ClaRNA

Doublet Group distance statistics: 51175

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C6 A 0, 0.007, 0.014, 0.020, 0.026 max_d=0.026 avg_d=0.014 std_dev=0.006
C5 A 0, 0.008, 0.016, 0.024, 0.031 max_d=0.031 avg_d=0.016 std_dev=0.008
C4 A 0, 0.012, 0.021, 0.029, 0.034 max_d=0.034 avg_d=0.021 std_dev=0.009
N1 A 0, 0.008, 0.018, 0.028, 0.036 max_d=0.036 avg_d=0.018 std_dev=0.010
N3 A 0, 0.008, 0.019, 0.029, 0.038 max_d=0.038 avg_d=0.019 std_dev=0.010
N9 A 0, 0.012, 0.023, 0.034, 0.046 max_d=0.046 avg_d=0.023 std_dev=0.011
N7 A 0, 0.016, 0.027, 0.039, 0.047 max_d=0.047 avg_d=0.027 std_dev=0.012
C2 A 0, 0.003, 0.016, 0.029, 0.045 max_d=0.045 avg_d=0.016 std_dev=0.013
C8 A 0, 0.020, 0.034, 0.047, 0.054 max_d=0.054 avg_d=0.034 std_dev=0.013
O6 A 0, 0.022, 0.036, 0.051, 0.058 max_d=0.058 avg_d=0.036 std_dev=0.015
C1' A 0, 0.008, 0.024, 0.040, 0.055 max_d=0.055 avg_d=0.024 std_dev=0.016
N2 A 0, 0.015, 0.035, 0.056, 0.071 max_d=0.071 avg_d=0.035 std_dev=0.021
O2' B 0, 0.270, 0.542, 0.813, 0.979 max_d=0.979 avg_d=0.542 std_dev=0.271
C2' B 0, 0.224, 0.518, 0.813, 1.034 max_d=1.034 avg_d=0.518 std_dev=0.295
O4' A 0, -0.200, 0.619, 1.438, 2.246 max_d=2.246 avg_d=0.619 std_dev=0.819
C3' B 0, 0.210, 1.057, 1.905, 2.533 max_d=2.533 avg_d=1.057 std_dev=0.848
C2' A 0, -0.268, 0.585, 1.438, 2.285 max_d=2.285 avg_d=0.585 std_dev=0.853
O2' A 0, -0.320, 0.633, 1.586, 2.514 max_d=2.514 avg_d=0.633 std_dev=0.953
C1' B 0, -0.013, 1.112, 2.237, 3.300 max_d=3.300 avg_d=1.112 std_dev=1.125
C4' A 0, -0.188, 0.987, 2.163, 3.301 max_d=3.301 avg_d=0.987 std_dev=1.176
C3' A 0, -0.285, 1.017, 2.319, 3.598 max_d=3.598 avg_d=1.017 std_dev=1.302
O3' B 0, -0.289, 1.327, 2.943, 4.537 max_d=4.537 avg_d=1.327 std_dev=1.616
N1 B 0, -0.282, 1.352, 2.985, 4.595 max_d=4.595 avg_d=1.352 std_dev=1.634
C4' B 0, 0.075, 1.806, 3.537, 4.692 max_d=4.692 avg_d=1.806 std_dev=1.731
O4' B 0, -0.005, 1.742, 3.489, 4.874 max_d=4.874 avg_d=1.742 std_dev=1.747
O3' A 0, -0.315, 1.440, 3.194, 4.910 max_d=4.910 avg_d=1.440 std_dev=1.755
C6 B 0, -0.131, 1.794, 3.718, 5.559 max_d=5.559 avg_d=1.794 std_dev=1.924
