ClaRNA

Doublet Group distance statistics: 53565

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Distances from reference structure (by RMSD)

1, 0, 2, 6, 6, 1, 3, 4, 16, 8, 1, 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, 0.003, 0.012, 0.021, 0.050 max_d=0.050 avg_d=0.012 std_dev=0.009
C2 A 0, 0.007, 0.020, 0.032, 0.057 max_d=0.057 avg_d=0.020 std_dev=0.012
C5 A 0, 0.010, 0.022, 0.035, 0.057 max_d=0.057 avg_d=0.022 std_dev=0.013
N3 A 0, 0.012, 0.025, 0.038, 0.052 max_d=0.052 avg_d=0.025 std_dev=0.013
N1 A 0, 0.009, 0.022, 0.035, 0.056 max_d=0.056 avg_d=0.022 std_dev=0.013
C4 A 0, 0.012, 0.027, 0.042, 0.059 max_d=0.059 avg_d=0.027 std_dev=0.015
C1' A 0, 0.008, 0.027, 0.046, 0.085 max_d=0.085 avg_d=0.027 std_dev=0.019
N9 A 0, 0.012, 0.032, 0.051, 0.080 max_d=0.080 avg_d=0.032 std_dev=0.019
N2 A 0, 0.023, 0.043, 0.063, 0.090 max_d=0.090 avg_d=0.043 std_dev=0.020
O6 A 0, 0.015, 0.036, 0.058, 0.083 max_d=0.083 avg_d=0.036 std_dev=0.021
N7 A 0, 0.019, 0.046, 0.073, 0.128 max_d=0.128 avg_d=0.046 std_dev=0.027
C8 A 0, 0.022, 0.052, 0.082, 0.131 max_d=0.131 avg_d=0.052 std_dev=0.030
P B 0, 0.218, 0.350, 0.481, 0.699 max_d=0.699 avg_d=0.350 std_dev=0.132
OP2 B 0, 0.477, 0.868, 1.259, 1.486 max_d=1.486 avg_d=0.868 std_dev=0.391
OP1 B 0, 0.470, 0.899, 1.329, 1.761 max_d=1.761 avg_d=0.899 std_dev=0.430
O5' B 0, 0.249, 0.734, 1.220, 1.752 max_d=1.752 avg_d=0.734 std_dev=0.486
O4' A 0, -0.062, 0.489, 1.040, 1.552 max_d=1.552 avg_d=0.489 std_dev=0.551
C2' A 0, -0.029, 0.576, 1.182, 1.726 max_d=1.726 avg_d=0.576 std_dev=0.605
C4' A 0, 0.189, 0.924, 1.659, 2.370 max_d=2.370 avg_d=0.924 std_dev=0.735
C3' A 0, 0.165, 0.928, 1.690, 2.369 max_d=2.369 avg_d=0.928 std_dev=0.763
O4' B 0, 0.674, 1.578, 2.482, 3.688 max_d=3.688 avg_d=1.578 std_dev=0.904
O2' A 0, -0.070, 0.836, 1.741, 2.407 max_d=2.407 avg_d=0.836 std_dev=0.905
C4' B 0, 0.690, 1.642, 2.594, 3.621 max_d=3.621 avg_d=1.642 std_dev=0.952
C5' A 0, 0.390, 1.358, 2.326, 3.305 max_d=3.305 avg_d=1.358 std_dev=0.968
C3' B 0, 0.682, 1.663, 2.644, 4.066 max_d=4.066 avg_d=1.663 std_dev=0.981
O3' A 0, 0.271, 1.270, 2.269, 3.102 max_d=3.102 avg_d=1.270 std_dev=0.999
O5' A 0, 0.743, 1.856, 2.970, 4.086 max_d=4.086 avg_d=1.856 std_dev=1.113
C5' B 0, 0.457, 1.586, 2.714, 3.403 max_d=3.403 avg_d=1.586 std_dev=1.129
