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

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Presentation transcript:

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

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 APPLET

Alpha = 0.0 (no triangulation)

Alpha = 5.0

Alpha = 20.0

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

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