ClaRNA

Doublet Group distance statistics: 48221

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.004, 0.008, 0.012, 0.013 max_d=0.013 avg_d=0.008 std_dev=0.004
N3 A 0, 0.006, 0.011, 0.016, 0.018 max_d=0.018 avg_d=0.011 std_dev=0.005
C1' A 0, 0.007, 0.016, 0.026, 0.029 max_d=0.029 avg_d=0.016 std_dev=0.009
C6 A 0, 0.001, 0.010, 0.020, 0.032 max_d=0.032 avg_d=0.010 std_dev=0.010
C4 A 0, 0.006, 0.015, 0.025, 0.033 max_d=0.033 avg_d=0.015 std_dev=0.010
C2 A 0, 0.004, 0.014, 0.023, 0.031 max_d=0.031 avg_d=0.014 std_dev=0.010
N1 A 0, 0.008, 0.018, 0.028, 0.037 max_d=0.037 avg_d=0.018 std_dev=0.010
N4 A 0, 0.008, 0.035, 0.062, 0.097 max_d=0.097 avg_d=0.035 std_dev=0.027
O2 A 0, 0.007, 0.038, 0.069, 0.099 max_d=0.099 avg_d=0.038 std_dev=0.031
C2' A 0, 0.071, 0.169, 0.267, 0.363 max_d=0.363 avg_d=0.169 std_dev=0.098
O4' A 0, 0.004, 0.131, 0.258, 0.401 max_d=0.401 avg_d=0.131 std_dev=0.127
O2' A 0, 0.127, 0.309, 0.490, 0.554 max_d=0.554 avg_d=0.309 std_dev=0.182
C4' A 0, 0.129, 0.330, 0.531, 0.700 max_d=0.700 avg_d=0.330 std_dev=0.201
C3' A 0, 0.193, 0.410, 0.627, 0.704 max_d=0.704 avg_d=0.410 std_dev=0.217
C2' B 0, 0.115, 0.422, 0.729, 0.892 max_d=0.892 avg_d=0.422 std_dev=0.307
C5' A 0, 0.150, 0.468, 0.786, 1.103 max_d=1.103 avg_d=0.468 std_dev=0.318
O3' A 0, 0.375, 0.772, 1.169, 1.130 max_d=1.130 avg_d=0.772 std_dev=0.397
O2' B 0, 0.490, 1.011, 1.531, 1.457 max_d=1.457 avg_d=1.011 std_dev=0.520
O5' A 0, 0.380, 1.270, 2.160, 2.951 max_d=2.951 avg_d=1.270 std_dev=0.890
C3' B 0, 0.930, 1.836, 2.741, 2.571 max_d=2.571 avg_d=1.836 std_dev=0.905
P A 0, 0.727, 1.640, 2.553, 3.166 max_d=3.166 avg_d=1.640 std_dev=0.913
C8 B 0, 0.953, 1.983, 3.012, 2.993 max_d=2.993 avg_d=1.983 std_dev=1.030
C1' B 0, 0.426, 1.563, 2.700, 2.932 max_d=2.932 avg_d=1.563 std_dev=1.137
N9 B 0, 0.981, 2.123, 3.264, 3.355 max_d=3.355 avg_d=2.123 std_dev=1.142
OP2 A 0, 0.767, 2.024, 3.281, 3.835 max_d=3.835 avg_d=2.024 std_dev=1.257
OP1 A 0, 0.886, 2.209, 3.531, 4.020 max_d=4.020 avg_d=2.209 std_dev=1.323
O4' B 0, 1.038, 2.406, 3.774, 3.817 max_d=3.817 avg_d=2.406 std_dev=1.368
