ClaRNA

Doublet Group distance statistics: 4946

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Distances from reference structure (by RMSD)

18, 33, 49, 64, 58, 50, 20, 16, 28, 3, 3, 18, 5, 4, 6, 23, 24, 6, 25, 47,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.259, 0.619, 0.979, 1.701 max_d=1.701 avg_d=0.619 std_dev=0.360
C6 A 0, 0.174, 0.554, 0.934, 2.342 max_d=2.342 avg_d=0.554 std_dev=0.380
N1 B 0, 0.092, 0.513, 0.935, 2.033 max_d=2.033 avg_d=0.513 std_dev=0.422
C4 A 0, 0.238, 0.751, 1.264, 2.949 max_d=2.949 avg_d=0.751 std_dev=0.513
O4' B 0, 0.043, 0.573, 1.104, 4.506 max_d=4.506 avg_d=0.573 std_dev=0.531
O5' B 0, 0.450, 0.996, 1.542, 5.988 max_d=5.988 avg_d=0.996 std_dev=0.546
N1 A 0, 0.025, 0.577, 1.128, 2.065 max_d=2.065 avg_d=0.577 std_dev=0.551
C6 B 0, 0.206, 0.802, 1.397, 2.829 max_d=2.829 avg_d=0.802 std_dev=0.595
N4 A 0, 0.295, 0.903, 1.511, 4.703 max_d=4.703 avg_d=0.903 std_dev=0.608
C2' A 0, 0.203, 0.826, 1.448, 4.114 max_d=4.114 avg_d=0.826 std_dev=0.623
C1' A 0, 0.045, 0.679, 1.313, 3.663 max_d=3.663 avg_d=0.679 std_dev=0.634
C4' B 0, 0.215, 0.863, 1.511, 6.669 max_d=6.669 avg_d=0.863 std_dev=0.648
C1' B 0, -0.060, 0.590, 1.239, 3.733 max_d=3.733 avg_d=0.590 std_dev=0.650
O4' A 0, 0.193, 0.843, 1.494, 5.900 max_d=5.900 avg_d=0.843 std_dev=0.650
C2 B 0, 0.153, 0.815, 1.477, 2.574 max_d=2.574 avg_d=0.815 std_dev=0.662
C5' B 0, 0.421, 1.107, 1.792, 7.610 max_d=7.610 avg_d=1.107 std_dev=0.685
C3' A 0, 0.178, 0.914, 1.650, 6.248 max_d=6.248 avg_d=0.914 std_dev=0.736
P B 0, 0.532, 1.297, 2.061, 7.288 max_d=7.288 avg_d=1.297 std_dev=0.764
C4' A 0, 0.152, 0.926, 1.699, 7.261 max_d=7.261 avg_d=0.926 std_dev=0.773
N3 A 0, 0.113, 0.889, 1.665, 3.428 max_d=3.428 avg_d=0.889 std_dev=0.776
C2 A 0, -0.009, 0.795, 1.599, 2.955 max_d=2.955 avg_d=0.795 std_dev=0.804
C3' B 0, 0.061, 0.902, 1.743, 7.025 max_d=7.025 avg_d=0.902 std_dev=0.841
O2' A 0, 0.359, 1.227, 2.095, 4.754 max_d=4.754 avg_d=1.227 std_dev=0.868
C5 B 0, 0.185, 1.080, 1.975, 3.186 max_d=3.186 avg_d=1.080 std_dev=0.895
OP2 B 0, 0.309, 1.221, 2.134, 6.585 max_d=6.585 avg_d=1.221 std_dev=0.913
O5' A 0, -0.031, 0.930, 1.891, 9.474 max_d=9.474 avg_d=0.930 std_dev=0.961
O2 B 0, 0.056, 1.025, 1.994, 4.367 max_d=4.367 avg_d=1.025 std_dev=0.969
C5' A 0, 0.143, 1.125, 2.107, 8.705 max_d=8.705 avg_d=1.125 std_dev=0.982
N3 B 0, 0.106, 1.095, 2.083, 3.793 max_d=3.793 avg_d=1.095 std_dev=0.988
