Thermodynamics of Biomolecular Systems
Lecture Notes
MB = Prof. Moungi Bawendi
KHS = Prof. Kimberly Hamad-Schifferli
LGG = Prof. Linda G. Griffith
LEC # |
TOPICS |
LECTURERS |
1 |
Introduction to Thermo; 0th Law; Temperature; Work; Heat (PDF) |
MB |
2 |
State Functions, 1st Law, Paths (PDF) |
MB |
3 |
Joule and Joule-Thompson; Heat Capacity (PDF) |
MB |
4 |
Reversible and Irreversible Processes (PDF) |
MB |
5 |
Thermochemistry (PDF) |
MB |
6 |
2nd Law; Entropy (Boltzmann and Clausius) (PDF) |
MB |
7 |
ΔS for Reversible and Irreversible Processes (PDF) |
MB |
8 |
Equilibrium; Maxwell Relations; Free Energy (PDF) |
MB |
9 |
Chemical Potential; Phase Equilibrium (PDF) |
MB |
10 |
Chemical Equilibrium; Equilibrium Constant (PDF) |
MB |
11 |
Standard States; Gibbs-Duhem (PDF) |
MB |
12 |
ΔG0= -RTlnK; Example (PDF) |
MB |
Hour Exam 1 |
||
13 |
Boltzmann Distribution (PDF) |
KHS |
14 |
Thermo and Boltzmann Distribution (PDF) |
KHS |
15 |
Occupation of States (PDF) |
KHS |
16 |
Third Law (PDF) |
KHS |
17 |
Phase Equilibria, Single Component (PDF) |
KHS |
18 |
Phase Equilibria II; Clausius Clapeyron (PDF) |
KHS |
19 |
Regular Solutions; Mixing Energy; Mean Fields |
KHS |
20 |
Nonideal Solutions |
KHS |
21 |
Solvation; Colligative Properties (PDF) |
LGG |
Hour Exam 2 |
||
22 |
Osmotic Pressure and Phase Partitioning (PDF) |
LGG |
23 |
Surface Tension (PDF) |
LGG |
24 |
Polymer 1 - Freely Jointed Chain (PDF) |
LGG |
25 |
Polymer 2 - Chain Conformation (PDF) |
LGG |
26 |
Polymer 3 - Rubber Elasticity (PDF - 2.2 MB) |
LGG |
27 |
Electrolyte Solutions (PDF) |
LGG |
28 |
Electrolytes at Interfaces; Debye Length (PDF) |
LGG |
29 |
Titration of Polyelectrolytes (PDF) |
LGG |
30 |
Thermodynamics of DNA Hybridization (PDF - 1.5 MB) |
LGG |
31 |
Cooperativity (PDF) |
KHS |
Hour Exam 3 |
||
32 |
Cooperativity, Part 2 |
KHS |
33 |
Cooperativity, Part 3 |
KHS |
34 |
Driving Forces for Self-Assembly |
KHS |
35 |
Special Topic (Coarse Grain/Monte Carlo Model) |
|
36 |
Course Review and Evaluations |
Recitations
Many recitation problems are from the following textbooks:
[SAB] Silbey, R., R. Alberty, and M. Bawendi. Physical Chemistry. New York, NY: John Wiley & Sons, 2004. ISBN: 9780471215042.
[DB] Dill, Ken A., and Sarina Bromberg. Molecular Driving Forces: Statistical Thermodynamics in Chemistry and Biology. New York, NY: Routledge, 2002. ISBN: 9780815320517.
SES # |
PROBLEMS |
1 |
Problem 2.1 in: Gaskell, David R. Introduction to the thermodynamics of materials. Washington, DC: Taylor & Francis, 1995. ISBN: 9781560324324. |
2 |
Systems: Seltzer water demo |
3-4 |
SAB 2.28, 2.31 |
5 |
SAB 3.16, 3.23 |
6 |
SAB 4.12, 4.14 |
9 |
DB Examples 1.15, 1.17 and Problem 1.2 |
10 |
Derivations for <ε>, S, A, μ, P |
11 |
Recitation Problem 11 (PDF) |
12 |
SAB 3.24 |
15 |
Recitation Problem 15 (PDF) |
16 |
Recitation Problem 16 (PDF) |
17-18 |
DB 32.6, 10.11 |
19 |
Recitation Problem 19 (PDF) |
20 |
Recitation Problem 20 (PDF) |