ClaRNA

Doublet Group distance statistics: 17078

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Distances from reference structure (by RMSD)

12, 28, 17, 21, 12, 8, 23, 33, 45, 17, 28, 27, 24, 46, 46, 28, 21, 4, 5, 55,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N9 B 0, 0.333, 0.790, 1.247, 2.421 max_d=2.421 avg_d=0.790 std_dev=0.457
C1' B 0, 0.189, 0.717, 1.245, 3.104 max_d=3.104 avg_d=0.717 std_dev=0.528
N3 B 0, 0.422, 0.973, 1.524, 3.367 max_d=3.367 avg_d=0.973 std_dev=0.551
C4 B 0, 0.188, 0.744, 1.299, 2.732 max_d=2.732 avg_d=0.744 std_dev=0.556
N1 A 0, 0.233, 0.793, 1.352, 2.698 max_d=2.698 avg_d=0.793 std_dev=0.560
C2 A 0, 0.306, 0.935, 1.565, 3.179 max_d=3.179 avg_d=0.935 std_dev=0.630
C4 A 0, 0.203, 0.833, 1.463, 2.993 max_d=2.993 avg_d=0.833 std_dev=0.630
O4' B 0, 0.426, 1.088, 1.751, 4.487 max_d=4.487 avg_d=1.088 std_dev=0.663
N3 A 0, 0.295, 1.049, 1.803, 3.740 max_d=3.740 avg_d=1.049 std_dev=0.754
C8 B 0, 0.689, 1.452, 2.215, 4.546 max_d=4.546 avg_d=1.452 std_dev=0.763
C5 A 0, 0.337, 1.126, 1.916, 4.153 max_d=4.153 avg_d=1.126 std_dev=0.789
C2 B 0, 0.517, 1.322, 2.128, 4.833 max_d=4.833 avg_d=1.322 std_dev=0.806
C2' B 0, 0.190, 0.999, 1.808, 4.595 max_d=4.595 avg_d=0.999 std_dev=0.809
C5 B 0, 0.497, 1.311, 2.125, 4.687 max_d=4.687 avg_d=1.311 std_dev=0.814
N9 A 0, 0.219, 1.035, 1.851, 3.736 max_d=3.736 avg_d=1.035 std_dev=0.816
C3' B 0, 0.439, 1.272, 2.104, 5.593 max_d=5.593 avg_d=1.272 std_dev=0.833
C4' B 0, 0.491, 1.383, 2.276, 5.061 max_d=5.061 avg_d=1.383 std_dev=0.892
O5' B 0, 0.498, 1.399, 2.300, 5.492 max_d=5.492 avg_d=1.399 std_dev=0.901
C6 A 0, 0.224, 1.142, 2.061, 4.106 max_d=4.106 avg_d=1.142 std_dev=0.919
C8 A 0, 0.470, 1.438, 2.405, 5.141 max_d=5.141 avg_d=1.438 std_dev=0.968
N7 B 0, 0.778, 1.754, 2.729, 5.375 max_d=5.375 avg_d=1.754 std_dev=0.975
N2 A 0, 0.424, 1.420, 2.416, 4.849 max_d=4.849 avg_d=1.420 std_dev=0.996
P B 0, 0.339, 1.383, 2.426, 6.849 max_d=6.849 avg_d=1.383 std_dev=1.044
N1 B 0, 0.402, 1.466, 2.529, 5.124 max_d=5.124 avg_d=1.466 std_dev=1.063
C6 B 0, 0.481, 1.557, 2.633, 5.955 max_d=5.955 avg_d=1.557 std_dev=1.076
O3' B 0, 0.604, 1.760, 2.917, 7.909 max_d=7.909 avg_d=1.760 std_dev=1.156
O2' B 0, 0.215, 1.375, 2.534, 6.419 max_d=6.419 avg_d=1.375 std_dev=1.160
N7 A 0, 0.422, 1.607, 2.792, 6.122 max_d=6.122 avg_d=1.607 std_dev=1.185
