ClaRNA

Doublet Group distance statistics: 48059

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Distances from reference structure (by RMSD)

2, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 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, 0.001, 0.003, 0.006, 0.006 max_d=0.006 avg_d=0.003 std_dev=0.002
N1 A 0, 0.001, 0.004, 0.007, 0.008 max_d=0.008 avg_d=0.004 std_dev=0.003
C6 A 0, 0.000, 0.004, 0.009, 0.011 max_d=0.011 avg_d=0.004 std_dev=0.005
C4 A 0, 0.002, 0.007, 0.012, 0.012 max_d=0.012 avg_d=0.007 std_dev=0.005
N4 A 0, 0.002, 0.011, 0.019, 0.021 max_d=0.021 avg_d=0.011 std_dev=0.009
C2 A 0, 0.000, 0.010, 0.020, 0.024 max_d=0.024 avg_d=0.010 std_dev=0.010
N3 A 0, -0.002, 0.010, 0.022, 0.026 max_d=0.026 avg_d=0.010 std_dev=0.012
C1' A 0, -0.002, 0.013, 0.028, 0.034 max_d=0.034 avg_d=0.013 std_dev=0.015
O2 A 0, 0.000, 0.025, 0.049, 0.058 max_d=0.058 avg_d=0.025 std_dev=0.024
P B 0, -0.095, 0.274, 0.642, 0.794 max_d=0.794 avg_d=0.274 std_dev=0.368
OP2 B 0, -0.105, 0.299, 0.703, 0.870 max_d=0.870 avg_d=0.299 std_dev=0.404
O4' A 0, -0.174, 0.437, 1.048, 1.301 max_d=1.301 avg_d=0.437 std_dev=0.611
OP1 B 0, -0.172, 0.476, 1.124, 1.392 max_d=1.392 avg_d=0.476 std_dev=0.648
C2' A 0, -0.190, 0.468, 1.126, 1.399 max_d=1.399 avg_d=0.468 std_dev=0.658
C3' A 0, -0.271, 0.667, 1.606, 1.995 max_d=1.995 avg_d=0.667 std_dev=0.939
C4' A 0, -0.277, 0.683, 1.644, 2.041 max_d=2.041 avg_d=0.683 std_dev=0.960
O2' A 0, -0.276, 0.691, 1.657, 2.058 max_d=2.058 avg_d=0.691 std_dev=0.967
N1 B 0, -0.272, 0.695, 1.663, 2.064 max_d=2.064 avg_d=0.695 std_dev=0.968
C1' B 0, -0.282, 0.719, 1.720, 2.135 max_d=2.135 avg_d=0.719 std_dev=1.001
O5' B 0, -0.285, 0.748, 1.782, 2.210 max_d=2.210 avg_d=0.748 std_dev=1.033
C5' B 0, -0.315, 0.822, 1.958, 2.429 max_d=2.429 avg_d=0.822 std_dev=1.136
O3' A 0, -0.332, 0.815, 1.963, 2.438 max_d=2.438 avg_d=0.815 std_dev=1.147
C6 B 0, -0.390, 0.996, 2.382, 2.956 max_d=2.956 avg_d=0.996 std_dev=1.386
C5' A 0, -0.411, 1.011, 2.432, 3.021 max_d=3.021 avg_d=1.011 std_dev=1.421
C2' B 0, -0.412, 1.034, 2.479, 3.078 max_d=3.078 avg_d=1.034 std_dev=1.446
O4' B 0, -0.418, 1.049, 2.516, 3.124 max_d=3.124 avg_d=1.049 std_dev=1.467
O2 B 0, -0.415, 1.062, 2.539, 3.151 max_d=3.151 avg_d=1.062 std_dev=1.477
C4' B 0, -0.453, 1.140, 2.734, 3.394 max_d=3.394 avg_d=1.140 std_dev=1.594
C2 B 0, -0.460, 1.150, 2.760, 3.427 max_d=3.427 avg_d=1.150 std_dev=1.610