C4' B 0, 1.382, 2.817, 4.252, 3.894 max_d=3.894 avg_d=2.817 std_dev=1.435
N7 B 0, 1.594, 3.115, 4.636, 4.131 max_d=4.131 avg_d=3.115 std_dev=1.521
O3' B 0, 1.337, 2.915, 4.494, 4.271 max_d=4.271 avg_d=2.915 std_dev=1.579
O5' B 0, 1.796, 3.545, 5.293, 4.696 max_d=4.696 avg_d=3.545 std_dev=1.749
C4 B 0, 1.660, 3.569, 5.478, 5.213 max_d=5.213 avg_d=3.569 std_dev=1.909
C5' B 0, 2.031, 4.078, 6.125, 5.598 max_d=5.598 avg_d=4.078 std_dev=2.047
C5 B 0, 2.059, 4.181, 6.302, 5.771 max_d=5.771 avg_d=4.181 std_dev=2.121
OP2 B 0, 2.277, 4.629, 6.981, 6.862 max_d=6.862 avg_d=4.629 std_dev=2.352
N3 B 0, 2.034, 4.455, 6.875, 6.442 max_d=6.442 avg_d=4.455 std_dev=2.421
P B 0, 2.492, 4.928, 7.363, 6.422 max_d=6.422 avg_d=4.928 std_dev=2.436
C6 B 0, 2.836, 5.856, 8.876, 8.002 max_d=8.002 avg_d=5.856 std_dev=3.020
C2 B 0, 2.787, 6.010, 9.233, 8.459 max_d=8.459 avg_d=6.010 std_dev=3.223
OP1 B 0, 3.204, 6.456, 9.707, 8.851 max_d=8.851 avg_d=6.456 std_dev=3.252
O6 B 0, 3.299, 6.693, 10.086, 9.059 max_d=9.059 avg_d=6.693 std_dev=3.393
N1 B 0, 3.134, 6.668, 10.201, 9.284 max_d=9.284 avg_d=6.668 std_dev=3.533
N2 B 0, 3.343, 7.156, 10.969, 9.985 max_d=9.985 avg_d=7.156 std_dev=3.813

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 0.03 0.01 0.01 0.02 0.02 0.03 0.01 0.01 0.00 0.26 0.30 0.36 0.28
C2 0.02 0.00 0.08 0.11 0.01 0.06 0.01 0.13 0.01 0.01 0.01 0.02 0.00 0.12 0.11 0.02 0.40 0.40 0.71 0.46
C2' 0.00 0.08 0.00 0.01 0.04 0.01 0.04 0.01 0.05 0.02 0.07 0.05 0.12 0.00 0.01 0.01 0.22 0.31 0.17 0.16
C3' 0.02 0.11 0.01 0.00 0.14 0.00 0.16 0.01 0.16 0.09 0.12 0.15 0.12 0.03 0.01 0.02 0.30 0.40 0.16 0.18
C4 0.02 0.01 0.04 0.14 0.00 0.11 0.00 0.23 0.00 0.01 0.00 0.00 0.02 0.08 0.17 0.02 0.54 0.52 1.13 0.64
C4' 0.00 0.06 0.01 0.00 0.11 0.00 0.13 0.00 0.13 0.07 0.08 0.11 0.05 0.08 0.01 0.00 0.01 0.25 0.27 0.03
C5 0.01 0.01 0.04 0.16 0.00 0.13 0.00 0.26 0.00 0.01 0.01 0.01 0.01 0.03 0.21 0.02 0.57 0.55 1.19 0.68
C5' 0.03 0.13 0.01 0.01 0.23 0.00 0.26 0.00 0.22 0.13 0.18 0.25 0.09 0.08 0.02 0.01 0.00 0.34 0.34 0.01
C6 0.01 0.01 0.05 0.16 0.00 0.13 0.00 0.22 0.00 0.00 0.01 0.01 0.01 0.03 0.19 0.03 0.52 0.50 0.96 0.59
