RNAmodViz is a lightweight toolkit for the retrieval, parsing, visualization, and cataloging of modified RNA nucleotides from the Protein Data Bank (PDB) Chemical Component Dictionary (CCD).
The toolkit automates:
- Downloading CCD entries for modified nucleotides
- Parsing CCD CIF files using Gemmi
- Generating publication-quality 2D structures using RDKit
- Generating 3D molecular illustrations using PyMOL
- Building multi-panel figures for reports, manuscripts, and presentations
- Creating metadata catalogs of RNA modifications
Install the required packages:
pip install numpy pandas gemmi rdkit pillowCurrently under development: Additional features related to RNA modifications and its importance in protein-RNA interactions and recognition will be included in future.