Poster: PRDDs: A Protein Residue Distance & Angle Distribution Database for Secondary Structures

The Protein Residue Distance & Angle Distribution Database for Secondary Structures (PRDDs) is a dedicated database and structural bioinformatics system for protein analysis and modeling. The database is developed to host and analyze the statistical data for protein residue level distances and angles (called virtual bonds, bond angles, and torsion angles) obtained from their distributions in databases of known protein structures such as in PDB Data Bank. PRDDs is capable of generating, caching, and displaying the statistical distributions of the distances and angles in various types of secondary structures. The collected information can be used to extract geometric restraints or define statistical potentials for protein structure determination. The database is supported with a friendly designed Web interface so that users can easily specify the distance and angle types, and retrieve, visualize, or download the distributions of the distances and angles as they desire. In addition, users can cluster and analyze structural characteristics such as the correlations of the residue level distances and angles in sequence.