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thesis.out
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thesis.out
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\BOOKMARK [0][-]{chapter.1}{Introduction}{}% 1
\BOOKMARK [1][-]{section.1.1}{\040Biochemical\040Definitions}{chapter.1}% 2
\BOOKMARK [2][-]{subsection.1.1.1}{\040Protein\040Structures}{section.1.1}% 3
\BOOKMARK [2][-]{subsection.1.1.2}{\040Properties\040of\040Proteins}{section.1.1}% 4
\BOOKMARK [1][-]{section.1.2}{\040Problem\040Formulation}{chapter.1}% 5
\BOOKMARK [2][-]{subsection.1.2.1}{\040Protein-Ligand\040Interactions}{section.1.2}% 6
\BOOKMARK [2][-]{subsection.1.2.2}{\040Protein-Protein\040Interactions}{section.1.2}% 7
\BOOKMARK [2][-]{subsection.1.2.3}{\040Summary}{section.1.2}% 8
\BOOKMARK [0][-]{chapter.2}{State\040of\040the\040Art}{}% 9
\BOOKMARK [1][-]{section.2.1}{\040Molecular\040Visualization}{chapter.2}% 10
\BOOKMARK [2][-]{subsection.2.1.1}{\040Atomistic\040and\040Bond-Centric\040Models}{section.2.1}% 11
\BOOKMARK [2][-]{subsection.2.1.2}{\040Protein\040Architecture}{section.2.1}% 12
\BOOKMARK [2][-]{subsection.2.1.3}{\040Surface\040Representations}{section.2.1}% 13
\BOOKMARK [3][-]{section*.6}{\040Surface\040Simplification}{subsection.2.1.3}% 14
\BOOKMARK [3][-]{section*.7}{\040Visual\040Enhancements}{subsection.2.1.3}% 15
\BOOKMARK [1][-]{section.2.2}{\040Molecular\040Dynamics\040Simulations}{chapter.2}% 16
\BOOKMARK [1][-]{section.2.3}{\040Analysis\040of\040Protein\040Voids}{chapter.2}% 17
\BOOKMARK [2][-]{subsection.2.3.1}{\040Detection\040of\040Protein\040Voids}{section.2.3}% 18
\BOOKMARK [2][-]{subsection.2.3.2}{\040Visual\040Analysis\040of\040Protein\040Voids}{section.2.3}% 19
\BOOKMARK [1][-]{section.2.4}{\040Analysis\040of\040Protein-Protein\040Interactions}{chapter.2}% 20
\BOOKMARK [2][-]{subsection.2.4.1}{\040Protein-Protein\040Docking}{section.2.4}% 21
\BOOKMARK [2][-]{subsection.2.4.2}{\040Visual\040Analysis\040of\040Protein-Protein\040Interactions}{section.2.4}% 22
\BOOKMARK [1][-]{section.2.5}{\040Available\040Molecular\040Visualization\040Software}{chapter.2}% 23
\BOOKMARK [0][-]{chapter.3}{Aims\040of\040the\040Thesis}{}% 24
\BOOKMARK [1][-]{section.3.1}{\040Protein-Ligand\040Interactions}{chapter.3}% 25
\BOOKMARK [1][-]{section.3.2}{\040Protein-Protein\040Interactions}{chapter.3}% 26
\BOOKMARK [1][-]{section.3.3}{\040Study\040Plan}{chapter.3}% 27
\BOOKMARK [0][-]{chapter.4}{Achieved\040Results}{}% 28
\BOOKMARK [0][-]{chapter.5}{Author's\040Publications}{}% 29