In the RNA structural biology and bioinformatics an access to correct RNA secondary structure representation is of crucial importance. This is true for both, secondary and three-dimensional RNA structure prediction studies.
Here, we present RNApdbee which greatly facilitates an access to RNA secondary structure topology extracted from pdb/mmCIF files of both, knotted and unknotted RNA structures. The tool also allows to convert between BPSEQ, CT and dot-bracket notations, and provides graphical images of RNA secondary structures.
Maciej Antczak1, Tomasz Zok1, Mariusz Popenda2, Piotr Lukasiak1,2, Ryszard W. Adamiak1,2, Jacek Blazewicz1,2, Marta Szachniuk1,2
- Institute of Computing Science & European Centre for Bioinformatics and Genomics, Poznan University of Technology, 60-965 Poznan Poland
- Institute of Bioorganic Chemistry, Polish Academy of Sciences, 61-704 Poznan, Poland
Acknowledgements and Funding
In 2013-2016, RNApdbee project has been supported by the National Science Centre, Poland, MAESTRO grant 2012/06/A/ST6/00384.