Secondary structures in the 5′-UTRs of two <i>phz</i> gene clusters were predicted by RNA fold.

Abstract

<p>The predicted secondary structures in 5′-UTR of <i>phzA1-G1</i> (1–337 nt) and <i>phzA2-G2</i> (1–198 nt) gene clusters (A). The conserved RNA secondary structures were predicted from the alignment of <i>Pseudomonas</i> sp. M18 and <i>P. aeruginosa</i> PA7. The base pairing probabilities were annotated with colors. Three suboptimal secondary structures were also predicted for a portion of the 5′-UTR of the <i>phzA1-G1</i> gene cluster in <i>Pseudomonas</i> sp. M18 (B). Gibbs free energies (ΔG) of the three suboptimal local structures from left to right are −39.3 kcal/mol, −38.1 kcal/mol and −36.7 kcal/mol, respectively.</p