VADAR -- a web server for quantitative evaluation of protein structure quality
What you can do:
Conduct automated quantitative protein structure evaluation.
Highlights:
- VADAR (Volume Area Dihedral Angle Reporter) is a comprehensive web server using a compilation of more than 15 different algorithms and programs for quantitative protein structure evaluation.
- It accepts Protein Data Bank formatted files or PDB accession numbers as input and calculates, identifies, graphs, reports and/or evaluates a large number (>30) of key structural parameters both for individual residues and for the entire protein.
- These include excluded volume, accessible surface area, backbone and side chain dihedral angles, secondary structure, hydrogen bonding partners, hydrogen bond energies, steric quality, solvation free energy as well as local and overall fold quality.
- These derived parameters can be used to rapidly identify both general and residue-specific problems within newly determined protein structures.
- VADAR produces extensive tables and high quality graphs for quantitatively and qualitatively assessing protein structures determined by X-ray crystallography, NMR spectroscopy, 3D-threading or homology modeling.
Keywords:
- protein tertiary structures
- protein structure prediction evaluation tool
- protein structure prediction analysis tool
- protein tertiary structure prediction tool
- protein 3D structure prediction tool
- protein tertiary structure analysis tool
- protein secondary structure assignment tool
- protein secondary structures
- Nuclear Magnetic Resonance data analysis tool
- protein secondary structure prediction tool
- protein structure analysis tool
- protein structure prediction tool
- protein structures
- NMR spectroscopy data analysis tool
- 3D-threading data analysis tool
- protein homology modeling tool
- X-ray crystallography data analysis tool
Literature & Tutorials:
This record last updated: 06-09-2005