RMSD of the bases (----- for WC bp, + for isolated bp, x for helix change) Strand I Strand II Helix 1 (0.003) ...1>C:.901_:[..U]U-----A[..A]:.972_:C<...1 (0.005) | 2 (0.004) ...1>C:.902_:[..C]C-----G[..G]:.971_:C<...1 (0.009) | 3 (0.004) ...1>C:.903_:[..C]C-----G[..G]:.970_:C<...1 (0.011) | 4 (0.012) ...1>C:.904_:[..G]G-----C[..C]:.969_:C<...1 (0.004) | 5 (0.008) ...1>C:.905_:[..U]U-*---G[..G]:.968_:C<...1 (0.010) | 6 (0.006) ...1>C:.906_:[..G]G-----C[..C]:.967_:C<...1 (0.008) | 7 (0.006) ...1>C:.907_:[..A]A-----U[..U]:.966_:C<...1 (0.004) | 8 (0.017) ...1>C:.949_:[5MC]c-----G[..G]:.965_:C<...1 (0.008) | 9 (0.005) ...1>C:.950_:[..G]G-----C[..C]:.964_:C<...1 (0.005) | 10 (0.006) ...1>C:.951_:[..G]G-----C[..C]:.963_:C<...1 (0.006) | 11 (0.012) ...1>C:.952_:[..G]G-----C[..C]:.962_:C<...1 (0.005) | 12 (0.009) ...1>C:.953_:[..G]G-----C[..C]:.961_:C<...1 (0.008) | 13 (0.005) ...1>C:.954_:[5MU]t-**--A[..A]:.958_:C<...1 (0.007) | 14 (0.043) ...1>C:.955_:[PSU]P-**+-G[..G]:.917_:C<...1 (0.005) x 15 (0.005) ...1>C:.938_:[..C]C-**--P[PSU]:.932_:C<...1 (0.044) | 16 (0.006) ...1>C:.939_:[..G]G-----C[..C]:.931_:C<...1 (0.006) | 17 (0.003) ...1>C:.940_:[..U]U-*---G[..G]:.930_:C<...1 (0.009) | 18 (0.010) ...1>C:.941_:[..G]G-----C[..C]:.929_:C<...1 (0.004) | 19 (0.010) ...1>C:.942_:[..C]C-----G[..G]:.928_:C<...1 (0.004) | 20 (0.003) ...1>C:.943_:[..C]C-----G[..G]:.927_:C<...1 (0.005) | 21 (0.005) ...1>C:.944_:[..A]A-**--G[..G]:.926_:C<...1 (0.005) | 22 (0.009) ...1>C:.910_:[..G]G-*---U[..U]:.925_:C<...1 (0.004) | 23 (0.003) ...1>C:.911_:[..U]U-----A[..A]:.924_:C<...1 (0.009) | 24 (0.007) ...1>C:.912_:[..U]U-----A[..A]:.923_:C<...1 (0.007) | 25 (0.044) ...1>C:.913_:[PSU]P-*---G[..G]:.922_:C<...1 (0.005) | 26 (0.003) ...1>C:.908_:[..U]U-**--A[..A]:.946_:C<...1 (0.005) | 27 (0.003) ...1>C:.914_:[..A]A-**--A[..A]:.921_:C<...1 (0.008) | 28 (0.004) ...1>C:.915_:[..A]A-**+-U[..U]:.948_:C<...1 (0.003) | 29 (0.115) ...1>C:.916_:[H2U]u-**+-U[..U]:.959_:C<...1 (0.006) x 30 (0.021) ...1>C:.918_:[..G]G-----C[..C]:.956_:C<...1 (0.007) + Note: This structure contains 12[8] non-Watson-Crick base-pairs. **************************************************************************** Detailed H-bond information: atom-name pair and length [ O N] 1 U-----A [2] N3 - N1 2.71 O4 - N6 2.90 2 C-----G [3] O2 - N2 2.71 N3 - N1 2.97 N4 - O6 3.12 3 C-----G [3] O2 - N2 2.59 N3 - N1 2.76 N4 - O6 2.84 4 G-----C [3] O6 - N4 3.09 N1 - N3 2.91 N2 - O2 2.67 5 U-*---G [2] O2 - N1 2.76 N3 - O6 2.86 6 G-----C [3] O6 - N4 2.97 N1 - N3 2.80 N2 - O2 2.53 7 A-----U [2] N6 - O4 2.73 N1 - N3 2.69 8 c-----G [3] O2 - N2 2.60 N3 - N1 3.10 N4 - O6 3.51 9 G-----C [3] O6 - N4 2.79 N1 - N3 2.63 N2 - O2 2.42 10 G-----C [3] O6 - N4 2.47 N1 - N3 2.58 N2 - O2 2.59 11 G-----C [3] O6 - N4 2.69 N1 - N3 2.72 N2 - O2 2.66 12 G-----C [3] O6 - N4 2.67 N1 - N3 2.54 N2 - O2 2.32 13 t-**--A [2] N3 - N7 2.70 O2 - N6 3.01 14 P-**+-G [2] O4 * N1 2.54 O2'* O6 3.64 15 C-**--P [1] N4 * O4 2.99 16 G-----C [3] O6 - N4 3.02 N1 - N3 2.93 N2 - O2 2.73 17 U-*---G [2] O2 - N1 2.64 N3 - O6 2.72 18 G-----C [3] O6 - N4 2.72 N1 - N3 2.76 N2 - O2 2.68 19 C-----G [3] O2 - N2 2.95 N3 - N1 2.97 N4 - O6 2.97 20 C-----G [3] O2 - N2 2.95 N3 - N1 3.04 N4 - O6 3.04 21 A-**--G [2] N6 - O6 3.34 N1 - N1 2.96 22 G-*---U [2] O6 - N3 2.79 N1 - O2 2.49 23 U-----A [2] N3 - N1 2.80 O4 - N6 3.12 24 U-----A [2] N3 - N1 3.01 O4 - N6 3.27 25 P-*---G [2] N3 * O6 3.02 O4 * N1 2.68 26 U-**--A [2] O3'- O2' 2.97 O2'- N3 2.93 27 A-**--A [2] N6 - N3 3.00 N1 - O2' 3.07 28 A-**+-U [2] N6 - O2 2.84 N1 - N3 2.80 29 u-**+-U [2] O2 - N3 2.66 N3 - O2 2.66 30 G-----C [3] O6 - N4 2.47 N1 - N3 2.52 N2 - O2 2.56