BMB/Ch 178 Lecture Notes Fall 2018

Macromolecular Function: Kinetics, Energetics, and Mechanisms

(Links may point to empty files until the real ones are uploaded.)
Date Subject Notes Recommended Reading
1 10/03 Introduction; review of basic thermodynamics; transition state theory PDF link
2 10/05 How to map transition state; Covalent catalysis PDF link
3 10/10 Covalent catalysis (cont.); General acid/base catalysis PDF link
4 10/12 Metal ions; Electrostatics and hydrogen bonds PDF link
5 10/17 Entropy, intrinsic binding energy and the Circe effect PDF link
6 10/19 Specificity and editing mechanisms; Promiscuity and enzyme evolution PDF link
7 10/24 Pymol Tutorial (TAs); Berkeley Madonna Tutorial Pymol PDF
Berkeley Madonna PDF
link
8 10/26 Electron Transfer reactions (Harry Gray and Jay Winkler) NA link
9 10/31 Cooperativity and allostery PDF link
10 11/2 Kinetics 101: rate laws, rate limiting steps PDF link
11 11/07 Steady state kinetics (I) PDF link
12 11/09 Steady state kinetics (II) Presteady-state kinetics (I) PDF link
13 11/14 Pre-steady state kinetics (II) PDF
Study Guide
link
14 11/16 Pre-steady state kinetics (III) PDF link
15 11/21 Overview of biophysical tools NA link
16 11/23 No class (Thanksgiving) - -
17 11/28 Single molecule kinetics (I) NA link
18 11/30 Single molecule kinetics (II) NA link
19 12/5 Literature discussion (I) - -
19 12/7 Literature discussion (II) - -
Last modified 16-NOV-2018