File : pdf presentation, 5 MB, 36 pages
by Patrice Koehl
CONTENTS
The Importance of Shape
Enzyme – Substrate Binding
Co-factors may induce the fit: allostery
Energy Landscape
Energy of a Protein
Atomic interactions
Forces between atoms
Solvent
Explicit or Implicit ?
Potential of mean force
Solvation Free Energy
The SA model
Surface area potentials – Which surface?
Hydrophobic potential : Surface Area, or Volume?
Representations of Biomolecules
Computing the Surface Area and Volume of a Union of Balls
Computing the Surface Area and Volume of a Protein
Computing the Surface Area and Volume of RNA
Experimental measures of accessibilities
BINDING POCKETS IN 16S RIBOSOMAL RNA
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