BGSU RNA Structural Bioinformatics

Structural Databases

Representative sets and equivalence classes of RNA-containing 3D structures.

Structural annotations for all atomic-resolution RNA 3D structures deposited in PDB/NDB, including FR3D basepairing and base-stacking annotations and internal, hairpin, and 3-way junction loops.

RNA 3D Motif Atlas, a representative collection of RNA 3D motifs.

Web Applications

WebFR3D is the online version of FR3D, a program for symbolic and geometric searching of RNA 3D structures.

JAR3D is an application for predicting RNA 3D motifs in sequences and sequence alignments.

R3DMCS is a web server to explore the variability of an RNA motif across the same molecule from the same organism, or across different organisms.

R3DSVS is a web server to explore the sequence variability of an RNA motif across many different organisms.

R3DAID is a web server to display and evaluate pairwise alignments between RNA chains.

The Circular Diagram Server produces high-quality representations of the pairwise interactions in RNA or DNA structures, from small molecules up to entire ribosomes.