C3' B 0, -0.500, 1.237, 2.974, 3.694 max_d=3.694 avg_d=1.237 std_dev=1.737
O5' A 0, -0.645, 1.579, 3.804, 4.725 max_d=4.725 avg_d=1.579 std_dev=2.225
O2' B 0, -0.708, 1.767, 4.241, 5.266 max_d=5.266 avg_d=1.767 std_dev=2.474
C5 B 0, -0.724, 1.810, 4.345, 5.395 max_d=5.395 avg_d=1.810 std_dev=2.535
N3 B 0, -0.765, 1.887, 4.539, 5.638 max_d=5.638 avg_d=1.887 std_dev=2.652
OP2 A 0, -0.791, 1.925, 4.640, 5.765 max_d=5.765 avg_d=1.925 std_dev=2.716
P A 0, -0.821, 2.003, 4.826, 5.996 max_d=5.996 avg_d=2.003 std_dev=2.824
O3' B 0, -0.858, 2.092, 5.042, 6.264 max_d=6.264 avg_d=2.092 std_dev=2.950
C4 B 0, -0.909, 2.235, 5.378, 6.680 max_d=6.680 avg_d=2.235 std_dev=3.143
OP1 A 0, -0.923, 2.249, 5.422, 6.736 max_d=6.736 avg_d=2.249 std_dev=3.172
N4 B 0, -1.245, 3.060, 7.364, 9.147 max_d=9.147 avg_d=3.060 std_dev=4.304

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 0.02 0.02 0.00 0.01 0.04 0.01 0.02 0.03 0.02 0.03 0.03 0.08 0.00 0.03 0.11 0.76 0.36
C2 0.02 0.00 0.24 0.32 0.00 0.05 0.00 0.01 0.00 0.00 0.00 0.00 0.00 0.01 0.21 0.10 0.03 0.23 0.74 0.41
C2' 0.00 0.24 0.00 0.00 0.04 0.03 0.14 0.12 0.19 0.02 0.19 0.04 0.42 0.00 0.05 0.01 0.07 0.06 0.50 0.16
C3' 0.02 0.32 0.00 0.00 0.33 0.00 0.23 0.02 0.16 0.21 0.36 0.35 0.33 0.00 0.02 0.02 0.34 0.50 0.11 0.32
C4 0.02 0.00 0.04 0.33 0.00 0.12 0.00 0.08 0.01 0.01 0.00 0.00 0.01 0.22 0.28 0.00 0.17 0.45 0.82 0.45
C4' 0.00 0.05 0.03 0.00 0.12 0.00 0.14 0.00 0.14 0.08 0.08 0.12 0.01 0.26 0.03 0.00 0.00 0.25 0.30 0.02
C5 0.01 0.00 0.14 0.23 0.00 0.14 0.00 0.11 0.00 0.00 0.00 0.01 0.01 0.32 0.22 0.09 0.24 0.52 0.96 0.46
C5' 0.04 0.01 0.12 0.02 0.08 0.00 0.11 0.00 0.10 0.03 0.04 0.10 0.03 0.13 0.15 0.01 0.00 0.18 0.24 0.01
C6 0.01 0.00 0.19 0.16 0.01 0.14 0.00 0.10 0.00 0.00 0.00 0.01 0.00 0.30 0.13 0.13 0.21 0.42 1.02 0.46
N1 0.02 0.00 0.02 0.21 0.01 0.08 0.00 0.03 0.00 0.00 0.01 0.01 0.00 0.12 0.12 0.00 0.07 0.25 0.85 0.41
N3 0.03 0.00 0.19 0.36 0.00 0.08 0.00 0.04 0.00 0.01 0.00 0.01 0.01 0.07 0.28 0.07 0.09 0.32 0.74 0.42
N4 0.02 0.00 0.04 0.35 0.00 0.12 0.01 0.10 0.01 0.01 0.01 0.00 0.01 0.24 0.32 0.00 0.19 0.51 0.75 0.44
O2 0.03 0.00 0.42 0.33 0.01 0.01 0.01 0.03 0.00 0.00 0.01 0.01 0.00 0.23 0.19 0.16 0.04 0.11 0.63 0.36
O2' 0.03 0.01 0.00 0.00 0.22 0.26 0.32 0.13 0.30 0.12 0.07 0.24 0.23 0.00 0.01 0.19 0.22 0.32 0.43 0.01
O3' 0.08 0.21 0.05 0.02 0.28 0.03 0.22 0.15 0.13 0.12 0.28 0.32 0.19 0.01 0.00 0.03 0.48 1.05 0.57 0.72