C5' A 0, -0.409, 1.671, 3.751, 5.765 max_d=5.765 avg_d=1.671 std_dev=2.080
C2 B 0, -0.551, 1.606, 3.763, 5.890 max_d=5.890 avg_d=1.606 std_dev=2.157
O2 B 0, -0.575, 1.649, 3.872, 6.081 max_d=6.081 avg_d=1.649 std_dev=2.223
C5 B 0, -0.115, 2.231, 4.578, 6.694 max_d=6.694 avg_d=2.231 std_dev=2.347
C5' B 0, 0.001, 2.663, 5.326, 6.843 max_d=6.843 avg_d=2.663 std_dev=2.663
O5' A 0, -0.842, 1.887, 4.615, 7.304 max_d=7.304 avg_d=1.887 std_dev=2.729
C4 B 0, -0.404, 2.366, 5.136, 7.635 max_d=7.635 avg_d=2.366 std_dev=2.770
N3 B 0, -0.628, 2.153, 4.933, 7.584 max_d=7.584 avg_d=2.153 std_dev=2.780
O5' B 0, -0.094, 2.801, 5.697, 7.714 max_d=7.714 avg_d=2.801 std_dev=2.896
N4 B 0, -0.479, 2.919, 6.316, 9.238 max_d=9.238 avg_d=2.919 std_dev=3.398
P A 0, -1.417, 2.450, 6.316, 10.152 max_d=10.152 avg_d=2.450 std_dev=3.866
P B 0, -0.365, 3.580, 7.525, 10.453 max_d=10.453 avg_d=3.580 std_dev=3.945
OP2 B 0, -0.403, 3.640, 7.682, 10.871 max_d=10.871 avg_d=3.640 std_dev=4.043
OP1 A 0, -1.401, 2.834, 7.069, 11.251 max_d=11.251 avg_d=2.834 std_dev=4.235
OP2 A 0, -1.732, 2.697, 7.126, 11.536 max_d=11.536 avg_d=2.697 std_dev=4.429
OP1 B 0, -0.351, 4.268, 8.888, 11.519 max_d=11.519 avg_d=4.268 std_dev=4.619

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.03 0.01 0.03 0.01 0.00 0.01 0.05 0.01 0.01 0.02 0.04 0.03 0.01 0.01 0.01 0.02 0.00 0.09 0.01 0.13 0.38 0.05
C2 0.03 0.00 0.40 0.12 0.01 0.47 0.01 0.81 0.01 0.00 0.00 0.00 0.00 0.00 0.01 0.48 0.23 0.61 1.09 0.01 1.06 0.99 1.10
C2' 0.01 0.40 0.00 0.01 0.22 0.01 0.12 0.03 0.20 0.17 0.32 0.47 0.38 0.08 0.04 0.00 0.01 0.02 0.25 0.16 0.23 0.41 0.14
C3' 0.03 0.12 0.01 0.00 0.14 0.00 0.18 0.03 0.18 0.19 0.15 0.11 0.10 0.21 0.13 0.01 0.01 0.01 0.37 0.21 0.29 0.45 0.25
C4 0.01 0.01 0.22 0.14 0.00 0.18 0.00 0.32 0.00 0.00 0.01 0.01 0.00 0.00 0.00 0.21 0.20 0.31 0.35 0.01 0.24 0.24 0.17
C4' 0.00 0.47 0.01 0.00 0.18 0.00 0.09 0.00 0.15 0.38 0.33 0.61 0.45 0.28 0.09 0.07 0.03 0.00 0.02 0.12 0.26 0.29 0.10
C5 0.01 0.01 0.12 0.18 0.00 0.09 0.00 0.23 0.01 0.01 0.00 0.01 0.00 0.00 0.00 0.10 0.24 0.13 0.24 0.01 0.28 0.73 0.37
C5' 0.05 0.81 0.03 0.03 0.32 0.00 0.23 0.00 0.32 0.66 0.60 1.06 0.73 0.53 0.19 0.07 0.05 0.01 0.02 0.29 0.15 0.38 0.03
