ClaRNA

Doublet Group distance statistics: 49221

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Distances from reference structure (by RMSD)

1, 0, 1, 2, 3, 1, 4, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.002, 0.005, 0.008, 0.011 max_d=0.011 avg_d=0.005 std_dev=0.003
N3 A 0, 0.007, 0.014, 0.021, 0.024 max_d=0.024 avg_d=0.014 std_dev=0.007
C6 A 0, 0.006, 0.013, 0.020, 0.029 max_d=0.029 avg_d=0.013 std_dev=0.007
C4 A 0, 0.008, 0.016, 0.025, 0.030 max_d=0.030 avg_d=0.016 std_dev=0.009
C2 A 0, 0.008, 0.017, 0.025, 0.028 max_d=0.028 avg_d=0.017 std_dev=0.009
N1 A 0, 0.003, 0.012, 0.021, 0.035 max_d=0.035 avg_d=0.012 std_dev=0.009
C1' A 0, 0.011, 0.022, 0.033, 0.036 max_d=0.036 avg_d=0.022 std_dev=0.011
O2 A 0, 0.016, 0.032, 0.049, 0.061 max_d=0.061 avg_d=0.032 std_dev=0.017
N4 A 0, 0.019, 0.046, 0.074, 0.094 max_d=0.094 avg_d=0.046 std_dev=0.028
C2' A 0, 0.151, 0.344, 0.537, 0.789 max_d=0.789 avg_d=0.344 std_dev=0.193
P B 0, 0.097, 0.320, 0.542, 0.875 max_d=0.875 avg_d=0.320 std_dev=0.223
O4' A 0, 0.110, 0.336, 0.562, 0.917 max_d=0.917 avg_d=0.336 std_dev=0.226
O5' B 0, 0.317, 0.559, 0.801, 0.847 max_d=0.847 avg_d=0.559 std_dev=0.242
OP2 B 0, 0.391, 0.656, 0.920, 1.061 max_d=1.061 avg_d=0.656 std_dev=0.265
O2' A 0, 0.153, 0.419, 0.684, 1.176 max_d=1.176 avg_d=0.419 std_dev=0.266
C4' A 0, 0.168, 0.529, 0.890, 1.519 max_d=1.519 avg_d=0.529 std_dev=0.361
OP1 B 0, 0.222, 0.586, 0.949, 1.476 max_d=1.476 avg_d=0.586 std_dev=0.364
C3' A 0, 0.167, 0.571, 0.975, 1.726 max_d=1.726 avg_d=0.571 std_dev=0.404
C5' A 0, 0.450, 0.889, 1.328, 1.550 max_d=1.550 avg_d=0.889 std_dev=0.439
C5' B 0, 0.616, 1.280, 1.944, 2.264 max_d=2.264 avg_d=1.280 std_dev=0.664
O5' A 0, 0.262, 0.931, 1.600, 2.829 max_d=2.829 avg_d=0.931 std_dev=0.669
O3' A 0, 0.110, 0.779, 1.449, 2.829 max_d=2.829 avg_d=0.779 std_dev=0.669
C4' B 0, 0.726, 1.556, 2.386, 2.618 max_d=2.618 avg_d=1.556 std_dev=0.830
P A 0, 0.680, 1.631, 2.583, 3.269 max_d=3.269 avg_d=1.631 std_dev=0.952
OP1 A 0, 1.079, 2.096, 3.113, 3.499 max_d=3.499 avg_d=2.096 std_dev=1.017
C3' B 0, 0.383, 1.429, 2.475, 3.521 max_d=3.521 avg_d=1.429 std_dev=1.046
