A database that stores information obtained from all RNA-containing PDB entries. URSDB consists of 51 tables containing indexed data on various elements of the RNA structures. The database provides a web interface allowing user to select a subset of structures with desired features and to obtain various statistical data for a selected subset of structures or for all structures. In particular, one can easily obtain statistics on geometric parameters of base pairs, on structural motifs (stems, loops, etc.) or on different types of pseudoknots.
Laboratory of Applied Mathematics, Institute of Mathematical Problems of Biology, Russian Academy of Sciences, Pushchino, Moscow Region, Russia; Department of Algorithms and Technology of Programming, Faculty of Innovations and High Technology, Moscow Institute of Physics and Technology (State University), Dolgoprudny, Moscow Region, Russia; Department of Big Data and Information Retrieval, Faculty of Computer Science, National Research University Higher School of Economics, Moscow, Russia; Department of Mathematical Methods in Biology, Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, Russia
URSDB funding source(s)
This work was supported by the Russian Foundation for Basic Research [grant numbers 13-07-00969, 14-04-01693 and grant numbers 12-04-01053, 14-01-93106, 16-04-01640].
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