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Single (or Multiple) Model Protein Structure Analysis Note: cannot process proteins 2000 residues in each model (Volume, Area, Dihedral Angle Reporter) is a compilation of more than 15 different algorithms and programs for analyzing and assessing peptide and protein structures from their PDB coordinate data. The results have been validated through extensive comparison to published data and careful visual inspection. The web server supports the submission of either PDB formatted files or PDB accession numbers. 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 modelling. Please cite the following: Leigh Willard, Anuj Ranjan, Haiyan Zhang, Hassan Monzavi, Robert F. Boyko, Brian D. Sykes, and David S. Wishart ": a web server for quantitative evaluation of protein structure quality" Nucleic Acids Res. 2003 July 1; 31 (13): 3316–3319. We have another advanced server for assessing the quality of protein structures: www.resprox.ca Download project source code For additional information on how to run click this button Select desired PDB file Note: the uploaded file must be in PDB format in order for this form to work. Refer to the HELP button above. OR Enter PDB accession number (Please specify the chain e.g. 4TRXA (4TRX chain A), If not specified, all chains will be processed, e.g. 4TRX) Program Options: -- Calculate hydrogen bonds to water Values for Van der waals radii Chothia Eisenberg Richards Shrake Take definition of polar/nonpolar ASA and charged ASA from Chothia Eisenberg Shrake Type of volume calculation Standard Voronoi procedure> Richards Method B Radical Plane procedure Table Output Options: Main Chain Information Side Chain Information Hydrogen Bond Information Quality Index Information Statistics Information output in separate files(.bond .main .side .stats) output in one file -- Graphic Display Options: PNG Format, Fixed Size JPEG Format, Fixed Size JPEG Format, Variable Size, 2 pix/residue JPEG Format, Variable Size, 4 pix/residue Problems? Questions? Suggestions? Please contact feedback This work is licensed under a Creative Commons Attribution-ShareAlike 3.0 Unported License . Funding for this project was provided by , and...