C2' B 0, 0.769, 1.912, 3.054, 4.010 max_d=4.010 avg_d=1.912 std_dev=1.143
OP2 A 0, 0.654, 1.841, 3.028, 4.700 max_d=4.700 avg_d=1.841 std_dev=1.187
O4' B 0, 0.800, 2.013, 3.225, 3.490 max_d=3.490 avg_d=2.013 std_dev=1.212
C1' B 0, 0.845, 2.188, 3.530, 3.865 max_d=3.865 avg_d=2.188 std_dev=1.342
O3' B 0, 0.981, 2.362, 3.744, 5.061 max_d=5.061 avg_d=2.362 std_dev=1.382
O2' B 0, 1.422, 2.846, 4.270, 5.521 max_d=5.521 avg_d=2.846 std_dev=1.424
N9 B 0, 0.963, 2.606, 4.250, 5.454 max_d=5.454 avg_d=2.606 std_dev=1.643
C8 B 0, 1.384, 3.116, 4.847, 5.578 max_d=5.578 avg_d=3.116 std_dev=1.731
N7 B 0, 1.628, 3.993, 6.359, 7.830 max_d=7.830 avg_d=3.993 std_dev=2.365
C4 B 0, 1.119, 3.589, 6.060, 7.824 max_d=7.824 avg_d=3.589 std_dev=2.470
N3 B 0, 1.975, 4.614, 7.253, 8.799 max_d=8.799 avg_d=4.614 std_dev=2.639
C5 B 0, 1.162, 4.164, 7.165, 9.209 max_d=9.209 avg_d=4.164 std_dev=3.002
C2 B 0, 2.705, 6.063, 9.421, 11.250 max_d=11.250 avg_d=6.063 std_dev=3.358
N2 B 0, 3.641, 7.434, 11.227, 12.620 max_d=12.620 avg_d=7.434 std_dev=3.793
N1 B 0, 2.600, 6.480, 10.360, 12.708 max_d=12.708 avg_d=6.480 std_dev=3.880
C6 B 0, 1.688, 5.576, 9.464, 11.898 max_d=11.898 avg_d=5.576 std_dev=3.888
O6 B 0, 1.851, 6.397, 10.942, 13.583 max_d=13.583 avg_d=6.397 std_dev=4.546

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 0.02 0.00 0.01 0.02 0.01 0.01 0.08 0.01 0.02 0.02 0.02 0.03 0.02 0.17 0.01 0.17 0.25 0.32 0.16
C2 0.02 0.00 0.11 0.17 0.00 0.04 0.00 0.09 0.00 0.00 0.00 0.01 0.01 0.10 0.11 0.10 0.39 0.37 0.49 0.41
C2' 0.00 0.11 0.00 0.00 0.03 0.02 0.07 0.13 0.10 0.01 0.09 0.04 0.19 0.00 0.02 0.01 0.09 0.20 0.44 0.19
C3' 0.01 0.17 0.00 0.00 0.23 0.00 0.21 0.02 0.17 0.13 0.21 0.25 0.14 0.01 0.01 0.01 0.11 0.14 0.50 0.25
C4 0.02 0.00 0.03 0.23 0.00 0.09 0.00 0.12 0.01 0.01 0.00 0.01 0.01 0.20 0.12 0.03 0.60 0.60 0.66 0.64
C4' 0.01 0.04 0.02 0.00 0.09 0.00 0.12 0.01 0.11 0.04 0.05 0.10 0.07 0.17 0.03 0.01 0.03 0.22 0.21 0.06
C5 0.01 0.00 0.07 0.21 0.00 0.12 0.00 0.13 0.00 0.00 0.01 0.01 0.00 0.21 0.14 0.05 0.63 0.62 0.66 0.65
C5' 0.08 0.09 0.13 0.02 0.12 0.01 0.13 0.00 0.10 0.08 0.10 0.14 0.11 0.06 0.12 0.02 0.01 0.25 0.21 0.02
