ClaRNA

Doublet Group distance statistics: 54765

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Distances from reference structure (by RMSD)

1, 2, 1, 3, 2, 2, 2, 1, 3, 0, 1, 2, 2, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N3 A 0, 0.003, 0.009, 0.015, 0.023 max_d=0.023 avg_d=0.009 std_dev=0.006
C4 A 0, 0.006, 0.013, 0.020, 0.030 max_d=0.030 avg_d=0.013 std_dev=0.007
N1 A 0, 0.004, 0.011, 0.018, 0.032 max_d=0.032 avg_d=0.011 std_dev=0.007
C6 A 0, 0.005, 0.012, 0.020, 0.028 max_d=0.028 avg_d=0.012 std_dev=0.008
C5 A 0, 0.001, 0.010, 0.018, 0.034 max_d=0.034 avg_d=0.010 std_dev=0.008
C1' A 0, 0.006, 0.015, 0.023, 0.035 max_d=0.035 avg_d=0.015 std_dev=0.009
C2 A 0, 0.003, 0.015, 0.027, 0.056 max_d=0.056 avg_d=0.015 std_dev=0.012
N4 A 0, 0.016, 0.037, 0.058, 0.076 max_d=0.076 avg_d=0.037 std_dev=0.021
O2 A 0, 0.004, 0.037, 0.071, 0.149 max_d=0.149 avg_d=0.037 std_dev=0.033
P B 0, 0.210, 0.534, 0.858, 1.216 max_d=1.216 avg_d=0.534 std_dev=0.324
OP2 B 0, 0.273, 0.668, 1.063, 1.275 max_d=1.275 avg_d=0.668 std_dev=0.395
OP1 B 0, 0.252, 0.724, 1.197, 1.590 max_d=1.590 avg_d=0.724 std_dev=0.472
C2' A 0, -0.052, 0.535, 1.123, 1.668 max_d=1.668 avg_d=0.535 std_dev=0.587
O4' A 0, -0.052, 0.543, 1.138, 1.659 max_d=1.659 avg_d=0.543 std_dev=0.595
O2' A 0, 0.024, 0.706, 1.389, 1.946 max_d=1.946 avg_d=0.706 std_dev=0.683
C3' A 0, -0.088, 0.859, 1.807, 2.559 max_d=2.559 avg_d=0.859 std_dev=0.948
C4' A 0, -0.079, 0.898, 1.875, 2.526 max_d=2.526 avg_d=0.898 std_dev=0.977
O5' B 0, 0.095, 1.204, 2.313, 3.659 max_d=3.659 avg_d=1.204 std_dev=1.109
O3' A 0, 0.009, 1.129, 2.248, 3.105 max_d=3.105 avg_d=1.129 std_dev=1.119
C5' B 0, -0.037, 1.551, 3.138, 5.299 max_d=5.299 avg_d=1.551 std_dev=1.588
C5' A 0, -0.076, 1.695, 3.465, 4.523 max_d=4.523 avg_d=1.695 std_dev=1.771
O5' A 0, 0.013, 2.359, 4.704, 5.772 max_d=5.772 avg_d=2.359 std_dev=2.346
C4' B 0, -0.225, 2.294, 4.813, 8.041 max_d=8.041 avg_d=2.294 std_dev=2.519
C3' B 0, -0.208, 2.577, 5.363, 8.928 max_d=8.928 avg_d=2.577 std_dev=2.786
O3' B 0, -0.303, 2.520, 5.343, 9.386 max_d=9.386 avg_d=2.520 std_dev=2.823
O4' B 0, -0.241, 2.935, 6.110, 9.185 max_d=9.185 avg_d=2.935 std_dev=3.176
