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{{No footnotes|date=June 2010}}
[[Graphical model]]s have become powerful frameworks for [[protein structure prediction]], [[protein–protein interaction]] and [[Thermodynamic free energy|free energy]] calculations for protein structures. Using a graphical model to represent the protein structure allows the solution of many problems including secondary structure prediction, protein protein interactions, protein-drug interaction, and free energy calculations.
There are two main approaches to use graphical models in protein structure modeling. The first approach uses [[discrete]] variables for representing coordinates or [[dihedral angle]]s of the protein structure. The variables are originally all continuous values and, to transform them into discrete values, a discretization process is typically applied. The second approach uses [[continuous]] variables for the coordinates or dihedral angles.
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