C1' A 0, 0.116, 1.310, 2.504, 5.763 max_d=5.763 avg_d=1.310 std_dev=1.194
OP2 B 0, 0.277, 1.484, 2.691, 6.763 max_d=6.763 avg_d=1.484 std_dev=1.207
C5' B 0, 0.502, 1.758, 3.014, 6.072 max_d=6.072 avg_d=1.758 std_dev=1.256
OP1 B 0, 0.616, 1.914, 3.212, 7.417 max_d=7.417 avg_d=1.914 std_dev=1.298
O4' A 0, 0.142, 1.484, 2.826, 5.963 max_d=5.963 avg_d=1.484 std_dev=1.342
N6 B 0, 0.722, 2.143, 3.565, 8.168 max_d=8.168 avg_d=2.143 std_dev=1.421
O6 A 0, 0.148, 1.618, 3.087, 6.111 max_d=6.111 avg_d=1.618 std_dev=1.470
C2' A 0, 0.357, 2.000, 3.642, 7.719 max_d=7.719 avg_d=2.000 std_dev=1.642
C3' A 0, 0.300, 2.006, 3.711, 8.529 max_d=8.529 avg_d=2.006 std_dev=1.706
C4' A 0, 0.162, 1.872, 3.582, 7.906 max_d=7.906 avg_d=1.872 std_dev=1.710
C5' A 0, 0.378, 2.280, 4.182, 8.305 max_d=8.305 avg_d=2.280 std_dev=1.902
O5' A 0, 0.697, 2.609, 4.522, 7.631 max_d=7.631 avg_d=2.609 std_dev=1.912
O2' A 0, 0.697, 2.749, 4.801, 9.593 max_d=9.593 avg_d=2.749 std_dev=2.052
O3' A 0, 0.388, 2.549, 4.710, 10.873 max_d=10.873 avg_d=2.549 std_dev=2.161
P A 0, 1.081, 3.481, 5.880, 9.638 max_d=9.638 avg_d=3.481 std_dev=2.399
OP1 A 0, 1.169, 3.860, 6.551, 10.769 max_d=10.769 avg_d=3.860 std_dev=2.691
OP2 A 0, 1.226, 4.060, 6.893, 11.543 max_d=11.543 avg_d=4.060 std_dev=2.834

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.05 0.01 0.02 0.02 0.02 0.02 0.08 0.03 0.01 0.04 0.06 0.04 0.01 0.01 0.02 0.35 0.01 0.26 0.03 0.30 0.41 0.22
C2 0.05 0.00 0.38 0.27 0.01 0.32 0.01 0.56 0.01 0.01 0.01 0.01 0.01 0.01 0.02 0.31 0.43 0.35 0.53 0.01 0.74 0.81 0.62
C2' 0.01 0.38 0.00 0.00 0.21 0.02 0.13 0.21 0.21 0.17 0.32 0.45 0.37 0.09 0.04 0.01 0.04 0.03 0.34 0.18 0.49 0.61 0.40
C3' 0.02 0.27 0.00 0.00 0.24 0.01 0.34 0.03 0.35 0.41 0.30 0.31 0.24 0.44 0.23 0.02 0.01 0.03 0.33 0.40 0.40 0.46 0.25
C4 0.02 0.01 0.21 0.24 0.00 0.12 0.00 0.28 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.17 0.24 0.18 0.46 0.02 0.47 0.76 0.48
C4' 0.02 0.32 0.02 0.01 0.12 0.00 0.11 0.01 0.11 0.32 0.22 0.43 0.31 0.27 0.10 0.31 0.03 0.01 0.02 0.13 0.30 0.27 0.19
C5 0.02 0.01 0.13 0.34 0.00 0.11 0.00 0.25 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.28 0.15 0.08 0.64 0.02 0.68 1.11 0.76
C5' 0.08 0.56 0.21 0.03 0.28 0.01 0.25 0.00 0.31 0.43 0.44 0.72 0.52 0.39 0.16 0.11 0.22 0.02 0.01 0.31 0.22 0.26 0.02