P A 0, -0.023, 3.484, 6.991, 8.092 max_d=8.092 avg_d=3.484 std_dev=3.507
C8 B 0, -0.071, 3.489, 7.049, 8.380 max_d=8.380 avg_d=3.489 std_dev=3.560
N7 B 0, -0.082, 3.523, 7.128, 8.094 max_d=8.094 avg_d=3.523 std_dev=3.605
N9 B 0, -0.204, 3.570, 7.345, 10.124 max_d=10.124 avg_d=3.570 std_dev=3.775
C2' B 0, -0.285, 3.518, 7.321, 11.523 max_d=11.523 avg_d=3.518 std_dev=3.803
C5 B 0, -0.195, 3.636, 7.467, 9.686 max_d=9.686 avg_d=3.636 std_dev=3.831
C1' B 0, -0.283, 3.550, 7.383, 10.966 max_d=10.966 avg_d=3.550 std_dev=3.833
O6 B 0, -0.145, 3.719, 7.583, 9.238 max_d=9.238 avg_d=3.719 std_dev=3.864
OP2 A 0, -0.063, 3.828, 7.719, 9.277 max_d=9.277 avg_d=3.828 std_dev=3.891
C6 B 0, -0.235, 3.724, 7.683, 10.156 max_d=10.156 avg_d=3.724 std_dev=3.959
C4 B 0, -0.308, 3.679, 7.667, 11.000 max_d=11.000 avg_d=3.679 std_dev=3.988
N1 B 0, -0.409, 3.859, 8.128, 11.972 max_d=11.972 avg_d=3.859 std_dev=4.269
OP1 A 0, -0.077, 4.228, 8.533, 9.994 max_d=9.994 avg_d=4.228 std_dev=4.305
N3 B 0, -0.519, 3.815, 8.149, 12.815 max_d=12.815 avg_d=3.815 std_dev=4.334
O2' B 0, -0.442, 3.915, 8.272, 13.501 max_d=13.501 avg_d=3.915 std_dev=4.357
C2 B 0, -0.564, 3.907, 8.379, 13.236 max_d=13.236 avg_d=3.907 std_dev=4.472
N2 B 0, -0.757, 4.097, 8.952, 15.031 max_d=15.031 avg_d=4.097 std_dev=4.855

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 0.01 0.02 0.01 0.03 0.02 0.06 0.01 0.01 0.01 0.02 0.04 0.02 0.21 0.01 0.17 0.63 0.63 0.29
C2 0.02 0.00 0.25 0.35 0.01 0.08 0.01 0.18 0.01 0.01 0.01 0.02 0.01 0.20 0.33 0.11 0.29 0.73 1.17 0.47
C2' 0.01 0.25 0.00 0.01 0.05 0.01 0.14 0.15 0.20 0.03 0.20 0.06 0.45 0.01 0.03 0.01 0.35 0.58 0.58 0.41
C3' 0.02 0.35 0.01 0.00 0.32 0.01 0.24 0.02 0.19 0.20 0.38 0.35 0.41 0.02 0.01 0.03 0.32 0.33 0.47 0.28
C4 0.01 0.01 0.05 0.32 0.00 0.18 0.00 0.43 0.01 0.01 0.00 0.01 0.02 0.25 0.27 0.03 0.61 1.18 1.96 1.17
C4' 0.03 0.08 0.01 0.01 0.18 0.00 0.24 0.01 0.23 0.10 0.11 0.20 0.11 0.21 0.02 0.01 0.01 0.35 0.29 0.09
C5 0.02 0.01 0.14 0.24 0.00 0.24 0.00 0.54 0.01 0.01 0.01 0.01 0.02 0.28 0.17 0.11 0.84 1.53 2.17 1.51
C5' 0.06 0.18 0.15 0.02 0.43 0.01 0.54 0.00 0.48 0.25 0.28 0.47 0.08 0.10 0.16 0.02 0.01 0.17 0.38 0.02
