urslib2

Library for processing RNA structures using PDB, DSSR and other data.

Check out our other developments

description

urslib2 is an implementation of definitions of the RNA secondary structure elements described in:

Baulin, E., Yacovlev, V., Khachko, D., Spirin, S., & Roytberg, M. (2016). URS DataBase: universe of RNA structures and their motifs. Database, 2016.. DOI: 10.1093/database/baw085

urslib2 was used for the annotation of RNA long-range nucleotide doublets, see:

D.R. Bohdan, V.V. Voronina, J.M. Bujnicki, E.F. Baulin (2023) A comprehensive survey of long-range tertiary interactions and motifs in non-coding RNA structures. Nucleic Acids Research. gkad605. DOI: 10.1093/nar/gkad605

The previous version of the library named "urslib" was used for the classification of RNA A-minor motifs, see:

Shalybkova, A. A., Mikhailova, D. S., Kulakovskiy, I. V., Fakhranurova, L. I., & Baulin, E. F. (2021). Annotation of the local context of RNA secondary structure improves the classification and prediction of A-minors. RNA, 27(8), 907-919.. DOI: 10.1261/rna.078535.120