PAR-3D -- Protein Active site Residue - 3D structural motif

What you can do:
A server to predict protein active site residues.
  • PAR-3D is a web-based tool that exploits the fact that relative juxtaposition of active site residues is a conserved feature in functionally related protein families.
  • The server uses previously calculated and stored values of geometrical parameters of a set of known proteins (training set) for prediction of active site residues in a query protein structure.
  • PAR-3D stores motifs for different classes of proteases, the ten glycolytic pathway enzymes and metal-binding sites.
  • The server accepts the structures in the pdb format.
  • The first step during the prediction is the extraction of probable active site residues from the query structure.
  • Spatial arrangement of the probable active site residues is then determined in terms of geometrical parameters.
  • These are compared with stored geometries of the different motifs.
  • Its speed and efficiency make it a beneficial tool for structural genomics projects, especially when the biochemical function of the protein has not been characterized.
  • Binding Sites
  • Protein Binding
  • Protein Interaction Mapping
  • Sequence Alignment
  • Sequence Analysis
  • protein active site residues
Literature & Tutorials:
This record last updated: 06-03-2008
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