ClaRNA

Doublet Group distance statistics: 49162

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Distances from reference structure (by RMSD)

1, 0, 0, 0, 0, 0, 0, 0, 1, 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
N3 A 0, 0.001, 0.006, 0.011, 0.013 max_d=0.013 avg_d=0.006 std_dev=0.005
C4 A 0, 0.003, 0.009, 0.016, 0.017 max_d=0.017 avg_d=0.009 std_dev=0.006
C6 A 0, 0.004, 0.010, 0.017, 0.017 max_d=0.017 avg_d=0.010 std_dev=0.007
C1' A 0, 0.005, 0.011, 0.018, 0.017 max_d=0.017 avg_d=0.011 std_dev=0.007
C5 A 0, 0.006, 0.014, 0.022, 0.019 max_d=0.019 avg_d=0.014 std_dev=0.008
C2 A 0, 0.006, 0.015, 0.025, 0.022 max_d=0.022 avg_d=0.015 std_dev=0.009
N1 A 0, 0.005, 0.018, 0.030, 0.029 max_d=0.029 avg_d=0.018 std_dev=0.012
O2 A 0, 0.013, 0.031, 0.050, 0.050 max_d=0.050 avg_d=0.031 std_dev=0.019
O4 A 0, 0.002, 0.038, 0.073, 0.096 max_d=0.096 avg_d=0.038 std_dev=0.035
C3' B 0, 0.297, 0.716, 1.134, 1.034 max_d=1.034 avg_d=0.716 std_dev=0.418
O2' B 0, 0.067, 0.508, 0.949, 1.212 max_d=1.212 avg_d=0.508 std_dev=0.441
C2' B 0, 0.188, 0.710, 1.232, 1.238 max_d=1.238 avg_d=0.710 std_dev=0.522
O4' A 0, 0.456, 1.322, 2.188, 2.431 max_d=2.431 avg_d=1.322 std_dev=0.866
C2' A 0, 0.502, 1.433, 2.365, 2.608 max_d=2.608 avg_d=1.433 std_dev=0.931
O2' A 0, 0.583, 1.701, 2.819, 3.139 max_d=3.139 avg_d=1.701 std_dev=1.118
C4' A 0, 0.688, 1.929, 3.170, 3.467 max_d=3.467 avg_d=1.929 std_dev=1.241
C4' B 0, 0.721, 2.080, 3.438, 3.350 max_d=3.350 avg_d=2.080 std_dev=1.358
O3' B 0, 0.591, 1.954, 3.318, 3.244 max_d=3.244 avg_d=1.954 std_dev=1.364
C5' B 0, 0.979, 2.386, 3.793, 3.471 max_d=3.471 avg_d=2.386 std_dev=1.407
C3' A 0, 0.786, 2.227, 3.667, 4.029 max_d=4.029 avg_d=2.227 std_dev=1.440
C1' B 0, 0.379, 2.145, 3.910, 3.952 max_d=3.952 avg_d=2.145 std_dev=1.766
O3' A 0, 1.084, 3.083, 5.083, 5.598 max_d=5.598 avg_d=3.083 std_dev=2.000
O4' B 0, 0.712, 2.805, 4.899, 4.892 max_d=4.892 avg_d=2.805 std_dev=2.093
O5' B 0, 1.580, 3.743, 5.907, 5.124 max_d=5.124 avg_d=3.743 std_dev=2.163
C5' A 0, 1.233, 3.435, 5.637, 6.141 max_d=6.141 avg_d=3.435 std_dev=2.202
