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Site Recognition on Protein Structures using Alpha Shapes

Explore the concept of Alpha Shapes in modeling protein structures and understanding binding sites on proteins. This midterm report outlines the significance of recognizing sites with functional roles on protein surfaces.

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Site Recognition on Protein Structures using Alpha Shapes

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  1. Site Recognition on Protein Structures using Alpha Shapes Research Project Midterm Report CSC 870, Spring 2007 Philipp Richter Undergraduate Student

  2. Alpha Shapes - Recap • What is an Alpha Shape? • It is a Triangulation of a Point Set (here: 3 dimensional) • It is used to model the surface of a point set • APPLET

  3. Alpha = 0.0 (no triangulation)

  4. Alpha = 5.0

  5. Alpha = 20.0

  6. Site Recognition - Introduction • What is a site on a protein? • A 3 dimensional region on the surface of a protein with a functional role • Why are sites important? • Because a lot information about the function of the protein can be derived from its sites

  7. Site Recognition - Introduction • So what exactly do we like to recognize? • Binding sites that look like pockets or clefts in the surface of the protein

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