Mapping of Complete Set of Ribose and Base Modifications of Yeast rRNA by RP-HPLC and Mung Bean Nuclease Assay
Fig 7
3D and 2D modification atlas for the chemical modifications of yeast rRNA.
Both ribose and base modifications analyzed in the present study are mapped on the 3D structure of ribosome. 3D cartoon of the yeast 18S rRNA (A) and 25S rRNA (B), highlighting the location of ribose methylations (purple spheres), and base modifications (orange spheres). PDB files 3U5B and 3U5D were used for the representation of 18S and 25S ribosomal RNA. The cartoon was made by PyMOL software (PyMOL Molecular Graphics System, Version 1.2r3pre, Schrödinger, LLC.). Both ribose and base modifications were also mapped on to the 2D sequence map of the 18S (C) and 25S (D) rRNA of the yeast using online RiboVision suite (http://apollo.chemistry.gatech.edu/RiboVision/).