RMSD of the bases (----- for WC bp, + for isolated bp, x for helix change) Strand I Strand II Helix 1 (0.008) ....>C:.501_:[..G]G-----C[..C]:.572_:C<.... (0.004) | 2 (0.010) ....>C:.502_:[..G]G-*---U[..U]:.571_:C<.... (0.009) | 3 (0.007) ....>C:.503_:[..C]C-----G[..G]:.570_:C<.... (0.010) | 4 (0.005) ....>C:.504_:[..C]C-----G[..G]:.569_:C<.... (0.004) | 5 (0.007) ....>C:.505_:[..C]C-----G[..G]:.568_:C<.... (0.007) | 6 (0.010) ....>C:.506_:[..C]C-----G[..G]:.567_:C<.... (0.006) | 7 (0.005) ....>C:.507_:[..A]A-----U[..U]:.566_:C<.... (0.004) | 8 (0.008) ....>C:.549_:[..G]G-----C[..C]:.565_:C<.... (0.004) | 9 (0.005) ....>C:.550_:[..G]G-----C[..C]:.564_:C<.... (0.008) | 10 (0.004) ....>C:.551_:[..G]G-----C[..C]:.563_:C<.... (0.003) | 11 (0.004) ....>C:.552_:[..G]G-----C[..C]:.562_:C<.... (0.005) | 12 (0.004) ....>C:.553_:[..G]G-----C[..C]:.561_:C<.... (0.002) | 13 (0.005) ....>C:.554_:[..U]U-**--A[..A]:.558_:C<.... (0.005) | 14 (0.006) ....>C:.555_:[..U]U-**+-G[..G]:.518_:C<.... (0.005) x 15 (0.007) ....>C:.538_:[..A]A-**--C[..C]:.532_:C<.... (0.003) | 16 (0.015) ....>C:.539_:[..G]G-----C[..C]:.531_:C<.... (0.004) | 17 (0.013) ....>C:.540_:[..G]G-----C[..C]:.530_:C<.... (0.006) | 18 (0.002) ....>C:.541_:[..C]C-----G[..G]:.529_:C<.... (0.007) | 19 (0.007) ....>C:.542_:[..C]C-----G[..G]:.528_:C<.... (0.006) | 20 (0.008) ....>C:.543_:[..G]G-----C[..C]:.527_:C<.... (0.008) | 21 (0.007) ....>C:.544_:[..A]A-**--G[..G]:.526_:C<.... (0.010) | 22 (0.008) ....>C:.510_:[..G]G-----C[..C]:.525_:C<.... (0.002) | 23 (0.004) ....>C:.511_:[..U]U-----A[..A]:.524_:C<.... (0.004) | 24 (0.007) ....>C:.512_:[..C]C-----G[..G]:.523_:C<.... (0.007) | 25 (0.007) ....>C:.513_:[..U]U-*---G[..G]:.522_:C<.... (0.009) | 26 (0.013) ....>C:.514_:[..A]A-**--U[..U]:.508_:C<.... (0.004) | 27 (0.017) ....>C:.515_:[..G]G-**+-C[..C]:.548_:C<.... (0.016) x 28 (0.007) ....>C:.519_:[..G]G-----C[..C]:.556_:C<.... (0.006) + 29 (0.017) ....>D:.501_:[..G]G-----C[..C]:.572_:D<.... (0.004) | 30 (0.011) ....>D:.502_:[..G]G-*---U[..U]:.571_:D<.... (0.006) | 31 (0.009) ....>D:.503_:[..C]C-----G[..G]:.570_:D<.... (0.006) | 32 (0.006) ....>D:.504_:[..C]C-----G[..G]:.569_:D<.... (0.010) | 33 (0.009) ....