O3' B 0, 0.059, 1.119, 2.178, 7.189 max_d=7.189 avg_d=1.119 std_dev=1.060
C2' B 0, 0.139, 1.204, 2.269, 5.472 max_d=5.472 avg_d=1.204 std_dev=1.065
O2 A 0, -0.044, 1.037, 2.119, 4.066 max_d=4.066 avg_d=1.037 std_dev=1.082
O3' A 0, 0.316, 1.422, 2.528, 8.139 max_d=8.139 avg_d=1.422 std_dev=1.106
C4 B 0, 0.023, 1.159, 2.295, 4.093 max_d=4.093 avg_d=1.159 std_dev=1.136
OP1 B 0, 0.850, 2.007, 3.165, 7.973 max_d=7.973 avg_d=2.007 std_dev=1.157
P A 0, 0.007, 1.272, 2.538, 11.982 max_d=11.982 avg_d=1.272 std_dev=1.266
OP2 A 0, 0.134, 1.606, 3.078, 13.030 max_d=13.030 avg_d=1.606 std_dev=1.472
O4 B 0, 0.028, 1.559, 3.090, 5.426 max_d=5.426 avg_d=1.559 std_dev=1.531
OP1 A 0, 0.188, 1.757, 3.326, 12.984 max_d=12.984 avg_d=1.757 std_dev=1.569
O2' B 0, 0.263, 1.981, 3.700, 7.884 max_d=7.884 avg_d=1.981 std_dev=1.718

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.01 0.02 0.01 0.02 0.10 0.01 0.01 0.02 0.02 0.04 0.03 0.30 0.01 0.30 0.34 0.39 0.26
C2 0.02 0.00 0.18 0.27 0.01 0.09 0.01 0.20 0.01 0.01 0.01 0.01 0.01 0.21 0.17 0.10 0.29 0.32 0.51 0.24
C2' 0.00 0.18 0.00 0.00 0.05 0.02 0.12 0.20 0.16 0.03 0.14 0.06 0.31 0.01 0.03 0.02 0.47 0.58 0.64 0.52
C3' 0.01 0.27 0.00 0.00 0.37 0.01 0.36 0.04 0.30 0.23 0.34 0.40 0.22 0.02 0.01 0.02 0.16 0.35 0.35 0.19
C4 0.02 0.01 0.05 0.37 0.00 0.17 0.01 0.32 0.01 0.01 0.00 0.01 0.01 0.34 0.18 0.04 0.34 0.39 0.65 0.32
C4' 0.01 0.09 0.02 0.01 0.17 0.00 0.21 0.01 0.20 0.11 0.12 0.18 0.07 0.29 0.03 0.00 0.02 0.22 0.24 0.07
C5 0.02 0.01 0.12 0.36 0.01 0.21 0.00 0.35 0.00 0.01 0.01 0.01 0.01 0.36 0.22 0.07 0.35 0.39 0.64 0.32
C5' 0.10 0.20 0.20 0.04 0.32 0.01 0.35 0.00 0.31 0.20 0.26 0.35 0.16 0.10 0.22 0.03 0.01 0.27 0.26 0.02
C6 0.01 0.01 0.16 0.30 0.01 0.20 0.00 0.31 0.00 0.00 0.01 0.01 0.01 0.31 0.16 0.10 0.34 0.34 0.53 0.27
N1 0.01 0.01 0.03 0.23 0.01 0.11 0.01 0.20 0.00 0.00 0.01 0.01 0.02 0.20 0.11 0.02 0.30 0.30 0.45 0.23
N3 0.02 0.01 0.14 0.34 0.00 0.12 0.01 0.26 0.01 0.01 0.00 0.01 0.01 0.28 0.14 0.08 0.31 0.35 0.60 0.28
N4 0.02 0.01 0.06 0.40 0.01 0.18 0.01 0.35 0.01 0.01 0.01 0.00 0.02 0.36 0.23 0.05 0.36 0.44 0.72 0.37
O2 0.04 0.01 0.31 0.22 0.01 0.07 0.01 0.16 0.01 0.02 0.01 0.02 0.00 0.21 0.31 0.15 0.27 0.32 0.48 0.24
O2' 0.03 0.21 0.01 0.02 0.34 0.29 0.36 0.10 0.31 0.20 0.28 0.36 0.21 0.00 0.06 0.22 0.32 0.48 0.70 0.44
O3' 0.30 0.17 0.03 0.01 0.18 0.03 0.22 0.22 0.16 0.11 0.14 0.23 0.31 0.06 0.00 0.22 0.35 0.56 0.59 0.43