C6 0.03 0.01 0.21 0.35 0.01 0.11 0.01 0.31 0.00 0.01 0.00 0.01 0.01 0.01 0.02 0.25 0.19 0.15 0.62 0.01 0.70 1.14 0.76
C8 0.01 0.01 0.17 0.41 0.01 0.32 0.01 0.43 0.01 0.00 0.01 0.02 0.01 0.00 0.00 0.47 0.19 0.20 0.90 0.03 0.91 1.30 1.03
N1 0.04 0.01 0.32 0.30 0.01 0.22 0.01 0.44 0.00 0.01 0.00 0.01 0.01 0.01 0.02 0.23 0.31 0.27 0.54 0.01 0.67 0.95 0.64
N2 0.06 0.01 0.45 0.31 0.01 0.43 0.01 0.72 0.01 0.02 0.01 0.00 0.01 0.02 0.02 0.43 0.56 0.42 0.64 0.02 0.99 0.91 0.81
N3 0.04 0.01 0.37 0.24 0.00 0.31 0.01 0.52 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.30 0.45 0.35 0.47 0.02 0.64 0.68 0.53
N7 0.01 0.01 0.09 0.44 0.01 0.27 0.00 0.39 0.01 0.00 0.01 0.02 0.01 0.00 0.01 0.45 0.21 0.11 0.90 0.03 1.00 1.48 1.12
N9 0.01 0.02 0.04 0.23 0.01 0.10 0.01 0.16 0.02 0.00 0.02 0.02 0.01 0.01 0.00 0.22 0.14 0.02 0.51 0.02 0.45 0.75 0.51
O2' 0.02 0.31 0.01 0.02 0.17 0.31 0.28 0.11 0.25 0.47 0.23 0.43 0.30 0.45 0.22 0.00 0.06 0.21 0.34 0.30 0.51 0.71 0.41
O3' 0.35 0.43 0.04 0.01 0.24 0.03 0.15 0.22 0.19 0.19 0.31 0.56 0.45 0.21 0.14 0.06 0.00 0.23 0.37 0.20 0.48 0.46 0.29
O4' 0.01 0.35 0.03 0.03 0.18 0.01 0.08 0.02 0.15 0.20 0.27 0.42 0.35 0.11 0.02 0.21 0.23 0.00 0.20 0.12 0.25 0.33 0.22
O5' 0.26 0.53 0.34 0.33 0.46 0.02 0.64 0.01 0.62 0.90 0.54 0.64 0.47 0.90 0.51 0.34 0.37 0.20 0.00 0.71 0.02 0.02 0.01
O6 0.03 0.01 0.18 0.40 0.02 0.13 0.02 0.31 0.01 0.03 0.01 0.02 0.02 0.03 0.02 0.30 0.20 0.12 0.71 0.00 0.85 1.35 0.92
OP1 0.30 0.74 0.49 0.40 0.47 0.30 0.68 0.22 0.70 0.91 0.67 0.99 0.64 1.00 0.45 0.51 0.48 0.25 0.02 0.85 0.00 0.01 0.01
OP2 0.41 0.81 0.61 0.46 0.76 0.27 1.11 0.26 1.14 1.30 0.95 0.91 0.68 1.48 0.75 0.71 0.46 0.33 0.02 1.35 0.01 0.00 0.01
P 0.22 0.62 0.40 0.25 0.48 0.19 0.76 0.02 0.76 1.03 0.64 0.81 0.53 1.12 0.51 0.41 0.29 0.22 0.01 0.92 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 1.18 2.65 1.15 0.73 2.03 0.73 2.35 0.78 2.91 1.55 3.01 2.19 3.30 2.05 1.53 1.28 0.80 1.04 0.63 0.84 0.65 0.23
C2 1.00 1.94 1.02 0.68 1.61 0.67 1.87 0.70 2.15 1.33 2.15 1.67 2.36 1.73 1.28 1.02 0.68 0.93 0.60 0.82 0.67 0.21
C2' 1.32 2.97 1.37 1.02 2.26 0.75 2.58 0.66 3.20 1.67 3.34 2.46 3.61 2.20 1.70 1.44 1.08 1.03 0.63 1.02 0.76 0.55
C3' 1.21 2.71 1.19 0.84 2.04 0.73 2.35 0.74 2.93 1.56 3.07 2.22 3.34 2.04 1.55 1.33 0.92 1.02 0.65 0.97 0.68 0.45
C4 1.11 2.30 1.17 0.72 1.85 0.68 2.17 0.70 2.58 1.48 2.60 1.94 2.90 1.96 1.44 1.28 0.76 0.95 0.56 0.86 0.66 0.22
