ClaRNA

Doublet Group distance statistics: 50935

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N3 A 0, 0.004, 0.009, 0.014, 0.018 max_d=0.018 avg_d=0.009 std_dev=0.005
C5 A 0, 0.004, 0.011, 0.017, 0.021 max_d=0.021 avg_d=0.011 std_dev=0.007
C2 A 0, 0.006, 0.017, 0.027, 0.037 max_d=0.037 avg_d=0.017 std_dev=0.010
N1 A 0, 0.004, 0.016, 0.027, 0.032 max_d=0.032 avg_d=0.016 std_dev=0.012
C1' A 0, 0.007, 0.020, 0.032, 0.043 max_d=0.043 avg_d=0.020 std_dev=0.012
C6 A 0, 0.001, 0.014, 0.028, 0.045 max_d=0.045 avg_d=0.014 std_dev=0.014
C4 A 0, 0.001, 0.015, 0.029, 0.044 max_d=0.044 avg_d=0.015 std_dev=0.014
O2 A 0, 0.016, 0.038, 0.061, 0.077 max_d=0.077 avg_d=0.038 std_dev=0.023
O4 A 0, 0.007, 0.041, 0.076, 0.116 max_d=0.116 avg_d=0.041 std_dev=0.035
OP1 B 0, 0.221, 0.456, 0.692, 0.839 max_d=0.839 avg_d=0.456 std_dev=0.235
O4' A 0, -0.005, 0.284, 0.573, 0.940 max_d=0.940 avg_d=0.284 std_dev=0.289
C2' A 0, -0.026, 0.311, 0.647, 1.053 max_d=1.053 avg_d=0.311 std_dev=0.337
P B 0, 0.259, 0.607, 0.955, 1.002 max_d=1.002 avg_d=0.607 std_dev=0.348
C4' A 0, 0.032, 0.464, 0.895, 1.423 max_d=1.423 avg_d=0.464 std_dev=0.431
C3' A 0, 0.048, 0.509, 0.970, 1.479 max_d=1.479 avg_d=0.509 std_dev=0.461
O2' A 0, -0.083, 0.426, 0.936, 1.537 max_d=1.537 avg_d=0.426 std_dev=0.510
OP2 B 0, 0.504, 1.025, 1.546, 1.889 max_d=1.889 avg_d=1.025 std_dev=0.521
O3' A 0, 0.154, 0.763, 1.373, 1.970 max_d=1.970 avg_d=0.763 std_dev=0.610
C5' A 0, 0.082, 0.730, 1.379, 2.099 max_d=2.099 avg_d=0.730 std_dev=0.649
O5' B 0, 0.659, 1.529, 2.398, 2.601 max_d=2.601 avg_d=1.529 std_dev=0.869
O5' A 0, 0.422, 1.453, 2.483, 3.250 max_d=3.250 avg_d=1.453 std_dev=1.031
C4' B 0, 0.837, 2.044, 3.252, 3.944 max_d=3.944 avg_d=2.044 std_dev=1.207
C5' B 0, 0.604, 1.831, 3.058, 4.065 max_d=4.065 avg_d=1.831 std_dev=1.227
O4' B 0, 1.145, 2.415, 3.685, 4.376 max_d=4.376 avg_d=2.415 std_dev=1.270
C3' B 0, 1.057, 2.447, 3.836, 4.506 max_d=4.506 avg_d=2.447 std_dev=1.390
P A 0, 0.359, 1.841, 3.323, 4.443 max_d=4.443 avg_d=1.841 std_dev=1.482
OP2 A 0, 0.357, 1.840, 3.324, 4.192 max_d=4.192 avg_d=1.840 std_dev=1.484
C1' B 0, 1.432, 2.963, 4.493, 5.418 max_d=5.418 avg_d=2.963 std_dev=1.531
N9 B 0, 1.509, 3.040, 4.572, 5.545 max_d=5.545 avg_d=3.040 std_dev=1.531
C4 B 0, 1.900, 3.517, 5.133, 5.834 max_d=5.834 avg_d=3.517 std_dev=1.617
C8 B 0, 1.223, 2.852, 4.481, 5.456 max_d=5.456 avg_d=2.852 std_dev=1.629
C2' B 0, 1.417, 3.127, 4.836, 5.527 max_d=5.527 avg_d=3.127 std_dev=1.709
C5 B 0, 1.766, 3.481, 5.197, 5.885 max_d=5.885 avg_d=3.481 std_dev=1.716
