is well organized and easy to navigate. Tools to create molecular images are also included. The “Structure to Function” area is a great resource for information about specific topics. I noticed that the Krebs Cycle overview page began with an out-of-place figure (TGFbeta signaling pathway instead of citric acid cycle), but this was a rare and minor problem. I especially liked the inclusion of Video Guide and Help links for new users.