C2' B 0, 0.747, 1.901, 3.055, 4.724 max_d=4.724 avg_d=1.901 std_dev=1.154
C1' B 0, 0.589, 1.747, 2.905, 4.557 max_d=4.557 avg_d=1.747 std_dev=1.158
O3' B 0, 0.813, 2.094, 3.376, 4.795 max_d=4.795 avg_d=2.094 std_dev=1.281
N9 B 0, 0.210, 1.623, 3.037, 4.911 max_d=4.911 avg_d=1.623 std_dev=1.413
C8 B 0, 0.211, 1.691, 3.170, 6.066 max_d=6.066 avg_d=1.691 std_dev=1.479
O2' B 0, 0.943, 2.453, 3.963, 6.520 max_d=6.520 avg_d=2.453 std_dev=1.510
C4 B 0, 0.142, 1.940, 3.737, 5.872 max_d=5.872 avg_d=1.940 std_dev=1.798
P A 0, 0.998, 2.907, 4.816, 6.122 max_d=6.122 avg_d=2.907 std_dev=1.909
C5 B 0, 0.228, 2.175, 4.122, 7.344 max_d=7.344 avg_d=2.175 std_dev=1.947
N7 B 0, -0.108, 1.848, 3.803, 7.593 max_d=7.593 avg_d=1.848 std_dev=1.955
N3 B 0, 0.404, 2.393, 4.383, 6.618 max_d=6.618 avg_d=2.393 std_dev=1.990
C2 B 0, 0.792, 3.031, 5.269, 8.237 max_d=8.237 avg_d=3.031 std_dev=2.238
C6 B 0, 0.604, 2.856, 5.107, 9.031 max_d=9.031 avg_d=2.856 std_dev=2.251
OP1 A 0, 1.203, 3.468, 5.732, 7.353 max_d=7.353 avg_d=3.468 std_dev=2.265
N1 B 0, 0.895, 3.262, 5.628, 9.318 max_d=9.318 avg_d=3.262 std_dev=2.366
OP2 A 0, 0.849, 3.275, 5.701, 7.242 max_d=7.242 avg_d=3.275 std_dev=2.426
N6 B 0, 0.652, 3.221, 5.790, 10.875 max_d=10.875 avg_d=3.221 std_dev=2.569

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 0.02 0.02 0.01 0.02 0.09 0.03 0.01 0.03 0.04 0.03 0.01 0.00 0.02 0.33 0.00 0.40 0.03 0.29 0.58 0.34
C2 0.03 0.00 0.38 0.25 0.01 0.16 0.01 0.25 0.01 0.01 0.00 0.01 0.00 0.01 0.01 0.24 0.35 0.32 0.38 0.01 0.32 0.68 0.43
C2' 0.01 0.38 0.00 0.00 0.20 0.01 0.11 0.22 0.17 0.20 0.30 0.46 0.37 0.11 0.03 0.00 0.03 0.03 0.59 0.13 0.50 0.84 0.57
C3' 0.02 0.25 0.00 0.00 0.27 0.01 0.35 0.03 0.36 0.33 0.32 0.23 0.21 0.39 0.23 0.02 0.01 0.02 0.39 0.40 0.22 0.42 0.17
C4 0.02 0.01 0.20 0.27 0.00 0.05 0.00 0.18 0.01 0.01 0.01 0.01 0.00 0.00 0.01 0.11 0.20 0.17 0.55 0.02 0.48 0.89 0.56
C4' 0.01 0.16 0.01 0.01 0.05 0.00 0.10 0.01 0.08 0.26 0.09 0.23 0.16 0.22 0.09 0.30 0.03 0.00 0.02 0.11 0.30 0.22 0.25
C5 0.02 0.01 0.11 0.35 0.00 0.10 0.00 0.22 0.01 0.01 0.01 0.01 0.00 0.00 0.01 0.27 0.13 0.08 0.73 0.01 0.80 1.25 0.86
C5' 0.09 0.25 0.22 0.03 0.18 0.01 0.22 0.00 0.23 0.31 0.23 0.30 0.23 0.31 0.16 0.09 0.22 0.02 0.01 0.26 0.25 0.21 0.01
C6 0.03 0.01 0.17 0.36 0.01 0.08 0.01 0.23 0.00 0.01 0.00 0.01 0.01 0.01 0.02 0.22 0.17 0.15 0.68 0.01 0.75 1.20 0.80