O4' 0.01 0.10 0.02 0.02 0.04 0.00 0.07 0.03 0.10 0.02 0.08 0.05 0.15 0.22 0.22 0.00 0.22 0.34 0.23 0.23
O5' 0.30 0.29 0.47 0.16 0.34 0.02 0.35 0.01 0.34 0.30 0.31 0.36 0.27 0.32 0.35 0.22 0.00 0.03 0.02 0.01
OP1 0.34 0.32 0.58 0.35 0.39 0.22 0.39 0.27 0.34 0.30 0.35 0.44 0.32 0.48 0.56 0.34 0.03 0.00 0.02 0.01
OP2 0.39 0.51 0.64 0.35 0.65 0.24 0.64 0.26 0.53 0.45 0.60 0.72 0.48 0.70 0.59 0.23 0.02 0.02 0.00 0.01
P 0.26 0.24 0.52 0.19 0.32 0.07 0.32 0.02 0.27 0.23 0.28 0.37 0.24 0.44 0.43 0.23 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 1.10 1.66 1.37 1.17 1.97 0.87 1.68 0.72 1.36 1.35 1.93 1.67 1.66 1.31 2.18 0.82 0.53 0.66 0.41 0.20
C2 1.02 1.81 1.17 0.92 2.40 0.64 2.08 0.58 1.61 1.47 2.23 1.73 1.41 0.96 2.69 0.76 0.41 0.87 0.40 0.17
C2' 1.06 1.46 1.36 1.26 1.79 1.01 1.55 0.89 1.23 1.20 1.71 1.49 1.62 1.43 2.03 0.86 0.63 0.79 0.50 0.31
C3' 1.05 1.27 1.38 1.26 1.49 0.96 1.31 0.74 1.06 1.07 1.44 1.36 1.66 1.46 1.69 0.81 0.56 0.96 0.48 0.38
C4 0.84 1.47 0.99 0.71 2.07 0.48 1.95 0.50 1.51 1.25 1.83 1.36 1.19 0.70 2.31 0.64 0.35 0.90 0.42 0.20
C4' 1.19 1.34 1.53 1.38 1.39 1.07 1.22 0.80 1.07 1.15 1.41 1.48 1.84 1.60 1.52 0.94 0.61 0.61 0.44 0.26
C5 0.82 1.24 1.08 0.85 1.68 0.60 1.62 0.58 1.31 1.10 1.50 1.17 1.30 0.85 1.83 0.63 0.42 0.69 0.43 0.17
C5' 1.28 1.13 1.62 1.54 1.01 1.26 0.96 0.97 0.94 1.07 1.05 1.30 1.92 1.79 1.09 1.09 0.78 0.58 0.56 0.45
C6 0.93 1.33 1.21 1.03 1.68 0.76 1.56 0.67 1.28 1.16 1.56 1.28 1.49 1.09 1.83 0.71 0.50 0.62 0.43 0.20
N1 1.02 1.62 1.25 1.04 2.04 0.75 1.80 0.65 1.43 1.34 1.93 1.57 1.52 1.12 2.26 0.76 0.48 0.72 0.41 0.18
N3 0.94 1.73 1.04 0.77 2.41 0.53 2.15 0.52 1.64 1.43 2.17 1.63 1.26 0.77 2.72 0.72 0.36 0.95 0.41 0.20
N4 0.76 1.38 0.87 0.55 2.01 0.38 1.93 0.45 1.48 1.18 1.74 1.27 1.03 0.51 2.26 0.62 0.31 1.00 0.46 0.29
O2 1.09 1.98 1.20 0.94 2.58 0.66 2.18 0.58 1.66 1.56 2.44 1.92 1.44 1.00 2.95 0.80 0.41 0.91 0.40 0.18
O2' 1.09 1.56 1.39 1.27 1.90 1.04 1.60 0.98 1.26 1.26 1.85 1.62 1.69 1.45 2.18 0.87 0.73 0.76 0.70 0.47
O3' 1.11 1.32 1.41 1.30 1.50 1.02 1.30 0.79 1.05 1.09 1.47 1.45 1.70 1.53 1.71 0.87 0.59 1.05 0.49 0.42
O4' 1.20 1.58 1.49 1.29 1.68 0.97 1.45 0.74 1.24 1.32 1.72 1.66 1.80 1.45 1.82 0.92 0.58 0.53 0.41 0.25
O5' 1.15 0.91 1.47 1.48 0.89 1.24 0.87 1.01 0.81 0.90 0.84 1.06 1.73 1.74 1.01 1.03 0.75 0.75 0.48 0.44
