|
Week
|
Date
|
Topics
|
Summary
Note
|
|
Week 1
|
Aug. 24 - Aug. 28
(ch. 1)
|
·
Introduction
to Biophysical Chemistry
Thermodynamics
·
Heat,
Energy, and Work
·
First Law
of Thermodynamics
|
L1
L2
L3
discussion 1
|
|
Week 2
|
Aug.31 - Sept. 4
(ch. 1)
|
·
Enthalpy
·
Enthalpy of
phase change
·
Bond
enthalpy
·
Enthalpy of
reaction, Enthalpy of Formation
·
Hess’s
Law
·
Kirchoff’s
Law: Enthalpy vs. T
|
L4
L5
L6
discussion 2;
key
|
|
Week 3
|
Sept. 9 - 11
(ch. 2)
|
·
Entropy and
2nd Law
·
Entropy
Measurements – Macroscopic
·
Microscopic
definition of Entropy
·
Third Law
of Thermodynamics
·
Entropy of
Substances
|
L7
Carnot cycle
(From Tinoco text)
L8
discussion 3;
key
|
|
Week 4
|
Sept. 14 - 18
(ch. 2)
|
·
Entropy of
Chemical Reactions
·
Spontaneity
and Gibbs Free Energy
·
Calculating
DG
·
Entropy and
hydrophobic interactions
·
Protein
structures and interactions
·
Thermodynamics
of hydrogen-bonding and hydrophobic interaction
|
L9
L10
L11
discussion 4
|
|
Week 5
|
Sept. 21 - 25
(ch. 3)
|
·
Temperature
and Pressure dependence of Free energy
·
Phase
diagrams
·
Application:
Thermodynamics of DNA duplex formation
·
Chemical potential; Ideal solutions
·
Osmosis
|
L12
L13
L14
|
|
Week 6
|
Sept. 28 – Oct. 2
(ch3.,
ch. 4)
|
·
Osmosis
·
Measuring
hydrophobic interaction – Dmq between solvents
·
Calculating
DGorxn and temperature dependence
·
Equilibrium
constant & DGorxn
Exam
1, Wednesday, Sept. 30; in class
|
L15
L16
|
|
Week 7
|
Oct. 5 - 9
(ch. 4)
|
·
Temperature
Dependence of Equilibrium Constant
·
Acid Base
Equilibria
·
Buffers
|
L17
L18
L19
Discussion 7: 4.49 (a)&(b) key
|
|
Week 8
|
Oct. 12 - 16
(ch. 4)
|
·
Biochemical
standard state
·
Equilibrium
binding
|
L20
L21
L22
Discussion 8: 4.50
key
|
|
Week 9
|
Oct. 19 - 23
(ch. 5)
|
·
Ions in
solution
·
Non-ideality
·
Ions
transport
|
L23
L24
L25
|
|
Week 10
|
Oct. 26 - 30
(ch. 5
& 6)
|
·
Redox
Reactions
·
Nernst
Equation
·
Electrochemical
series
Chemical
Kinetics
·
Reaction
Rates
·
Rate Laws
|
L26
L27
L28
|
|
Week 11
|
Nov. 2 - 6
(ch. 6)
|
·
Example
Rate Laws
·
Equilibrium
& Kinetics
Exam
2, Wednesday Nov. 4; in class
|
L29
L30
|
|
Week 12
|
Nov. 9 - 13
(ch. 7,
6)
|
·
Reaction
mechanisms
·
Temperature
Dependence of Rate Constants
·
Reaction
dynamics
|
L31
L32
L33
suppl. note
|
|
Week 13
|
Nov. 16 - 20
(ch. 7,
8)
|
·
Kinetic
salt effects
·
Kinetics
and Mechanisms of Enzymatic Reactions
·
Michaelis-Menten
Equation
·
Inhibition
|
L34
L35
L36
MM-note
|
|
Week 14
|
Nov. 23 - 25
(ch.13)
|
·
Visualizing
Enzymes
·
Catalytic
efficiency
·
Energetics
of catalysis
Structure
and Spectroscopy
·
Basic
quantum mechanics
|
|
|
Week 15
|
Nov. 30 - Dec. 4
(ch.13)
|
·
Absorption
·
Beers law,
bio-chromophores
·
Emission
·
Fluorescence
Spectroscopy and FRET
|
|
|
Dec. 7 – 9
|
Final Reviews:
|
|
|
Dec. 14
|
Final Exam, 8:00
– 10:00 am
|
|
