Figure 5

Structural analysis of GUC11, the other outlier in Figure 3. For a substantial portion of the structure sample generated by Sfold for GUC11, the predicted structure has a misfolded catalytic core. (A) Ribozyme in "active" binding conformation with correctly folded core (i.e., helix II and single stranded end sequences of the core including 9 conserved nucleotides, as shown in Figure 1A), representing 66.5% of the predicted structures. (B) A conformation with a misfolded core, representing 28% of the predicted structures. (C) Another conformation with a misfolded core, representing 5.5% of the predicted structures. The sequence for the ribozyme 5' binding arm ends at A⁹, and the sequence for the ribozyme 3' binding arm starts at A³².