Magnesium ions mitigate metastable states in the regulatory landscape of mRNA elements

TABLE 1.

(Top to bottom) Number of ions for each condition, corrected ion concentrations, preferential interaction coefficients, root-mean-square deviation (RMSD), radius of gyration, and trace of covariance matrix

20 mM dG[+] 20 mM dG[−] 5 mM dG[+] 5 mM dG[−] 0 mM dG[+] 0 mM dG[−]
Formula 37 37 23 23 0 0
Formula 67 67 76 76 115 115
Formula 74 74 55 55 48 48
[Mg2+] (mM) 20.2 ± 3.7 20.7 ± 3.7 5.3 ± 2.6 5.4 ± 2.6 0 0
[K+] (mM) 98.7 ± 6.9 97.8 ± 7.0 97.7 ± 6.2 97.3 ± 6.1 100.8 ± 4.5 100.9 ± 4.5
[Cl] (mM) 139.2 ± 5.9 139.2 ± 5.9 108.4 ± 4.9 108.1 ± 4.9 100.8 ± 4.5 100.9 ± 4.5
Formula 25.4 ± 2.1 25.1 ± 2.1 19.9 ± 1.5 19.9 ± 1.5 0 0
Formula 10.5 ± 3.9 11.1 ± 4.0 20.1 ± 3.6 20.2 ± 3.5 57.3 ± 2.5 57.3 ± 2.6
Formula −5.6 ± 3.5 −5.7 ± 3.4 −7.0 ± 2.8 −7.0 ± 2.8 −9.7 ± 2.5 −9.8 ± 2.6
RMSD (Å) 2.3 ± 0.3 2.8 ± 0.4 2.2 ± 0.3 2.8 ± 0.4 2.5 ± 0.5 3.5 ± 1.1
Radius of gyration (Å) 19.0 ± 0.2 19.0 ± 0.3 19.1 ± 0.2 18.9 ± 0.3 19.4 ± 0.3 19.7 ± 0.7
Trace of covariance matrix (nm2) 602 962 624 1072 825 2096

This Article

  1. RNA 30: 992-1010