Circular Diagram Server

The Circular Diagram Server is under construction as of October 18, 2024. Some features work, but helix numbering seems to not be working very well right now, not sure why.

The Circular Diagram Server offers 2D diagrams illustrating interactions within RNA structures. It presents a wider range of information compared to their 3D counterparts, allowing for easier visualization of complex data. This feature facilitates the transformation of intricate details from 3D RNA structures into a comprehensible 2D format, maintaining essential information while simplifying visualization. Users can specify key details about the RNA structure, and upon submission, receive a corresponding diagram in PDF format. For further guidance, click on the "Help" button above.






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, which is a mitochondrial small subunit ribosomal RNA (SSU rRNA) 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.