C8 0.01 0.01 0.20 0.33 0.01 0.26 0.01 0.31 0.01 0.00 0.01 0.02 0.01 0.00 0.00 0.47 0.13 0.18 0.94 0.02 1.07 1.52 1.14
N1 0.03 0.00 0.30 0.32 0.01 0.09 0.01 0.23 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.13 0.25 0.25 0.51 0.01 0.47 0.89 0.55
N2 0.04 0.01 0.46 0.23 0.01 0.23 0.01 0.30 0.01 0.02 0.01 0.00 0.01 0.01 0.02 0.38 0.44 0.38 0.31 0.02 0.40 0.60 0.48
N3 0.03 0.00 0.37 0.21 0.00 0.16 0.00 0.23 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.25 0.37 0.31 0.37 0.01 0.31 0.64 0.41
N7 0.01 0.01 0.11 0.39 0.00 0.22 0.00 0.31 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.46 0.18 0.10 0.95 0.02 1.17 1.66 1.23
N9 0.00 0.01 0.03 0.23 0.01 0.09 0.01 0.16 0.02 0.00 0.01 0.02 0.01 0.01 0.00 0.22 0.12 0.01 0.63 0.02 0.58 0.96 0.64
O2' 0.02 0.24 0.00 0.02 0.11 0.30 0.27 0.09 0.22 0.47 0.13 0.38 0.25 0.46 0.22 0.00 0.06 0.21 0.58 0.30 0.49 0.96 0.56
O3' 0.33 0.35 0.03 0.01 0.20 0.03 0.13 0.22 0.17 0.13 0.25 0.44 0.37 0.18 0.12 0.06 0.00 0.23 0.39 0.18 0.53 0.39 0.32
O4' 0.00 0.32 0.03 0.02 0.17 0.00 0.08 0.02 0.15 0.18 0.25 0.38 0.31 0.10 0.01 0.21 0.23 0.00 0.24 0.12 0.26 0.29 0.25
O5' 0.40 0.38 0.59 0.39 0.55 0.02 0.73 0.01 0.68 0.94 0.51 0.31 0.37 0.95 0.63 0.58 0.39 0.24 0.00 0.76 0.01 0.02 0.00
O6 0.03 0.01 0.13 0.40 0.02 0.11 0.01 0.26 0.01 0.02 0.01 0.02 0.01 0.02 0.02 0.30 0.18 0.12 0.76 0.00 0.94 1.39 0.97
OP1 0.29 0.32 0.50 0.22 0.48 0.30 0.80 0.25 0.75 1.07 0.47 0.40 0.31 1.17 0.58 0.49 0.53 0.26 0.01 0.94 0.00 0.01 0.01
OP2 0.58 0.68 0.84 0.42 0.89 0.22 1.25 0.21 1.20 1.52 0.89 0.60 0.64 1.66 0.96 0.96 0.39 0.29 0.02 1.39 0.01 0.00 0.01
P 0.34 0.43 0.57 0.17 0.56 0.25 0.86 0.01 0.80 1.14 0.55 0.48 0.41 1.23 0.64 0.56 0.32 0.25 0.00 0.97 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.71 2.12 0.74 0.43 1.59 0.30 1.96 0.71 2.47 1.26 2.48 1.69 2.92 1.75 1.13 0.65 0.58 0.29 0.53 0.21 0.18 0.20
C2 0.68 1.81 0.64 0.41 1.53 0.27 1.97 0.52 2.27 1.46 2.13 1.49 2.63 2.00 1.17 0.45 0.44 0.32 0.43 0.26 0.21 0.19
C2' 0.98 2.50 1.13 0.90 1.84 0.62 2.12 0.83 2.70 1.29 2.82 2.05 3.11 1.77 1.32 1.07 1.01 0.50 0.74 0.41 0.49 0.37
C3' 0.59 2.03 0.62 0.37 1.40 0.41 1.69 0.86 2.23 1.06 2.36 1.57 2.64 1.46 0.95 0.57 0.54 0.24 0.67 0.19 0.27 0.20
C4 0.70 1.99 0.67 0.41 1.59 0.28 2.03 0.58 2.44 1.40 2.36 1.61 2.89 1.94 1.18 0.52 0.50 0.32 0.46 0.28 0.20 0.20