C6 0.01 0.00 0.10 0.17 0.01 0.11 0.00 0.10 0.00 0.00 0.01 0.01 0.00 0.19 0.10 0.08 0.54 0.46 0.54 0.51
N1 0.02 0.00 0.01 0.13 0.01 0.04 0.00 0.08 0.00 0.00 0.00 0.01 0.01 0.12 0.06 0.02 0.38 0.34 0.45 0.36
N3 0.02 0.00 0.09 0.21 0.00 0.05 0.01 0.10 0.01 0.00 0.00 0.01 0.01 0.15 0.10 0.08 0.50 0.49 0.59 0.54
N4 0.02 0.01 0.04 0.25 0.01 0.10 0.01 0.14 0.01 0.01 0.01 0.00 0.01 0.21 0.16 0.03 0.65 0.70 0.73 0.73
O2 0.03 0.01 0.19 0.14 0.01 0.07 0.00 0.11 0.00 0.01 0.01 0.01 0.00 0.07 0.19 0.15 0.28 0.29 0.45 0.31
O2' 0.02 0.10 0.00 0.01 0.20 0.17 0.21 0.06 0.19 0.12 0.15 0.21 0.07 0.00 0.05 0.11 0.05 0.20 0.42 0.14
O3' 0.17 0.11 0.02 0.01 0.12 0.03 0.14 0.12 0.10 0.06 0.10 0.16 0.19 0.05 0.00 0.14 0.12 0.23 0.64 0.33
O4' 0.01 0.10 0.01 0.01 0.03 0.01 0.05 0.02 0.08 0.02 0.08 0.03 0.15 0.11 0.14 0.00 0.22 0.33 0.26 0.20
O5' 0.17 0.39 0.09 0.11 0.60 0.03 0.63 0.01 0.54 0.38 0.50 0.65 0.28 0.05 0.12 0.22 0.00 0.01 0.02 0.01
OP1 0.25 0.37 0.20 0.14 0.60 0.22 0.62 0.25 0.46 0.34 0.49 0.70 0.29 0.20 0.23 0.33 0.01 0.00 0.01 0.01
OP2 0.32 0.49 0.44 0.50 0.66 0.21 0.66 0.21 0.54 0.45 0.59 0.73 0.45 0.42 0.64 0.26 0.02 0.01 0.00 0.01
P 0.16 0.41 0.19 0.25 0.64 0.06 0.65 0.02 0.51 0.36 0.54 0.73 0.31 0.14 0.33 0.20 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 1.12 1.49 0.47 0.46 1.51 0.70 1.89 0.29 2.03 1.71 1.79 1.40 1.34 2.04 1.39 0.79 0.92 1.27 0.31 2.26 0.17 0.33 0.16
C2 1.13 2.04 0.62 0.32 1.75 0.60 2.08 0.29 2.36 1.64 2.30 2.07 1.75 1.99 1.45 0.88 0.78 1.13 0.35 2.55 0.14 0.28 0.14
C2' 1.31 1.58 0.58 0.38 1.69 0.66 2.07 0.27 2.14 2.00 1.86 1.44 1.47 2.32 1.62 0.88 0.83 1.42 0.27 2.37 0.17 0.31 0.14
C3' 1.13 1.05 0.75 0.88 1.16 0.83 1.46 0.52 1.51 1.48 1.25 0.99 1.03 1.72 1.17 1.15 1.35 1.32 0.47 1.75 0.38 0.61 0.39
C4 0.94 2.03 0.62 0.23 1.53 0.48 1.63 0.27 1.87 1.27 2.05 2.25 1.76 1.48 1.18 0.77 0.60 0.88 0.37 1.89 0.14 0.27 0.13
C4' 0.94 0.78 0.72 0.90 0.88 0.82 1.19 0.43 1.26 1.22 1.01 0.76 0.74 1.43 0.91 1.15 1.38 1.19 0.40 1.51 0.25 0.50 0.29
C5 0.85 1.60 0.43 0.23 1.29 0.54 1.37 0.24 1.48 1.23 1.58 1.79 1.44 1.36 1.08 0.54 0.64 0.92 0.34 1.50 0.16 0.34 0.15
C5' 0.81 0.59 0.87 1.00 0.55 0.78 0.82 0.40 0.87 0.96 0.70 0.75 0.53 1.08 0.66 1.31 1.45 1.04 0.39 1.07 0.21 0.51 0.29
