Computational protocol: Identification of Functional Subclasses in the DJ-1 Superfamily Proteins

Similar protocols

Protocol publication

[…] THEMATICS analysis was performed on the protein structures according to the procedures described by Ko et al. [], using a Z score cutoff value of 0.99 in the statistical analysis and using a distance cutoff of 9.0 Ã… to form the clusters. Structural alignments were performed using a Combinatorial Extension method and the 3-D Protein Structure Comparison and Alignment Server (http://cl.sdsc.edu) []. Structures were rendered using the graphical programs PyMol (http://www.pymol.org) and Yasara (http://www.yasara.org/index.html). […]

Pipeline specifications

Software tools PyMOL, YASARA
Applications Drug design, Protein structure analysis