C4' 0.62 1.87 0.50 0.22 1.34 0.54 1.69 1.00 2.18 1.18 2.24 1.44 2.61 1.55 0.98 0.42 0.37 0.51 0.72 0.39 0.36 0.44
C5 0.69 1.94 0.63 0.39 1.56 0.28 2.00 0.51 2.40 1.44 2.30 1.56 2.84 1.97 1.18 0.46 0.46 0.37 0.41 0.34 0.23 0.20
C5' 0.65 1.81 0.51 0.29 1.33 0.60 1.68 1.02 2.13 1.23 2.17 1.39 2.56 1.59 1.01 0.43 0.40 0.57 0.73 0.52 0.47 0.54
C6 0.68 1.82 0.58 0.38 1.50 0.29 1.95 0.42 2.28 1.47 2.17 1.48 2.69 1.97 1.16 0.40 0.40 0.40 0.35 0.39 0.27 0.20
C8 0.71 2.07 0.68 0.41 1.60 0.28 2.02 0.59 2.48 1.38 2.45 1.65 2.95 1.90 1.18 0.54 0.52 0.34 0.45 0.31 0.20 0.20
N1 0.66 1.75 0.58 0.39 1.48 0.28 1.91 0.42 2.20 1.48 2.07 1.44 2.57 1.97 1.16 0.40 0.39 0.38 0.36 0.35 0.27 0.20
N2 0.66 1.69 0.63 0.43 1.49 0.26 1.91 0.52 2.12 1.47 1.97 1.42 2.39 2.00 1.16 0.44 0.43 0.30 0.45 0.20 0.20 0.19
N3 0.70 1.95 0.69 0.43 1.59 0.28 2.03 0.61 2.41 1.40 2.30 1.59 2.83 1.96 1.18 0.53 0.50 0.30 0.48 0.23 0.18 0.19
N7 0.70 2.00 0.64 0.39 1.58 0.29 2.01 0.52 2.44 1.43 2.37 1.60 2.90 1.94 1.18 0.48 0.47 0.37 0.41 0.36 0.23 0.20
N9 0.71 2.07 0.70 0.42 1.61 0.28 2.02 0.63 2.49 1.35 2.45 1.66 2.95 1.87 1.17 0.57 0.54 0.31 0.48 0.26 0.19 0.20
O2' 1.15 2.77 1.35 1.10 2.04 0.69 2.29 0.81 2.91 1.37 3.09 2.29 3.30 1.85 1.48 1.29 1.23 0.59 0.75 0.36 0.49 0.33
O3' 0.65 1.82 0.47 0.34 1.22 0.70 1.51 1.14 2.00 1.16 2.15 1.36 2.38 1.40 0.92 0.44 0.40 0.67 0.95 0.50 0.46 0.57
O4' 0.73 1.95 0.58 0.26 1.48 0.56 1.86 0.97 2.33 1.30 2.33 1.53 2.80 1.72 1.11 0.49 0.35 0.61 0.72 0.51 0.49 0.57
O5' 0.56 1.59 0.37 0.30 1.21 0.61 1.58 1.04 1.97 1.20 1.95 1.21 2.40 1.56 0.93 0.26 0.49 0.49 0.69 0.47 0.37 0.45
O6 0.67 1.77 0.54 0.36 1.46 0.30 1.90 0.36 2.22 1.47 2.11 1.43 2.63 1.95 1.14 0.38 0.36 0.44 0.30 0.45 0.31 0.20
OP1 0.96 1.05 0.90 1.12 1.09 1.28 1.44 1.62 1.60 1.48 1.42 0.85 1.98 1.66 1.13 0.82 1.24 1.11 1.18 0.72 0.58 0.72
OP2 0.84 1.06 0.74 0.95 1.05 1.14 1.44 1.47 1.64 1.42 1.45 0.82 2.06 1.64 1.05 0.68 1.12 0.96 1.07 0.90 0.69 0.82
P 0.89 1.07 0.78 0.99 1.07 1.20 1.45 1.55 1.65 1.45 1.46 0.84 2.06 1.65 1.09 0.70 1.11 1.04 1.14 0.78 0.64 0.77

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.04 0.01 0.01 0.02 0.01 0.01 0.04 0.02 0.01 0.03 0.04 0.02 0.01 0.00 0.02 0.01 0.00 0.18 0.49 0.48 0.28
C2 0.04 0.00 0.46 0.46 0.01 0.21 0.01 0.34 0.01 0.01 0.01 0.00 0.01 0.01 0.02 0.41 0.60 0.30 0.59 0.82 1.31 0.89