N1 0.01 0.01 0.02 0.09 0.01 0.07 0.01 0.13 0.00 0.00 0.01 0.01 0.01 0.04 0.09 0.01 0.41 0.40 0.69 0.46
N3 0.02 0.01 0.07 0.12 0.00 0.08 0.01 0.18 0.01 0.01 0.00 0.01 0.02 0.13 0.14 0.02 0.47 0.45 0.92 0.55
N4 0.02 0.02 0.05 0.15 0.00 0.11 0.01 0.25 0.01 0.01 0.01 0.00 0.02 0.10 0.19 0.02 0.56 0.55 1.26 0.69
O2 0.03 0.00 0.12 0.12 0.02 0.05 0.01 0.09 0.01 0.01 0.02 0.02 0.00 0.19 0.13 0.03 0.32 0.35 0.53 0.37
O2' 0.01 0.12 0.00 0.03 0.08 0.08 0.03 0.08 0.03 0.04 0.13 0.10 0.19 0.00 0.04 0.08 0.13 0.21 0.48 0.21
O3' 0.01 0.11 0.01 0.01 0.17 0.01 0.21 0.02 0.19 0.09 0.14 0.19 0.13 0.04 0.00 0.01 0.35 0.37 0.59 0.33
O4' 0.00 0.02 0.01 0.02 0.02 0.00 0.02 0.01 0.03 0.01 0.02 0.02 0.03 0.08 0.01 0.00 0.28 0.28 0.36 0.30
O5' 0.26 0.40 0.22 0.30 0.54 0.01 0.57 0.00 0.52 0.41 0.47 0.56 0.32 0.13 0.35 0.28 0.00 0.01 0.01 0.00
OP1 0.30 0.40 0.31 0.40 0.52 0.25 0.55 0.34 0.50 0.40 0.45 0.55 0.35 0.21 0.37 0.28 0.01 0.00 0.01 0.01
OP2 0.36 0.71 0.17 0.16 1.13 0.27 1.19 0.34 0.96 0.69 0.92 1.26 0.53 0.48 0.59 0.36 0.01 0.01 0.00 0.01
P 0.28 0.46 0.16 0.18 0.64 0.03 0.68 0.01 0.59 0.46 0.55 0.69 0.37 0.21 0.33 0.30 0.00 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.38 1.43 0.28 0.52 0.77 0.93 0.88 1.16 1.23 0.45 1.49 1.78 1.02 0.64 0.44 0.35 0.55 0.74 0.91 1.32 1.27 0.78 1.04
C2 0.23 1.18 0.23 0.45 0.65 0.70 0.68 0.86 0.94 0.28 1.17 1.47 0.91 0.45 0.34 0.30 0.59 0.46 0.69 0.97 0.98 0.61 0.79
C2' 0.30 1.65 0.26 0.62 0.87 1.03 0.98 1.33 1.40 0.42 1.72 2.08 1.18 0.67 0.43 0.34 0.74 0.73 1.06 1.50 1.58 0.96 1.26
C3' 0.46 1.79 0.40 0.83 0.91 1.32 1.06 1.69 1.54 0.56 1.89 2.27 1.23 0.76 0.49 0.46 0.93 0.99 1.38 1.66 1.99 1.28 1.62
C4 0.19 1.06 0.18 0.49 0.61 0.65 0.60 0.80 0.79 0.25 1.00 1.28 0.87 0.38 0.33 0.23 0.72 0.39 0.67 0.79 0.93 0.61 0.75
C4' 0.61 1.63 0.43 0.76 0.87 1.31 1.05 1.63 1.48 0.71 1.78 2.05 1.10 0.85 0.59 0.47 0.73 1.13 1.33 1.63 1.81 1.22 1.54
C5 0.19 1.32 0.21 0.58 0.74 0.88 0.76 1.07 1.02 0.31 1.26 1.59 1.06 0.50 0.36 0.28 0.73 0.54 0.85 1.03 1.17 0.74 0.95
C5' 0.83 1.68 0.59 0.95 0.93 1.56 1.16 1.92 1.60 0.96 1.88 2.11 1.11 1.05 0.78 0.57 0.86 1.42 1.62 1.77 2.10 1.51 1.85
