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. Author manuscript; available in PMC: 2015 Dec 28.
Published in final edited form as: Chem Biol. 2004 Dec;11(12):1729–1741. doi: 10.1016/j.chembiol.2004.11.018

Figure 2. Sequence and Stem Secondary Structures of Aptamer Domains of Purine-Sensing mRNAs.

Figure 2

(A) V. vulnificus 71-mer add A-riboswitch; (B) B. subtilis 68-mer xpt G-riboswitch. The color-coding scheme is as follows: Stems P1, P2, and P3 are green, yellow, and blue, respectively. Loops L2 and L3 are yellow and blue, respectively. Junction-connecting segments J1-2, J2-3, and J3-1 are cyan, orange, and violet, respectively. The specificity-determining pyrimidine residue at position 74 is highlighted with a larger lettering size. The bound adenine and guanine ligands are indicated in red lettering. Tertiary pairing alignments involving Watson-Crick and noncanonical base pairs are shown by full and dashed lines, respectively. The shaded regions in (B) highlight differences between the A- and G-riboswitches.