Selected article for: "energy minimization and MolProbity tool"
Author: Sztuba-Solinska, Joanna; Teramoto, Tadahisa; Rausch, Jason W.; Shapiro, Bruce A.; Padmanabhan, Radhakrishnan; Le Grice, Stuart F. J.
Title: Structural complexity of Dengue virus untranslated regions: cis-acting RNA motifs and pseudoknot interactions modulating functionality of the viral genome
  • Document date: 2013_3_26
    • ID: 1pbd4maf_14
    Snippet: The secondary structure of DENV-MINI RNA predicted by RNAstructure software version 5.3 (22) and chemical probing data from SHAPE (21) were used to generate 3D models for 474-nt DENV-MINI RNA by RNAComposer, version 1.0 (http://rnacomposer.cs.put.poznan.pl/). The quality of predicted models was evaluated using MolProbity tool (24) . Where required, spatial positioning of RNA substructures were adjusted and the affected regions subjected to energy.....
    Document: The secondary structure of DENV-MINI RNA predicted by RNAstructure software version 5.3 (22) and chemical probing data from SHAPE (21) were used to generate 3D models for 474-nt DENV-MINI RNA by RNAComposer, version 1.0 (http://rnacomposer.cs.put.poznan.pl/). The quality of predicted models was evaluated using MolProbity tool (24) . Where required, spatial positioning of RNA substructures were adjusted and the affected regions subjected to energy minimization using Discovery Studio v3.5 (Accelrys, San Diego, CA, USA).

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