O5' A 0, 1.533, 4.102, 6.671, 7.095 max_d=7.095 avg_d=4.102 std_dev=2.569
P B 0, 1.895, 4.541, 7.186, 6.633 max_d=6.633 avg_d=4.541 std_dev=2.646
N9 B 0, 0.824, 3.517, 6.211, 6.185 max_d=6.185 avg_d=3.517 std_dev=2.694
N3 B 0, 1.188, 4.145, 7.102, 6.969 max_d=6.969 avg_d=4.145 std_dev=2.957
OP1 B 0, 2.248, 5.342, 8.435, 7.510 max_d=7.510 avg_d=5.342 std_dev=3.093
OP2 B 0, 2.260, 5.442, 8.623, 7.729 max_d=7.729 avg_d=5.442 std_dev=3.181
C4 B 0, 1.074, 4.375, 7.677, 7.605 max_d=7.605 avg_d=4.375 std_dev=3.302
C8 B 0, 1.320, 4.633, 7.945, 7.830 max_d=7.830 avg_d=4.633 std_dev=3.313
P A 0, 2.264, 5.598, 8.931, 8.797 max_d=8.797 avg_d=5.598 std_dev=3.334
OP2 A 0, 2.596, 6.221, 9.845, 9.094 max_d=9.094 avg_d=6.221 std_dev=3.625
OP1 A 0, 2.640, 6.453, 10.266, 9.929 max_d=9.929 avg_d=6.453 std_dev=3.813
C2 B 0, 1.697, 5.546, 9.395, 9.164 max_d=9.164 avg_d=5.546 std_dev=3.849
N7 B 0, 1.652, 5.951, 10.251, 10.097 max_d=10.097 avg_d=5.951 std_dev=4.299
C5 B 0, 1.525, 5.866, 10.206, 10.077 max_d=10.077 avg_d=5.866 std_dev=4.340
N1 B 0, 2.020, 6.968, 11.916, 11.673 max_d=11.673 avg_d=6.968 std_dev=4.948
C6 B 0, 1.944, 7.154, 12.364, 12.164 max_d=12.164 avg_d=7.154 std_dev=5.210
N6 B 0, 2.385, 8.654, 14.923, 14.664 max_d=14.664 avg_d=8.654 std_dev=6.269

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 0.01 0.00 0.00 0.02 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.00 0.03 0.02 0.00 0.02 0.37 0.49 0.28
C2 0.01 0.00 0.25 0.18 0.01 0.10 0.01 0.18 0.01 0.00 0.00 0.00 0.27 0.25 0.01 0.16 0.22 0.91 0.72 0.60
C2' 0.00 0.25 0.00 0.01 0.02 0.01 0.18 0.00 0.24 0.01 0.18 0.45 0.01 0.04 0.03 0.01 0.02 0.23 0.30 0.14
C3' 0.00 0.18 0.01 0.00 0.05 0.00 0.23 0.00 0.28 0.04 0.13 0.34 0.00 0.00 0.04 0.01 0.03 0.19 0.17 0.07
C4 0.02 0.01 0.02 0.05 0.00 0.05 0.00 0.13 0.01 0.01 0.00 0.01 0.06 0.06 0.00 0.01 0.13 0.76 0.15 0.26
C4' 0.01 0.10 0.01 0.00 0.05 0.00 0.13 0.00 0.15 0.03 0.07 0.18 0.03 0.01 0.05 0.00 0.01 0.02 0.36 0.11
C5 0.01 0.01 0.18 0.23 0.00 0.13 0.00 0.24 0.00 0.01 0.01 0.01 0.13 0.28 0.01 0.14 0.29 0.42 0.24 0.07
