Circular Diagram Server

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.

Enter the chain ID in this form "pdb_id|model_number|chain_name"
Choose your preferred color for interaction arcs
Choose interaction arcs which you would like to hide.
Choose interaction arcs which you would like to dim.
Choose the interaction to list as text outside the circle.
Would you like to display nucleotides with no 3D coordinates?
Some structures are annotated with helix numbers. Enter font size (0 for no numbers)

Examples

Example 1
This illustration presents the detailed structure of Escherichia coli, emphasizing the complex molecular architecture of the bacterial ribosome. The file includes a diagram that depicts various chains together. For example, it shows the tRNA molecules interacting with the mRNA, as well as the LSU and SSU RNA.

Example 2
This demonstrates the molecule 8GLP, derived from human mRNA decoding and belonging to the ribosome classification, originating from Homo sapiens. Its refined structure focuses on the LSU rRNA and 5.8S rRNA, consisting of more than 3700 nucleotides.

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.