PAR-3D -- Protein Active site Residue - 3D structural motif
What you can do:
A server to predict protein active site residues.
Highlights:
- 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.
Keywords:
- Binding Sites
- Protein Binding
- Protein Interaction Mapping
- Sequence Alignment
- Sequence Analysis
- protein active site residues
Literature & Tutorials:
This record last updated: 06-03-2008