This is an in-class PDB exercise based on the paper "Mechanisms Controlling the Cellular Metal Economy" by Gilston and O'Halloran. Students are asked to visualize the metal binding sites of several proteins discussed in the paper, highlighting unusual metal geometries. After identifying the amino acid residues involved in metal binding, students will discuss the bond structure in terms of HSAB theory.
Laptop computers with Java installed for accessing the PDB (freely available at www.pdb.org). Instructions for using the PDB can be found in the related activities linked below.
Cys79 is a bridging ligand between Zn402 and Zn401 in ZntR.
You can highlight two metal atoms in the PDB viewer by holding shift while clicking.
It is a good idea to pre-test computers that will run the PDB viewer before coming to class, as the viewer runs on Java and may have technological issues.