1. Section 1: Identity Powerpoint Assignment for Micbio 565, 2014
Eric Martz
Major: Retirement? Grandfather?
1d66
Yeast Gal4.
Transcriptional regulator.
X-ray crystallography, resolution 2.7 Angstroms.

2. Section 2: Composition Protein chains: 2 DNA chains: 2 RNA chains: 0
Ligands
CD = Cadmium Ion
Non-Standard Residues
(None)

3. Section 3: Evolutionary Conservation
The amino acids that contact the major groove of the DNA are highly conserved.
If you do your own job at the ConSurf Server, be sure to paste its web address (URL) into this slide.

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 4A: Hydrophobic Core
Each domain has a hydrophobic core.

6. 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.
Cationic +
Anionic -

7. Section 5A: Cation-Pi Interaction

8. Section 6: Biological Unit
The published PDB file has 4 chains.
MakeMultimer: still 4 chains.
Asymmetric Biological Unit
Unit (MakeMultimer)
1D66
1D66_MM1

9. 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).

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