O3' B 0, 1.062, 2.826, 4.590, 4.878 max_d=4.878 avg_d=2.826 std_dev=1.764
N7 B 0, 1.314, 3.085, 4.856, 5.660 max_d=5.660 avg_d=3.085 std_dev=1.771
OP1 A 0, 0.520, 2.299, 4.079, 5.535 max_d=5.535 avg_d=2.299 std_dev=1.780
N3 B 0, 2.215, 4.029, 5.844, 6.076 max_d=6.076 avg_d=4.029 std_dev=1.815
C6 B 0, 2.115, 3.987, 5.859, 6.201 max_d=6.201 avg_d=3.987 std_dev=1.872
N1 B 0, 2.526, 4.503, 6.481, 6.444 max_d=6.444 avg_d=4.503 std_dev=1.978
C2 B 0, 2.501, 4.496, 6.491, 6.366 max_d=6.366 avg_d=4.496 std_dev=1.995
N6 B 0, 1.974, 4.062, 6.150, 6.320 max_d=6.320 avg_d=4.062 std_dev=2.088
O2' B 0, 1.924, 4.112, 6.300, 7.180 max_d=7.180 avg_d=4.112 std_dev=2.188

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.02 0.02 0.01 0.02 0.04 0.01 0.01 0.02 0.03 0.02 0.07 0.02 0.00 0.20 0.32 0.36 0.16
C2 0.02 0.00 0.16 0.25 0.00 0.07 0.01 0.07 0.01 0.01 0.00 0.00 0.09 0.21 0.01 0.05 0.41 0.36 0.57 0.36
C2' 0.00 0.16 0.00 0.01 0.03 0.03 0.11 0.08 0.15 0.01 0.11 0.29 0.01 0.05 0.03 0.01 0.44 0.68 0.61 0.51
C3' 0.02 0.25 0.01 0.00 0.24 0.00 0.20 0.02 0.17 0.16 0.27 0.29 0.02 0.01 0.25 0.02 0.40 0.71 0.44 0.47
C4 0.02 0.00 0.03 0.24 0.00 0.09 0.01 0.13 0.01 0.02 0.00 0.00 0.16 0.25 0.01 0.03 0.56 0.46 0.74 0.56
C4' 0.01 0.07 0.03 0.00 0.09 0.00 0.10 0.01 0.09 0.06 0.08 0.08 0.22 0.03 0.09 0.00 0.01 0.32 0.26 0.05
C5 0.02 0.01 0.11 0.20 0.01 0.10 0.00 0.15 0.00 0.01 0.01 0.01 0.19 0.23 0.02 0.05 0.57 0.44 0.68 0.54
C5' 0.04 0.07 0.08 0.02 0.13 0.01 0.15 0.00 0.13 0.07 0.09 0.06 0.13 0.14 0.14 0.01 0.01 0.23 0.38 0.01
C6 0.01 0.01 0.15 0.17 0.01 0.09 0.00 0.13 0.00 0.01 0.01 0.01 0.18 0.18 0.02 0.06 0.49 0.36 0.57 0.42
N1 0.01 0.01 0.01 0.16 0.02 0.06 0.01 0.07 0.01 0.00 0.01 0.01 0.09 0.12 0.02 0.01 0.38 0.32 0.50 0.31
N3 0.02 0.00 0.11 0.27 0.00 0.08 0.01 0.09 0.01 0.01 0.00 0.01 0.11 0.25 0.01 0.04 0.50 0.42 0.69 0.48
O2 0.03 0.00 0.29 0.29 0.00 0.08 0.01 0.06 0.01 0.01 0.01 0.00 0.15 0.25 0.01 0.08 0.33 0.35 0.53 0.29
O2' 0.02 0.09 0.01 0.02 0.16 0.22 0.19 0.13 0.18 0.09 0.11 0.15 0.00 0.08 0.17 0.15 0.19 0.51 0.54 0.31
O3' 0.07 0.21 0.05 0.01 0.25 0.03 0.23 0.14 0.18 0.12 0.25 0.25 0.08 0.00 0.28 0.06 0.28 0.72 0.38 0.42
O4 0.02 0.01 0.03 0.25 0.01 0.09 0.02 0.14 0.02 0.02 0.01 0.01 0.17 0.28 0.00 0.04 0.60 0.52 0.82 0.63
O4' 0.00 0.05 0.01 0.02 0.03 0.00 0.05 0.01 0.06 0.01 0.04 0.08 0.15 0.06 0.04 0.00 0.09 0.15 0.42 0.19
O5' 0.20 0.41 0.44 0.40 0.56 0.01 0.57 0.01 0.49 0.38 0.50 0.33 0.19 0.28 0.60 0.09 0.00 0.02 0.01 0.00
OP1 0.32 0.36 0.68 0.71 0.46 0.32 0.44 0.23 0.36 0.32 0.42 0.35 0.51 0.72 0.52 0.15 0.02 0.00 0.01 0.00
