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\subsection{Pharmacophore Queries}  A pharmacophore \cite{Koes_2015rev,Yang_2010,Leach_2010} defines the essential features of an interaction, such as hydrogen bond, charged, hydrophobic, or aromatic features. Importantly, a pharmacophore includes the spatial arrangement of these features and pharmacophore  \subsection{Shape Queries} \cite{matchpack}\cite{vams}