RNAJunction: a database of RNA junctions and kissing loops for three-dimensional structural analysis and nanodesign

TLDR

RNAJunction is a curated database that compiles structure and sequence data for RNA junctions, internal loops, bulges, and loop–loop interactions, allowing users to search by PDB code, classification, sequence, keyword or inter‑helix angles, and includes energy‑minimized structural models. The database facilitates both the analysis of existing RNA structures and the design of novel nanoscale RNA constructs. The database is available at http://rnajunction.abcc.ncifcrf.gov/.

Abstract

We developed a database called RNAJunction that contains structure and sequence information for RNA structural elements such as helical junctions, internal loops, bulges and loop–loop interactions. Our database provides a user-friendly way of searching structural elements by PDB code, structural classification, sequence, keyword or inter-helix angles. In addition, the structural data was subjected to energy minimization. This database is useful for analyzing RNA structures as well as for designing novel RNA structures on a nanoscale. The database can be accessed at: http://rnajunction.abcc.ncifcrf.gov/