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. 2018 Jan 1;8(4):1106–1120. doi: 10.7150/thno.19904

Table 1.

miRNA pairs cooperating in the regulation of E2F1.

miRNA pair miR-205-5pmiR-342-3p miR-205-5pmiR-148a-3p miR-205-5pmiR-377-3p miR-205-5pmiR-148b-3p miR-205-5pmiR-152-3p
Secondary structure graphic file with name thnov08p1106i001.jpg graphic file with name thnov08p1106i002.jpg graphic file with name thnov08p1106i003.jpg graphic file with name thnov08p1106i004.jpg graphic file with name thnov08p1106i005.jpg
Structure pattern target self-complementarity canonical triplex target self-complementarity canonical triplex canonical triplex
Seed distance (nt) 32 27 33 27 27
∆G (kcal/mol) -50.56 -45.26 -44.86 -44.66 -42.76
∆∆G (kcal/mol) -20.28 -14.78 -12.98 -14.18 -12.28
Potential energy (kcal/mol) -8241.33 -7040.79 -7623.90 -6841.37 -7064.68
Equilibrium concentration (nM) 99.95 94.93 47.05 88.88 64.36

The second row shows the local secondary structure for the predicted RNA triplexes (grey: mRNA, green: miR-205-5p, red: other miRNAs). Seed distance: the distance between the seed sites of the miRNAs in the 3' UTR of E2F1. ∆G: the change in Gibbs free energy when the miRNA pairs and the E2F1 mRNA form the triplex (miRNA1/miRNA2/mRNAE2F1). ∆∆G: the free energy gained by triplex formation compared to the duplex (miRNA/mRNAE2F1) showing smaller ∆G. Potential energy: the calculated energy in the 3D structure of the triplexes. Equilibrium concentration: the equilibrium concentrations of RNA triplexes computed by a partition function algorithm (see Materials and Methods).