C4' 1.24 2.65 1.13 0.78 2.01 0.88 2.32 1.01 2.88 1.61 3.01 2.17 3.29 2.04 1.55 1.32 0.85 1.15 0.82 0.97 0.59 0.40
C5 1.21 2.30 1.35 0.86 1.88 0.76 2.17 0.70 2.54 1.54 2.56 1.97 2.83 1.98 1.50 1.48 0.88 0.97 0.52 0.88 0.67 0.26
C5' 1.33 2.67 1.26 0.91 2.05 0.99 2.35 1.11 2.89 1.66 3.03 2.21 3.30 2.07 1.62 1.49 1.01 1.21 0.92 1.18 0.66 0.63
C6 1.22 2.11 1.41 0.93 1.79 0.80 2.04 0.71 2.32 1.53 2.32 1.85 2.55 1.91 1.48 1.49 0.91 0.97 0.52 0.88 0.68 0.30
C8 1.24 2.57 1.35 0.85 2.02 0.76 2.33 0.72 2.82 1.58 2.89 2.15 3.18 2.06 1.56 1.55 0.92 0.99 0.53 0.88 0.66 0.25
N1 1.01 1.82 1.15 0.72 1.55 0.66 1.79 0.65 2.03 1.34 2.01 1.58 2.24 1.70 1.26 1.15 0.69 0.86 0.51 0.86 0.69 0.24
N2 1.06 1.87 1.02 0.82 1.58 0.79 1.77 0.80 1.99 1.31 2.01 1.66 2.11 1.65 1.28 0.97 0.84 1.07 0.74 0.76 0.65 0.28
N3 1.09 2.24 1.08 0.72 1.81 0.70 2.11 0.74 2.49 1.45 2.51 1.90 2.75 1.90 1.41 1.12 0.75 1.00 0.63 0.83 0.65 0.22
N7 1.32 2.53 1.49 0.97 2.03 0.83 2.32 0.73 2.75 1.63 2.81 2.16 3.06 2.08 1.61 1.68 1.03 1.03 0.53 0.89 0.66 0.29
N9 1.16 2.50 1.20 0.73 1.96 0.70 2.28 0.72 2.78 1.53 2.83 2.08 3.15 2.02 1.50 1.35 0.80 0.97 0.57 0.86 0.66 0.22
O2' 1.38 3.22 1.43 1.10 2.40 0.81 2.72 0.72 3.40 1.72 3.61 2.66 3.81 2.28 1.79 1.45 1.17 1.10 0.66 0.97 0.69 0.51
O3' 1.34 2.66 1.21 0.99 2.03 1.04 2.33 1.12 2.88 1.69 3.02 2.19 3.29 2.08 1.62 1.36 1.04 1.27 0.96 0.90 0.69 0.54
O4' 1.28 2.60 1.16 0.76 2.01 0.95 2.33 1.08 2.86 1.63 2.95 2.15 3.26 2.06 1.58 1.36 0.82 1.22 0.88 0.94 0.67 0.44
O5' 1.41 2.70 1.40 1.00 2.11 0.97 2.39 0.99 2.91 1.71 3.03 2.27 3.29 2.12 1.69 1.64 1.09 1.20 0.85 1.13 0.76 0.61
O6 1.44 2.26 1.68 1.20 1.95 0.99 2.15 0.82 2.41 1.68 2.42 2.03 2.59 2.01 1.66 1.77 1.17 1.12 0.59 0.88 0.67 0.39
OP1 1.53 2.62 1.55 1.33 2.09 1.32 2.34 1.41 2.80 1.79 2.93 2.22 3.15 2.13 1.75 1.79 1.45 1.40 1.18 1.39 0.90 0.93
OP2 1.70 2.81 1.74 1.40 2.28 1.32 2.50 1.29 2.94 1.92 3.08 2.43 3.25 2.27 1.92 1.99 1.49 1.46 1.19 1.39 1.15 1.05
P 1.56 2.69 1.56 1.25 2.16 1.24 2.41 1.29 2.87 1.83 2.99 2.29 3.22 2.19 1.80 1.81 1.34 1.39 1.09 1.23 0.88 0.79

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.04 0.01 0.02 0.02 0.01 0.01 0.07 0.02 0.02 0.03 0.04 0.02 0.01 0.01 0.02 0.26 0.01 0.25 0.48 0.48 0.27
C2 0.04 0.00 0.36 0.37 0.01 0.20 0.01 0.31 0.01 0.01 0.00 0.01 0.01 0.01 0.02 0.31 0.42 0.26 0.54 0.78 1.14 0.69
