ClaRNA

Doublet Group distance statistics: 7097

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Distances from reference structure (by RMSD)

2, 5, 9, 48, 3, 6, 14, 28, 101, 58, 40, 14, 27, 11, 1, 1, 0, 26, 40, 66,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4 B 0, 0.189, 0.369, 0.550, 0.906 max_d=0.906 avg_d=0.369 std_dev=0.180
N3 B 0, 0.334, 0.571, 0.809, 1.449 max_d=1.449 avg_d=0.571 std_dev=0.237
N1 A 0, 0.226, 0.522, 0.818, 1.244 max_d=1.244 avg_d=0.522 std_dev=0.296
C5 B 0, 0.276, 0.652, 1.027, 1.852 max_d=1.852 avg_d=0.652 std_dev=0.375
C2 B 0, 0.457, 0.843, 1.229, 2.128 max_d=2.128 avg_d=0.843 std_dev=0.386
C2 A 0, 0.453, 0.886, 1.319, 2.366 max_d=2.366 avg_d=0.886 std_dev=0.433
N9 B 0, 0.438, 0.888, 1.338, 2.060 max_d=2.060 avg_d=0.888 std_dev=0.450
N1 B 0, 0.515, 1.004, 1.493, 2.289 max_d=2.289 avg_d=1.004 std_dev=0.489
C6 B 0, 0.421, 0.912, 1.402, 2.366 max_d=2.366 avg_d=0.912 std_dev=0.490
C6 A 0, 0.518, 1.041, 1.564, 2.701 max_d=2.701 avg_d=1.041 std_dev=0.523
N7 B 0, 0.501, 1.149, 1.798, 3.466 max_d=3.466 avg_d=1.149 std_dev=0.648
C8 B 0, 0.570, 1.226, 1.882, 3.494 max_d=3.494 avg_d=1.226 std_dev=0.656
C1' B 0, 0.670, 1.328, 1.986, 2.738 max_d=2.738 avg_d=1.328 std_dev=0.658
N3 A 0, 0.609, 1.328, 2.047, 3.722 max_d=3.722 avg_d=1.328 std_dev=0.719
C5 A 0, 0.729, 1.460, 2.191, 3.846 max_d=3.846 avg_d=1.460 std_dev=0.731
C3' B 0, 1.764, 2.503, 3.243, 4.347 max_d=4.347 avg_d=2.503 std_dev=0.740
N6 B 0, 0.642, 1.435, 2.227, 3.426 max_d=3.426 avg_d=1.435 std_dev=0.792
C4 A 0, 0.672, 1.497, 2.322, 4.052 max_d=4.052 avg_d=1.497 std_dev=0.825
O2 A 0, 0.750, 1.683, 2.616, 4.438 max_d=4.438 avg_d=1.683 std_dev=0.933
C1' A 0, 0.480, 1.433, 2.387, 3.974 max_d=3.974 avg_d=1.433 std_dev=0.954
C2' A 0, 0.953, 1.919, 2.884, 4.637 max_d=4.637 avg_d=1.919 std_dev=0.966
C2' B 0, 0.665, 1.638, 2.610, 3.448 max_d=3.448 avg_d=1.638 std_dev=0.972
O3' B 0, 1.948, 2.942, 3.936, 6.014 max_d=6.014 avg_d=2.942 std_dev=0.994
O4' B 0, 1.207, 2.253, 3.300, 4.308 max_d=4.308 avg_d=2.253 std_dev=1.047
