ClaRNA

Doublet Group distance statistics: 54085

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Distances from reference structure (by RMSD)

1, 0, 0, 1, 1, 0, 1, 1, 1, 0, 0, 1, 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, 0.000, 0.010, 0.020, 0.033 max_d=0.033 avg_d=0.010 std_dev=0.010
C2 A 0, 0.004, 0.015, 0.026, 0.034 max_d=0.034 avg_d=0.015 std_dev=0.011
C1' A 0, 0.003, 0.021, 0.040, 0.058 max_d=0.058 avg_d=0.021 std_dev=0.018
N3 A 0, 0.001, 0.021, 0.040, 0.062 max_d=0.062 avg_d=0.021 std_dev=0.020
C5 A 0, 0.001, 0.022, 0.044, 0.073 max_d=0.073 avg_d=0.022 std_dev=0.021
N1 A 0, -0.003, 0.019, 0.041, 0.072 max_d=0.072 avg_d=0.019 std_dev=0.022
C4 A 0, -0.004, 0.023, 0.050, 0.085 max_d=0.085 avg_d=0.023 std_dev=0.027
N9 A 0, -0.004, 0.024, 0.053, 0.088 max_d=0.088 avg_d=0.024 std_dev=0.029
N6 A 0, 0.007, 0.042, 0.078, 0.123 max_d=0.123 avg_d=0.042 std_dev=0.036
N7 A 0, 0.003, 0.047, 0.091, 0.150 max_d=0.150 avg_d=0.047 std_dev=0.044
C8 A 0, -0.004, 0.045, 0.094, 0.161 max_d=0.161 avg_d=0.045 std_dev=0.049
OP2 B 0, 0.080, 0.366, 0.652, 0.902 max_d=0.902 avg_d=0.366 std_dev=0.286
C2' A 0, 0.033, 0.392, 0.751, 1.084 max_d=1.084 avg_d=0.392 std_dev=0.359
P B 0, 0.122, 0.539, 0.956, 1.366 max_d=1.366 avg_d=0.539 std_dev=0.417
OP1 B 0, 0.415, 0.844, 1.273, 1.344 max_d=1.344 avg_d=0.844 std_dev=0.429
O4' A 0, -0.029, 0.439, 0.906, 1.298 max_d=1.298 avg_d=0.439 std_dev=0.468
C4' A 0, 0.090, 0.675, 1.261, 1.726 max_d=1.726 avg_d=0.675 std_dev=0.585
O2' A 0, 0.270, 0.924, 1.579, 1.663 max_d=1.663 avg_d=0.924 std_dev=0.655
C3' A 0, 0.245, 0.963, 1.681, 1.824 max_d=1.824 avg_d=0.963 std_dev=0.718
C5' A 0, 0.146, 1.490, 2.833, 3.860 max_d=3.860 avg_d=1.490 std_dev=1.343
O3' A 0, 0.257, 1.624, 2.990, 3.543 max_d=3.543 avg_d=1.624 std_dev=1.367
O5' B 0, 0.095, 1.552, 3.009, 4.097 max_d=4.097 avg_d=1.552 std_dev=1.457
O5' A 0, 0.190, 2.007, 3.824, 5.000 max_d=5.000 avg_d=2.007 std_dev=1.817
C5' B 0, 0.543, 2.636, 4.729, 5.938 max_d=5.938 avg_d=2.636 std_dev=2.093
OP2 A 0, 0.011, 2.481, 4.951, 6.365 max_d=6.365 avg_d=2.481 std_dev=2.470
P A 0, 0.176, 2.752, 5.328, 7.033 max_d=7.033 avg_d=2.752 std_dev=2.576
OP1 A 0, 0.449, 3.486, 6.524, 8.228 max_d=8.228 avg_d=3.486 std_dev=3.038