C5' 0.01 0.18 0.00 0.00 0.13 0.00 0.24 0.00 0.25 0.08 0.16 0.30 0.03 0.01 0.14 0.01 0.01 0.16 0.21 0.01
C6 0.01 0.01 0.24 0.28 0.01 0.15 0.00 0.25 0.00 0.01 0.01 0.01 0.18 0.32 0.01 0.18 0.30 0.30 0.12 0.07
N1 0.01 0.00 0.01 0.04 0.01 0.03 0.01 0.08 0.01 0.00 0.01 0.01 0.03 0.03 0.01 0.00 0.06 0.55 0.39 0.29
N3 0.01 0.00 0.18 0.13 0.00 0.07 0.01 0.16 0.01 0.01 0.00 0.01 0.21 0.18 0.01 0.11 0.19 0.99 0.53 0.55
O2 0.01 0.00 0.45 0.34 0.01 0.18 0.01 0.30 0.01 0.01 0.01 0.00 0.48 0.47 0.01 0.29 0.37 1.04 1.06 0.82
O2' 0.00 0.27 0.01 0.00 0.06 0.03 0.13 0.03 0.18 0.03 0.21 0.48 0.00 0.05 0.07 0.04 0.01 0.19 0.40 0.15
O3' 0.03 0.25 0.04 0.00 0.06 0.01 0.28 0.01 0.32 0.03 0.18 0.47 0.05 0.00 0.05 0.01 0.07 0.37 0.12 0.18
O4 0.02 0.01 0.03 0.04 0.00 0.05 0.01 0.14 0.01 0.01 0.01 0.01 0.07 0.05 0.00 0.00 0.13 0.81 0.11 0.26
O4' 0.00 0.16 0.01 0.01 0.01 0.00 0.14 0.01 0.18 0.00 0.11 0.29 0.04 0.01 0.00 0.00 0.09 0.33 0.60 0.33
O5' 0.02 0.22 0.02 0.03 0.13 0.01 0.29 0.01 0.30 0.06 0.19 0.37 0.01 0.07 0.13 0.09 0.00 0.01 0.01 0.01
OP1 0.37 0.91 0.23 0.19 0.76 0.02 0.42 0.16 0.30 0.55 0.99 1.04 0.19 0.37 0.81 0.33 0.01 0.00 0.01 0.01
OP2 0.49 0.72 0.30 0.17 0.15 0.36 0.24 0.21 0.12 0.39 0.53 1.06 0.40 0.12 0.11 0.60 0.01 0.01 0.00 0.00
P 0.28 0.60 0.14 0.07 0.26 0.11 0.07 0.01 0.07 0.29 0.55 0.82 0.15 0.18 0.26 0.33 0.01 0.01 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.78 1.35 0.40 0.21 1.70 0.34 2.47 0.75 2.53 2.45 1.97 1.09 3.03 2.93 1.64 0.28 1.24 0.68 1.64 2.70 1.64 2.25
C2 0.86 2.01 0.43 0.16 2.16 0.35 3.04 0.70 3.32 2.61 2.78 1.59 3.91 3.30 1.88 0.21 1.01 0.69 1.56 2.45 1.36 2.00
C2' 1.47 1.40 0.94 0.65 2.05 1.06 2.79 1.64 2.68 3.12 2.00 1.28 3.14 3.46 2.22 0.26 0.83 1.55 2.57 3.77 2.69 3.28
C3' 1.41 0.99 1.01 0.62 1.65 1.08 2.19 1.71 2.00 2.70 1.42 0.97 2.33 2.81 1.94 0.37 0.56 1.52 2.53 3.42 2.82 3.25
C4 0.69 2.13 0.35 0.13 2.04 0.33 2.71 0.53 3.04 2.09 2.75 1.68 3.37 2.67 1.63 0.14 0.69 0.48 1.19 1.63 0.81 1.39
C4' 0.67 0.88 0.58 0.24 1.13 0.12 1.64 0.68 1.60 1.86 1.20 0.75 1.93 2.08 1.22 0.39 1.26 0.56 1.44 2.36 1.83 2.17
