ClaRNA

Doublet Group distance statistics: 54693

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4 A 0, 0.002, 0.014, 0.026, 0.037 max_d=0.037 avg_d=0.014 std_dev=0.012
N3 A 0, 0.003, 0.015, 0.027, 0.038 max_d=0.038 avg_d=0.015 std_dev=0.012
C6 A 0, 0.000, 0.012, 0.024, 0.037 max_d=0.037 avg_d=0.012 std_dev=0.012
C5 A 0, -0.003, 0.010, 0.023, 0.038 max_d=0.038 avg_d=0.010 std_dev=0.013
N1 A 0, -0.001, 0.013, 0.026, 0.041 max_d=0.041 avg_d=0.013 std_dev=0.013
C1' A 0, 0.000, 0.020, 0.040, 0.062 max_d=0.062 avg_d=0.020 std_dev=0.020
C2 A 0, -0.007, 0.019, 0.045, 0.075 max_d=0.075 avg_d=0.019 std_dev=0.026
O2 A 0, -0.007, 0.038, 0.084, 0.135 max_d=0.135 avg_d=0.038 std_dev=0.046
N4 A 0, -0.007, 0.041, 0.089, 0.145 max_d=0.145 avg_d=0.041 std_dev=0.048
P B 0, 0.299, 0.564, 0.828, 0.774 max_d=0.774 avg_d=0.564 std_dev=0.264
C2' A 0, 0.179, 0.543, 0.907, 1.057 max_d=1.057 avg_d=0.543 std_dev=0.364
OP1 B 0, 0.340, 0.751, 1.162, 1.157 max_d=1.157 avg_d=0.751 std_dev=0.411
O4' A 0, 0.213, 0.630, 1.047, 1.131 max_d=1.131 avg_d=0.630 std_dev=0.417
OP2 B 0, 0.476, 0.940, 1.404, 1.326 max_d=1.326 avg_d=0.940 std_dev=0.464
O2' A 0, 0.321, 0.861, 1.401, 1.629 max_d=1.629 avg_d=0.861 std_dev=0.540
C4' A 0, 0.333, 0.885, 1.438, 1.683 max_d=1.683 avg_d=0.885 std_dev=0.552
C3' A 0, 0.131, 0.688, 1.244, 1.688 max_d=1.688 avg_d=0.688 std_dev=0.557
O5' B 0, 0.293, 0.906, 1.518, 1.717 max_d=1.717 avg_d=0.906 std_dev=0.613
O5' A 0, 0.706, 1.456, 2.207, 2.553 max_d=2.553 avg_d=1.456 std_dev=0.751
O3' A 0, -0.067, 0.714, 1.496, 2.409 max_d=2.409 avg_d=0.714 std_dev=0.781
C5' A 0, 0.608, 1.414, 2.221, 2.475 max_d=2.475 avg_d=1.414 std_dev=0.807
C5' B 0, 0.539, 1.391, 2.243, 2.425 max_d=2.425 avg_d=1.391 std_dev=0.852
P A 0, 0.620, 1.585, 2.551, 2.973 max_d=2.973 avg_d=1.585 std_dev=0.966
C4' B 0, 0.817, 1.822, 2.827, 3.102 max_d=3.102 avg_d=1.822 std_dev=1.005
C6 B 0, 0.610, 1.621, 2.631, 3.454 max_d=3.454 avg_d=1.621 std_dev=1.010
O4' B 0, 0.770, 1.806, 2.841, 3.282 max_d=3.282 avg_d=1.806 std_dev=1.036
C5 B 0, 0.725, 1.803, 2.881, 3.274 max_d=3.274 avg_d=1.803 std_dev=1.078
OP1 A 0, 0.852, 1.954, 3.056, 3.530 max_d=3.530 avg_d=1.954 std_dev=1.102
N1 B 0, 0.663, 1.827, 2.992, 3.995 max_d=3.995 avg_d=1.827 std_dev=1.164
C3' B 0, 1.010, 2.186, 3.361, 3.944 max_d=3.944 avg_d=2.186 std_dev=1.176
