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20.011

Statistical Thermodynamics of Biomolecular Systems (BE.011J)

Undergraduate · Historical course

Spring 2004

Topics

  • Introduction
  • Probability (cont.)
  • Equilibrium States
  • Introduction to Conservation Laws (1st Law, Quantization, 2nd Law)
  • Boltzmann’s Law and Entropy as an Extensive Property
  • More Boltzmann’s Law
  • Simulations
  • Reversible and Irreversible Processes
  • Introduction to Free Energy
  • Enthalpy
  • Fundamental Equations and their Natural Variables
  • Thermodynamic Cycles
  • Partial Molar Properties
  • Partial Molar Properties II
  • Boltzmann Distribution Law
  • Partition Functions
  • Prediction of Thermodynamic Properties from Partition Functions
  • Quantum Partition Function
  • Equipartition
  • Equipartition (cont.)
  • Chemical Equlibria
  • Solid-liquid-gas Equilibrium
  • Solutions and Mixtures
  • Solvation: Protein/Macromolecule Adsorption at Interfaces
  • Polymer Chain
  • Polymer Chain II
  • Polymer Chain III
  • Cooperativity
  • Cooperativity (cont.)
  • Protein Folding

Readings

  • All Text Readings are in Dill, K., and S. Bromberg. Molecular Driving Forces . New York, NY: Routledge, 2002. ISBN: 9780815320517.
    Listed reading
  • van Holde = van Holde, K. E., W. C. Johnson, and P. S. Ho. Principles of Physical Biochemistry . Upper Saddle River, NJ: Prentice Hall, 1998. ISBN: 9780137204595.
    Listed reading
  • Eisenberg = Eisenberg, D., and D. Crothers. Physical Chemistry with Applications to the Life Sciences . Menlo Park, CA: Benjamin/Cummings, 1979. ISBN: 9780805324020.
    Listed reading
  • Kittel = Kittel, C., and H. Kroemer. Thermal Physics . 2nd ed. New York, NY: W.H. Freeman, 1980. ISBN: 9780716710882.
    Listed reading
  • SES #: L2 · TOPICS: Probability · TEXT READINGS: Ch. 1, 2
    Reading assignment
  • SES #: L3 · TOPICS: Equilibrium States · TEXT READINGS: Ch. 2 (Through Ex. 2.2)
    Reading assignment
  • SES #: L5 · TOPICS: Introduction to Conservation Laws (1st Law, Quantization, 2nd Law) · TEXT READINGS: Ch. 3
    Reading assignment
  • SES #: L10 · TOPICS: Introduction to Chemical Potential - Thermo Cycles - First Law Relations between Heat, Work, Energy · TEXT READINGS: Ch. 7
    Reading assignment
  • SES #: L11 · TOPICS: Reversible and Irreversible Processes · TEXT READINGS: Ch. 7
    Reading assignment
  • SES #: L16 · TOPICS: Partial Molar Properties · TEXT READINGS: Ch. 9
    Reading assignment
  • SES #: L17 · TOPICS: Partial Molar Properties II · TEXT READINGS: Ch. 9 · ADDITIONAL REFERENCES: Eisenberg, Ch. 7
    Reading assignment
  • SES #: L19 · TOPICS: Boltzmann Distribution Law · TEXT READINGS: Ch. 10
    Reading assignment
  • SES #: L20 · TOPICS: Partition Functions · TEXT READINGS: Ch. 10
    Reading assignment
  • SES #: L22 · TOPICS: Quantum Partition Function · TEXT READINGS: Ch. 10, 11
    Reading assignment
  • SES #: L23 · TOPICS: Equipartition · TEXT READINGS: Ch. 11
    Reading assignment
  • SES #: L24 · TOPICS: Equipartition (cont.) · TEXT READINGS: Ch. 11
    Reading assignment
  • SES #: L26 · TOPICS: Solid-liquid-gas Equilibrium · TEXT READINGS: Ch. 14
    Reading assignment
  • SES #: L28 · TOPICS: Solvation – Osmotic Pressure · TEXT READINGS: Ch. 16
    Reading assignment
  • SES #: L29 · TOPICS: Solvation – Protein/Macromolecule Adsorption at Interfaces · TEXT READINGS: Ch. 16 · ADDITIONAL REFERENCES: van Holde, Ch. 2
    Reading assignment
  • SES #: L30 · TOPICS: Polymer Chain · TEXT READINGS: Ch. 31
    Reading assignment
  • SES #: L31 · TOPICS: Polymer Chain II · TEXT READINGS: Ch. 32
    Reading assignment
  • SES #: L32 · TOPICS: Polymer Chain III · TEXT READINGS: Ch. 33
    Reading assignment
  • SES #: L33 · TOPICS: Cooperativity · TEXT READINGS: Ch. 26
    Reading assignment
  • SES #: L34 · TOPICS: Cooperativity (cont.) · TEXT READINGS: Ch. 28
    Reading assignment
  • SES #: L35 · TOPICS: Protein Folding · ADDITIONAL REFERENCES: van Holde, Ch. 2
    Reading assignment
  • Dill, K., and S. Bromberg. Molecular Driving Forces . New York, NY: Routledge, 2002. ISBN: 9780815320517.
    Listed reading
  • Hill, T. L. An Introduction to Statistical Thermodynamics . New York, NY: Dover, 1987. ISBN: 9780486652429.
    Listed reading
  • van Holde, K. E., W. C. Johnson, and P. S. Ho. Principles of Physical Biochemistry . Upper Saddle River, NJ: Prentice Hall, 1998. ISBN: 9780137204595.
    Listed reading
  • Eisenberg, D., and D. Crothers. Physical Chemistry with Applications to the Life Sciences . Menlo Park, CA: Benjamin/Cummings, 1979. ISBN: 9780805324020.
    Listed reading
  • Kittel, C., and H. Kroemer. Thermal Physics . 2nd ed. New York, NY: W.H. Freeman, 1980. ISBN: 9780716710882.
    Listed reading
  • McQuarrie, D. A. Statistical Mechanics . New York: Harper Collins, 1976.
    Listed reading
  • Atkins, P. W. Physical Chemistry . San Francisco: W. H. Freeman, 1997.
    Listed reading
Sources