C5 0.61 1.62 0.35 0.14 1.74 0.36 2.26 0.50 2.39 1.88 2.09 1.34 2.62 2.30 1.47 0.19 0.74 0.40 1.10 1.43 0.72 1.26
C5' 0.57 1.03 0.78 0.70 0.90 0.32 1.14 0.30 1.16 1.25 1.07 0.92 1.34 1.39 0.87 0.69 1.55 0.28 0.77 1.47 1.30 1.43
C6 0.67 1.39 0.39 0.18 1.66 0.38 2.26 0.59 2.31 2.09 1.89 1.15 2.61 2.49 1.53 0.25 0.98 0.50 1.29 1.80 0.99 1.57
N1 0.79 1.61 0.42 0.18 1.89 0.36 2.66 0.69 2.78 2.45 2.25 1.31 3.24 2.99 1.73 0.24 1.09 0.64 1.53 2.35 1.34 1.96
N3 0.81 2.24 0.39 0.14 2.22 0.34 3.06 0.63 3.45 2.44 3.02 1.75 3.98 3.14 1.83 0.17 0.85 0.62 1.41 2.11 1.11 1.73
O2 0.91 2.09 0.44 0.17 2.23 0.35 3.19 0.76 3.52 2.76 2.93 1.64 4.25 3.51 1.95 0.21 1.07 0.77 1.68 2.77 1.57 2.22
O2' 1.47 1.42 0.93 0.73 2.07 1.09 2.87 1.68 2.80 3.17 2.08 1.29 3.35 3.57 2.22 0.29 0.97 1.58 2.64 4.20 2.97 3.53
O3' 1.73 0.89 1.27 1.02 1.71 1.60 2.21 2.31 1.92 2.90 1.29 0.97 2.23 2.91 2.13 0.61 0.23 1.99 3.09 4.10 3.74 4.05
O4 0.61 2.32 0.30 0.10 1.99 0.30 2.58 0.47 3.02 1.87 2.91 1.78 3.31 2.44 1.50 0.08 0.51 0.40 1.06 1.38 0.66 1.19
O4' 0.40 1.04 0.44 0.56 1.17 0.45 1.77 0.16 1.86 1.73 1.46 0.83 2.27 2.13 1.08 0.66 1.64 0.11 0.98 1.94 1.14 1.62
O5' 0.73 1.20 0.97 0.80 1.03 0.35 1.18 0.52 1.21 1.27 1.20 1.09 1.31 1.35 0.99 0.82 1.42 0.43 0.84 1.26 1.23 1.33
OP1 0.69 1.64 0.93 1.05 1.22 0.59 1.23 0.56 1.44 0.82 1.63 1.45 1.43 0.99 0.90 0.66 1.36 0.51 0.28 0.16 0.51 0.31
OP2 1.10 2.04 1.36 1.18 1.58 0.69 1.54 0.49 1.74 1.14 1.97 1.87 1.71 1.29 1.27 1.24 1.28 0.75 0.27 0.13 0.42 0.37
P 0.95 1.73 1.22 1.26 1.35 0.80 1.30 0.54 1.46 0.98 1.65 1.60 1.43 1.10 1.08 1.03 1.75 0.71 0.22 0.19 0.44 0.36

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.09 0.00 0.01 0.05 0.01 0.03 0.08 0.05 0.02 0.07 0.09 0.03 0.00 0.01 0.04 0.27 0.00 0.21 0.36 0.41 0.24
C2 0.09 0.00 0.46 0.65 0.01 0.33 0.01 0.24 0.01 0.01 0.00 0.00 0.01 0.01 0.02 0.10 0.47 0.07 0.34 0.51 0.44 0.41
C2' 0.00 0.46 0.00 0.00 0.24 0.01 0.14 0.21 0.23 0.12 0.37 0.46 0.18 0.04 0.03 0.00 0.01 0.00 0.33 0.20 0.29 0.30
C3' 0.01 0.65 0.00 0.00 0.45 0.00 0.44 0.02 0.54 0.16 0.63 0.59 0.51 0.28 0.23 0.01 0.00 0.02 0.14 0.27 0.24 0.12
