ClaRNA

Doublet Group distance statistics: 20459

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Distances from reference structure (by RMSD)

4, 33, 32, 17, 0, 1, 0, 0, 1, 0, 0, 17, 4, 1, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N3 B 0, 0.759, 2.349, 3.939, 3.903 max_d=3.903 avg_d=2.349 std_dev=1.590
N3 A 0, 0.731, 2.360, 3.989, 4.032 max_d=4.032 avg_d=2.360 std_dev=1.629
O2 A 0, 0.740, 2.719, 4.698, 5.972 max_d=5.972 avg_d=2.719 std_dev=1.979
O2 B 0, 0.778, 2.783, 4.788, 5.723 max_d=5.723 avg_d=2.783 std_dev=2.005
C2 A 0, 0.783, 2.847, 4.910, 5.389 max_d=5.389 avg_d=2.847 std_dev=2.064
C2 B 0, 0.799, 2.868, 4.937, 5.323 max_d=5.323 avg_d=2.868 std_dev=2.069
C4 B 0, 1.079, 3.808, 6.538, 6.565 max_d=6.565 avg_d=3.808 std_dev=2.729
C4 A 0, 1.093, 3.853, 6.613, 6.642 max_d=6.642 avg_d=3.853 std_dev=2.760
O4 B 0, 1.262, 4.369, 7.475, 7.731 max_d=7.731 avg_d=4.369 std_dev=3.106
O4 A 0, 1.294, 4.431, 7.567, 7.776 max_d=7.776 avg_d=4.431 std_dev=3.136
N1 B 0, 1.174, 4.511, 7.848, 7.686 max_d=7.686 avg_d=4.511 std_dev=3.337
N1 A 0, 1.159, 4.502, 7.845, 7.697 max_d=7.697 avg_d=4.502 std_dev=3.343
C5 B 0, 1.423, 5.204, 8.984, 8.537 max_d=8.537 avg_d=5.204 std_dev=3.780
C5 A 0, 1.428, 5.239, 9.051, 8.623 max_d=8.623 avg_d=5.239 std_dev=3.811
C6 B 0, 1.441, 5.421, 9.401, 8.646 max_d=8.646 avg_d=5.421 std_dev=3.980
C6 A 0, 1.436, 5.435, 9.434, 8.723 max_d=8.723 avg_d=5.435 std_dev=3.999
C1' A 0, 1.590, 5.842, 10.094, 9.954 max_d=9.954 avg_d=5.842 std_dev=4.252
C1' B 0, 1.592, 5.859, 10.126, 9.985 max_d=9.985 avg_d=5.859 std_dev=4.267
C2' B 0, 1.792, 6.193, 10.595, 10.585 max_d=10.585 avg_d=6.193 std_dev=4.402
C2' A 0, 2.197, 6.625, 11.053, 11.195 max_d=11.195 avg_d=6.625 std_dev=4.428
O2' A 0, 2.937, 7.617, 12.297, 12.629 max_d=12.629 avg_d=7.617 std_dev=4.680
O2' B 0, 2.049, 7.100, 12.150, 12.269 max_d=12.269 avg_d=7.100 std_dev=5.050
O4' A 0, 2.302, 7.401, 12.501, 12.164 max_d=12.164 avg_d=7.401 std_dev=5.100
O4' B 0, 2.135, 7.262, 12.390, 12.143 max_d=12.143 avg_d=7.262 std_dev=5.128
C3' B 0, 2.289, 7.447, 12.606, 12.752 max_d=12.752 avg_d=7.447 std_dev=5.159
C3' A 0, 2.934, 8.121, 13.308, 13.623 max_d=13.623 avg_d=8.121 std_dev=5.187
O3' A 0, 3.690, 9.257, 14.824, 14.925 max_d=14.925 avg_d=9.257 std_dev=5.567
C4' B 0, 2.503, 8.290, 14.078, 14.062 max_d=14.062 avg_d=8.290 std_dev=5.787
C4' A 0, 3.022, 8.892, 14.761, 14.246 max_d=14.246 avg_d=8.892 std_dev=5.869
