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Recurring Functional Sites in Protein Structures detected with allowance for Substitution of Amino Acids.

Indukuri Kishore Varma


In order to gain biological understanding from the huge data that is being generated, it is necessary to analyze the functional relations among the proteins using structural similarity. To find structural similarity, we here use clustering techniques(To cluster structurally similar motifs). As the data is too huge and as clustering takes much time if done without any optimization, we take steps to speed up this process with little effect on accuracy. We First project the proteins 3D structure into GI(Geometric Invariants) space, then recognize main features in their spread by PCA(Principal Component Analysis) and then cluster them using Mahalanobis Distance Function which takes into account the property of underlying data.

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