C6 0.01 0.01 0.20 0.18 0.00 0.15 0.01 0.32 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.19 0.27 0.25 0.29 0.00 0.07 0.40 0.10
C8 0.01 0.00 0.17 0.19 0.00 0.38 0.01 0.66 0.01 0.00 0.01 0.00 0.00 0.00 0.00 0.25 0.16 0.32 0.96 0.02 1.01 1.62 1.22
N1 0.02 0.00 0.32 0.15 0.01 0.33 0.00 0.60 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.36 0.27 0.46 0.75 0.00 0.61 0.47 0.62
N2 0.04 0.00 0.47 0.11 0.01 0.61 0.01 1.06 0.01 0.00 0.01 0.00 0.01 0.01 0.01 0.62 0.24 0.73 1.49 0.02 1.59 1.67 1.67
N3 0.03 0.00 0.38 0.10 0.00 0.45 0.00 0.73 0.00 0.00 0.00 0.01 0.00 0.00 0.01 0.45 0.19 0.61 0.98 0.00 0.96 0.79 0.96
N7 0.01 0.00 0.08 0.21 0.00 0.28 0.00 0.53 0.01 0.00 0.01 0.01 0.00 0.00 0.01 0.16 0.22 0.17 0.80 0.02 0.99 1.62 1.16
N9 0.01 0.01 0.04 0.13 0.00 0.09 0.00 0.19 0.01 0.00 0.01 0.01 0.01 0.01 0.00 0.04 0.14 0.01 0.28 0.01 0.22 0.70 0.36
O2' 0.01 0.48 0.00 0.01 0.21 0.07 0.10 0.07 0.19 0.25 0.36 0.62 0.45 0.16 0.04 0.00 0.04 0.11 0.11 0.14 0.27 0.31 0.07
O3' 0.02 0.23 0.01 0.01 0.20 0.03 0.24 0.05 0.27 0.16 0.27 0.24 0.19 0.22 0.14 0.04 0.00 0.03 0.36 0.30 0.34 0.41 0.23
O4' 0.00 0.61 0.02 0.01 0.31 0.00 0.13 0.01 0.25 0.32 0.46 0.73 0.61 0.17 0.01 0.11 0.03 0.00 0.12 0.17 0.22 0.27 0.14
O5' 0.09 1.09 0.25 0.37 0.35 0.02 0.24 0.02 0.29 0.96 0.75 1.49 0.98 0.80 0.28 0.11 0.36 0.12 0.00 0.23 0.01 0.01 0.00
O6 0.01 0.01 0.16 0.21 0.01 0.12 0.01 0.29 0.00 0.02 0.00 0.02 0.00 0.02 0.01 0.14 0.30 0.17 0.23 0.00 0.32 0.71 0.36
OP1 0.13 1.06 0.23 0.29 0.24 0.26 0.28 0.15 0.07 1.01 0.61 1.59 0.96 0.99 0.22 0.27 0.34 0.22 0.01 0.32 0.00 0.01 0.01
OP2 0.38 0.99 0.41 0.45 0.24 0.29 0.73 0.38 0.40 1.62 0.47 1.67 0.79 1.62 0.70 0.31 0.41 0.27 0.01 0.71 0.01 0.00 0.00
P 0.05 1.10 0.14 0.25 0.17 0.10 0.37 0.03 0.10 1.22 0.62 1.67 0.96 1.16 0.36 0.07 0.23 0.14 0.00 0.36 0.01 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.36 0.23 0.22 0.36 0.45 0.94 0.50 1.12 0.44 0.25 0.37 0.54 0.33 0.23 0.38 0.83 0.82 1.18 0.54 0.82
C2 0.27 1.06 0.17 0.29 1.06 0.57 0.73 0.59 0.50 0.62 1.22 1.19 1.26 0.14 0.64 0.31 0.70 2.07 1.21 1.29