C4 B 0, 0.756, 1.974, 3.192, 3.618 max_d=3.618 avg_d=1.974 std_dev=1.218
N3 B 0, 0.819, 2.057, 3.294, 4.091 max_d=4.091 avg_d=2.057 std_dev=1.237
C2 B 0, 0.829, 2.072, 3.316, 4.288 max_d=4.288 avg_d=2.072 std_dev=1.243
C1' B 0, 0.822, 2.104, 3.385, 4.375 max_d=4.375 avg_d=2.104 std_dev=1.281
O2 B 0, 1.009, 2.421, 3.832, 4.734 max_d=4.734 avg_d=2.421 std_dev=1.412
O3' B 0, 1.360, 2.780, 4.199, 4.410 max_d=4.410 avg_d=2.780 std_dev=1.420
N4 B 0, 0.734, 2.195, 3.656, 4.477 max_d=4.477 avg_d=2.195 std_dev=1.461
C2' B 0, 0.895, 2.417, 3.940, 5.142 max_d=5.142 avg_d=2.417 std_dev=1.522
O2' B 0, 1.323, 3.190, 5.056, 6.421 max_d=6.421 avg_d=3.190 std_dev=1.867
OP2 A 0, 0.820, 2.717, 4.614, 5.207 max_d=5.207 avg_d=2.717 std_dev=1.897

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 0.03 0.01 0.01 0.01 0.00 0.02 0.07 0.03 0.00 0.02 0.01 0.07 0.02 0.22 0.00 0.21 0.69 0.44 0.36
C2 0.03 0.00 0.14 0.23 0.01 0.07 0.02 0.14 0.02 0.01 0.01 0.01 0.01 0.28 0.06 0.07 0.29 0.81 0.77 0.49
C2' 0.01 0.14 0.00 0.00 0.03 0.01 0.12 0.15 0.14 0.02 0.10 0.04 0.26 0.00 0.02 0.02 0.41 0.63 0.38 0.44
C3' 0.01 0.23 0.00 0.00 0.24 0.00 0.19 0.01 0.15 0.15 0.25 0.26 0.22 0.01 0.01 0.02 0.27 0.27 0.38 0.20
C4 0.01 0.01 0.03 0.24 0.00 0.10 0.00 0.19 0.00 0.00 0.00 0.01 0.02 0.29 0.09 0.03 0.31 0.97 1.10 0.59
C4' 0.00 0.07 0.01 0.00 0.10 0.00 0.11 0.00 0.09 0.05 0.08 0.12 0.09 0.23 0.01 0.00 0.02 0.49 0.47 0.31
C5 0.02 0.02 0.12 0.19 0.00 0.11 0.00 0.18 0.00 0.00 0.01 0.02 0.03 0.27 0.05 0.09 0.30 1.03 1.13 0.62
C5' 0.07 0.14 0.15 0.01 0.19 0.00 0.18 0.00 0.15 0.10 0.18 0.23 0.13 0.08 0.17 0.01 0.01 0.18 0.16 0.01
C6 0.03 0.02 0.14 0.15 0.00 0.09 0.00 0.15 0.00 0.00 0.01 0.02 0.03 0.22 0.02 0.10 0.29 0.95 0.94 0.57
N1 0.00 0.01 0.02 0.15 0.00 0.05 0.00 0.10 0.00 0.00 0.01 0.01 0.03 0.16 0.06 0.01 0.27 0.81 0.72 0.48
N3 0.02 0.01 0.10 0.25 0.00 0.08 0.01 0.18 0.01 0.01 0.00 0.01 0.01 0.30 0.09 0.04 0.30 0.88 0.95 0.55
N4 0.01 0.01 0.04 0.26 0.01 0.12 0.02 0.23 0.02 0.01 0.01 0.00 0.02 0.32 0.12 0.04 0.32 0.99 1.20 0.61
O2 0.07 0.01 0.26 0.22 0.02 0.09 0.03 0.13 0.03 0.03 0.01 0.02 0.00 0.38 0.10 0.14 0.28 0.73 0.64 0.44
O2' 0.02 0.28 0.00 0.01 0.29 0.23 0.27 0.08 0.22 0.16 0.30 0.32 0.38 0.00 0.02 0.16 0.36 0.46 0.29 0.30
O3' 0.22 0.06 0.02 0.01 0.09 0.01 0.05 0.17 0.02 0.06 0.09 0.12 0.10 0.02 0.00 0.16 0.17 0.42 0.66 0.29