O4' 0.00 0.10 0.01 0.02 0.00 0.00 0.09 0.01 0.13 0.00 0.07 0.00 0.16 0.19 0.03 0.00 0.18 0.14 0.79 0.42
O5' 0.03 0.03 0.07 0.34 0.17 0.00 0.24 0.00 0.21 0.07 0.09 0.19 0.04 0.22 0.48 0.18 0.00 0.02 0.01 0.00
OP1 0.11 0.23 0.06 0.50 0.45 0.25 0.52 0.18 0.42 0.25 0.32 0.51 0.11 0.32 1.05 0.14 0.02 0.00 0.01 0.00
OP2 0.76 0.74 0.50 0.11 0.82 0.30 0.96 0.24 1.02 0.85 0.74 0.75 0.63 0.43 0.57 0.79 0.01 0.01 0.00 0.01
P 0.36 0.41 0.16 0.32 0.45 0.02 0.46 0.01 0.46 0.41 0.42 0.44 0.36 0.01 0.72 0.42 0.00 0.00 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.24 1.07 0.74 0.99 0.87 0.32 0.33 0.32 0.15 0.47 1.26 0.98 1.31 0.73 1.42 0.35 0.54 0.50 0.15 0.05
C2 0.60 0.54 0.16 0.45 0.39 0.22 0.68 0.01 0.37 0.25 0.17 0.59 1.05 0.21 0.61 0.78 0.27 0.56 0.15 0.02
C2' 0.25 1.09 0.78 1.15 0.88 0.42 0.29 0.47 0.11 0.47 1.28 1.03 1.41 0.77 1.69 0.34 0.66 0.18 0.30 0.24
C3' 0.07 0.94 1.21 1.48 1.15 0.71 0.57 0.60 0.20 0.35 1.35 1.49 1.04 1.42 2.17 0.09 0.64 0.31 0.01 0.07
C4 0.82 0.53 0.06 0.28 0.38 0.49 0.68 0.21 0.27 0.39 0.15 0.63 0.92 0.47 0.43 1.13 0.05 0.54 0.09 0.10
C4' 0.51 0.73 1.63 1.80 1.29 1.12 0.65 0.90 0.10 0.10 1.35 1.79 0.68 1.99 2.49 0.37 0.92 0.24 0.15 0.23
C5 0.66 0.89 0.27 0.66 0.44 0.13 0.08 0.03 0.17 0.62 0.78 0.35 1.09 0.04 0.99 0.91 0.27 0.50 0.09 0.05
C5' 0.83 0.61 2.02 2.25 1.48 1.56 0.81 1.26 0.09 0.04 1.38 2.16 0.45 2.52 3.14 0.71 1.17 0.02 0.22 0.41
C6 0.49 1.10 0.54 0.93 0.86 0.14 0.40 0.21 0.30 0.67 1.17 0.87 1.24 0.42 1.35 0.66 0.45 0.49 0.12 0.01
N1 0.46 0.96 0.50 0.81 0.47 0.09 0.02 0.18 0.03 0.49 0.91 0.44 1.26 0.33 1.14 0.61 0.43 0.53 0.15 0.02
N3 0.78 0.35 0.11 0.20 0.80 0.50 1.04 0.20 0.52 0.21 0.17 1.11 0.88 0.59 0.28 1.03 0.09 0.56 0.12 0.07
N4 0.89 0.33 0.30 0.01 0.71 0.77 0.94 0.44 0.37 0.30 0.14 1.06 0.75 0.78 0.05 1.29 0.24 0.51 0.02 0.19
O2 0.51 0.30 0.11 0.36 0.71 0.22 0.88 0.02 0.52 0.07 0.14 0.96 0.92 0.29 0.46 0.66 0.27 0.57 0.16 0.01
O2' 0.47 1.23 0.43 0.81 0.87 0.19 0.28 0.30 0.18 0.61 1.36 0.96 1.65 0.38 1.29 0.50 0.59 0.25 0.42 0.25
O3' 0.21 0.74 1.30 1.52 1.00 0.78 0.46 0.64 0.09 0.20 1.15 1.36 0.82 1.56 2.20 0.02 0.65 0.33 0.04 0.06
O4' 0.35 0.81 1.41 1.54 1.22 0.88 0.58 0.71 0.11 0.18 1.37 1.58 0.80 1.61 2.06 0.20 0.82 0.41 0.18 0.16
O5' 1.29 0.12 2.55 2.78 1.02 2.02 0.44 1.65 0.30 0.48 0.86 1.66 0.06 3.02 3.69 1.14 1.42 0.23 0.22 0.56