C2' 0.97 0.63 0.74 0.66 0.44 1.39 0.61 1.60 0.75 0.73 0.50 0.35 0.81 0.66 0.27 1.49 1.40 1.79 1.19 1.50
C3' 0.71 0.31 0.23 0.42 0.37 1.10 0.65 1.39 0.76 0.56 0.26 0.30 0.42 0.25 0.80 1.27 1.23 1.44 1.03 1.28
C4 0.32 0.65 0.13 0.08 0.84 0.49 0.70 0.41 0.52 0.48 0.81 0.95 0.62 0.09 0.31 0.46 0.25 1.45 0.58 0.75
C4' 0.74 0.55 0.71 1.05 0.62 1.18 0.76 1.45 0.84 0.66 0.61 0.64 0.64 0.72 1.51 1.10 1.26 1.04 1.04 1.12
C5 0.31 0.78 0.13 0.11 0.99 0.49 0.79 0.40 0.56 0.53 0.99 1.16 0.79 0.08 0.38 0.43 0.38 1.72 0.86 0.98
C5' 1.12 0.98 1.31 1.70 0.97 1.43 1.06 1.59 1.13 1.04 0.98 0.96 1.01 1.27 2.19 1.24 1.41 0.73 1.14 1.12
C6 0.29 1.02 0.15 0.22 1.17 0.53 0.85 0.51 0.57 0.61 1.27 1.37 1.15 0.10 0.54 0.36 0.69 2.15 1.31 1.37
C8 0.34 0.43 0.16 0.17 0.76 0.69 0.71 0.76 0.54 0.39 0.63 0.90 0.27 0.14 0.23 0.64 0.43 1.34 0.36 0.69
N1 0.27 1.15 0.18 0.31 1.21 0.63 0.82 0.69 0.54 0.65 1.38 1.39 1.36 0.14 0.67 0.35 0.86 2.35 1.49 1.55
N2 0.23 1.23 0.22 0.44 1.12 0.80 0.69 0.94 0.44 0.66 1.38 1.25 1.55 0.22 0.84 0.40 0.99 2.38 1.49 1.57
N3 0.31 0.75 0.13 0.13 0.83 0.42 0.65 0.31 0.49 0.51 0.88 0.93 0.81 0.09 0.41 0.35 0.29 1.52 0.68 0.80
N7 0.33 0.63 0.13 0.09 0.93 0.56 0.80 0.53 0.57 0.48 0.86 1.10 0.56 0.10 0.28 0.53 0.32 1.56 0.65 0.84
N9 0.34 0.38 0.16 0.19 0.67 0.69 0.64 0.75 0.50 0.37 0.55 0.78 0.23 0.15 0.24 0.64 0.45 1.22 0.29 0.62
O2' 1.23 0.91 1.07 1.11 0.61 1.92 0.73 2.21 0.94 0.94 0.79 0.52 1.20 0.92 0.55 1.92 1.99 2.38 1.79 2.12
O3' 0.95 0.64 0.35 0.46 0.70 1.32 0.96 1.70 1.07 0.85 0.62 0.65 0.71 0.28 0.78 1.60 1.63 1.93 1.52 1.79
O4' 0.70 0.87 0.71 0.91 0.97 0.94 0.94 1.16 0.90 0.80 0.97 1.03 0.89 0.74 1.25 0.78 0.93 0.65 0.73 0.70
O5' 1.64 1.49 1.98 2.41 1.47 1.90 1.52 1.97 1.58 1.56 1.46 1.45 1.47 1.89 2.85 1.61 1.85 0.96 1.63 1.48
O6 0.28 1.10 0.16 0.25 1.27 0.58 0.91 0.59 0.59 0.64 1.38 1.51 1.24 0.11 0.58 0.38 0.82 2.34 1.52 1.56
OP1 2.26 1.90 2.56 3.29 1.90 2.87 2.05 2.94 2.16 2.09 1.83 1.83 1.81 2.20 3.79 2.40 2.74 1.96 2.50 2.43
OP2 2.20 2.12 2.72 3.35 2.09 2.69 2.11 2.87 2.14 2.16 2.08 2.06 2.09 2.31 3.47 2.20 2.75 2.20 2.54 2.44
P 2.28 2.06 2.67 3.31 2.05 2.72 2.12 2.78 2.18 2.17 2.01 2.01 2.00 2.32 3.73 2.29 2.63 1.85 2.40 2.28