C4' B 0, 0.438, 3.514, 6.590, 7.491 max_d=7.491 avg_d=3.514 std_dev=3.076
C3' B 0, 0.636, 3.722, 6.809, 7.689 max_d=7.689 avg_d=3.722 std_dev=3.086
O3' B 0, 0.876, 4.216, 7.556, 8.770 max_d=8.770 avg_d=4.216 std_dev=3.340
O4' B 0, 0.584, 4.409, 8.235, 8.987 max_d=8.987 avg_d=4.409 std_dev=3.826
C8 B 0, 0.861, 4.707, 8.552, 8.996 max_d=8.996 avg_d=4.707 std_dev=3.846
C2' B 0, 0.665, 4.801, 8.936, 9.509 max_d=9.509 avg_d=4.801 std_dev=4.135
N7 B 0, 0.872, 5.287, 9.702, 10.047 max_d=10.047 avg_d=5.287 std_dev=4.415
C1' B 0, 0.701, 5.159, 9.617, 10.250 max_d=10.250 avg_d=5.159 std_dev=4.458
N9 B 0, 0.793, 5.284, 9.776, 10.402 max_d=10.402 avg_d=5.284 std_dev=4.491
O2' B 0, 0.711, 5.708, 10.704, 11.849 max_d=11.849 avg_d=5.708 std_dev=4.996
C5 B 0, 1.110, 6.278, 11.446, 11.991 max_d=11.991 avg_d=6.278 std_dev=5.168
C4 B 0, 1.177, 6.411, 11.644, 12.364 max_d=12.364 avg_d=6.411 std_dev=5.233
C6 B 0, 1.554, 7.395, 13.237, 13.809 max_d=13.809 avg_d=7.395 std_dev=5.841
N3 B 0, 1.625, 7.593, 13.562, 14.456 max_d=14.456 avg_d=7.593 std_dev=5.969
N6 B 0, 1.538, 7.591, 13.644, 13.981 max_d=13.981 avg_d=7.591 std_dev=6.053
N1 B 0, 2.040, 8.466, 14.893, 15.700 max_d=15.700 avg_d=8.466 std_dev=6.426
C2 B 0, 2.039, 8.514, 14.989, 15.935 max_d=15.935 avg_d=8.514 std_dev=6.475

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.01 0.03 0.01 0.02 0.01 0.11 0.01 0.02 0.02 0.02 0.01 0.01 0.01 0.01 0.33 0.00 0.27 0.60 0.41 0.34
C2 0.02 0.00 0.28 0.28 0.00 0.05 0.00 0.19 0.00 0.01 0.00 0.00 0.00 0.00 0.01 0.64 0.42 0.14 0.52 1.37 0.56 0.67
C2' 0.01 0.28 0.00 0.01 0.17 0.02 0.11 0.25 0.16 0.09 0.24 0.28 0.14 0.04 0.04 0.00 0.03 0.02 0.49 0.68 0.48 0.53
C3' 0.03 0.28 0.01 0.00 0.27 0.00 0.37 0.02 0.37 0.43 0.32 0.25 0.43 0.46 0.26 0.01 0.01 0.01 0.12 0.13 0.19 0.11
C4 0.01 0.00 0.17 0.27 0.00 0.07 0.00 0.23 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.42 0.29 0.06 0.49 1.22 0.64 0.66
C4' 0.02 0.05 0.02 0.00 0.07 0.00 0.16 0.01 0.13 0.26 0.06 0.07 0.18 0.26 0.12 0.28 0.02 0.00 0.01 0.16 0.38 0.04
C5 0.01 0.00 0.11 0.37 0.00 0.16 0.00 0.35 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.38 0.30 0.01 0.60 1.42 0.91 0.84
C5' 0.11 0.19 0.25 0.02 0.23 0.01 0.35 0.00 0.33 0.46 0.25 0.18 0.41 0.49 0.25 0.11 0.23 0.02 0.01 0.39 0.44 0.01
