RMSD of the bases (----- for WC bp, + for isolated bp, x for helix change) Strand I Strand II Helix 1 (0.007) ....>B:...2_:[..G]G-----C[..C]:..71_:B<.... (0.005) | 2 (0.006) ....>B:...3_:[..G]G-----C[..C]:..70_:B<.... (0.008) | 3 (0.007) ....>B:...4_:[..G]G-----C[..C]:..69_:B<.... (0.004) | 4 (0.010) ....>B:...5_:[..G]G-----C[..C]:..68_:B<.... (0.010) | 5 (0.008) ....>B:...6_:[..U]U-----A[..A]:..67_:B<.... (0.010) | 6 (0.013) ....>B:...7_:[..A]A-----U[..U]:..66_:B<.... (0.005) | 7 (0.008) ....>B:..49_:[..C]C-----G[..G]:..65_:B<.... (0.007) | 8 (0.009) ....>B:..50_:[..G]G-----C[..C]:..64_:B<.... (0.007) | 9 (0.006) ....>B:..51_:[..A]A-----U[..U]:..63_:B<.... (0.009) | 10 (0.004) ....>B:..52_:[..G]G-----C[..C]:..62_:B<.... (0.004) | 11 (0.011) ....>B:..53_:[..G]G-----C[..C]:..61_:B<.... (0.003) | 12 (0.007) ....>B:..54_:[..U]U-**--A[..A]:..58_:B<.... (0.003) | 13 (0.010) ....>B:..55_:[..U]U-**+-G[..G]:..18_:B<.... (0.010) x 14 (0.009) ....>B:..37_:[..A]A-**--U[..U]:..33_:B<.... (0.004) | 15 (0.007) ....>B:..38_:[..U]U-**--U[..U]:..32_:B<.... (0.005) | 16 (0.005) ....>B:..39_:[..U]U-----A[..A]:..31_:B<.... (0.003) | 17 (0.004) ....>B:..40_:[..C]C-----G[..G]:..30_:B<.... (0.009) | 18 (0.003) ....>B:..41_:[..C]C-----G[..G]:..29_:B<.... (0.007) | 19 (0.005) ....>B:..42_:[..G]G-----C[..C]:..28_:B<.... (0.004) | 20 (0.008) ....>B:..43_:[..G]G-----C[..C]:..27_:B<.... (0.007) | 21 (0.005) ....>B:..44_:[..C]C-**--A[..A]:..26_:B<.... (0.005) | 22 (0.010) ....>B:..10_:[..G]G-----C[..C]:..25_:B<.... (0.008) | 23 (0.005) ....>B:..11_:[..C]C-----G[..G]:..24_:B<.... (0.007) | 24 (0.009) ....>B:..12_:[..C]C-----G[..G]:..23_:B<.... (0.007) | 25 (0.004) ....>B:..13_:[..A]A-**+-A[..A]:..45_:B<.... (0.006) | 26 (0.004) ....>B:..14_:[..A]A-**--A[..A]:..21_:B<.... (0.008) | 27 (0.006) ....>B:..15_:[..G]G-**+-C[..C]:..48_:B<.... (0.011) x 28 (0.014) ....>B:..19_:[..G]G-----C[..C]:..56_:B<.... (0.005) + 29 (0.003) ....>B:..46_:[..U]U-**+-U[..U]:..47_:B<.... (0.007) + Note: This structure contains 9[9] non-Watson-Crick base-pairs. **************************************************************************** Detailed H-bond information: atom-name pair and length [ O N] 1 G-----C [3] O6 - N4 2.68 N1 - N3 2.87 N2 - O2 2.91 2 G-----C [3] O6 - N4 2.83 N1 - N3 2.74 N2 - O2 2.54 3 G-----C [3] O6 - N4 2.94 N1 - N3 2.88 N2 - O2 2.78 4 G-----C [3] O6 - N4 2.81 N1 - N3 2.86 N2 - O2 2.89 5 U-----A [2] N3 - N1 2.67 O4 - N6 2.95 6 A-----U [2] N6 - O4 2.60 N1 - N3 2.76 7 C-----G [3] O2 - N2 2.68 N3 - N1 2.68 N4 - O6 2.61 8 G-----C [3] O6 - N4 2.99 N1 - N3 2.79 N2 - O2 2.54 9 A-----U [2] N6 - O4 2.49 N1 - N3 2.55 10 G-----C [3] O6 - N4 3.08 N1 - N3 2.86 N2 - O2 2.60 11 G-----C [3] O6 - N4 2.82 N1 - N3 2.66 N2 - O2 2.41 12 U-**--A [2] O2 - N6 2.63 N3 - N7 3.01 13 U-**+-G [1] O2 - N2 2.65 14 A-**--U [1] N6 - O2 3.54 15 U-**--U [1] O4 - N3 3.14 16 U-----A [2] N3 - N1 3.36 O4 - N6 3.54 17 C-----G [3] O2 - N2 2.43 N3 - N1 3.05 N4 - O6 3.57 18 C-----G [3] O2 - N2 2.50 N3 - N1 2.84 N4 - O6 3.13 19 G-----C [3] O6 - N4 2.98 N1 - N3 2.78 N2 - O2 2.48 20 G-----C [3] O6 - N4 2.87 N1 - N3 2.75 N2 - O2 2.59 21 C-**--A [2] O2 * N1 3.48 N3 - N6 3.29 22 G-----C [3] O6 - N4 2.77 N1 - N3 2.71 N2 - O2 2.55 23 C-----G [3] O2 - N2 2.67 N3 - N1 2.81 N4 - O6 2.81 24 C-----G [3] O2 - N2 2.78 N3 - N1 2.75 N4 - O6 2.63 25 A-**+-A [2] N6 - N1 3.16 N1 - N6 3.01 26 A-**--A [2] N6 - N3 3.10 N1 - O2' 3.02 27 G-**+-C [2] N1 - O2 2.80 N2 - N3 2.67 28 G-----C [3] O6 - N4 2.61 N1 - N3 2.55 N2 - O2 2.46 29 U-**+-U [3] O3'* N1 3.46 O2'- N3 2.84 O2 * O4 3.40 ****************************************************************************