Erik Lindahl

More documents

Recommendations

Info

Which shape is best energy-wise? Volume matters!
Free Energy • Introduce the available volume V A • Number of states proportional to volume • Thus, probability is proportional to volume • Consider probabilities of finding particles somewhere in volumes A vs. B: pVA/pVB = (VA exp{-EA/kT}) / (VB exp{-EB/kT})
Page 1: Protein Physics 2012 Lecture 2, Jan
Page 6 and 7: Natural amino acids
Page 9 and 10: α R β α L
Page 11 and 12: Outline today • More on interacti
Page 13 and 14: Semi-Empiric Modeling • Use simpl
Page 15 and 16: Bond stretching • Vibration aroun
Page 17 and 18: Torsions/dihedrals Frequently calle
Page 19 and 20: Nonbonded interactions Packing effe
Page 21 and 22: Lennard-Jones • Simpler form than
Page 23 and 24: Hydrophobic effect
Page 25: The Boltzmann Distribution ⇢ / e
Page 28 and 29: Formulating Boltzmann • Clapeyron
Page 32 and 33: Free Energy • Use V=exp{ln(V)}
Page 34 and 35: How many states does this correspon
Page 36 and 37: Phase Transitions Explained • Sys
Page 38 and 39: Partitioning • Consider transfer

Erik Lindahl

Create successful ePaper yourself

Delete template?

Save as template?