O5' B 0, 2.681, 8.551, 14.421, 16.421 max_d=16.421 avg_d=8.551 std_dev=5.870
O3' B 0, 2.707, 8.586, 14.465, 14.400 max_d=14.400 avg_d=8.586 std_dev=5.879
O5' A 0, 3.722, 9.939, 16.156, 15.774 max_d=15.774 avg_d=9.939 std_dev=6.217
C5' B 0, 2.799, 9.098, 15.398, 15.936 max_d=15.936 avg_d=9.098 std_dev=6.300
P B 0, 3.230, 9.608, 15.986, 18.288 max_d=18.288 avg_d=9.608 std_dev=6.378
OP1 B 0, 4.037, 10.434, 16.830, 18.419 max_d=18.419 avg_d=10.434 std_dev=6.396
OP2 B 0, 3.705, 10.138, 16.570, 20.777 max_d=20.777 avg_d=10.138 std_dev=6.432
C5' A 0, 3.733, 10.326, 16.919, 16.096 max_d=16.096 avg_d=10.326 std_dev=6.593
OP2 A 0, 4.307, 11.153, 17.998, 18.663 max_d=18.663 avg_d=11.153 std_dev=6.846
P A 0, 4.212, 11.408, 18.603, 18.415 max_d=18.415 avg_d=11.408 std_dev=7.195
OP1 A 0, 4.729, 12.815, 20.901, 20.282 max_d=20.282 avg_d=12.815 std_dev=8.086

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 0.03 0.01 0.02 0.03 0.01 0.02 0.06 0.02 0.02 0.03 0.06 0.03 0.34 0.03 0.01 0.13 0.39 0.38 0.24
C2 0.03 0.00 0.23 0.26 0.01 0.12 0.02 0.18 0.01 0.01 0.01 0.01 0.28 0.21 0.02 0.22 0.21 0.43 0.44 0.24
C2' 0.01 0.23 0.00 0.01 0.07 0.02 0.16 0.20 0.22 0.04 0.17 0.39 0.01 0.04 0.08 0.02 0.45 0.73 0.74 0.58
C3' 0.02 0.26 0.01 0.00 0.44 0.01 0.46 0.02 0.40 0.26 0.35 0.19 0.03 0.01 0.47 0.03 0.16 0.64 0.32 0.28
C4 0.03 0.01 0.07 0.44 0.00 0.20 0.01 0.28 0.01 0.02 0.01 0.02 0.42 0.20 0.01 0.04 0.47 0.62 0.79 0.55
C4' 0.01 0.12 0.02 0.01 0.20 0.00 0.31 0.01 0.31 0.12 0.12 0.26 0.33 0.02 0.21 0.01 0.02 0.27 0.24 0.09
C5 0.02 0.02 0.16 0.46 0.01 0.31 0.00 0.42 0.00 0.01 0.01 0.02 0.54 0.28 0.01 0.17 0.59 0.67 0.82 0.66
C5' 0.06 0.18 0.20 0.02 0.28 0.01 0.42 0.00 0.39 0.14 0.19 0.33 0.13 0.22 0.31 0.02 0.01 0.14 0.20 0.02
C6 0.02 0.01 0.22 0.40 0.01 0.31 0.00 0.39 0.00 0.01 0.01 0.02 0.52 0.22 0.01 0.23 0.50 0.52 0.59 0.50
N1 0.02 0.01 0.04 0.26 0.02 0.12 0.01 0.14 0.01 0.00 0.01 0.02 0.24 0.11 0.02 0.03 0.23 0.39 0.41 0.26
N3 0.03 0.01 0.17 0.35 0.01 0.12 0.01 0.19 0.01 0.01 0.00 0.01 0.32 0.13 0.01 0.16 0.31 0.50 0.60 0.36
O2 0.06 0.01 0.39 0.19 0.02 0.26 0.02 0.33 0.02 0.02 0.01 0.00 0.46 0.40 0.02 0.39 0.23 0.46 0.38 0.22
O2' 0.03 0.28 0.01 0.03 0.42 0.33 0.54 0.13 0.52 0.24 0.32 0.46 0.00 0.07 0.45 0.23 0.33 0.71 0.82 0.52
O3' 0.34 0.21 0.04 0.01 0.20 0.02 0.28 0.22 0.22 0.11 0.13 0.40 0.07 0.00 0.24 0.21 0.27 0.80 0.39 0.39