O2' B 0, 1.106, 2.238, 3.369, 4.936 max_d=4.936 avg_d=2.238 std_dev=1.132
C4' B 0, 1.612, 2.814, 4.016, 5.081 max_d=5.081 avg_d=2.814 std_dev=1.202
N4 A 0, 1.010, 2.398, 3.786, 6.568 max_d=6.568 avg_d=2.398 std_dev=1.388
O2' A 0, 1.133, 2.580, 4.027, 7.075 max_d=7.075 avg_d=2.580 std_dev=1.447
O4' A 0, 0.765, 2.255, 3.744, 5.760 max_d=5.760 avg_d=2.255 std_dev=1.489
C3' A 0, 1.251, 2.849, 4.446, 6.621 max_d=6.621 avg_d=2.849 std_dev=1.598
C5' B 0, 1.851, 3.697, 5.543, 7.191 max_d=7.191 avg_d=3.697 std_dev=1.846
O5' B 0, 1.767, 3.692, 5.617, 7.688 max_d=7.688 avg_d=3.692 std_dev=1.925
O3' A 0, 1.917, 3.850, 5.782, 8.730 max_d=8.730 avg_d=3.850 std_dev=1.933
C4' A 0, 1.150, 3.146, 5.142, 7.260 max_d=7.260 avg_d=3.146 std_dev=1.996
C5' A 0, 1.329, 3.896, 6.463, 8.968 max_d=8.968 avg_d=3.896 std_dev=2.567
O5' A 0, 1.204, 3.791, 6.378, 9.335 max_d=9.335 avg_d=3.791 std_dev=2.587
P B 0, 2.058, 4.717, 7.376, 10.725 max_d=10.725 avg_d=4.717 std_dev=2.659
OP2 B 0, 2.800, 5.584, 8.368, 11.875 max_d=11.875 avg_d=5.584 std_dev=2.784
OP1 B 0, 2.221, 5.067, 7.912, 12.069 max_d=12.069 avg_d=5.067 std_dev=2.845
P A 0, 1.550, 4.774, 7.999, 11.399 max_d=11.399 avg_d=4.774 std_dev=3.224
OP2 A 0, 2.301, 5.527, 8.754, 11.944 max_d=11.944 avg_d=5.527 std_dev=3.227
OP1 A 0, 2.110, 5.453, 8.796, 12.664 max_d=12.664 avg_d=5.453 std_dev=3.343

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 0.03 0.01 0.02 0.02 0.02 0.02 0.08 0.02 0.01 0.03 0.03 0.04 0.02 0.30 0.01 0.23 0.37 0.48 0.24
C2 0.03 0.00 0.24 0.32 0.01 0.13 0.01 0.22 0.01 0.01 0.01 0.02 0.01 0.24 0.17 0.19 0.43 0.74 0.74 0.47
C2' 0.01 0.24 0.00 0.01 0.08 0.03 0.17 0.19 0.22 0.04 0.19 0.09 0.42 0.01 0.04 0.03 0.50 0.71 0.64 0.56
C3' 0.02 0.32 0.01 0.00 0.43 0.01 0.43 0.03 0.37 0.26 0.40 0.47 0.32 0.02 0.01 0.03 0.35 0.59 0.44 0.36
C4 0.02 0.01 0.08 0.43 0.00 0.18 0.01 0.31 0.01 0.01 0.01 0.01 0.02 0.38 0.27 0.05 0.60 1.12 1.06 0.74
C4' 0.02 0.13 0.03 0.01 0.18 0.00 0.30 0.01 0.30 0.11 0.13 0.20 0.28 0.31 0.04 0.01 0.02 0.32 0.31 0.10
C5 0.02 0.01 0.17 0.43 0.01 0.30 0.00 0.46 0.01 0.01 0.01 0.01 0.02 0.48 0.33 0.17 0.72 1.23 1.15 0.88
