Selected article for: "internal loop and protein gene"
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_34
    Snippet: The NMIA sensitivity profile of PK1 Flip mutant indicated extensive alternations within the 5 0 -and 3 0 -UTRs ( Figure 5 and Supplementary Figures S7 and S8 ). The 5 0 UAR no longer formed a double-stranded region, but instead, it became a part of the novel SLB hairpin (G70-C105) with a reactive apical loop (G86-G89) and internal loops (U73-A77 and G99-U102). The 5 0 DAR region, previously double-stranded in DENV-MINI, rearranged into a reactive.....
    Document: The NMIA sensitivity profile of PK1 Flip mutant indicated extensive alternations within the 5 0 -and 3 0 -UTRs ( Figure 5 and Supplementary Figures S7 and S8 ). The 5 0 UAR no longer formed a double-stranded region, but instead, it became a part of the novel SLB hairpin (G70-C105) with a reactive apical loop (G86-G89) and internal loops (U73-A77 and G99-U102). The 5 0 DAR region, previously double-stranded in DENV-MINI, rearranged into a reactive single-stranded loop (C105-G110). In addition, the PK1 'flipping' mutation abolished base pairing between 5 0 and 3 0 CS, disrupting the previous double-stranded 5 0 -3 0 CS. The 5 0 CS (C135-G144) now formed a reactive single-stranded region downstream of cHP, whereas the 3 0 CS (C613-U622) and the 'flipped' PK1 region (C613-A617) comprised a reactive loop downstream of the 3 0 DB. In addition, the two hairpins previously formed within the sequence of the 5 0 -end of the capsid protein gene were fused into an extended hairpin (G153-C197) with a weakly reactive internal loop (A158-G163 and A187-A192) and an A-C mismatch.

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