Document Type
Conference Proceeding
Publication Date
11-26-2012
Publication Title
2012 ACM Conference on Bioinformatics, Computational Biology and Biomedicine, BCB 2012
Abstract
In this poster, we present an extension to our freely available KINARI-Web server to identify rigid and flexible regions of nucleic acids and protein-nucleic acid complexes contained in the Protein Data Bank (PDB). The goal is to explore the effect of DNA and RNA on the rigidity and stability of these structures. We also propose an approach for determining DNA rigidity based solely on sequence. Currently, only the rigidity of DNA molecules whose structures have been deposited in the PDB (approx. <4,000 files) can be analyzed. Once fine-tuned and validated, this new coordinate-free method for investigating DNA flexibility could be applied to the more than 135 million sequences in GenBank, and to nanostructure design.
Keywords
DNA, Flexibility, Pebble game, Proteins, Rigidity, RNA
First Page
607
Last Page
609
DOI
10.1145/2382936.2383038
Rights
© the authors
Recommended Citation
Flynn, Emily; Jagodzinski, Filip; and Streinu, Ileana, "Towards Sequence-Based DNA Flexibility Analysis" (2012). Computer Science: Faculty Publications, Smith College, Northampton, MA.
https://scholarworks.smith.edu/csc_facpubs/326
Comments
Peer reviewed accepted manuscript.