C5' 0.08 0.22 0.19 0.03 0.31 0.01 0.46 0.00 0.44 0.17 0.23 0.35 0.41 0.15 0.21 0.02 0.01 0.38 0.39 0.02
C6 0.02 0.01 0.22 0.37 0.01 0.30 0.01 0.44 0.00 0.01 0.02 0.02 0.02 0.45 0.26 0.22 0.65 0.98 0.95 0.73
N1 0.01 0.01 0.04 0.26 0.01 0.11 0.01 0.17 0.01 0.00 0.01 0.02 0.02 0.22 0.12 0.03 0.39 0.64 0.68 0.41
N3 0.03 0.01 0.19 0.40 0.01 0.13 0.01 0.23 0.02 0.01 0.00 0.01 0.01 0.28 0.19 0.14 0.51 0.93 0.91 0.59
N4 0.03 0.02 0.09 0.47 0.01 0.20 0.01 0.35 0.02 0.02 0.01 0.00 0.02 0.41 0.32 0.05 0.65 1.27 1.18 0.84
O2 0.04 0.01 0.42 0.32 0.02 0.28 0.02 0.41 0.02 0.02 0.01 0.02 0.00 0.41 0.32 0.34 0.55 0.78 0.76 0.59
O2' 0.02 0.24 0.01 0.02 0.38 0.31 0.48 0.15 0.45 0.22 0.28 0.41 0.41 0.00 0.09 0.21 0.36 0.66 0.64 0.50
O3' 0.30 0.17 0.04 0.01 0.27 0.04 0.33 0.21 0.26 0.12 0.19 0.32 0.32 0.09 0.00 0.20 0.38 0.67 0.54 0.38
O4' 0.01 0.19 0.03 0.03 0.05 0.01 0.17 0.02 0.22 0.03 0.14 0.05 0.34 0.21 0.20 0.00 0.18 0.33 0.49 0.29
O5' 0.23 0.43 0.50 0.35 0.60 0.02 0.72 0.01 0.65 0.39 0.51 0.65 0.55 0.36 0.38 0.18 0.00 0.02 0.03 0.01
OP1 0.37 0.74 0.71 0.59 1.12 0.32 1.23 0.38 0.98 0.64 0.93 1.27 0.78 0.66 0.67 0.33 0.02 0.00 0.02 0.01
OP2 0.48 0.74 0.64 0.44 1.06 0.31 1.15 0.39 0.95 0.68 0.91 1.18 0.76 0.64 0.54 0.49 0.03 0.02 0.00 0.01
P 0.24 0.47 0.56 0.36 0.74 0.10 0.88 0.02 0.73 0.41 0.59 0.84 0.59 0.50 0.38 0.29 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 1.47 0.82 1.65 1.71 0.78 1.66 0.68 1.75 0.74 1.36 0.96 0.73 1.04 1.07 1.22 1.70 1.84 1.63 1.80 2.05 1.83 1.79
C2 0.81 0.88 0.80 0.85 0.59 0.94 0.60 1.13 0.57 0.96 0.78 0.73 0.68 0.90 0.75 0.82 0.99 1.03 1.24 1.51 1.74 1.32
C2' 1.44 0.73 1.66 1.73 0.68 1.69 0.58 1.81 0.75 1.21 0.92 0.64 1.11 0.91 1.12 1.81 1.91 1.64 1.85 2.08 2.02 1.92
C3' 1.86 0.81 2.13 2.25 0.93 2.19 0.67 2.28 0.71 1.47 0.92 0.91 1.10 1.05 1.44 2.33 2.52 2.05 2.24 2.50 2.30 2.33
C4 1.27 0.58 1.02 1.20 0.80 1.59 0.61 1.79 0.46 0.99 0.46 0.82 0.70 0.82 1.04 1.08 1.43 1.67 1.72 1.82 2.26 1.81
C4' 2.20 1.14 2.43 2.54 1.18 2.53 0.87 2.52 0.98 1.66 1.23 1.24 1.38 1.20 1.69 2.68 2.81 2.39 2.40 2.62 2.19 2.37