C6 0.01 0.01 0.20 0.19 0.01 0.23 0.01 0.48 0.00 0.01 0.01 0.01 0.03 0.25 0.12 0.15 0.78 1.34 1.81 1.31
N1 0.01 0.01 0.03 0.20 0.01 0.10 0.01 0.25 0.01 0.00 0.01 0.01 0.03 0.15 0.16 0.01 0.39 0.81 1.22 0.69
N3 0.01 0.01 0.20 0.38 0.00 0.11 0.01 0.28 0.01 0.01 0.00 0.01 0.02 0.23 0.35 0.09 0.39 0.83 1.53 0.74
N4 0.02 0.02 0.06 0.35 0.01 0.20 0.01 0.47 0.01 0.01 0.01 0.00 0.02 0.27 0.31 0.03 0.66 1.29 2.16 1.30
O2 0.04 0.01 0.45 0.41 0.02 0.11 0.02 0.08 0.03 0.03 0.02 0.02 0.00 0.29 0.45 0.19 0.31 0.86 0.79 0.20
O2' 0.02 0.20 0.01 0.02 0.25 0.21 0.28 0.10 0.25 0.15 0.23 0.27 0.29 0.00 0.10 0.17 0.27 0.51 0.48 0.22
O3' 0.21 0.33 0.03 0.01 0.27 0.02 0.17 0.16 0.12 0.16 0.35 0.31 0.45 0.10 0.00 0.15 0.30 0.30 0.51 0.24
O4' 0.01 0.11 0.01 0.03 0.03 0.01 0.11 0.02 0.15 0.01 0.09 0.03 0.19 0.17 0.15 0.00 0.13 0.60 0.46 0.26
O5' 0.17 0.29 0.35 0.32 0.61 0.01 0.84 0.01 0.78 0.39 0.39 0.66 0.31 0.27 0.30 0.13 0.00 0.01 0.02 0.00
OP1 0.63 0.73 0.58 0.33 1.18 0.35 1.53 0.17 1.34 0.81 0.83 1.29 0.86 0.51 0.30 0.60 0.01 0.00 0.03 0.01
OP2 0.63 1.17 0.58 0.47 1.96 0.29 2.17 0.38 1.81 1.22 1.53 2.16 0.79 0.48 0.51 0.46 0.02 0.03 0.00 0.01
P 0.29 0.47 0.41 0.28 1.17 0.09 1.51 0.02 1.31 0.69 0.74 1.30 0.20 0.22 0.24 0.26 0.00 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 1.86 2.50 1.75 1.31 1.96 1.42 1.57 1.18 1.65 1.19 2.11 2.83 2.46 1.12 1.68 1.94 1.39 2.00 0.79 1.36 0.43 0.38 0.20
C2 1.41 2.25 1.24 0.93 1.66 1.04 1.37 0.89 1.52 0.93 1.97 2.53 2.10 0.92 1.34 1.36 1.01 1.59 0.62 1.26 0.47 0.44 0.17
C2' 2.46 2.84 1.92 1.45 2.34 1.99 1.83 1.66 1.86 1.54 2.36 3.19 2.91 1.36 2.14 2.25 1.35 2.67 1.16 1.51 0.35 0.24 0.43
C3' 2.40 2.62 2.04 1.62 2.20 2.05 1.73 1.69 1.75 1.47 2.20 2.96 2.69 1.30 2.04 2.38 1.64 2.63 1.13 1.45 0.46 0.37 0.42
C4 0.94 1.56 0.82 0.63 1.19 0.69 1.01 0.62 1.14 0.65 1.43 1.69 1.44 0.66 0.93 0.87 0.71 1.13 0.48 0.95 0.47 0.44 0.20
C4' 1.83 2.27 2.04 1.68 1.82 1.43 1.47 1.09 1.52 1.17 1.91 2.60 2.26 1.10 1.62 2.27 1.98 1.88 0.71 1.27 0.81 0.61 0.35
C5 1.14 1.57 1.06 0.84 1.31 0.87 1.11 0.78 1.16 0.81 1.41 1.68 1.54 0.80 1.11 1.07 0.86 1.33 0.61 0.96 0.46 0.42 0.18