O4 0.03 0.02 0.08 0.47 0.01 0.21 0.01 0.31 0.01 0.02 0.01 0.02 0.45 0.24 0.00 0.04 0.51 0.71 0.90 0.63
O4' 0.01 0.22 0.02 0.03 0.04 0.01 0.17 0.02 0.23 0.03 0.16 0.39 0.23 0.21 0.04 0.00 0.11 0.25 0.32 0.21
O5' 0.13 0.21 0.45 0.16 0.47 0.02 0.59 0.01 0.50 0.23 0.31 0.23 0.33 0.27 0.51 0.11 0.00 0.02 0.02 0.01
OP1 0.39 0.43 0.73 0.64 0.62 0.27 0.67 0.14 0.52 0.39 0.50 0.46 0.71 0.80 0.71 0.25 0.02 0.00 0.02 0.01
OP2 0.38 0.44 0.74 0.32 0.79 0.24 0.82 0.20 0.59 0.41 0.60 0.38 0.82 0.39 0.90 0.32 0.02 0.02 0.00 0.01
P 0.24 0.24 0.58 0.28 0.55 0.09 0.66 0.02 0.50 0.26 0.36 0.22 0.52 0.39 0.63 0.21 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 1.00 0.99 1.13 0.97 0.41 1.11 0.35 1.51 0.56 0.85 0.77 1.27 1.38 0.98 0.29 1.02 0.97 1.06 1.36 0.96
C2 0.98 0.93 1.14 0.96 0.22 1.10 0.18 1.51 0.38 0.76 0.58 1.33 1.41 0.97 0.56 0.98 0.96 1.00 1.32 0.94
C2' 1.00 1.01 1.12 1.00 0.71 1.21 0.67 1.67 0.72 0.89 0.88 1.22 1.36 1.02 0.73 1.14 1.13 1.37 1.54 1.22
C3' 0.88 0.86 1.00 0.94 0.52 1.21 0.47 1.75 0.58 0.77 0.71 1.06 1.19 0.95 0.48 1.10 1.23 1.43 1.72 1.33
C4 0.49 0.23 0.75 0.78 0.90 1.01 0.71 1.80 0.36 0.22 0.56 0.57 1.10 0.76 1.30 0.68 1.51 1.65 1.95 1.62
C4' 1.03 0.99 1.06 0.96 0.63 1.17 0.62 1.63 0.75 0.92 0.83 1.17 1.26 0.93 0.52 1.13 1.16 1.23 1.64 1.20
C5 0.46 0.23 0.70 0.76 0.72 1.01 0.58 1.83 0.30 0.23 0.42 0.51 1.04 0.75 1.07 0.68 1.57 1.78 2.07 1.72
C5' 0.97 0.86 0.95 0.91 0.60 1.18 0.65 1.73 0.74 0.85 0.70 1.00 1.15 0.86 0.54 1.11 1.33 1.45 1.85 1.43
C6 0.64 0.45 0.84 0.81 0.39 1.03 0.32 1.73 0.17 0.39 0.20 0.78 1.14 0.82 0.73 0.78 1.35 1.53 1.85 1.47
N1 0.87 0.78 1.03 0.90 0.21 1.07 0.18 1.59 0.34 0.66 0.47 1.13 1.31 0.92 0.47 0.92 1.09 1.18 1.50 1.12
N3 0.79 0.59 1.00 0.88 0.59 1.05 0.45 1.62 0.17 0.48 0.25 1.09 1.31 0.89 1.10 0.84 1.15 1.20 1.52 1.19
O2 1.22 1.30 1.34 1.09 0.48 1.18 0.39 1.37 0.68 1.07 1.05 1.62 1.57 1.09 0.30 1.15 0.80 0.80 1.06 0.67
O2' 1.32 1.35 1.44 1.23 1.10 1.33 1.04 1.58 1.09 1.24 1.25 1.53 1.73 1.29 1.09 1.33 1.11 1.33 1.46 1.14
O3' 1.09 1.11 1.09 0.95 0.89 1.22 0.82 1.65 0.88 1.02 1.03 1.25 1.31 0.96 0.86 1.24 1.14 1.24 1.67 1.21
O4 0.34 0.47 0.60 0.76 1.26 1.01 1.02 1.90 0.65 0.39 1.01 0.30 1.00 0.70 1.58 0.59 1.75 1.91 2.15 1.87
O4' 1.13 1.07 1.16 1.04 0.64 1.19 0.65 1.57 0.80 0.99 0.88 1.28 1.37 1.01 0.51 1.14 1.13 1.13 1.54 1.12
O5' 0.68 0.55 0.77 0.83 0.37 1.13 0.39 1.85 0.43 0.54 0.39 0.73 0.96 0.79 0.48 0.93 1.50 1.74 2.08 1.66