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.03 0.00 0.01 0.02 0.00 0.01 0.07 0.01 0.01 0.02 0.02 0.04 0.01 0.23 0.00 0.26 0.29 0.42 0.25
C2 0.03 0.00 0.10 0.08 0.00 0.07 0.01 0.28 0.01 0.01 0.00 0.01 0.01 0.31 0.08 0.06 0.60 0.37 1.03 0.69
C2' 0.00 0.10 0.00 0.00 0.09 0.01 0.17 0.17 0.18 0.05 0.06 0.10 0.26 0.00 0.01 0.01 0.31 0.36 0.25 0.14
C3' 0.01 0.08 0.00 0.00 0.36 0.00 0.50 0.02 0.48 0.22 0.18 0.40 0.21 0.02 0.01 0.02 0.37 0.38 0.37 0.27
C4 0.02 0.00 0.09 0.36 0.00 0.10 0.00 0.10 0.00 0.01 0.00 0.00 0.01 0.24 0.22 0.03 0.49 0.59 1.33 0.94
C4' 0.00 0.07 0.01 0.00 0.10 0.00 0.23 0.01 0.25 0.07 0.03 0.11 0.20 0.26 0.03 0.00 0.01 0.43 0.17 0.15
C5 0.01 0.01 0.17 0.50 0.00 0.23 0.00 0.30 0.00 0.00 0.01 0.00 0.01 0.15 0.30 0.02 0.45 0.70 1.25 0.98
C5' 0.07 0.28 0.17 0.02 0.10 0.01 0.30 0.00 0.33 0.06 0.23 0.11 0.49 0.09 0.20 0.01 0.01 0.13 0.22 0.02
C6 0.01 0.01 0.18 0.48 0.00 0.25 0.00 0.33 0.00 0.00 0.01 0.00 0.01 0.09 0.23 0.05 0.41 0.59 0.97 0.82
N1 0.01 0.01 0.05 0.22 0.01 0.07 0.00 0.06 0.00 0.00 0.01 0.01 0.01 0.15 0.04 0.02 0.38 0.23 0.81 0.57
N3 0.02 0.00 0.06 0.18 0.00 0.03 0.01 0.23 0.01 0.01 0.00 0.00 0.01 0.32 0.07 0.06 0.61 0.51 1.25 0.85
N4 0.02 0.01 0.10 0.40 0.00 0.11 0.00 0.11 0.00 0.01 0.00 0.00 0.01 0.26 0.28 0.04 0.51 0.72 1.48 1.04
O2 0.04 0.01 0.26 0.21 0.01 0.20 0.01 0.49 0.01 0.01 0.01 0.01 0.00 0.41 0.27 0.09 0.74 0.51 0.99 0.68
O2' 0.01 0.31 0.00 0.02 0.24 0.26 0.15 0.09 0.09 0.15 0.32 0.26 0.41 0.00 0.06 0.18 0.06 0.81 0.16 0.26
O3' 0.23 0.08 0.01 0.01 0.22 0.03 0.30 0.20 0.23 0.04 0.07 0.28 0.27 0.06 0.00 0.18 0.44 0.79 0.61 0.45
O4' 0.00 0.06 0.01 0.02 0.03 0.00 0.02 0.01 0.05 0.02 0.06 0.04 0.09 0.18 0.18 0.00 0.19 0.35 0.34 0.22
O5' 0.26 0.60 0.31 0.37 0.49 0.01 0.45 0.01 0.41 0.38 0.61 0.51 0.74 0.06 0.44 0.19 0.00 0.03 0.01 0.01
OP1 0.29 0.37 0.36 0.38 0.59 0.43 0.70 0.13 0.59 0.23 0.51 0.72 0.51 0.81 0.79 0.35 0.03 0.00 0.01 0.00
OP2 0.42 1.03 0.25 0.37 1.33 0.17 1.25 0.22 0.97 0.81 1.25 1.48 0.99 0.16 0.61 0.34 0.01 0.01 0.00 0.00
P 0.25 0.69 0.14 0.27 0.94 0.15 0.98 0.02 0.82 0.57 0.85 1.04 0.68 0.26 0.45 0.22 0.01 0.00 0.00 0.00