O4' 0.00 0.07 0.02 0.02 0.03 0.00 0.09 0.01 0.10 0.01 0.04 0.04 0.14 0.16 0.16 0.00 0.15 0.70 0.44 0.33
O5' 0.21 0.29 0.41 0.27 0.31 0.02 0.30 0.01 0.29 0.27 0.30 0.32 0.28 0.36 0.17 0.15 0.00 0.01 0.01 0.00
OP1 0.69 0.81 0.63 0.27 0.97 0.49 1.03 0.18 0.95 0.81 0.88 0.99 0.73 0.46 0.42 0.70 0.01 0.00 0.02 0.01
OP2 0.44 0.77 0.38 0.38 1.10 0.47 1.13 0.16 0.94 0.72 0.95 1.20 0.64 0.29 0.66 0.44 0.01 0.02 0.00 0.01
P 0.36 0.49 0.44 0.20 0.59 0.31 0.62 0.01 0.57 0.48 0.55 0.61 0.44 0.30 0.29 0.33 0.00 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.94 0.87 0.93 0.84 0.87 1.01 0.86 0.94 0.82 0.85 0.85 0.93 0.94 1.10 0.86 0.98 0.41 0.08 0.18 0.17
C2 0.82 0.77 0.92 0.92 0.76 0.95 0.74 0.91 0.71 0.75 0.75 0.81 0.83 1.05 1.03 0.82 0.42 0.21 0.23 0.20
C2' 1.15 1.07 1.04 0.94 0.99 1.20 0.97 1.13 0.98 1.04 1.02 1.01 1.16 1.22 0.90 1.24 0.62 0.27 0.21 0.39
C3' 1.07 1.02 0.95 0.82 0.98 1.02 0.97 0.88 0.95 0.99 0.99 1.01 1.10 1.12 0.75 1.11 0.38 0.20 0.27 0.26
C4 0.63 0.62 0.79 0.83 0.63 0.77 0.60 0.77 0.57 0.60 0.62 0.66 0.66 0.85 0.97 0.60 0.37 0.26 0.27 0.17
C4' 0.97 0.88 0.86 0.71 0.79 0.96 0.78 0.82 0.76 0.84 0.83 0.82 1.00 1.09 0.67 1.02 0.31 0.19 0.26 0.05
C5 0.72 0.70 0.81 0.82 0.70 0.84 0.69 0.85 0.67 0.69 0.70 0.73 0.74 0.88 0.89 0.72 0.41 0.20 0.21 0.19
C5' 1.03 0.96 0.88 0.71 0.82 0.96 0.77 0.77 0.79 0.90 0.89 0.81 1.10 1.11 0.64 1.08 0.33 0.33 0.31 0.12
C6 0.86 0.81 0.89 0.85 0.80 0.96 0.80 0.94 0.77 0.80 0.80 0.84 0.86 1.00 0.87 0.89 0.44 0.12 0.17 0.20
N1 0.89 0.83 0.93 0.88 0.82 0.99 0.81 0.94 0.77 0.81 0.81 0.86 0.89 1.06 0.94 0.91 0.43 0.14 0.19 0.19
N3 0.69 0.66 0.85 0.89 0.66 0.84 0.64 0.82 0.60 0.64 0.65 0.71 0.71 0.95 1.04 0.67 0.38 0.25 0.27 0.17
N4 0.46 0.48 0.68 0.76 0.50 0.61 0.47 0.62 0.43 0.45 0.49 0.54 0.51 0.71 0.93 0.40 0.29 0.29 0.33 0.12
O2 0.86 0.79 0.96 0.95 0.78 0.98 0.76 0.93 0.72 0.77 0.78 0.84 0.87 1.11 1.08 0.85 0.43 0.22 0.23 0.20
O2' 1.15 1.09 1.05 0.96 1.07 1.20 1.05 1.18 1.03 1.07 1.07 1.10 1.15 1.18 0.92 1.24 0.69 0.42 0.33 0.52
O3' 1.00 0.94 0.88 0.74 0.87 0.95 0.86 0.82 0.85 0.91 0.89 0.88 1.03 1.07 0.68 1.05 0.34 0.15 0.20 0.21
O4' 0.91 0.82 0.88 0.76 0.79 0.96 0.79 0.85 0.75 0.80 0.79 0.84 0.92 1.09 0.77 0.95 0.31 0.13 0.26 0.04
O5' 0.99 0.91 0.71 0.51 0.80 0.98 0.77 0.91 0.78 0.87 0.85 0.79 1.02 0.93 0.34 1.14 0.50 0.33 0.35 0.33
OP1 1.81 1.74 1.41 1.21 1.67 1.72 1.66 1.66 1.71 1.75 1.70 1.62 1.76 1.48 0.85 2.01 1.36 1.00 1.10 1.25