C4 0.05 0.01 0.24 0.45 0.00 0.19 0.00 0.09 0.01 0.00 0.02 0.00 0.01 0.00 0.01 0.15 0.21 0.03 0.31 0.49 0.42 0.39
C4' 0.01 0.33 0.01 0.00 0.19 0.00 0.13 0.00 0.19 0.07 0.28 0.31 0.15 0.03 0.07 0.31 0.02 0.00 0.01 0.19 0.26 0.10
C5 0.03 0.01 0.14 0.44 0.00 0.13 0.00 0.03 0.00 0.00 0.01 0.01 0.00 0.00 0.01 0.20 0.24 0.01 0.37 0.55 0.40 0.46
C5' 0.08 0.24 0.21 0.02 0.09 0.00 0.03 0.00 0.09 0.20 0.19 0.22 0.04 0.14 0.05 0.09 0.19 0.01 0.01 0.16 0.22 0.02
C6 0.05 0.01 0.23 0.54 0.01 0.19 0.00 0.09 0.00 0.00 0.00 0.01 0.00 0.01 0.02 0.20 0.37 0.01 0.38 0.57 0.41 0.48
C8 0.02 0.01 0.12 0.16 0.00 0.07 0.00 0.20 0.00 0.00 0.01 0.01 0.01 0.00 0.00 0.20 0.08 0.06 0.43 0.49 0.38 0.43
N1 0.07 0.00 0.37 0.63 0.02 0.28 0.01 0.19 0.00 0.01 0.00 0.01 0.01 0.01 0.02 0.14 0.47 0.04 0.36 0.55 0.42 0.45
N3 0.09 0.00 0.46 0.59 0.00 0.31 0.01 0.22 0.01 0.01 0.01 0.00 0.01 0.01 0.02 0.09 0.36 0.08 0.30 0.48 0.46 0.37
N6 0.03 0.01 0.18 0.51 0.01 0.15 0.00 0.04 0.00 0.01 0.01 0.01 0.00 0.01 0.01 0.23 0.37 0.02 0.41 0.62 0.42 0.54
N7 0.00 0.01 0.04 0.28 0.00 0.03 0.00 0.14 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.23 0.11 0.05 0.42 0.56 0.40 0.50
N9 0.01 0.02 0.03 0.23 0.01 0.07 0.01 0.05 0.02 0.00 0.02 0.02 0.01 0.01 0.00 0.15 0.02 0.00 0.30 0.45 0.41 0.35
O2' 0.04 0.10 0.00 0.01 0.15 0.31 0.20 0.09 0.20 0.20 0.14 0.09 0.23 0.23 0.15 0.00 0.02 0.22 0.08 0.18 0.36 0.09
O3' 0.27 0.47 0.01 0.00 0.21 0.02 0.24 0.19 0.37 0.08 0.47 0.36 0.37 0.11 0.02 0.02 0.00 0.21 0.21 0.33 0.24 0.21
O4' 0.00 0.07 0.00 0.02 0.03 0.00 0.01 0.01 0.01 0.06 0.04 0.08 0.02 0.05 0.00 0.22 0.21 0.00 0.08 0.36 0.49 0.27
O5' 0.21 0.34 0.33 0.14 0.31 0.01 0.37 0.01 0.38 0.43 0.36 0.30 0.41 0.42 0.30 0.08 0.21 0.08 0.00 0.02 0.01 0.01
OP1 0.36 0.51 0.20 0.27 0.49 0.19 0.55 0.16 0.57 0.49 0.55 0.48 0.62 0.56 0.45 0.18 0.33 0.36 0.02 0.00 0.01 0.00
OP2 0.41 0.44 0.29 0.24 0.42 0.26 0.40 0.22 0.41 0.38 0.42 0.46 0.42 0.40 0.41 0.36 0.24 0.49 0.01 0.01 0.00 0.00
P 0.24 0.41 0.30 0.12 0.39 0.10 0.46 0.02 0.48 0.43 0.45 0.37 0.54 0.50 0.35 0.09 0.21 0.27 0.01 0.00 0.00 0.00