Biochem 651

Between Macromolecules and Their Consequences

Qi Zhang, 919-966-5710, qi_zhang@med.unc.edu] 10/30/13-12/04/13; MWF 11; 3007 GM. Registration limited to 12 except with permission Course Director. .  (Recitation will meet on Tuesdays and Thursdays, Time and location will be determined)

Basic Forces in Biology

10- 3-12           W Lec 1 (Inter- and intra-molecular forces, empirical potentials). Kuhlman

11-1-12            Th Rec

Electrostatic Forces between and within Macromolecules

11-2-12            F Lec 2 (2,3,4. Elements of continuum electrostatics. Fields, potentials, electrostatic energy). Hermans

11-5-12            M Lec 3 (Energy of charge transfer (Born model).  Poisson-Boltzmann equation.  Debye-Huckel theory.) Hermans

11-6-12            Tu Rec

11-8-12            W Lec 4 (DLVO theory).  Hermans

11-9-12            Th Rec

11-10-12          F Lec 5. (Protein titration and pI). Hermans

Simulations of Macromolecules

11-12-12          M Lec 6 (Computer simulations of biosystems.)  MC and MD techniques.  Hermans

11-13-12          Tu

11-14-12          Lec 7.  (Calculation of the free energy change.) Hermans.

11-15-12          Th Rec

11-16-12          F Lec 7 (Potential of mean force (PMF).   Radial distribution function (RDF)

11- 19-12         M Lec 8 (Connection between PMF and RDF).

11-20-12          Tu Rec

11-21-12          W Lec 9 (Elements of theory of simple liquids). Hermans.

11-22-12          Th Thanksgiving

Water & the Hydrophobic Effect

11-27-121        M Lec 10. Water, special properties: Lentz

11-28-12          Tu Rec

11-29-12          Lec 11 Water: structural nature: MD result:, Lentz

11-30-12          Th Rec

12-1-12            F Lec 12. Hydrophobic Effect: Lentz

12-3-12            M Lec 13. Conformational Dynamics of RNA structure: Zhang