OP1 1.77 0.14 2.94 3.56 0.73 2.96 0.01 2.78 0.82 0.90 0.65 1.49 0.23 3.35 4.74 1.86 2.49 1.70 1.31 1.78
OP2 1.79 0.60 2.98 3.55 0.12 2.68 0.75 2.56 1.32 1.24 0.08 0.40 0.55 3.02 4.34 1.68 2.42 1.55 1.32 1.72
P 1.84 0.38 3.06 3.60 0.44 2.83 0.21 2.57 0.96 1.06 0.33 1.11 0.47 3.35 4.65 1.80 2.30 1.29 1.03 1.48

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.01 0.00 0.02 0.01 0.00 0.00 0.02 0.00 0.01 0.01 0.01 0.00 0.01 0.01 0.00 0.04 0.86 0.32 0.33
C2 0.01 0.00 0.08 0.12 0.00 0.02 0.00 0.02 0.00 0.00 0.00 0.00 0.00 0.02 0.13 0.04 0.18 1.25 0.21 0.37
C2' 0.00 0.08 0.00 0.00 0.01 0.01 0.05 0.01 0.06 0.01 0.07 0.01 0.13 0.00 0.01 0.00 0.27 0.36 0.16 0.03
C3' 0.02 0.12 0.00 0.00 0.09 0.00 0.05 0.02 0.02 0.07 0.13 0.09 0.13 0.01 0.01 0.01 0.39 0.03 0.40 0.24
C4 0.01 0.00 0.01 0.09 0.00 0.03 0.00 0.05 0.00 0.00 0.00 0.00 0.01 0.03 0.12 0.00 0.33 1.43 0.09 0.29
C4' 0.00 0.02 0.01 0.00 0.03 0.00 0.04 0.01 0.04 0.02 0.03 0.03 0.00 0.06 0.00 0.00 0.03 0.26 0.16 0.12
C5 0.00 0.00 0.05 0.05 0.00 0.04 0.00 0.07 0.00 0.00 0.00 0.00 0.00 0.06 0.07 0.04 0.38 1.39 0.23 0.23
C5' 0.02 0.02 0.01 0.02 0.05 0.01 0.07 0.00 0.07 0.04 0.03 0.05 0.01 0.07 0.04 0.02 0.01 0.07 0.02 0.01
C6 0.00 0.00 0.06 0.02 0.00 0.04 0.00 0.07 0.00 0.00 0.01 0.00 0.00 0.06 0.04 0.05 0.32 1.26 0.09 0.26
N1 0.01 0.00 0.01 0.07 0.00 0.02 0.00 0.04 0.00 0.00 0.01 0.00 0.00 0.02 0.07 0.00 0.19 1.15 0.16 0.33
N3 0.01 0.00 0.07 0.13 0.00 0.03 0.00 0.03 0.01 0.01 0.00 0.00 0.01 0.01 0.15 0.03 0.25 1.38 0.09 0.35
N4 0.01 0.00 0.01 0.09 0.00 0.03 0.00 0.05 0.00 0.00 0.00 0.00 0.01 0.03 0.13 0.00 0.36 1.46 0.18 0.27
O2 0.00 0.00 0.13 0.13 0.01 0.00 0.00 0.01 0.00 0.00 0.01 0.01 0.00 0.05 0.14 0.08 0.11 1.15 0.34 0.39
O2' 0.01 0.02 0.00 0.01 0.03 0.06 0.06 0.07 0.06 0.02 0.01 0.03 0.05 0.00 0.01 0.04 0.05 0.29 0.08 0.09
O3' 0.01 0.13 0.01 0.01 0.12 0.00 0.07 0.04 0.04 0.07 0.15 0.13 0.14 0.01 0.00 0.00 0.35 0.42 0.54 0.40
O4' 0.00 0.04 0.00 0.01 0.00 0.00 0.04 0.02 0.05 0.00 0.03 0.00 0.08 0.04 0.00 0.00 0.21 0.86 0.61 0.51
O5' 0.04 0.18 0.27 0.39 0.33 0.03 0.38 0.01 0.32 0.19 0.25 0.36 0.11 0.05 0.35 0.21 0.00 0.01 0.01 0.01
OP1 0.86 1.25 0.36 0.03 1.43 0.26 1.39 0.07 1.26 1.15 1.38 1.46 1.15 0.29 0.42 0.86 0.01 0.00 0.00 0.00
OP2 0.32 0.21 0.16 0.40 0.09 0.16 0.23 0.02 0.09 0.16 0.09 0.18 0.34 0.08 0.54 0.61 0.01 0.00 0.00 0.00
P 0.33 0.37 0.03 0.24 0.29 0.12 0.23 0.01 0.26 0.33 0.35 0.27 0.39 0.09 0.40 0.51 0.01 0.00 0.00 0.00