RibosomeAtlas is an interactive site for exploring ribosomal RNA diversity across bacteria and archaea. Ribosomal RNA genes are mined from the Genome Taxonomy Database (GTDB r232), linking rRNA alignments to a comprehensive phylogenetic tree spanning cultured and uncultured taxa. This enables exploration of rRNA variation across the tree, identification of clade-specific variations, and comparison across clades.
1b View and edit position selections on ribosomal structures ⓘThe selected rRNA positions shown on 2D and 3D ribosomal RNA structures; positions with no counterpart in the visualized structures are noted above. On the 2D structure, positions can be selected and deselected by clicking or drawing a box.
2D — R2DT secondary structure diagrams (Sweeney et al, 2021, from RNAcentral) of the E. coli or H. marismortui references, using RiboVision templates for 16S and 23S, CRW for 5S.
3D — structures are PDB 7K00 for E. coli 70S ribosome with mRNA and A- and P-site tRNAs (Watson et al, 2020) and PDB 4V9F for H. marismortui 50S only (Gabdulkhakov et al, 2013), no tRNAs.
2D — R2DT secondary structure diagrams (Sweeney et al, 2021, from RNAcentral) of the E. coli or H. marismortui references, using RiboVision templates for 16S and 23S, CRW for 5S.
3D — structures are PDB 7K00 for E. coli 70S ribosome with mRNA and A- and P-site tRNAs (Watson et al, 2020) and PDB 4V9F for H. marismortui 50S only (Gabdulkhakov et al, 2013), no tRNAs.
Select and deselect positions in 2D diagram by clicking or dragging a box
How to visualize variation at these positions? You can edit the position selection at any time.
Paste an rRNA sequence. Both views set their positions on their own page.