C6 0.01 0.00 0.16 0.37 0.00 0.13 0.00 0.33 0.00 0.01 0.00 0.00 0.00 0.01 0.01 0.48 0.34 0.05 0.62 1.56 0.94 0.88
C8 0.02 0.01 0.09 0.43 0.00 0.26 0.00 0.46 0.01 0.00 0.01 0.01 0.01 0.00 0.00 0.15 0.27 0.14 0.60 1.10 0.92 0.81
N1 0.02 0.00 0.24 0.32 0.00 0.06 0.00 0.25 0.00 0.01 0.00 0.00 0.00 0.00 0.01 0.59 0.37 0.10 0.58 1.52 0.76 0.79
N3 0.02 0.00 0.28 0.25 0.00 0.07 0.00 0.18 0.00 0.01 0.00 0.00 0.01 0.01 0.00 0.61 0.43 0.14 0.48 1.19 0.48 0.59
N6 0.01 0.00 0.14 0.43 0.01 0.18 0.01 0.41 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.46 0.39 0.03 0.68 1.66 1.13 0.99
N7 0.01 0.00 0.04 0.46 0.00 0.26 0.00 0.49 0.01 0.00 0.00 0.01 0.01 0.00 0.00 0.24 0.34 0.09 0.68 1.37 1.12 0.95
N9 0.01 0.01 0.04 0.26 0.00 0.12 0.00 0.25 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.20 0.20 0.02 0.43 0.98 0.60 0.59
O2' 0.01 0.64 0.00 0.01 0.42 0.28 0.38 0.11 0.48 0.15 0.59 0.61 0.46 0.24 0.20 0.00 0.12 0.20 0.39 0.62 0.39 0.44
O3' 0.33 0.42 0.03 0.01 0.29 0.02 0.30 0.23 0.34 0.27 0.37 0.43 0.39 0.34 0.20 0.12 0.00 0.25 0.28 0.45 0.34 0.29
O4' 0.00 0.14 0.02 0.01 0.06 0.00 0.01 0.02 0.05 0.14 0.10 0.14 0.03 0.09 0.02 0.20 0.25 0.00 0.06 0.34 0.44 0.14
O5' 0.27 0.52 0.49 0.12 0.49 0.01 0.60 0.01 0.62 0.60 0.58 0.48 0.68 0.68 0.43 0.39 0.28 0.06 0.00 0.02 0.02 0.00
OP1 0.60 1.37 0.68 0.13 1.22 0.16 1.42 0.39 1.56 1.10 1.52 1.19 1.66 1.37 0.98 0.62 0.45 0.34 0.02 0.00 0.01 0.01
OP2 0.41 0.56 0.48 0.19 0.64 0.38 0.91 0.44 0.94 0.92 0.76 0.48 1.13 1.12 0.60 0.39 0.34 0.44 0.02 0.01 0.00 0.00
P 0.34 0.67 0.53 0.11 0.66 0.04 0.84 0.01 0.88 0.81 0.79 0.59 0.99 0.95 0.59 0.44 0.29 0.14 0.00 0.01 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 2.25 3.87 1.98 1.51 2.80 1.76 2.52 1.38 3.07 1.57 3.75 3.45 2.86 1.68 2.20 2.38 1.47 2.14 0.62 0.11 0.20 0.37
C2 2.52 3.25 2.13 1.61 2.64 2.02 2.33 1.42 2.59 1.80 3.01 3.14 2.39 1.77 2.32 2.44 1.61 2.50 0.63 0.38 0.18 0.18
C2' 2.29 4.05 1.98 1.50 2.88 1.83 2.64 1.46 3.24 1.61 3.94 3.57 3.11 1.79 2.24 2.38 1.42 2.24 0.65 0.14 0.15 0.33
C3' 2.12 4.07 1.88 1.46 2.85 1.65 2.69 1.35 3.36 1.53 4.01 3.55 3.39 1.88 2.13 2.31 1.38 1.99 0.80 0.45 0.51 0.69
C4 2.30 3.47 1.97 1.46 2.73 1.77 2.40 1.31 2.73 1.63 3.26 3.25 2.42 1.64 2.24 2.28 1.38 2.23 0.53 0.21 0.19 0.28