C2' 0.01 0.36 0.00 0.01 0.19 0.02 0.10 0.16 0.17 0.18 0.28 0.36 0.13 0.10 0.03 0.00 0.04 0.02 0.39 0.52 0.56 0.32
C3' 0.02 0.37 0.01 0.00 0.29 0.01 0.33 0.03 0.37 0.32 0.38 0.33 0.39 0.35 0.21 0.02 0.01 0.02 0.40 0.34 0.47 0.25
C4 0.02 0.01 0.19 0.29 0.00 0.11 0.01 0.20 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.20 0.23 0.13 0.50 0.70 1.01 0.62
C4' 0.01 0.20 0.02 0.01 0.11 0.00 0.14 0.01 0.14 0.24 0.16 0.19 0.17 0.22 0.10 0.25 0.03 0.01 0.02 0.46 0.26 0.23
C5 0.01 0.01 0.10 0.33 0.01 0.14 0.00 0.26 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.26 0.20 0.06 0.62 0.90 1.26 0.84
C5' 0.07 0.31 0.16 0.03 0.20 0.01 0.26 0.00 0.27 0.34 0.29 0.28 0.32 0.36 0.16 0.11 0.18 0.02 0.01 0.29 0.28 0.02
C6 0.02 0.01 0.17 0.37 0.01 0.14 0.01 0.27 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.27 0.27 0.11 0.64 0.97 1.38 0.91
C8 0.02 0.01 0.18 0.32 0.01 0.24 0.01 0.34 0.01 0.00 0.02 0.01 0.03 0.00 0.01 0.35 0.21 0.16 0.67 0.85 1.07 0.80
N1 0.03 0.00 0.28 0.38 0.01 0.16 0.01 0.29 0.00 0.02 0.00 0.01 0.01 0.01 0.02 0.27 0.35 0.20 0.59 0.89 1.31 0.82
N3 0.04 0.01 0.36 0.33 0.01 0.19 0.01 0.28 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.30 0.40 0.26 0.48 0.67 0.97 0.57
N6 0.02 0.01 0.13 0.39 0.01 0.17 0.01 0.32 0.00 0.03 0.01 0.01 0.00 0.03 0.02 0.30 0.27 0.08 0.70 1.11 1.54 1.05
N7 0.01 0.01 0.10 0.35 0.01 0.22 0.00 0.36 0.01 0.00 0.01 0.01 0.03 0.00 0.01 0.35 0.22 0.10 0.72 1.03 1.34 0.98
N9 0.01 0.02 0.03 0.21 0.01 0.10 0.01 0.16 0.01 0.01 0.02 0.01 0.02 0.01 0.00 0.18 0.12 0.02 0.46 0.61 0.82 0.51
O2' 0.02 0.31 0.00 0.02 0.20 0.25 0.26 0.11 0.27 0.35 0.27 0.30 0.30 0.35 0.18 0.00 0.07 0.19 0.26 0.69 0.37 0.37
O3' 0.26 0.42 0.04 0.01 0.23 0.03 0.20 0.18 0.27 0.21 0.35 0.40 0.27 0.22 0.12 0.07 0.00 0.17 0.41 0.64 0.48 0.38
O4' 0.01 0.26 0.02 0.02 0.13 0.01 0.06 0.02 0.11 0.16 0.20 0.26 0.08 0.10 0.02 0.19 0.17 0.00 0.19 0.46 0.42 0.30
O5' 0.25 0.54 0.39 0.40 0.50 0.02 0.62 0.01 0.64 0.67 0.59 0.48 0.70 0.72 0.46 0.26 0.41 0.19 0.00 0.02 0.02 0.01
OP1 0.48 0.78 0.52 0.34 0.70 0.46 0.90 0.29 0.97 0.85 0.89 0.67 1.11 1.03 0.61 0.69 0.64 0.46 0.02 0.00 0.01 0.01
OP2 0.48 1.14 0.56 0.47 1.01 0.26 1.26 0.28 1.38 1.07 1.31 0.97 1.54 1.34 0.82 0.37 0.48 0.42 0.02 0.01 0.00 0.01
P 0.27 0.69 0.32 0.25 0.62 0.23 0.84 0.02 0.91 0.80 0.82 0.57 1.05 0.98 0.51 0.37 0.38 0.30 0.01 0.01 0.01 0.00