1-: Lecture 1: Introduction: Lecture note link
Before class 2:
–download a molecular modeling program I will use Chimera but PYMOL or VMD are also fine. Try to look at yeast cytochrome c (2ycc.pdb) if you can.
–Look at Oxidative Phosphorylation at the fin de siecle (I handed this out as well). Come prepared to class having written down 5 questions you have about this paper. I will collect these questions and use them for our discussion.
–I will assign proteins from the classes of intramembrane electron and proton transfer proteins; ion channels and pumps; and molecular motors.
— You should look at the paper by Gadsby for an introduction to ion channels and pumps; and to reviews on molecular motors and on myosin. An online textbook for nerve transmission.
2-: Lecture 2: Mitochondria, biological energy, electron tunneling overview; proton transfers; cofactors: Lecture note link
3-: Lecture: Amino acid properties; peptide bonds; secondary structure: Lecture note link
4-:Lecture: Protein folds and families: Lecture note link
5-: Membranes and the difference between membrane and soluble proteins: Lecture note link
6-: Thermodynamics 1st lecture: Lecture note link
7-: Thermodynamics 2nd lecture: Lecture note link
8-: pK lecture: Lecture note link