Show Dim Hide Interaction
nested Watson-Crick basepairs
non-nested Watson-Crick basepairs
nested non-Watson-Crick basepairs
non-nested non-Watson-Crick basepairs
stacking interactions
base-phosphate interactions
base-ribose interactions
near interactions
Examples

Example 1
Complete Escherichia coli ribosome showing the 5S chain, large subunit, small subunit, and two tRNAs bound to the LSU and SSU and interacting with mRNA.

Example 2
Human large ribosomal subunit and 5.8S chain. These chains have more than 5000 nucleotides, but large segments of chain L5 do not have 3D coordinates in the solved structure, and so are represented with base and sequence position only. Stacking and near interactions are not shown, and base-backbone interactions are dimmed.

Example 3
This eukaryotic ribozyme from Tetrahymena features a pseudoknot and kissing hairpins between nucleotides G44 and C170. It also includes a cis Watson-Crick/Watson-Crick (cWW) interaction between G100 and C274. G100 is located in the linker region between helices, while C274 is situated on one strand of an internal loop.

Example 4
This presents the 8OM4 molecule, recognized as the small subunit ribosomal RNA (SSU rRNA), originating from mitochondria, specifically from Saccharomyces cerevisiae, commonly known as baker's yeast. The diagram employs grayscale coloring and highlights only the nested cWW interactions while reducing the prominence of long-range cWW interactions.

Example 5 (not ready yet)
This presents the 8OM4 molecule, recognized as the small subunit ribosomal RNA (SSU rRNA), originating from mitochondria, specifically from Saccharomyces cerevisiae, commonly known as baker's yeast. The diagram employs grayscale coloring and highlights only the nested cWW interactions while reducing the prominence of long-range cWW interactions.