C6 0.30 1.45 0.25 0.58 0.78 0.98 0.85 1.20 1.17 0.41 1.44 1.79 1.09 0.59 0.40 0.33 0.66 0.71 0.94 1.21 1.30 0.81 1.07
N1 0.30 1.35 0.26 0.51 0.73 0.86 0.81 1.06 1.11 0.37 1.36 1.68 1.00 0.56 0.39 0.33 0.60 0.62 0.83 1.17 1.17 0.72 0.95
N3 0.21 1.05 0.19 0.44 0.59 0.62 0.58 0.78 0.79 0.25 1.00 1.30 0.84 0.37 0.31 0.26 0.64 0.41 0.65 0.79 0.90 0.60 0.74
N4 0.32 0.85 0.10 0.47 0.52 0.59 0.47 0.72 0.59 0.31 0.76 1.02 0.74 0.34 0.35 0.14 0.79 0.49 0.63 0.57 0.83 0.62 0.71
O2 0.24 1.16 0.23 0.42 0.64 0.66 0.67 0.84 0.93 0.28 1.16 1.45 0.88 0.44 0.34 0.31 0.55 0.46 0.67 0.97 0.95 0.59 0.77
O2' 0.33 1.57 0.25 0.56 0.83 0.98 0.95 1.28 1.36 0.42 1.66 1.97 1.12 0.65 0.42 0.33 0.65 0.73 1.01 1.47 1.51 0.92 1.21
O3' 0.50 1.86 0.45 0.95 0.91 1.45 1.09 1.90 1.61 0.59 1.99 2.37 1.26 0.77 0.49 0.51 1.08 1.09 1.58 1.76 2.31 1.52 1.88
O4' 0.53 1.43 0.34 0.56 0.78 1.06 0.94 1.30 1.30 0.60 1.54 1.77 0.98 0.75 0.53 0.39 0.48 0.95 1.02 1.42 1.36 0.89 1.17
O5' 0.29 1.73 0.24 0.22 0.82 0.94 1.01 1.27 1.54 0.31 1.87 2.15 1.17 0.65 0.26 0.49 0.27 0.88 0.92 1.70 1.38 0.74 1.15
OP1 0.48 1.56 0.30 0.34 0.71 1.01 0.90 1.37 1.41 0.49 1.71 1.99 1.05 0.67 0.35 0.47 0.34 1.08 1.03 1.62 1.45 0.89 1.27
OP2 1.22 2.82 1.39 0.99 1.82 1.08 1.85 1.21 2.43 0.98 2.89 3.32 2.31 1.30 1.27 1.59 1.04 1.10 0.89 2.56 1.29 0.64 1.04
P 0.37 1.96 0.50 0.21 0.97 0.89 1.12 1.27 1.72 0.23 2.10 2.43 1.41 0.68 0.34 0.75 0.33 0.88 0.89 1.90 1.41 0.72 1.16

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.02 0.00 0.01 0.02 0.00 0.01 0.03 0.01 0.02 0.02 0.03 0.03 0.02 0.01 0.02 0.02 0.00 0.13 0.02 0.11 0.19 0.14
C2 0.02 0.00 0.07 0.07 0.01 0.02 0.01 0.06 0.01 0.01 0.00 0.00 0.00 0.02 0.01 0.11 0.10 0.03 0.19 0.01 0.23 0.38 0.26
C2' 0.00 0.07 0.00 0.00 0.04 0.01 0.04 0.02 0.05 0.04 0.06 0.09 0.07 0.04 0.01 0.01 0.03 0.00 0.06 0.05 0.07 0.09 0.06
C3' 0.01 0.07 0.00 0.00 0.04 0.00 0.05 0.02 0.06 0.07 0.07 0.08 0.06 0.08 0.03 0.01 0.01 0.01 0.10 0.07 0.10 0.12 0.10
C4 0.02 0.01 0.04 0.04 0.00 0.02 0.00 0.08 0.01 0.01 0.01 0.01 0.01 0.01 0.00 0.06 0.05 0.02 0.21 0.01 0.24 0.37 0.26
C4' 0.00 0.02 0.01 0.00 0.02 0.00 0.05 0.01 0.05 0.09 0.02 0.04 0.02 0.09 0.03 0.05 0.02 0.00 0.01 0.06 0.05 0.02 0.03