OP2 2.03 2.00 1.93 1.83 2.03 1.91 2.05 1.78 2.04 2.02 2.01 2.04 1.98 1.94 1.65 2.02 1.54 1.50 1.31 1.57
P 1.53 1.47 1.27 1.07 1.43 1.39 1.42 1.25 1.43 1.47 1.45 1.42 1.51 1.37 0.81 1.61 0.88 0.69 0.57 0.81

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.01 0.01 0.03 0.01 0.02 0.05 0.01 0.01 0.03 0.03 0.04 0.02 0.02 0.01 0.11 0.17 0.21 0.11
C2 0.02 0.00 0.15 0.18 0.01 0.05 0.00 0.12 0.01 0.01 0.01 0.01 0.01 0.08 0.19 0.05 0.28 0.29 0.25 0.25
C2' 0.01 0.15 0.00 0.01 0.05 0.02 0.08 0.06 0.11 0.03 0.12 0.06 0.26 0.00 0.03 0.01 0.24 0.35 0.17 0.18
C3' 0.01 0.18 0.01 0.00 0.14 0.01 0.09 0.02 0.08 0.08 0.18 0.15 0.23 0.01 0.01 0.02 0.34 0.44 0.14 0.27
C4 0.03 0.01 0.05 0.14 0.00 0.10 0.00 0.22 0.02 0.02 0.00 0.00 0.01 0.07 0.15 0.03 0.41 0.40 0.41 0.39
C4' 0.01 0.05 0.02 0.01 0.10 0.00 0.12 0.00 0.11 0.06 0.07 0.11 0.05 0.10 0.03 0.00 0.01 0.11 0.27 0.02
C5 0.02 0.00 0.08 0.09 0.00 0.12 0.00 0.27 0.01 0.01 0.00 0.01 0.01 0.10 0.11 0.07 0.42 0.41 0.44 0.41
C5' 0.05 0.12 0.06 0.02 0.22 0.00 0.27 0.00 0.25 0.14 0.16 0.24 0.06 0.05 0.04 0.01 0.01 0.17 0.36 0.02
C6 0.01 0.01 0.11 0.08 0.02 0.11 0.01 0.25 0.00 0.00 0.01 0.02 0.01 0.10 0.10 0.09 0.35 0.34 0.36 0.33
N1 0.01 0.01 0.03 0.08 0.02 0.06 0.01 0.14 0.00 0.00 0.02 0.02 0.02 0.04 0.08 0.01 0.26 0.27 0.26 0.23
N3 0.03 0.01 0.12 0.18 0.00 0.07 0.00 0.16 0.01 0.02 0.00 0.01 0.00 0.08 0.20 0.04 0.36 0.35 0.32 0.33
N4 0.03 0.01 0.06 0.15 0.00 0.11 0.01 0.24 0.02 0.02 0.01 0.00 0.01 0.08 0.16 0.03 0.44 0.44 0.46 0.43
O2 0.04 0.01 0.26 0.23 0.01 0.05 0.01 0.06 0.01 0.02 0.00 0.01 0.00 0.17 0.28 0.09 0.24 0.25 0.20 0.21
O2' 0.02 0.08 0.00 0.01 0.07 0.10 0.10 0.05 0.10 0.04 0.08 0.08 0.17 0.00 0.04 0.07 0.13 0.24 0.18 0.11
O3' 0.02 0.19 0.03 0.01 0.15 0.03 0.11 0.04 0.10 0.08 0.20 0.16 0.28 0.04 0.00 0.02 0.31 0.48 0.12 0.30
O4' 0.01 0.05 0.01 0.02 0.03 0.00 0.07 0.01 0.09 0.01 0.04 0.03 0.09 0.07 0.02 0.00 0.05 0.05 0.26 0.10
O5' 0.11 0.28 0.24 0.34 0.41 0.01 0.42 0.01 0.35 0.26 0.36 0.44 0.24 0.13 0.31 0.05 0.00 0.01 0.01 0.01
OP1 0.17 0.29 0.35 0.44 0.40 0.11 0.41 0.17 0.34 0.27 0.35 0.44 0.25 0.24 0.48 0.05 0.01 0.00 0.01 0.00
OP2 0.21 0.25 0.17 0.14 0.41 0.27 0.44 0.36 0.36 0.26 0.32 0.46 0.20 0.18 0.12 0.26 0.01 0.01 0.00 0.00
P 0.11 0.25 0.18 0.27 0.39 0.02 0.41 0.02 0.33 0.23 0.33 0.43 0.21 0.11 0.30 0.10 0.01 0.00 0.00 0.00