>D:.505_:[..C]C-----G[..G]:.568_:D<.... (0.005) | 34 (0.010) ....>D:.506_:[..C]C-----G[..G]:.567_:D<.... (0.008) | 35 (0.004) ....>D:.507_:[..A]A-----U[..U]:.566_:D<.... (0.008) | 36 (0.006) ....>D:.549_:[..G]G-----C[..C]:.565_:D<.... (0.006) | 37 (0.007) ....>D:.550_:[..G]G-----C[..C]:.564_:D<.... (0.003) | 38 (0.004) ....>D:.551_:[..G]G-----C[..C]:.563_:D<.... (0.002) | 39 (0.004) ....>D:.552_:[..G]G-----C[..C]:.562_:D<.... (0.002) | 40 (0.008) ....>D:.553_:[..G]G-----C[..C]:.561_:D<.... (0.003) | 41 (0.001) ....>D:.554_:[..U]U-**--A[..A]:.558_:D<.... (0.004) | 42 (0.008) ....>D:.555_:[..U]U-**+-G[..G]:.518_:D<.... (0.005) x 43 (0.007) ....>D:.538_:[..A]A-**--C[..C]:.532_:D<.... (0.006) | 44 (0.013) ....>D:.539_:[..G]G-----C[..C]:.531_:D<.... (0.008) | 45 (0.011) ....>D:.540_:[..G]G-----C[..C]:.530_:D<.... (0.003) | 46 (0.006) ....>D:.541_:[..C]C-----G[..G]:.529_:D<.... (0.008) | 47 (0.007) ....>D:.542_:[..C]C-----G[..G]:.528_:D<.... (0.006) | 48 (0.011) ....>D:.543_:[..G]G-----C[..C]:.527_:D<.... (0.005) | 49 (0.006) ....>D:.544_:[..A]A-**--G[..G]:.526_:D<.... (0.011) | 50 (0.007) ....>D:.510_:[..G]G-----C[..C]:.525_:D<.... (0.007) | 51 (0.010) ....>D:.511_:[..U]U-----A[..A]:.524_:D<.... (0.010) | 52 (0.006) ....>D:.512_:[..C]C-----G[..G]:.523_:D<.... (0.012) | 53 (0.010) ....>D:.513_:[..U]U-*---G[..G]:.522_:D<.... (0.009) | 54 (0.013) ....>D:.514_:[..A]A-**--U[..U]:.508_:D<.... (0.005) | 55 (0.015) ....>D:.515_:[..G]G-**+-C[..C]:.548_:D<.... (0.008) x 56 (0.008) ....>D:.519_:[..G]G-----C[..C]:.556_:D<.... (0.005) + Note: This structure contains 16[12] non-Watson-Crick base-pairs. **************************************************************************** Detailed H-bond information: atom-name pair and length [ O N] 1 G-----C [3] O6 - N4 3.24 N1 - N3 3.38 N2 - O2 3.48 2 G-*---U [2] O6 - N3 2.82 N1 - O2 2.86 3 C-----G [3] O2 - N2 2.98 N3 - N1 2.98 N4 - O6 2.99 4 C-----G [3] O2 - N2 2.75 N3 - N1 2.92 N4 - O6 3.00 5 C-----G [3] O2 - N2 2.98 N3 - N1 2.94 N4 - O6 2.82 6 C-----G [3] O2 - N2 2.79 N3 - N1 2.91 N4 - O6 2.99 7 A-----U [2] N6 - O4 3.18 N1 - N3 3.24 8 G-----C [2] N1 - N3 3.79 N2 - O2 3.54 9 G-----C [3] O6 - N4 3.05 N1 - N3 3.06 N2 - O2 2.94 10 G-----C [3] O6 - N4 3.14 N1 - N3 2.99 N2 - O2 