RMSD of the bases (----- for WC bp, + for isolated bp, x for helix change) Strand I Strand II Helix 1 (0.004) ....>C:.501_:[..G]G-----C[..C]:.572_:C<.... (0.005) | 2 (0.007) ....>C:.502_:[..G]G-*---U[..U]:.571_:C<.... (0.008) | 3 (0.003) ....>C:.503_:[..C]C-----G[..G]:.570_:C<.... (0.003) | 4 (0.003) ....>C:.504_:[..C]C-----G[..G]:.569_:C<.... (0.007) | 5 (0.005) ....>C:.505_:[..C]C-----G[..G]:.568_:C<.... (0.009) | 6 (0.005) ....>C:.506_:[..C]C-----G[..G]:.567_:C<.... (0.003) | 7 (0.004) ....>C:.507_:[..A]A-----U[..U]:.566_:C<.... (0.006) | 8 (0.004) ....>C:.549_:[..G]G-----C[..C]:.565_:C<.... (0.002) | 9 (0.001) ....>C:.550_:[..G]G-----C[..C]:.564_:C<.... (0.003) | 10 (0.007) ....>C:.551_:[..G]G-----C[..C]:.563_:C<.... (0.002) | 11 (0.003) ....>C:.552_:[..G]G-----C[..C]:.562_:C<.... (0.003) | 12 (0.005) ....>C:.553_:[..G]G-----C[..C]:.561_:C<.... (0.004) | 13 (0.003) ....>C:.554_:[..U]U-**--A[..A]:.558_:C<.... (0.008) | 14 (0.003) ....>C:.555_:[..U]U-**+-G[..G]:.518_:C<.... (0.003) x 15 (0.003) ....>C:.538_:[..A]A-**--C[..C]:.532_:C<.... (0.005) | 16 (0.005) ....>C:.539_:[..G]G-----C[..C]:.531_:C<.... (0.004) | 17 (0.003) ....>C:.540_:[..G]G-----C[..C]:.530_:C<.... (0.004) | 18 (0.005) ....>C:.541_:[..C]C-----G[..G]:.529_:C<.... (0.005) | 19 (0.004) ....>C:.542_:[..C]C-----G[..G]:.528_:C<.... (0.005) | 20 (0.006) ....>C:.543_:[..G]G-----C[..C]:.527_:C<.... (0.003) | 21 (0.005) ....>C:.544_:[..A]A-**--G[..G]:.526_:C<.... (0.004) | 22 (0.006) ....>C:.510_:[..G]G-----C[..C]:.525_:C<.... (0.004) | 23 (0.004) ....>C:.511_:[..U]U-----A[..A]:.524_:C<.... (0.003) | 24 (0.002) ....>C:.512_:[..C]C-----G[..G]:.523_:C<.... (0.011) | 25 (0.004) ....>C:.513_:[..U]U-*---G[..G]:.522_:C<.... (0.007) | 26 (0.004) ....>C:.508_:[..U]U-**--A[..A]:.546_:C<.... (0.003) | 27 (0.007) ....>C:.514_:[..A]A-**--A[..A]:.521_:C<.... (0.005) | 28 (0.018) ....>C:.515_:[..G]G-**+-C[..C]:.548_:C<.... (0.012) x 29 (0.004) ....>C:.519_:[..G]G-----C[..C]:.556_:C<.... (0.002) + 30 (0.007) ....>D:.501_:[..G]G-----C[..C]:.572_:D<.... (0.006) | 31 (0.007) ....>D:.502_:[..G]G-*---U[..U]:.571_:D<.... (0.003) | 32 (0.004) ....>D:.503_:[..C]C-----G[..G]:.570_:D<.... (0.006) | 33 (0.003) ....>D:.504_:[..C]C-----G[..G]:.569_:D<.... (0.006) | 34 (0.005) ....>D:.505_:[..C]C-----G[..G]:.568_:D<.... (0.010) | 35 (0.005) ....