RMSD of the bases (----- for WC bp, + for isolated bp, x for helix change) Strand I Strand II Helix 1 (0.003) A:...1_:[..G]G-----C[..C]:..72_:A (0.005) | 2 (0.004) A:...2_:[..C]C-----G[..G]:..71_:A (0.006) | 3 (0.008) A:...3_:[..G]G-----C[..C]:..70_:A (0.006) | 4 (0.009) A:...4_:[..G]G-*---U[..U]:..69_:A (0.007) | 5 (0.009) A:...5_:[..A]A-----U[..U]:..68_:A (0.008) | 6 (0.007) A:...6_:[..U]U-----A[..A]:..67_:A (0.016) | 7 (0.007) A:...7_:[..U]Ux----A[..A]:..66_:A (0.012) | 8 (0.017) A:..49_:[5MC]c-----G[..G]:..65_:A (0.017) | 9 (0.015) A:..50_:[..U]U-----A[..A]:..64_:A (0.015) | 10 (0.011) A:..51_:[..G]G-----C[..C]:..63_:A (0.009) | 11 (0.014) A:..52_:[..U]U-----A[..A]:..62_:A (0.022) | 12 (0.015) A:..53_:[..G]G----xC[..C]:..61_:A (0.006) | 13 (0.011) A:..54_:[5MU]u-**-xa[1MA]:..58_:A (0.048) | 14 (0.018) A:..55_:[PSU]Px**+xG[..G]:..18_:A (0.025) x 15 (0.007) A:..36_:[..A]Ax*---U[..U]:..33_:A (0.008) | 16 (0.007) A:..38_:[..A]A-*---c[OMC]:..32_:A (0.008) | 17 (0.021) A:..39_:[PSU]P-*---A[..A]:..31_:A (0.006) | 18 (0.010) A:..40_:[5MC]c-----G[..G]:..30_:A (0.009) | 19 (0.008) A:..41_:[..U]U-----A[..A]:..29_:A (0.006) | 20 (0.012) A:..42_:[..G]G-----C[..C]:..28_:A (0.005) | 21 (0.011) A:..43_:[..G]G-----C[..C]:..27_:A (0.006) | 22 (0.008) A:..44_:[..A]Ax*---g[M2G]:..26_:A (0.010) | 23 (0.017) A:..10_:[2MG]g-----C[..C]:..25_:A (0.006) | 24 (0.006) A:..11_:[..C]C-----G[..G]:..24_:A (0.017) | 25 (0.009) A:..12_:[..U]U-----A[..A]:..23_:A (0.013) | 26 (0.011) A:..13_:[..C]C----xG[..G]:..22_:A (0.011) | 27 (0.017) A:..14_:[..A]A-**-xU[..U]:...8_:A (0.008) | 28 (0.018) A:..15_:[..G]Gx**+xC[..C]:..48_:A (0.013) x 29 (0.018) A:..19_:[..G]G-----C[..C]:..56_:A (0.012) + Note: This structure contains 9[4] non-Watson-Crick base-pairs. **************************************************************************** Detailed H-bond information: atom-name pair and length [ON] 1 G-----C [3] O6 - N4 2.60 N1 - N3 2.66 N2 - O2 2.64 2 C-----G [3] O2 - N2 2.55 N3 - N1 2.76 N4 - O6 2.85 3 G-----C [3] O6 - N4 2.89 N1 - N3 2.92 N2 - O2 2.90 4 G-*---U [2] O6 - N3 2.96 N1 - O2 2.80 5 A-----U [2] N6 - O4 2.98 N1 - N3 2.69 6 U-----A [2] N3 - N1 2.62 O4 - N6 2.99 7 U-----A [2] N3 - N1 2.64 O4 - N6 2.78 8 c-----G [3] O2 - N2 2.76 N3 - N1 2.79 N4 - O6 2.69 9 U-----A [2] N3 - N1 2.73 O4 - N6 2.71 10 G-----C [3] O6 - N4 3.08 N1 - N3 2.84 N2 - O2 2.61 11 U-----A [2] N3 - N1 2.79 O4 - N6 2.85 12 G-----C [3] O6 - N4 2.96 N1 - N3 2.87 N2 - O2 2.67 13 u-**--a [3] N3 - N7 3.00 O2 - N6 2.89 O4 * O2P 3.98 14 P-**+-G [2] O4 * N2 2.80 O4'* O6 3.69 15 A-*---U [1] O2P* O2 2.30 16 A-*---c [1] N6 - O2 2.81 17 P-*---A [1] O2 * N1 2.71 18 c-----G [3] O2 - N2 2.79 N3 - N1 2.82 N4 - O6 2.77 19 U-----A [2] N3 - N1 2.88 O4 - N6 3.45 20 G-----C [3] O6 - N4 2.69 N1 - N3 2.71 N2 - O2 2.64 21 G-----C [3] O6 - N4 2.75 N1 - N3 2.74 N2 - O2 2.76 22 A-*---g [2] N6 - O6 2.91 N1 - N1 2.84 23 g-----C [3] O6 - N4 2.77 N1 - N3 2.71 N2 - O2 2.56 24 C-----G [3] O2 - N2 2.60 N3 - N1 2.75 N4 - O6 3.00 25 U-----A [2] N3 - N1 2.87 O4 - N6 2.88 26 C-----G [3] O2 - N2 2.72 N3 - N1 2.91 N4 - O6 3.01 27 A-**--U [3] O2P* O4 3.87 N7 - N3 2.76 N6 - O2 2.99 28 G-**+-C [2] N1 - O2 2.69 N2 - N3 2.88 29 G-----C [3] O6 - N4 3.12 N1 - N3 2.94 N2 - O2 2.71