C6 0.95 1.42 0.39 0.36 1.32 0.66 1.53 0.28 1.59 1.42 1.52 1.49 1.30 1.60 1.20 0.58 0.78 1.10 0.32 1.67 0.17 0.35 0.16
N1 1.08 1.66 0.48 0.37 1.56 0.66 1.87 0.28 2.02 1.61 1.88 1.65 1.48 1.91 1.37 0.74 0.83 1.18 0.33 2.18 0.16 0.32 0.15
N3 1.08 2.21 0.69 0.28 1.74 0.53 1.96 0.31 2.29 1.48 2.39 2.35 1.87 1.78 1.37 0.91 0.68 1.00 0.37 2.39 0.14 0.24 0.13
N4 0.86 2.18 0.71 0.29 1.44 0.38 1.44 0.30 1.73 1.10 2.07 2.55 1.85 1.25 1.03 0.83 0.51 0.72 0.38 1.71 0.15 0.21 0.14
O2 1.20 2.14 0.67 0.36 1.85 0.61 2.24 0.31 2.60 1.76 2.49 2.15 1.82 2.17 1.53 0.98 0.82 1.18 0.35 2.89 0.14 0.26 0.13
O2' 1.47 1.88 0.69 0.28 1.98 0.68 2.46 0.30 2.58 2.27 2.24 1.71 1.73 2.70 1.86 0.91 0.64 1.52 0.33 2.88 0.24 0.18 0.22
O3' 1.20 1.15 0.92 1.02 1.21 0.88 1.52 0.59 1.61 1.50 1.34 1.13 1.13 1.76 1.21 1.32 1.52 1.34 0.48 1.90 0.41 0.57 0.39
O4' 0.91 1.05 0.52 0.74 1.08 0.79 1.43 0.37 1.56 1.35 1.33 1.00 0.92 1.62 1.02 0.91 1.21 1.15 0.36 1.81 0.21 0.41 0.23
O5' 0.87 0.68 1.26 1.47 0.45 1.12 0.50 0.89 0.51 0.74 0.51 0.96 0.69 0.77 0.56 1.56 1.86 0.98 0.99 0.67 0.80 1.10 0.91
OP1 0.87 1.80 1.47 1.56 1.26 1.00 1.21 1.09 1.39 0.93 1.64 2.14 1.64 1.08 0.94 1.61 1.78 0.56 1.12 1.37 0.95 1.17 1.08
OP2 1.23 1.46 1.95 1.94 1.05 1.28 0.84 1.09 0.91 0.86 1.20 1.78 1.41 0.77 0.97 2.30 2.26 0.92 1.23 0.82 1.01 1.22 1.09
P 0.92 1.24 1.61 1.77 0.80 1.16 0.61 1.03 0.71 0.61 0.99 1.55 1.19 0.58 0.68 1.84 2.13 0.72 1.17 0.65 0.95 1.21 1.06

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.04 0.00 0.02 0.02 0.01 0.01 0.14 0.02 0.01 0.03 0.05 0.03 0.01 0.00 0.02 0.21 0.01 0.21 0.02 0.46 0.24 0.25
C2 0.04 0.00 0.52 0.65 0.01 0.75 0.01 1.31 0.01 0.02 0.00 0.00 0.01 0.01 0.02 0.69 0.67 0.62 1.36 0.01 1.88 1.78 1.71
C2' 0.00 0.52 0.00 0.01 0.25 0.03 0.10 0.17 0.20 0.29 0.38 0.64 0.51 0.17 0.04 0.00 0.06 0.02 0.38 0.13 0.30 0.55 0.38
C3' 0.02 0.65 0.01 0.00 0.26 0.00 0.24 0.02 0.26 0.61 0.44 0.87 0.64 0.51 0.21 0.03 0.01 0.02 0.38 0.27 0.29 0.46 0.33
C4 0.02 0.01 0.25 0.26 0.00 0.32 0.00 0.62 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.37 0.24 0.32 0.50 0.01 0.69 0.70 0.57