>D:.506_:[..C]C-----G[..G]:.567_:D<.... (0.004) | 36 (0.005) ....>D:.507_:[..A]A-----U[..U]:.566_:D<.... (0.005) | 37 (0.003) ....>D:.549_:[..G]G-----C[..C]:.565_:D<.... (0.005) | 38 (0.004) ....>D:.550_:[..G]G-----C[..C]:.564_:D<.... (0.002) | 39 (0.004) ....>D:.551_:[..G]G-----C[..C]:.563_:D<.... (0.002) | 40 (0.005) ....>D:.552_:[..G]G-----C[..C]:.562_:D<.... (0.001) | 41 (0.003) ....>D:.553_:[..G]G-----C[..C]:.561_:D<.... (0.004) | 42 (0.002) ....>D:.554_:[..U]U-**--A[..A]:.558_:D<.... (0.009) | 43 (0.003) ....>D:.555_:[..U]U-**+-G[..G]:.518_:D<.... (0.006) x 44 (0.004) ....>D:.538_:[..A]A-**--C[..C]:.532_:D<.... (0.004) | 45 (0.008) ....>D:.539_:[..G]G-----C[..C]:.531_:D<.... (0.008) | 46 (0.004) ....>D:.540_:[..G]G-----C[..C]:.530_:D<.... (0.004) | 47 (0.005) ....>D:.541_:[..C]C-----G[..G]:.529_:D<.... (0.006) | 48 (0.004) ....>D:.542_:[..C]C-----G[..G]:.528_:D<.... (0.005) | 49 (0.004) ....>D:.543_:[..G]G-----C[..C]:.527_:D<.... (0.006) | 50 (0.009) ....>D:.544_:[..A]A-**--G[..G]:.526_:D<.... (0.011) | 51 (0.004) ....>D:.510_:[..G]G-----C[..C]:.525_:D<.... (0.005) | 52 (0.003) ....>D:.511_:[..U]U-----A[..A]:.524_:D<.... (0.006) | 53 (0.003) ....>D:.512_:[..C]C-----G[..G]:.523_:D<.... (0.005) | 54 (0.004) ....>D:.513_:[..U]U-*---G[..G]:.522_:D<.... (0.010) | 55 (0.004) ....>D:.508_:[..U]U-**--A[..A]:.546_:D<.... (0.003) | 56 (0.007) ....>D:.514_:[..A]A-**--A[..A]:.521_:D<.... (0.005) | 57 (0.016) ....>D:.515_:[..G]G-**+-C[..C]:.548_:D<.... (0.007) x 58 (0.004) ....>D:.519_:[..G]G-----C[..C]:.556_:D<.... (0.003) + Note: This structure contains 18[14] non-Watson-Crick base-pairs. **************************************************************************** Detailed H-bond information: atom-name pair and length [ O N] 1 G-----C [3] O6 - N4 2.66 N1 - N3 2.78 N2 - O2 2.92 2 G-*---U [2] O6 - N3 2.88 N1 - O2 2.77 3 C-----G [3] O2 - N2 2.87 N3 - N1 2.90 N4 - O6 2.85 4 C-----G [3] O2 - N2 2.67 N3 - N1 2.97 N4 - O6 3.17 5 C-----G [3] O2 - N2 2.92 N3 - N1 2.89 N4 - O6 2.74 6 C-----G [3] O2 - N2 2.62 N3 - N1 2.78 N4 - O6 2.84 7 A-----U [2] N6 - O4 2.73 N1 - N3 2.89 8 G-----C [3] O6 - N4 3.14 N1 - N3 3.02 N2 - O2 2.81 9 G-----C [3] O6 - N4 2.71 N1 - N3 2.87 N2 - O2 2.90 10 G-----C [3] O6 - N4 3.13 N1 - N3 2.87 N2 - O2 2.48 11 G-----C [3] O6 - N4 2.84 N1 - N3 2.80 N2 - O2 