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Abstract
Converts CadNano's paired .json and .csv files into a single .pdb file.
Output is formatted as a text file following the standards associated with Protein Data Bank (PDB) files and can be downloaded directly through the Rappture interface.
Credits
The Aksimentiev Group at the University of Illinois
Sponsored by
NanoBio Node, University of Illinois Champaign-Urbana
References
Visualization:
Humphrey, W., Dalke, A. and Schulten, K., "VMD - Visual Molecular Dynamics", J. Molec. Graphics, 1996, vol. 14, pp. 33-38.
Cadnano:
Douglas, Shawn M. (2012). cadnano DNA Origami Software (Version 2) [Computer software]. Cambridge, MA: Massachusetts Institute of Technology. Retrieved January 1, 2014. Available at http://cadnano.org/
Cite this work
Researchers should cite this work as follows:
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J. Yoo and A. Aksimentiev. In situ structure and dynamics of DNA origami determined through molecular dynamics simulations. Proceedings of the National Academy of Sciences USA 110: 20099-20104 (2013).