2.70 11 G-----C [3] O6 - N4 2.86 N1 - N3 2.85 N2 - O2 2.70 12 G-----C [3] O6 - N4 2.89 N1 - N3 3.04 N2 - O2 3.06 13 U-**--A [2] O2 - N6 2.95 N3 - N7 3.06 14 U-**+-G [1] O2 - N2 2.78 15 A-**--C [1] N6 - O2 3.10 16 G-----C [3] O6 - N4 3.31 N1 - N3 3.08 N2 - O2 2.78 17 G-----C [3] O6 - N4 3.42 N1 - N3 3.02 N2 - O2 2.56 18 C-----G [3] O2 - N2 2.59 N3 - N1 2.76 N4 - O6 2.88 19 C-----G [3] O2 - N2 2.54 N3 - N1 2.78 N4 - O6 2.95 20 G-----C [3] O6 - N4 3.33 N1 - N3 3.06 N2 - O2 2.96 21 A-**--G [2] N6 - O6 3.23 N1 - N1 2.87 22 G-----C [3] O6 - N4 3.12 N1 - N3 3.06 N2 - O2 2.88 23 U-----A [2] N3 - N1 2.85 O4 - N6 3.21 24 C-----G [3] O2 - N2 2.74 N3 - N1 2.87 N4 - O6 2.88 25 U-*---G [2] O2 - N1 2.67 N3 - O6 2.97 26 A-**--U [3] OP2* O4 3.34 N7 - N3 2.76 N6 - O2 2.67 27 G-**+-C [2] N1 - O2 3.29 N2 - N3 3.01 28 G-----C [3] O6 - N4 3.58 N1 - N3 3.20 N2 - O2 2.94 29 G-----C [3] O6 - N4 2.55 N1 - N3 2.65 N2 - O2 2.70 30 G-*---U [2] O6 - N3 2.89 N1 - O2 2.82 31 C-----G [3] O2 - N2 2.83 N3 - N1 2.83 N4 - O6 2.82 32 C-----G [3] O2 - N2 2.79 N3 - N1 2.93 N4 - O6 2.97 33 C-----G [3] O2 - N2 2.84 N3 - N1 2.87 N4 - O6 2.80 34 C-----G [3] O2 - N2 2.79 N3 - N1 2.91 N4 - O6 2.99 35 A-----U [2] N6 - O4 2.98 N1 - N3 3.07 36 G-----C [3] O6 - N4 2.79 N1 - N3 2.63 N2 - O2 2.45 37 G-----C [3] O6 - N4 3.01 N1 - N3 3.06 N2 - O2 3.01 38 G-----C [3] O6 - N4 3.20 N1 - N3 3.06 N2 - O2 2.80 39 G-----C [3] O6 - N4 2.83 N1 - N3 2.83 N2 - O2 2.70 40 G-----C [3] O6 - N4 2.62 N1 - N3 2.81 N2 - O2 2.85 41 U-**--A [2] O2 - N6 2.93 N3 - N7 3.06 42 U-**+-G [1] O2 - N2 2.77 43 A-**--C [1] N6 - O2 3.01 44 G-----C [3] O6 - N4 3.33 N1 - N3 3.11 N2 - O2 2.78 45 G-----C [3] O6 - N4 3.26 N1 - N3 2.93 N2 - O2 2.56 46 C-----G [3] O2 - N2 2.63 N3 - N1 2.71 N4 - O6 2.76 47 C-----G [3] O2 - N2 2.49 N3 - N1 2.72 N4 - O6 2.83 48 G-----C [3] O6 - N4 3.21 N1 - N3 2.99 N2 - O2 2.82 49 A-**--G [2] N6 - O6 3.18 N1 - N1 2.86 50 G-----C [3] O6 - N4 2.99 N1 - N3 3.01 N2 - O2 2.95 51 U-----A [2] N3 - N1 2.85 O4 - N6 3.22 52 C-----G [3] O2 - N2 2.77 N3 - N1 2.94 N4 - O6 2.95 53 U-*---G [2] O2 - N1 2.65 N3 - O6 2.96 54 A-**--U [3] OP2* O4 3.54 N7 - N3 2.88 N6 - O2 2.83 55 G-**+-C [2] N1 - O2 3.27 N2 - N3 3.15 56 G-----C [2] N1 - N3 3.35 N2 - O2 2.98