Scripts accompanying publication of ornate RNA structures:
Kretsch, Rachael C., Yuan Wu, Svetlana A. Shabalina, Hyunbin Lee, Grace P. Nye, Eugene V. Koonin, Alex Gao, Wah Chiu, and Rhiju Das. 2024. “Naturally Ornate RNA-Only Complexes Revealed by Cryo-EM.” bioRxiv. https://doi.org/10.1101/2024.12.08.627333.
Source tables for the manuscript are found source_tables_for_supplement biochemical_analysis/source_tables_for_supplement/ created by biochemical_analysis/get_source_tables.ipynb.
Mass photometry data and plotting can be found in biochemical_analysis/mass_photometry/. For example:
Dynamic light scattering data and plotting can be found in biochemical_analysis/dynamic_light_scattering/. For example:
Bioanalyzer data and plotting can be found in biochemical_analysis/bioanalyzer/.
Cryo-EM micrographs, particle stacks, maps, and models can be found in their respectively repository with the following ascension codes:
(we will link the data as it becomes publicly available)
| Molecule | EMPIAR | EMDB | PDB |
|---|---|---|---|
| raiA | 12706 | 48162 | 9ELY |
| OLE (dimer) | 12707 | 48163 | 9MCW |
| ROOL (8-mer) | 12708 | 48179 | 9MDS |
| GOLLD (14-mer) | 12709 | 48214 | 9MEE |
The plots descirbing the quality of the cryo-EM data and model can be found in cryoEM_analysis/plot_fsc.ipynb, cryoEM_analysis/Bfactor-plot.ipynb, and cryoEM_analysis/plot-Qscores.ipynb. For example:
