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The source code for RCrane is available on GitHub. Coot downloads are available for Linux, Windows, and Mac. RCrane will then be accessible through the newly-created RCrane menu. Once Coot is launched, go to Extensions -> RCrane launch. Acta Cryst D68: 958-995 (2012).ĭownload instructions: RCrane is included in Coot. RCrane: Semi-automated RNA model building. Semiautomated model building for RNA crystallography using a directed rotameric approach. Acta Cryst D (2022).ĭownload instructions: The source code and binary executable for Linux, Mac and Windows can be downloaded from Github.ĭescription: RCrane allows for semi-automated building of RNA structure within Coot.Ĭurrent version: 1.1 (released September 26, 2012) View changelog

CSSR: assignment of secondary structure to coarse-grained RNA tertiary structures. iScience 2022ĭownload instructions: The source code can be downloaded from Github or the US-align web-server.ĭescription: CSSR assigns RNA secondary structure to coarse-grained tertiary structure. A unified approach to sequential and non-sequential structure alignment of proteins, RNAs and DNAs. US-align: Universal Structure Alignments of Proteins, Nucleic Acids, and Macromolecular Complexes. References: Zhang C, Shine M, Pyle AM, Zhang Y. J Mol Biol 2022ĭownload instructions: The source code can be downloaded from Github or the rMSA web-server.ĭescription: Universal Structure Alignment of RNAs, DNAs, proteins and macromolecule complexes. rMSA: a sequence search and alignment algorithm to improve RNA structure modeling. J Mol Biol 2012.ĭescription: RNA sequence database search and multiple sequence alignment generation. Discrete RNA Libraries from Pseudo-Torsional Space. Mol Cell 2015 (58) : 353-361ĭiscrete RNA Libraries from Pseudo-Torsional Space.ĭescription: Libraries of discrete RNA conformations based on a simplified pseudo-torsional notation of the RNA backbone. HOTAIR forms an intricate and modular secondary structure. Reference: Somarowthu S, Legiewicz M, Gazquez IC, Marcia M, Liu F and Pyle AM. The Coding Region of the HCV Genome Contains a Network of Regulatory RNA Structures. Reference: Pirakitikulr N, Kohlway A, Lindenbach BD and Pyle AM.