C5 0.99 0.64 0.94 1.20 0.60 1.40 0.65 1.65 0.70 0.93 0.74 0.56 0.86 0.85 0.83 0.87 1.45 1.42 1.69 1.96 2.21 1.83
C5' 2.42 1.47 2.70 2.80 1.42 2.76 1.05 2.67 1.26 1.65 1.49 1.60 1.69 1.18 1.83 3.06 3.20 2.55 2.40 2.64 2.08 2.33
C6 0.89 0.71 1.08 1.20 0.49 1.15 0.47 1.30 0.68 0.76 0.80 0.59 0.89 0.63 0.70 1.05 1.45 1.14 1.34 1.68 1.70 1.40
N1 0.93 0.68 1.09 1.15 0.50 1.08 0.46 1.21 0.55 0.95 0.77 0.52 0.72 0.76 0.81 1.07 1.31 1.10 1.30 1.60 1.58 1.32
N3 1.07 0.89 0.86 0.91 0.78 1.25 0.58 1.39 0.48 0.86 0.62 0.98 0.66 0.79 0.88 1.01 1.12 1.37 1.33 1.47 1.92 1.40
N4 1.90 0.71 1.60 1.83 1.11 2.35 0.82 2.55 0.66 1.39 0.61 1.10 1.04 1.09 1.51 1.70 2.03 2.41 2.37 2.31 2.86 2.43
O2 0.94 1.15 0.97 1.06 0.73 1.11 0.86 1.34 0.90 1.27 1.08 0.91 1.10 1.25 0.91 1.00 1.10 1.14 1.53 1.83 2.04 1.67
O2' 1.50 0.87 1.68 1.80 0.71 1.84 0.70 2.04 0.87 1.33 1.04 0.70 1.25 1.06 1.17 1.86 1.94 1.78 2.08 2.36 2.31 2.21
O3' 1.95 0.88 2.20 2.42 0.97 2.42 0.79 2.62 0.78 1.64 1.00 0.91 1.15 1.24 1.52 2.41 2.71 2.21 2.62 2.90 2.81 2.83
O4' 1.96 1.12 2.15 2.21 1.09 2.16 0.83 2.14 0.96 1.54 1.23 1.14 1.31 1.14 1.55 2.27 2.38 2.09 2.08 2.31 1.86 2.00
O5' 2.17 1.53 2.52 2.66 1.31 2.54 0.97 2.42 1.31 1.28 1.51 1.63 1.83 0.94 1.57 2.83 3.12 2.29 2.08 2.26 1.86 1.97
OP1 2.56 1.72 3.03 3.20 1.50 3.17 1.03 3.02 1.27 1.42 1.49 1.94 1.81 1.06 1.79 3.52 3.85 2.75 2.48 2.57 2.07 2.27
OP2 1.93 1.91 2.36 2.57 1.38 2.42 1.32 2.45 1.78 1.19 1.91 1.82 2.36 1.27 1.39 2.79 3.09 2.01 2.09 2.49 2.32 2.18
P 2.13 1.63 2.61 2.81 1.24 2.67 0.92 2.58 1.37 1.09 1.56 1.70 1.98 0.90 1.43 3.04 3.42 2.26 2.13 2.42 2.00 2.07

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 0.02 0.08 0.02 0.02 0.03 0.04 0.02 0.01 0.01 0.03 0.32 0.01 0.30 0.62 0.38 0.32
C2 0.04 0.00 0.45 0.72 0.02 0.63 0.01 1.01 0.01 0.02 0.01 0.00 0.01 0.02 0.02 0.53 0.68 0.50 1.00 1.22 1.17 1.07
C2' 0.01 0.45 0.00 0.01 0.23 0.02 0.12 0.20 0.21 0.25 0.35 0.45 0.16 0.16 0.05 0.00 0.05 0.02 0.52 0.67 0.54 0.60
C3' 0.02 0.72 0.01 0.00 0.40 0.01 0.36 0.03 0.45 0.41 0.60 0.68 0.43 0.38 0.21 0.03 0.01 0.02 0.31 0.43 0.33 0.28