OP1 0.46 0.44 0.49 0.64 0.67 0.95 0.66 1.80 0.55 0.46 0.51 0.46 0.68 0.62 0.83 0.74 1.58 1.93 2.32 1.82
OP2 0.64 0.60 0.92 1.10 0.72 1.27 0.67 2.12 0.58 0.58 0.64 0.67 1.05 1.13 0.87 0.89 1.96 2.39 2.59 2.20
P 0.49 0.37 0.65 0.76 0.43 1.03 0.41 1.86 0.34 0.37 0.32 0.51 0.89 0.77 0.60 0.75 1.61 1.95 2.25 1.81

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.04 0.01 0.03 0.03 0.01 0.03 0.11 0.02 0.02 0.03 0.06 0.03 0.26 0.03 0.01 0.34 0.40 0.36 0.21
C2 0.04 0.00 0.18 0.24 0.01 0.31 0.02 0.66 0.01 0.01 0.01 0.01 0.17 0.21 0.02 0.25 0.26 0.51 0.60 0.28
C2' 0.01 0.18 0.00 0.01 0.07 0.03 0.15 0.21 0.18 0.04 0.13 0.33 0.01 0.05 0.08 0.02 0.25 0.41 0.46 0.28
C3' 0.03 0.24 0.01 0.00 0.38 0.01 0.50 0.02 0.48 0.23 0.27 0.43 0.03 0.02 0.39 0.03 0.18 0.43 0.39 0.22
C4 0.03 0.01 0.07 0.38 0.00 0.14 0.01 0.24 0.01 0.02 0.01 0.02 0.30 0.29 0.01 0.05 0.88 1.25 1.14 0.90
C4' 0.01 0.31 0.03 0.01 0.14 0.00 0.35 0.01 0.40 0.08 0.23 0.61 0.31 0.04 0.14 0.01 0.02 0.26 0.35 0.19
C5 0.03 0.02 0.15 0.50 0.01 0.35 0.00 0.51 0.01 0.02 0.02 0.02 0.33 0.32 0.01 0.18 1.36 1.68 1.57 1.39
C5' 0.11 0.66 0.21 0.02 0.24 0.01 0.51 0.00 0.56 0.16 0.54 1.16 0.15 0.22 0.26 0.02 0.02 0.38 0.42 0.02
C6 0.02 0.01 0.18 0.48 0.01 0.40 0.01 0.56 0.00 0.01 0.02 0.02 0.30 0.26 0.01 0.25 1.33 1.47 1.35 1.25
N1 0.02 0.01 0.04 0.23 0.02 0.08 0.02 0.16 0.01 0.00 0.02 0.02 0.17 0.16 0.02 0.03 0.61 0.74 0.64 0.50
N3 0.03 0.01 0.13 0.27 0.01 0.23 0.02 0.54 0.02 0.02 0.00 0.01 0.23 0.23 0.01 0.19 0.40 0.74 0.73 0.39
O2 0.06 0.01 0.33 0.43 0.02 0.61 0.02 1.16 0.02 0.02 0.01 0.00 0.23 0.32 0.02 0.42 0.67 0.70 0.94 0.73
O2' 0.03 0.17 0.01 0.03 0.30 0.31 0.33 0.15 0.30 0.17 0.23 0.23 0.00 0.07 0.32 0.21 0.24 0.43 0.48 0.26
O3' 0.26 0.21 0.05 0.02 0.29 0.04 0.32 0.22 0.26 0.16 0.23 0.32 0.07 0.00 0.33 0.21 0.24 0.63 0.51 0.30
O4 0.03 0.02 0.08 0.39 0.01 0.14 0.01 0.26 0.01 0.02 0.01 0.02 0.32 0.33 0.00 0.06 0.90 1.35 1.24 0.97
O4' 0.01 0.25 0.02 0.03 0.05 0.01 0.18 0.02 0.25 0.03 0.19 0.42 0.21 0.21 0.06 0.00 0.31 0.32 0.33 0.18
O5' 0.34 0.26 0.25 0.18 0.88 0.02 1.36 0.02 1.33 0.61 0.40 0.67 0.24 0.24 0.90 0.31 0.00 0.03 0.03 0.01
OP1 0.40 0.51 0.41 0.43 1.25 0.26 1.68 0.38 1.47 0.74 0.74 0.70 0.43 0.63 1.35 0.32 0.03 0.00 0.02 0.01
OP2 0.36 0.60 0.46 0.39 1.14 0.35 1.57 0.42 1.35 0.64 0.73 0.94 0.48 0.51 1.24 0.33 0.03 0.02 0.00 0.01
P 0.21 0.28 0.28 0.22 0.90 0.19 1.39 0.02 1.25 0.50 0.39 0.73 0.26 0.30 0.97 0.18 0.01 0.01 0.01 0.00