adriano ceccarelli wrote:
In general, I was trying to introduce students in the cell biology course to the concept of enzyme active site, and trying to show some examples of enz/substr interactions in general, so any other example you could suggest is very welcome.
Hi Adriano,
You can show this in hexokinase using the pdb file 1hkb.pdb. In that particular pdb file, the author of the structure has specified the active sites of each subunit (in the header region of the file).
I do not know of a jmol site that will allow you to display the active site without writing a script yourself that uses the information in the header. However, currently, Protein Explorer will do it. Load this pdb file into Protein Explorer and go to the "Features" section of PE. Under "Substructure of Interest" you can click on the various sites as indicated, and see them instantly highlighted in the structure. This is only possible with pdb files wherein the author has included the active site residues in the pdb header (info at the top of the pdb file).
HTH, Frieda
Frieda S. Reichsman, PhD Educational Multimedia Specialist
Molecules in Motion Interactive Molecular Structures http://www.MoleculesInMotion.com
94 Pratt Corner Road Shutesbury, MA 01072 413-253-2405
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