C2' 0.01 0.46 0.00 0.00 0.24 0.01 0.11 0.02 0.21 0.22 0.36 0.46 0.14 0.11 0.02 0.00 0.02 0.01 0.29 0.46 0.49 0.22
C3' 0.01 0.46 0.00 0.00 0.25 0.00 0.17 0.02 0.26 0.21 0.39 0.42 0.21 0.13 0.07 0.02 0.01 0.02 0.39 0.30 0.44 0.22
C4 0.02 0.01 0.24 0.25 0.00 0.11 0.00 0.21 0.00 0.00 0.01 0.00 0.01 0.01 0.00 0.19 0.29 0.16 0.44 0.60 1.19 0.75
C4' 0.01 0.21 0.01 0.00 0.11 0.00 0.11 0.00 0.13 0.17 0.17 0.19 0.13 0.15 0.07 0.04 0.01 0.00 0.01 0.53 0.21 0.23
C5 0.01 0.01 0.11 0.17 0.00 0.11 0.00 0.25 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.10 0.20 0.07 0.54 0.70 1.52 0.99
C5' 0.04 0.34 0.02 0.02 0.21 0.00 0.25 0.00 0.27 0.33 0.31 0.31 0.29 0.33 0.16 0.05 0.03 0.02 0.01 0.11 0.16 0.01
C6 0.02 0.01 0.21 0.26 0.00 0.13 0.01 0.27 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.19 0.34 0.13 0.56 0.79 1.64 1.05
C8 0.01 0.01 0.22 0.21 0.00 0.17 0.00 0.33 0.01 0.00 0.01 0.01 0.02 0.00 0.00 0.18 0.23 0.18 0.64 0.65 1.34 0.97
N1 0.03 0.01 0.36 0.39 0.01 0.17 0.01 0.31 0.00 0.01 0.00 0.01 0.01 0.01 0.02 0.32 0.51 0.23 0.57 0.79 1.52 0.98
N3 0.04 0.00 0.46 0.42 0.00 0.19 0.01 0.31 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.40 0.53 0.30 0.52 0.78 1.12 0.77
N6 0.02 0.01 0.14 0.21 0.01 0.13 0.01 0.29 0.00 0.02 0.01 0.01 0.00 0.02 0.02 0.14 0.28 0.09 0.60 0.92 1.84 1.19
N7 0.01 0.01 0.11 0.13 0.01 0.15 0.00 0.33 0.01 0.00 0.01 0.01 0.02 0.00 0.01 0.11 0.14 0.10 0.66 0.84 1.67 1.15
N9 0.00 0.02 0.02 0.07 0.00 0.07 0.01 0.16 0.01 0.00 0.02 0.01 0.02 0.01 0.00 0.03 0.06 0.01 0.40 0.43 0.98 0.63
O2' 0.02 0.41 0.00 0.02 0.19 0.04 0.10 0.05 0.19 0.18 0.32 0.40 0.14 0.11 0.03 0.00 0.05 0.05 0.10 0.81 0.31 0.31
O3' 0.01 0.60 0.02 0.01 0.29 0.01 0.20 0.03 0.34 0.23 0.51 0.53 0.28 0.14 0.06 0.05 0.00 0.01 0.34 0.50 0.32 0.13
O4' 0.00 0.30 0.01 0.02 0.16 0.00 0.07 0.02 0.13 0.18 0.23 0.30 0.09 0.10 0.01 0.05 0.01 0.00 0.09 0.53 0.18 0.23
O5' 0.18 0.59 0.29 0.39 0.44 0.01 0.54 0.01 0.56 0.64 0.57 0.52 0.60 0.66 0.40 0.10 0.34 0.09 0.00 0.02 0.02 0.00
OP1 0.49 0.82 0.46 0.30 0.60 0.53 0.70 0.11 0.79 0.65 0.79 0.78 0.92 0.84 0.43 0.81 0.50 0.53 0.02 0.00 0.01 0.01
OP2 0.48 1.31 0.49 0.44 1.19 0.21 1.52 0.16 1.64 1.34 1.52 1.12 1.84 1.67 0.98 0.31 0.32 0.18 0.02 0.01 0.00 0.01
P 0.28 0.89 0.22 0.22 0.75 0.23 0.99 0.01 1.05 0.97 0.98 0.77 1.19 1.15 0.63 0.31 0.13 0.23 0.00 0.01 0.01 0.00