C4' 2.06 4.06 1.87 1.42 2.82 1.58 2.69 1.32 3.41 1.50 4.08 3.51 3.47 1.86 2.09 2.34 1.41 1.89 0.69 0.20 0.35 0.53
C5 2.18 3.00 1.84 1.37 2.53 1.68 2.21 1.26 2.41 1.56 2.80 2.91 2.14 1.56 2.13 2.06 1.23 2.15 0.51 0.18 0.18 0.27
C5' 1.84 4.07 1.68 1.24 2.81 1.35 2.87 1.25 3.69 1.54 4.25 3.45 3.97 2.11 2.01 2.16 1.22 1.59 0.79 0.29 0.61 0.69
C6 2.19 2.59 1.82 1.36 2.28 1.77 1.97 1.32 2.07 1.55 2.36 2.60 1.83 1.50 2.04 2.00 1.24 2.24 0.55 0.29 0.17 0.18
C8 2.15 3.41 1.86 1.47 2.69 1.70 2.50 1.40 2.90 1.57 3.30 3.17 2.78 1.78 2.15 2.16 1.37 2.10 0.68 0.10 0.19 0.37
N1 2.43 2.82 2.03 1.55 2.42 2.01 2.13 1.45 2.27 1.73 2.57 2.81 2.08 1.69 2.20 2.26 1.52 2.48 0.66 0.40 0.17 0.15
N3 2.44 3.55 2.09 1.56 2.75 1.90 2.42 1.35 2.78 1.73 3.33 3.32 2.50 1.71 2.31 2.43 1.53 2.37 0.56 0.30 0.18 0.24
N6 1.95 1.98 1.60 1.20 1.83 1.68 1.56 1.32 1.58 1.34 1.78 2.05 1.41 1.25 1.74 1.69 1.04 2.10 0.56 0.28 0.17 0.15
N7 2.08 2.98 1.77 1.39 2.51 1.63 2.29 1.32 2.53 1.54 2.84 2.87 2.39 1.67 2.09 2.00 1.25 2.07 0.61 0.10 0.18 0.34
N9 2.24 3.66 1.94 1.47 2.77 1.73 2.50 1.35 2.94 1.58 3.50 3.34 2.69 1.69 2.21 2.28 1.39 2.15 0.60 0.12 0.19 0.34
O2' 2.39 3.85 2.06 1.61 2.74 2.05 2.43 1.67 2.98 1.63 3.72 3.41 2.78 1.63 2.23 2.45 1.61 2.42 0.80 0.23 0.34 0.32
O3' 1.92 3.76 1.66 1.27 2.50 1.56 2.25 1.31 2.90 1.16 3.63 3.26 2.87 1.42 1.83 2.12 1.22 1.88 0.66 0.23 0.44 0.52
O4' 2.16 3.96 1.97 1.51 2.82 1.67 2.63 1.36 3.28 1.55 3.95 3.46 3.21 1.78 2.16 2.42 1.52 1.99 0.67 0.10 0.26 0.44
O5' 1.71 3.93 1.56 1.16 2.78 1.28 2.98 1.31 3.82 1.64 4.21 3.32 4.25 2.32 1.97 1.99 1.10 1.47 0.94 0.40 0.78 0.82
OP1 1.11 3.24 0.97 1.20 2.09 1.73 2.43 2.24 3.39 0.97 3.69 2.55 4.04 1.79 1.26 1.26 1.27 1.44 1.73 1.16 1.65 1.58
OP2 1.89 4.19 1.83 1.33 3.25 0.87 3.69 0.89 4.48 2.47 4.63 3.55 5.07 3.23 2.47 2.11 1.20 1.21 1.16 0.77 1.38 1.15
P 1.52 3.94 1.37 1.01 2.82 1.09 3.18 1.38 4.08 1.80 4.36 3.25 4.66 2.59 1.96 1.74 0.90 1.18 1.16 0.54 1.15 1.08

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.02 0.01 0.02 0.01 0.06 0.01 0.02 0.01 0.02 0.01 0.01 0.01 0.02 0.17 0.01 0.25 0.51 0.71 0.33
C2 0.02 0.00 0.39 0.16 0.01 0.18 0.00 0.35 0.01 0.01 0.00 0.00 0.01 0.00 0.01 0.76 0.46 0.31 0.55 0.54 0.88 0.62
C2' 0.00 0.39 0.00 0.00 0.23 0.02 0.15 0.10 0.23 0.13 0.34 0.38 0.19 0.05 0.05 0.01 0.04 0.01 0.19 0.54 0.61 0.26