OP2 0.36 0.57 0.61 0.44 0.74 0.26 0.68 0.38 0.57 0.50 0.69 0.53 0.54 0.38 0.82 0.42 0.01 0.01 0.00 0.00
P 0.16 0.36 0.51 0.47 0.56 0.05 0.54 0.01 0.42 0.31 0.48 0.29 0.31 0.42 0.63 0.19 0.00 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.54 0.82 0.66 0.43 0.71 0.36 0.85 0.36 0.94 0.72 0.91 0.72 1.08 0.89 0.62 0.86 0.49 0.45 0.33 0.28 0.27 0.25
C2 0.54 0.71 0.77 0.38 0.69 0.33 0.83 0.32 0.86 0.80 0.79 0.65 0.95 0.96 0.64 0.94 0.42 0.38 0.36 0.29 0.27 0.26
C2' 0.44 0.66 0.56 0.50 0.62 0.37 0.81 0.37 0.89 0.75 0.79 0.57 1.08 0.93 0.57 0.69 0.51 0.40 0.31 0.32 0.30 0.32
C3' 0.48 0.92 0.62 0.44 0.77 0.29 0.95 0.30 1.11 0.75 1.07 0.77 1.33 0.96 0.63 0.83 0.49 0.33 0.30 0.36 0.33 0.33
C4 0.97 1.32 1.28 0.71 1.22 0.50 1.34 0.30 1.43 1.12 1.40 1.23 1.51 1.31 1.08 1.57 0.72 0.60 0.42 0.29 0.24 0.23
C4' 0.77 1.30 0.87 0.56 1.06 0.47 1.19 0.38 1.40 0.89 1.43 1.13 1.59 1.08 0.88 1.15 0.68 0.57 0.39 0.26 0.25 0.23
C5 1.05 1.57 1.29 0.74 1.38 0.54 1.50 0.34 1.66 1.14 1.67 1.43 1.76 1.38 1.17 1.65 0.78 0.68 0.43 0.29 0.22 0.22
C5' 1.04 1.74 1.14 0.73 1.39 0.62 1.49 0.46 1.77 1.06 1.87 1.52 1.94 1.26 1.14 1.52 0.88 0.75 0.50 0.28 0.25 0.26
C6 0.90 1.41 1.08 0.60 1.21 0.47 1.34 0.34 1.51 0.98 1.52 1.27 1.62 1.22 1.01 1.42 0.66 0.61 0.40 0.29 0.23 0.22
N1 0.66 0.99 0.84 0.44 0.88 0.37 1.01 0.33 1.11 0.81 1.09 0.89 1.21 1.02 0.75 1.08 0.50 0.47 0.36 0.29 0.25 0.24
N3 0.69 0.90 0.99 0.48 0.87 0.36 1.00 0.28 1.03 0.93 0.98 0.84 1.11 1.08 0.80 1.18 0.49 0.42 0.38 0.29 0.26 0.25
O2 0.46 0.44 0.64 0.43 0.53 0.38 0.70 0.38 0.66 0.83 0.53 0.43 0.78 0.95 0.56 0.69 0.44 0.41 0.35 0.30 0.30 0.29
O2' 0.61 0.77 0.65 0.66 0.75 0.51 0.92 0.44 0.97 0.89 0.86 0.71 1.16 1.06 0.72 0.64 0.65 0.58 0.36 0.33 0.33 0.33
O3' 0.57 0.97 0.66 0.51 0.86 0.32 1.06 0.27 1.21 0.89 1.14 0.83 1.43 1.10 0.75 0.81 0.53 0.37 0.29 0.33 0.30 0.31
O4 1.08 1.41 1.45 0.86 1.32 0.57 1.42 0.32 1.51 1.22 1.48 1.33 1.59 1.41 1.19 1.75 0.85 0.66 0.44 0.29 0.26 0.23
O4' 0.87 1.34 0.93 0.59 1.14 0.56 1.25 0.48 1.44 0.95 1.45 1.20 1.58 1.14 0.96 1.21 0.70 0.70 0.47 0.30 0.27 0.28
O5' 1.11 1.64 1.24 0.78 1.36 0.74 1.41 0.62 1.63 1.06 1.73 1.47 1.74 1.20 1.16 1.65 0.87 0.87 0.58 0.35 0.30 0.34
OP1 1.07 1.62 1.21 0.71 1.31 0.68 1.33 0.53 1.56 1.01 1.69 1.45 1.64 1.12 1.12 1.64 0.81 0.83 0.50 0.23 0.21 0.24
OP2 0.97 1.64 1.16 0.66 1.32 0.58 1.39 0.55 1.63 0.97 1.74 1.45 1.74 1.16 1.07 1.62 0.80 0.67 0.55 0.61 0.54 0.55
P 1.03 1.66 1.19 0.66 1.33 0.59 1.37 0.46 1.62 0.97 1.75 1.48 1.71 1.12 1.10 1.66 0.78 0.74 0.45 0.32 0.25 0.27

