1. Section 1 Powerpoint Assignment for Micbio 565, 2012
Eric Martz
Major: Retirement? Grandfather?
Yeast Gal4 transcriptional regulator, 1d66.
X-ray crystallography, resolution 2.7 Angstroms.
2 protein chains + 2 DNA chains (total 4)

2. Section 2 Ligands, Non-Standard Residues
CD = Cadmium Ion
Non-Standard Residues
(None)

3. Evolutionary Conservation
Section 3
Evolutionary Conservation
The amino acids that contact the major groove of the DNA are highly conserved.

4. Section 4: Hydrophobic/Polar
This protein has a mostly polar surface, consistent with it being water soluble. There are no large hydrophobic patches on its surface.

5. Section 5: Charge
The DNA-binding notch in the protein has only positive charge, consistent with the need to bind the negatively-charged phosphate backbone of the DNA.

6. Section 6: Biological Unit
The published PDB file has 4 chains.
MakeMultimer: still 4 chains.
Asymmetric Biological Unit
Unit (MakeMultimer)

7. Section 7: Animation from Polyview-3D
Lysine 18 in Gal4 sits in the major groove of DNA, recognizing the DNA sequence CGG.
This animation rocks through 90 degrees in 2 degree steps, with a 5/100 second delay.
It moves only when it is “projected” (full screen).

8. Optional Section 8: Noncovalent Bonds
Lysine 18 hydrogen bonded to DG (deoxyguanosine) 4.