C3' 0.02 0.16 0.00 0.00 0.12 0.01 0.22 0.04 0.19 0.41 0.14 0.16 0.25 0.38 0.19 0.02 0.02 0.01 0.06 0.23 0.52 0.20
C4 0.01 0.01 0.23 0.12 0.00 0.12 0.00 0.28 0.00 0.00 0.01 0.00 0.00 0.01 0.00 0.46 0.20 0.17 0.58 0.59 0.77 0.53
C4' 0.02 0.18 0.02 0.01 0.12 0.00 0.18 0.01 0.18 0.26 0.16 0.17 0.21 0.26 0.11 0.24 0.07 0.01 0.02 0.27 0.48 0.14
C5 0.01 0.00 0.15 0.22 0.00 0.18 0.00 0.40 0.00 0.00 0.01 0.01 0.01 0.00 0.00 0.39 0.13 0.08 0.78 0.74 0.83 0.69
C5' 0.06 0.35 0.10 0.04 0.28 0.01 0.40 0.00 0.42 0.46 0.38 0.29 0.49 0.50 0.25 0.15 0.13 0.03 0.01 0.43 0.36 0.01
C6 0.01 0.01 0.23 0.19 0.00 0.18 0.00 0.42 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.53 0.16 0.15 0.81 0.75 0.93 0.79
C8 0.02 0.01 0.13 0.41 0.00 0.26 0.00 0.46 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.11 0.36 0.20 0.77 0.82 0.60 0.55
N1 0.01 0.00 0.34 0.14 0.01 0.16 0.01 0.38 0.00 0.01 0.00 0.00 0.01 0.01 0.01 0.69 0.32 0.25 0.70 0.66 0.93 0.74
N3 0.02 0.00 0.38 0.16 0.00 0.17 0.01 0.29 0.01 0.00 0.00 0.00 0.01 0.00 0.01 0.70 0.46 0.31 0.45 0.49 0.82 0.51
N6 0.01 0.01 0.19 0.25 0.00 0.21 0.01 0.49 0.00 0.01 0.01 0.01 0.00 0.01 0.01 0.49 0.16 0.11 0.92 0.86 1.02 0.90
N7 0.01 0.00 0.05 0.38 0.01 0.26 0.00 0.50 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.19 0.33 0.12 0.89 0.86 0.77 0.71
N9 0.01 0.01 0.05 0.19 0.00 0.11 0.00 0.25 0.01 0.00 0.01 0.01 0.01 0.00 0.00 0.17 0.10 0.02 0.53 0.63 0.68 0.43
O2' 0.02 0.76 0.01 0.02 0.46 0.24 0.39 0.15 0.53 0.11 0.69 0.70 0.49 0.19 0.17 0.00 0.10 0.20 0.07 0.41 0.60 0.20
O3' 0.17 0.46 0.04 0.02 0.20 0.07 0.13 0.13 0.16 0.36 0.32 0.46 0.16 0.33 0.10 0.10 0.00 0.15 0.25 0.39 0.48 0.29
O4' 0.01 0.31 0.01 0.01 0.17 0.01 0.08 0.03 0.15 0.20 0.25 0.31 0.11 0.12 0.02 0.20 0.15 0.00 0.19 0.45 0.77 0.37
O5' 0.25 0.55 0.19 0.06 0.58 0.02 0.78 0.01 0.81 0.77 0.70 0.45 0.92 0.89 0.53 0.07 0.25 0.19 0.00 0.01 0.01 0.01
OP1 0.51 0.54 0.54 0.23 0.59 0.27 0.74 0.43 0.75 0.82 0.66 0.49 0.86 0.86 0.63 0.41 0.39 0.45 0.01 0.00 0.01 0.00
OP2 0.71 0.88 0.61 0.52 0.77 0.48 0.83 0.36 0.93 0.60 0.93 0.82 1.02 0.77 0.68 0.60 0.48 0.77 0.01 0.01 0.00 0.00
P 0.33 0.62 0.26 0.20 0.53 0.14 0.69 0.01 0.79 0.55 0.74 0.51 0.90 0.71 0.43 0.20 0.29 0.37 0.01 0.00 0.00 0.00