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. 2013 Sep 5;8(9):e73984. doi: 10.1371/journal.pone.0073984

Figure 2. Sequence alignment and annotated tertiary motifs in SAM-I riboswitches.

Figure 2

(A) Sequence alignment of SAM-I riboswitches where gray shaded columns indicate the highly conserved nucleotide positions. Other color shaded columns indicate regions involved in tertiary interactions (green: pseudoknot, yellow: kink-turn, magenta: ribose-zipper and brown: A-minor). For clarity, not all tertiary motif positions are numbered. Base-triple positions that are not conserved are in cyan shaded columns. (B) Tertiary structure of T. tengcongensis SAM-I riboswitch [20] (PDB ID = 2gis). The ligand is represented as spheres and the highly conserved nucleotides are in wire representation. Magnification of the triple using numbering for 2qis is presented in red (A23-G23-C29).