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.05 0.00 0.01 0.03 0.02 0.02 0.07 0.04 0.01 0.05 0.05 0.04 0.01 0.01 0.02 0.33 0.01 0.25 0.35 0.28 0.20
C2 0.05 0.00 0.39 0.30 0.01 0.35 0.01 0.39 0.00 0.01 0.00 0.00 0.01 0.01 0.01 0.29 0.40 0.39 0.40 0.39 0.18 0.26
C2' 0.00 0.39 0.00 0.01 0.23 0.03 0.16 0.20 0.23 0.15 0.33 0.38 0.19 0.09 0.06 0.00 0.05 0.02 0.51 0.78 0.55 0.56
C3' 0.01 0.30 0.01 0.00 0.28 0.00 0.35 0.02 0.37 0.35 0.35 0.26 0.41 0.39 0.23 0.02 0.01 0.03 0.27 0.49 0.16 0.21
C4 0.03 0.01 0.23 0.28 0.00 0.15 0.01 0.11 0.01 0.01 0.01 0.00 0.02 0.01 0.00 0.19 0.22 0.22 0.34 0.34 0.32 0.24
C4' 0.02 0.35 0.03 0.00 0.15 0.00 0.09 0.01 0.16 0.24 0.27 0.33 0.13 0.18 0.07 0.30 0.07 0.01 0.01 0.19 0.26 0.05
C5 0.02 0.01 0.16 0.35 0.01 0.09 0.00 0.07 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.27 0.15 0.14 0.42 0.43 0.50 0.38
C5' 0.07 0.39 0.20 0.02 0.11 0.01 0.07 0.00 0.10 0.39 0.28 0.35 0.06 0.31 0.12 0.15 0.21 0.01 0.01 0.17 0.31 0.01
C6 0.04 0.00 0.23 0.37 0.01 0.16 0.01 0.10 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.26 0.21 0.23 0.41 0.39 0.44 0.32
C8 0.01 0.01 0.15 0.35 0.01 0.24 0.00 0.39 0.01 0.00 0.01 0.01 0.02 0.00 0.01 0.37 0.18 0.16 0.59 0.61 0.71 0.63
N1 0.05 0.00 0.33 0.35 0.01 0.27 0.01 0.28 0.00 0.01 0.00 0.00 0.01 0.01 0.01 0.26 0.31 0.34 0.40 0.36 0.28 0.25
N3 0.05 0.00 0.38 0.26 0.00 0.33 0.01 0.35 0.01 0.01 0.00 0.00 0.01 0.01 0.01 0.27 0.41 0.37 0.36 0.38 0.18 0.24
N6 0.04 0.01 0.19 0.41 0.02 0.13 0.01 0.06 0.01 0.02 0.01 0.01 0.00 0.02 0.02 0.30 0.22 0.20 0.45 0.46 0.54 0.40
N7 0.01 0.01 0.09 0.39 0.01 0.18 0.00 0.31 0.01 0.00 0.01 0.01 0.02 0.00 0.01 0.36 0.20 0.05 0.57 0.63 0.75 0.63
N9 0.01 0.01 0.06 0.23 0.00 0.07 0.01 0.12 0.01 0.01 0.01 0.01 0.02 0.01 0.00 0.19 0.12 0.02 0.36 0.38 0.40 0.32
O2' 0.02 0.29 0.00 0.02 0.19 0.30 0.27 0.15 0.26 0.37 0.26 0.27 0.30 0.36 0.19 0.00 0.07 0.20 0.30 0.65 0.58 0.43
O3' 0.33 0.40 0.05 0.01 0.22 0.07 0.15 0.21 0.21 0.18 0.31 0.41 0.22 0.20 0.12 0.07 0.00 0.23 0.27 0.39 0.31 0.24
O4' 0.01 0.39 0.02 0.03 0.22 0.01 0.14 0.01 0.23 0.16 0.34 0.37 0.20 0.05 0.02 0.20 0.23 0.00 0.05 0.13 0.29 0.14
O5' 0.25 0.40 0.51 0.27 0.34 0.01 0.42 0.01 0.41 0.59 0.40 0.36 0.45 0.57 0.36 0.30 0.27 0.05 0.00 0.03 0.01 0.01
OP1 0.35 0.39 0.78 0.49 0.34 0.19 0.43 0.17 0.39 0.61 0.36 0.38 0.46 0.63 0.38 0.65 0.39 0.13 0.03 0.00 0.00 0.01
OP2 0.28 0.18 0.55 0.16 0.32 0.26 0.50 0.31 0.44 0.71 0.28 0.18 0.54 0.75 0.40 0.58 0.31 0.29 0.01 0.00 0.00 0.00
P 0.20 0.26 0.56 0.21 0.24 0.05 0.38 0.01 0.32 0.63 0.25 0.24 0.40 0.63 0.32 0.43 0.24 0.14 0.01 0.01 0.00 0.00