OP1 1.19 0.78 1.39 1.42 0.56 1.30 0.56 1.05 0.54 0.76 0.54 1.09 1.69 1.84 0.79 1.12 0.77 0.85 0.65 0.60
OP2 1.01 0.57 1.18 1.35 0.73 1.36 0.78 1.24 0.67 0.66 0.51 0.73 1.36 1.60 0.93 1.10 1.02 1.18 0.91 0.89
P 1.11 0.63 1.36 1.47 0.50 1.32 0.54 1.08 0.52 0.69 0.40 0.88 1.59 1.84 0.70 1.08 0.78 0.80 0.53 0.52

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.03 0.01 0.02 0.02 0.01 0.02 0.09 0.02 0.01 0.02 0.05 0.02 0.32 0.02 0.01 0.28 0.53 0.45 0.30
C2 0.03 0.00 0.19 0.23 0.01 0.14 0.02 0.26 0.01 0.01 0.00 0.01 0.26 0.24 0.02 0.19 0.47 0.96 0.78 0.59
C2' 0.01 0.19 0.00 0.01 0.06 0.02 0.16 0.22 0.20 0.03 0.14 0.34 0.00 0.04 0.07 0.03 0.49 0.53 0.58 0.50
C3' 0.02 0.23 0.01 0.00 0.33 0.01 0.35 0.03 0.30 0.20 0.29 0.24 0.02 0.01 0.36 0.02 0.19 0.29 0.23 0.16
C4 0.02 0.01 0.06 0.33 0.00 0.13 0.01 0.22 0.01 0.01 0.01 0.02 0.37 0.17 0.01 0.04 0.57 1.01 1.15 0.69
C4' 0.01 0.14 0.02 0.01 0.13 0.00 0.22 0.01 0.23 0.08 0.12 0.27 0.29 0.03 0.14 0.01 0.02 0.20 0.19 0.06
C5 0.02 0.02 0.16 0.35 0.01 0.22 0.00 0.35 0.00 0.01 0.01 0.02 0.42 0.22 0.01 0.15 0.66 0.97 1.27 0.78
C5' 0.09 0.26 0.22 0.03 0.22 0.01 0.35 0.00 0.35 0.14 0.24 0.45 0.10 0.22 0.24 0.02 0.01 0.17 0.27 0.02
C6 0.02 0.01 0.20 0.30 0.01 0.23 0.00 0.35 0.00 0.01 0.01 0.02 0.39 0.18 0.02 0.20 0.63 0.84 1.06 0.70
N1 0.01 0.01 0.03 0.20 0.01 0.08 0.01 0.14 0.01 0.00 0.01 0.02 0.21 0.15 0.02 0.02 0.41 0.73 0.73 0.46
N3 0.02 0.00 0.14 0.29 0.01 0.12 0.01 0.24 0.01 0.01 0.00 0.01 0.30 0.18 0.01 0.13 0.52 1.04 0.97 0.66
O2 0.05 0.01 0.34 0.24 0.02 0.27 0.02 0.45 0.02 0.02 0.01 0.00 0.37 0.40 0.02 0.33 0.56 1.12 0.77 0.74
O2' 0.02 0.26 0.00 0.02 0.37 0.29 0.42 0.10 0.39 0.21 0.30 0.37 0.00 0.07 0.40 0.19 0.39 0.44 0.61 0.43
O3' 0.32 0.24 0.04 0.01 0.17 0.03 0.22 0.22 0.18 0.15 0.18 0.40 0.07 0.00 0.20 0.22 0.24 0.46 0.31 0.28
O4 0.02 0.02 0.07 0.36 0.01 0.14 0.01 0.24 0.02 0.02 0.01 0.02 0.40 0.20 0.00 0.05 0.61 1.08 1.26 0.75
O4' 0.01 0.19 0.03 0.02 0.04 0.01 0.15 0.02 0.20 0.02 0.13 0.33 0.19 0.22 0.05 0.00 0.24 0.53 0.41 0.29
O5' 0.28 0.47 0.49 0.19 0.57 0.02 0.66 0.01 0.63 0.41 0.52 0.56 0.39 0.24 0.61 0.24 0.00 0.02 0.02 0.01
OP1 0.53 0.96 0.53 0.29 1.01 0.20 0.97 0.17 0.84 0.73 1.04 1.12 0.44 0.46 1.08 0.53 0.02 0.00 0.02 0.01
OP2 0.45 0.78 0.58 0.23 1.15 0.19 1.27 0.27 1.06 0.73 0.97 0.77 0.61 0.31 1.26 0.41 0.02 0.02 0.00 0.01
P 0.30 0.59 0.50 0.16 0.69 0.06 0.78 0.02 0.70 0.46 0.66 0.74 0.43 0.28 0.75 0.29 0.01 0.01 0.01 0.00