Here, we present RNAfitme, a versatile web server tool for remodeling and refining of nucleobase and nucleoside residue conformations for the fixed-backbone RNA 3D structure. Our approach incorporates dedicated libraries encompassing torsional angles distribution investigated in a conformational space of high-resolution RNA 3D structures deposited in PDB. RNAfitme allows users for the prediction of RNA 3D models by threading homologous RNA sequence onto fixed-backbone RNA 3D template as well as refinement of artificial RNA 3D models or RNA 3D structures determined experimentally in order to remove steric clashes observed upon structure quality assessment.
- 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
RNAfitme project has been supported by grants from the National Science Centre in Poland (2016/23/N/ST6/03779, 2016/23/B/ST6/03931) and a national grant for young researchers Młoda Kadra (91-555/2013).