ProDy: Protein Dynamics Inferred from Theory and Experiments

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ID: 297419
2011
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Abstract
We developed a Python package, ProDy, for structure-based analysis of protein dynamics. ProDy allows for quantitative characterization of structural variations in heterogeneous datasets of structures experimentally resolved for a given biomolecular system, and for comparison of these variations with the theoretically predicted equilibrium dynamics. Datasets include structural ensembles for a given family or subfamily of proteins, their mutants and sequence homologues, in the presence/absence of their substrates, ligands or inhibitors. Numerous helper functions enable comparative analysis of experimental and theoretical data, and visualization of the principal changes in conformations that are accessible in different functional states. ProDy application programming interface (API) has been designed so that users can easily extend the software and implement new methods.ProDy is open source and freely available under GNU General Public License from http://www.csb.pitt.edu/ProDy/.
Reference Key
openalex_W2123681603 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Ahmet Bakan, Lidio Meireles, İvet Bahar
Journal BMC Bioinformatics
Year 2011
DOI
10.1093/bioinformatics/btr168
URL
https://academic.oup.com/bioinformatics/article-pdf/27/11/1575/48863254/bioinformatics_27_11_1575.pdf
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