C5' 1.75 2.03 2.29 2.05 1.71 1.39 1.43 0.94 1.44 1.25 1.74 2.30 2.05 1.18 1.57 2.46 2.51 1.60 0.74 1.25 1.26 0.96 0.69
C6 1.52 1.93 1.44 1.13 1.63 1.18 1.34 1.02 1.37 1.03 1.67 2.08 1.94 0.98 1.43 1.49 1.15 1.73 0.74 1.13 0.45 0.40 0.19
N1 1.62 2.27 1.49 1.13 1.79 1.22 1.46 1.04 1.54 1.07 1.95 2.51 2.22 1.03 1.51 1.61 1.19 1.81 0.72 1.27 0.45 0.41 0.18
N3 1.11 1.89 0.94 0.71 1.38 0.81 1.16 0.71 1.33 0.74 1.72 2.09 1.72 0.75 1.08 1.02 0.80 1.30 0.51 1.11 0.47 0.44 0.19
N4 0.57 1.15 0.49 0.39 0.79 0.42 0.68 0.40 0.85 0.37 1.10 1.27 1.01 0.38 0.57 0.52 0.49 0.77 0.34 0.74 0.45 0.44 0.24
O2 1.48 2.42 1.29 0.95 1.71 1.08 1.41 0.92 1.60 0.95 2.12 2.82 2.21 0.94 1.38 1.44 1.06 1.64 0.62 1.34 0.48 0.44 0.18
O2' 2.51 3.13 2.00 1.47 2.48 1.92 1.94 1.55 1.98 1.61 2.57 3.61 3.13 1.43 2.21 2.39 1.39 2.58 1.09 1.58 0.42 0.37 0.44
O3' 2.48 2.57 2.04 1.60 2.16 2.10 1.65 1.71 1.63 1.48 2.08 2.94 2.68 1.25 2.05 2.47 1.61 2.67 1.10 1.28 0.52 0.38 0.43
O4' 1.72 2.19 2.08 1.63 1.78 1.27 1.45 0.99 1.49 1.17 1.85 2.46 2.18 1.11 1.57 2.24 1.85 1.69 0.65 1.25 0.69 0.52 0.29
O5' 1.87 1.84 2.74 2.67 1.72 1.60 1.54 1.06 1.46 1.61 1.62 2.01 1.89 1.50 1.74 2.81 3.26 1.44 1.15 1.32 1.93 1.45 1.28
OP1 1.78 0.69 2.91 3.35 1.17 2.26 1.23 2.06 0.86 1.91 0.57 0.94 0.88 1.70 1.62 2.91 4.30 1.39 2.25 0.89 3.51 2.70 2.66
OP2 2.11 1.67 2.96 3.37 2.08 2.23 2.27 2.12 2.09 2.60 1.80 1.52 1.76 2.58 2.29 2.58 3.80 1.66 2.61 2.17 3.68 3.20 3.00
P 2.14 1.46 3.16 3.48 1.79 2.30 1.79 1.94 1.54 2.22 1.39 1.47 1.62 2.06 2.06 3.05 4.25 1.66 2.18 1.51 3.20 2.54 2.46

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.04 0.00 0.02 0.02 0.01 0.02 0.04 0.03 0.02 0.03 0.04 0.04 0.01 0.01 0.02 0.03 0.01 0.09 0.03 0.36 0.24 0.13
C2 0.04 0.00 0.54 0.43 0.01 0.14 0.01 0.26 0.01 0.01 0.00 0.01 0.01 0.01 0.01 0.54 0.58 0.39 0.30 0.01 0.53 0.61 0.42
C2' 0.00 0.54 0.00 0.01 0.28 0.02 0.14 0.02 0.25 0.26 0.43 0.64 0.53 0.13 0.02 0.01 0.02 0.01 0.08 0.20 0.51 0.29 0.19
C3' 0.02 0.43 0.01 0.00 0.24 0.00 0.17 0.02 0.25 0.21 0.37 0.50 0.39 0.13 0.08 0.03 0.01 0.02 0.10 0.23 0.53 0.26 0.22
C4 0.02 0.01 0.28 0.24 0.00 0.08 0.00 0.15 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.26 0.28 0.20 0.22 0.02 0.43 0.49 0.34