2.61 12 G-----C [3] O6 - N4 2.64 N1 - N3 2.84 N2 - O2 2.93 13 U-**--A [2] O2 - N6 3.17 N3 - N7 3.19 14 U-**+-G [1] O2 - N1 2.68 15 A-**--C [1] N6 - O2 2.98 16 G-----C [3] O6 - N4 3.11 N1 - N3 2.87 N2 - O2 2.63 17 G-----C [3] O6 - N4 3.27 N1 - N3 2.99 N2 - O2 2.63 18 C-----G [3] O2 - N2 2.43 N3 - N1 2.65 N4 - O6 2.79 19 C-----G [3] O2 - N2 2.63 N3 - N1 2.78 N4 - O6 2.86 20 G-----C [3] O6 - N4 3.03 N1 - N3 2.84 N2 - O2 2.71 21 A-**--G [2] N6 - O6 3.04 N1 - N1 2.88 22 G-----C [3] O6 - N4 2.77 N1 - N3 2.83 N2 - O2 2.77 23 U-----A [2] N3 - N1 2.72 O4 - N6 3.10 24 C-----G [3] O2 - N2 2.77 N3 - N1 2.86 N4 - O6 2.84 25 U-*---G [2] O2 - N1 2.66 N3 - O6 3.02 26 U-**--A [2] O2'- O2' 2.83 O2 * N1 3.50 27 A-**--A [2] N6 - N3 2.96 N1 - O2' 2.72 28 G-**+-C [2] N1 - O2 3.07 N2 - N3 2.91 29 G-----C [3] O6 - N4 3.10 N1 - N3 2.86 N2 - O2 2.93 30 G-----C [3] O6 - N4 2.80 N1 - N3 2.82 N2 - O2 2.89 31 G-*---U [2] O6 - N3 2.98 N1 - O2 2.80 32 C-----G [3] O2 - N2 2.80 N3 - N1 2.88 N4 - O6 2.92 33 C-----G [3] O2 - N2 2.62 N3 - N1 2.92 N4 - O6 3.11 34 C-----G [3] O2 - N2 2.87 N3 - N1 2.89 N4 - O6 2.77 35 C-----G [3] O2 - N2 2.69 N3 - N1 2.87 N4 - O6 2.98 36 A-----U [2] N6 - O4 2.66 N1 - N3 2.79 37 G-----C [3] O6 - N4 3.01 N1 - N3 2.88 N2 - O2 2.67 38 G-----C [3] O6 - N4 2.78 N1 - N3 2.86 N2 - O2 2.81 39 G-----C [3] O6 - N4 3.22 N1 - N3 3.00 N2 - O2 2.63 40 G-----C [3] O6 - N4 2.94 N1 - N3 2.87 N2 - O2 2.67 41 G-----C [3] O6 - N4 2.62 N1 - N3 2.82 N2 - O2 2.93 42 U-**--A [2] O2 - N6 3.22 N3 - N7 3.23 43 U-**+-G [1] O2 - N2 2.75 44 A-**--C [1] N6 - O2 2.93 45 G-----C [3] O6 - N4 2.91 N1 - N3 2.78 N2 - O2 2.59 46 G-----C [3] O6 - N4 2.98 N1 - N3 2.82 N2 - O2 2.60 47 C-----G [3] O2 - N2 2.51 N3 - N1 2.64 N4 - O6 2.74 48 C-----G [3] O2 - N2 2.56 N3 - N1 2.72 N4 - O6 2.78 49 G-----C [3] O6 - N4 3.22 N1 - N3 2.97 N2 - O2 2.78 50 A-**--G [2] N6 - O6 2.95 N1 - N1 2.80 51 G-----C [3] O6 - N4 2.90 N1 - N3 2.90 N2 - O2 2.79 52 U-----A [2] N3 - N1 2.87 O4 - N6 3.19 53 C-----G [3] O2 - N2 2.79 N3 - N1 2.95 N4 - O6 2.97 54 U-*---G [2] O2 - N1 2.71 N3 - O6 3.04 55 U-**--A [2] O2'- O2' 2.90 O2 * N1 3.52 56 A-**--A [2] N6 - N3 2.98 N1 - O2' 2.73 57 G-**+-C [2] N1 - O2 3.10 N2 - N3 2.98 58 G-----C [3] O6 - N4 3.28 N1 - N3 3.10 N2 - O2 3.28 ****************************************************************************