C5 0.01 0.01 0.04 0.05 0.00 0.05 0.00 0.13 0.01 0.01 0.01 0.02 0.01 0.01 0.01 0.05 0.07 0.04 0.26 0.01 0.34 0.47 0.34
C5' 0.03 0.06 0.02 0.02 0.08 0.01 0.13 0.00 0.13 0.16 0.10 0.04 0.05 0.17 0.08 0.05 0.03 0.02 0.02 0.16 0.06 0.04 0.02
C6 0.01 0.01 0.05 0.06 0.01 0.05 0.01 0.13 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.07 0.09 0.04 0.26 0.00 0.36 0.50 0.36
C8 0.02 0.01 0.04 0.07 0.01 0.09 0.01 0.16 0.01 0.00 0.01 0.01 0.01 0.00 0.00 0.03 0.08 0.04 0.28 0.02 0.32 0.41 0.32
N1 0.02 0.00 0.06 0.07 0.01 0.02 0.01 0.10 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.10 0.10 0.03 0.23 0.01 0.30 0.45 0.32
N2 0.03 0.00 0.09 0.08 0.01 0.04 0.02 0.04 0.01 0.01 0.01 0.00 0.01 0.02 0.01 0.14 0.12 0.03 0.17 0.01 0.19 0.36 0.23
N3 0.03 0.00 0.07 0.06 0.01 0.02 0.01 0.05 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.10 0.08 0.03 0.17 0.01 0.19 0.33 0.22
N7 0.02 0.02 0.04 0.08 0.01 0.09 0.01 0.17 0.01 0.00 0.01 0.02 0.01 0.00 0.01 0.03 0.08 0.05 0.30 0.02 0.39 0.51 0.39
N9 0.01 0.01 0.01 0.03 0.00 0.03 0.01 0.08 0.01 0.00 0.01 0.01 0.01 0.01 0.00 0.02 0.03 0.02 0.20 0.01 0.21 0.31 0.23
O2' 0.02 0.11 0.01 0.01 0.06 0.05 0.05 0.05 0.07 0.03 0.10 0.14 0.10 0.03 0.02 0.00 0.07 0.04 0.04 0.07 0.07 0.04 0.04
O3' 0.02 0.10 0.03 0.01 0.05 0.02 0.07 0.03 0.09 0.08 0.10 0.12 0.08 0.08 0.03 0.07 0.00 0.02 0.19 0.10 0.20 0.27 0.21
O4' 0.00 0.03 0.00 0.01 0.02 0.00 0.04 0.02 0.04 0.04 0.03 0.03 0.03 0.05 0.02 0.04 0.02 0.00 0.14 0.04 0.11 0.18 0.15
O5' 0.13 0.19 0.06 0.10 0.21 0.01 0.26 0.02 0.26 0.28 0.23 0.17 0.17 0.30 0.20 0.04 0.19 0.14 0.00 0.29 0.01 0.01 0.01
O6 0.02 0.01 0.05 0.07 0.01 0.06 0.01 0.16 0.00 0.02 0.01 0.01 0.01 0.02 0.01 0.07 0.10 0.04 0.29 0.00 0.42 0.56 0.41
OP1 0.11 0.23 0.07 0.10 0.24 0.05 0.34 0.06 0.36 0.32 0.30 0.19 0.19 0.39 0.21 0.07 0.20 0.11 0.01 0.42 0.00 0.03 0.01
OP2 0.19 0.38 0.09 0.12 0.37 0.02 0.47 0.04 0.50 0.41 0.45 0.36 0.33 0.51 0.31 0.04 0.27 0.18 0.01 0.56 0.03 0.00 0.01
P 0.14 0.26 0.06 0.10 0.26 0.03 0.34 0.02 0.36 0.32 0.32 0.23 0.22 0.39 0.23 0.04 0.21 0.15 0.01 0.41 0.01 0.01 0.00