From: Frieda S. Reichsman <friedar@ns...> - 2004-10-15 14:22:18
adriano ceccarelli wrote:
>> 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.
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).
Frieda S. Reichsman, PhD
Educational Multimedia Specialist
Molecules in Motion
Interactive Molecular Structures
94 Pratt Corner Road
Shutesbury, MA 01072