C4' 0.01 0.75 0.03 0.00 0.32 0.00 0.24 0.01 0.32 0.54 0.55 0.97 0.72 0.43 0.18 0.25 0.03 0.01 0.03 0.29 0.24 0.19 0.05
C5 0.01 0.01 0.10 0.24 0.00 0.24 0.00 0.58 0.01 0.01 0.01 0.01 0.00 0.00 0.01 0.30 0.12 0.14 0.42 0.02 0.72 0.63 0.49
C5' 0.14 1.31 0.17 0.02 0.62 0.01 0.58 0.00 0.70 0.90 1.03 1.70 1.18 0.82 0.40 0.11 0.17 0.03 0.01 0.69 0.11 0.36 0.02
C6 0.02 0.01 0.20 0.26 0.01 0.32 0.01 0.70 0.00 0.02 0.00 0.01 0.01 0.02 0.02 0.41 0.22 0.27 0.52 0.00 0.87 0.86 0.65
C8 0.01 0.02 0.29 0.61 0.01 0.54 0.01 0.90 0.02 0.00 0.02 0.02 0.01 0.00 0.00 0.26 0.45 0.31 1.06 0.03 1.40 1.08 1.22
N1 0.03 0.00 0.38 0.44 0.01 0.55 0.01 1.03 0.00 0.02 0.00 0.01 0.01 0.01 0.02 0.58 0.47 0.47 0.97 0.01 1.42 1.42 1.26
N2 0.05 0.00 0.64 0.87 0.01 0.97 0.01 1.70 0.01 0.02 0.01 0.00 0.01 0.01 0.02 0.83 0.91 0.74 1.83 0.02 2.64 2.46 2.39
N3 0.03 0.01 0.51 0.64 0.00 0.72 0.00 1.18 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.63 0.63 0.62 1.21 0.01 1.53 1.46 1.42
N7 0.01 0.01 0.17 0.51 0.01 0.43 0.00 0.82 0.02 0.00 0.01 0.01 0.01 0.00 0.01 0.23 0.37 0.17 0.94 0.03 1.34 1.02 1.12
N9 0.00 0.02 0.04 0.21 0.01 0.18 0.01 0.40 0.02 0.00 0.02 0.02 0.01 0.01 0.00 0.15 0.07 0.02 0.34 0.02 0.58 0.42 0.39
O2' 0.02 0.69 0.00 0.03 0.37 0.25 0.30 0.11 0.41 0.26 0.58 0.83 0.63 0.23 0.15 0.00 0.11 0.18 0.30 0.38 0.33 0.53 0.33
O3' 0.21 0.67 0.06 0.01 0.24 0.03 0.12 0.17 0.22 0.45 0.47 0.91 0.63 0.37 0.07 0.11 0.00 0.16 0.41 0.19 0.33 0.51 0.38
O4' 0.01 0.62 0.02 0.02 0.32 0.01 0.14 0.03 0.27 0.31 0.47 0.74 0.62 0.17 0.02 0.18 0.16 0.00 0.28 0.20 0.70 0.16 0.37
O5' 0.21 1.36 0.38 0.38 0.50 0.03 0.42 0.01 0.52 1.06 0.97 1.83 1.21 0.94 0.34 0.30 0.41 0.28 0.00 0.51 0.02 0.02 0.00
O6 0.02 0.01 0.13 0.27 0.01 0.29 0.02 0.69 0.00 0.03 0.01 0.02 0.01 0.03 0.02 0.38 0.19 0.20 0.51 0.00 0.95 0.84 0.64
OP1 0.46 1.88 0.30 0.29 0.69 0.24 0.72 0.11 0.87 1.40 1.42 2.64 1.53 1.34 0.58 0.33 0.33 0.70 0.02 0.95 0.00 0.01 0.00
OP2 0.24 1.78 0.55 0.46 0.70 0.19 0.63 0.36 0.86 1.08 1.42 2.46 1.46 1.02 0.42 0.53 0.51 0.16 0.02 0.84 0.01 0.00 0.01
P 0.25 1.71 0.38 0.33 0.57 0.05 0.49 0.02 0.65 1.22 1.26 2.39 1.42 1.12 0.39 0.33 0.38 0.37 0.00 0.64 0.00 0.01 0.00