C4' 0.01 0.14 0.02 0.00 0.08 0.00 0.09 0.01 0.10 0.15 0.11 0.18 0.13 0.14 0.06 0.11 0.03 0.00 0.02 0.12 0.28 0.12 0.07
C5 0.02 0.01 0.14 0.17 0.00 0.09 0.00 0.19 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.15 0.20 0.09 0.25 0.02 0.42 0.53 0.39
C5' 0.04 0.26 0.02 0.02 0.15 0.01 0.19 0.00 0.20 0.32 0.23 0.34 0.23 0.30 0.13 0.10 0.06 0.01 0.01 0.23 0.13 0.04 0.02
C6 0.03 0.01 0.25 0.25 0.01 0.10 0.01 0.20 0.00 0.02 0.00 0.01 0.01 0.02 0.02 0.26 0.32 0.17 0.27 0.01 0.47 0.60 0.44
C8 0.02 0.01 0.26 0.21 0.01 0.15 0.01 0.32 0.02 0.00 0.02 0.01 0.01 0.00 0.01 0.21 0.26 0.24 0.30 0.03 0.33 0.35 0.29
N1 0.03 0.00 0.43 0.37 0.01 0.11 0.01 0.23 0.00 0.02 0.00 0.01 0.01 0.02 0.02 0.43 0.49 0.30 0.29 0.01 0.52 0.64 0.45
N2 0.04 0.01 0.64 0.50 0.01 0.18 0.01 0.34 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.67 0.71 0.47 0.34 0.02 0.57 0.64 0.45
N3 0.04 0.01 0.53 0.39 0.01 0.13 0.01 0.23 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.51 0.51 0.38 0.27 0.01 0.48 0.53 0.36
N7 0.01 0.01 0.13 0.13 0.01 0.14 0.01 0.30 0.02 0.00 0.02 0.01 0.01 0.00 0.01 0.12 0.17 0.13 0.30 0.03 0.35 0.45 0.37
N9 0.01 0.01 0.02 0.08 0.01 0.06 0.01 0.13 0.02 0.01 0.02 0.01 0.01 0.01 0.00 0.04 0.06 0.01 0.18 0.03 0.37 0.35 0.24
O2' 0.02 0.54 0.01 0.03 0.26 0.11 0.15 0.10 0.26 0.21 0.43 0.67 0.51 0.12 0.04 0.00 0.03 0.10 0.07 0.22 0.50 0.27 0.18
O3' 0.03 0.58 0.02 0.01 0.28 0.03 0.20 0.06 0.32 0.26 0.49 0.71 0.51 0.17 0.06 0.03 0.00 0.04 0.17 0.28 0.62 0.30 0.29
O4' 0.01 0.39 0.01 0.02 0.20 0.00 0.09 0.01 0.17 0.24 0.30 0.47 0.38 0.13 0.01 0.10 0.04 0.00 0.14 0.12 0.24 0.14 0.10
O5' 0.09 0.30 0.08 0.10 0.22 0.02 0.25 0.01 0.27 0.30 0.29 0.34 0.27 0.30 0.18 0.07 0.17 0.14 0.00 0.28 0.02 0.03 0.01
O6 0.03 0.01 0.20 0.23 0.02 0.12 0.02 0.23 0.01 0.03 0.01 0.02 0.01 0.03 0.03 0.22 0.28 0.12 0.28 0.00 0.47 0.61 0.47
OP1 0.36 0.53 0.51 0.53 0.43 0.28 0.42 0.13 0.47 0.33 0.52 0.57 0.48 0.35 0.37 0.50 0.62 0.24 0.02 0.47 0.00 0.02 0.01
OP2 0.24 0.61 0.29 0.26 0.49 0.12 0.53 0.04 0.60 0.35 0.64 0.64 0.53 0.45 0.35 0.27 0.30 0.14 0.03 0.61 0.02 0.00 0.01
P 0.13 0.42 0.19 0.22 0.34 0.07 0.39 0.02 0.44 0.29 0.45 0.45 0.36 0.37 0.24 0.18 0.29 0.10 0.01 0.47 0.01 0.01 0.00