C4 0.02 0.02 0.23 0.40 0.00 0.29 0.01 0.42 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.31 0.31 0.26 0.52 0.89 0.69 0.55
C4' 0.01 0.63 0.02 0.01 0.29 0.00 0.16 0.01 0.27 0.37 0.48 0.61 0.21 0.27 0.09 0.28 0.04 0.01 0.02 0.47 0.32 0.18
C5 0.02 0.01 0.12 0.36 0.01 0.16 0.00 0.25 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.33 0.21 0.11 0.58 1.04 0.96 0.65
C5' 0.08 1.01 0.20 0.03 0.42 0.01 0.25 0.00 0.44 0.58 0.78 0.92 0.34 0.44 0.14 0.10 0.23 0.02 0.01 0.36 0.40 0.02
C6 0.02 0.01 0.21 0.45 0.01 0.27 0.01 0.44 0.00 0.02 0.01 0.02 0.00 0.01 0.01 0.37 0.33 0.22 0.62 1.12 0.99 0.71
C8 0.02 0.02 0.25 0.41 0.01 0.37 0.01 0.58 0.02 0.00 0.02 0.01 0.03 0.01 0.01 0.43 0.34 0.28 0.99 1.15 1.31 1.01
N1 0.03 0.01 0.35 0.60 0.01 0.48 0.01 0.78 0.01 0.02 0.00 0.01 0.01 0.02 0.02 0.46 0.54 0.39 0.81 1.17 1.05 0.90
N3 0.04 0.00 0.45 0.68 0.01 0.61 0.01 0.92 0.02 0.01 0.01 0.00 0.02 0.01 0.01 0.50 0.63 0.51 0.89 1.09 0.98 0.93
N6 0.02 0.01 0.16 0.43 0.01 0.21 0.01 0.34 0.00 0.03 0.01 0.02 0.00 0.03 0.02 0.39 0.30 0.15 0.65 1.23 1.18 0.79
N7 0.01 0.02 0.16 0.38 0.01 0.27 0.00 0.44 0.01 0.01 0.02 0.01 0.03 0.00 0.01 0.41 0.29 0.16 0.91 1.27 1.41 1.02
N9 0.01 0.02 0.05 0.21 0.01 0.09 0.01 0.14 0.01 0.01 0.02 0.01 0.02 0.01 0.00 0.21 0.15 0.02 0.49 0.77 0.66 0.48
O2' 0.03 0.53 0.00 0.03 0.31 0.28 0.33 0.10 0.37 0.43 0.46 0.50 0.39 0.41 0.21 0.00 0.10 0.20 0.32 0.76 0.50 0.55
O3' 0.32 0.68 0.05 0.01 0.31 0.04 0.21 0.23 0.33 0.34 0.54 0.63 0.30 0.29 0.15 0.10 0.00 0.22 0.33 0.70 0.45 0.33
O4' 0.01 0.50 0.02 0.02 0.26 0.01 0.11 0.02 0.22 0.28 0.39 0.51 0.15 0.16 0.02 0.20 0.22 0.00 0.19 0.64 0.38 0.31
O5' 0.30 1.00 0.52 0.31 0.52 0.02 0.58 0.01 0.62 0.99 0.81 0.89 0.65 0.91 0.49 0.32 0.33 0.19 0.00 0.02 0.02 0.01
OP1 0.62 1.22 0.67 0.43 0.89 0.47 1.04 0.36 1.12 1.15 1.17 1.09 1.23 1.27 0.77 0.76 0.70 0.64 0.02 0.00 0.01 0.01
OP2 0.38 1.17 0.54 0.33 0.69 0.32 0.96 0.40 0.99 1.31 1.05 0.98 1.18 1.41 0.66 0.50 0.45 0.38 0.02 0.01 0.00 0.01
P 0.32 1.07 0.60 0.28 0.55 0.18 0.65 0.02 0.71 1.01 0.90 0.93 0.79 1.02 0.48 0.55 0.33 0.31 0.01 0.01 0.01 0.00