ClaRNA

Doublet Group distance statistics: 26765

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Distances from reference structure (by RMSD)

5, 18, 0, 1, 0, 0, 0, 0, 0, 2, 48, 3, 0, 2, 6, 1, 33, 5, 34, 342,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N9 B 0, 0.923, 1.531, 2.139, 2.810 max_d=2.810 avg_d=1.531 std_dev=0.608
C4 B 0, 0.736, 1.356, 1.976, 2.555 max_d=2.555 avg_d=1.356 std_dev=0.620
N3 A 0, 0.907, 1.539, 2.171, 2.900 max_d=2.900 avg_d=1.539 std_dev=0.632
C4 A 0, 0.804, 1.512, 2.220, 2.822 max_d=2.822 avg_d=1.512 std_dev=0.708
N3 B 0, 1.048, 1.816, 2.584, 3.552 max_d=3.552 avg_d=1.816 std_dev=0.768
C2 A 0, 0.868, 1.645, 2.421, 4.120 max_d=4.120 avg_d=1.645 std_dev=0.776
C1' B 0, 1.004, 1.805, 2.605, 3.912 max_d=3.912 avg_d=1.805 std_dev=0.800
C5 B 0, 1.224, 2.054, 2.883, 3.364 max_d=3.364 avg_d=2.054 std_dev=0.830
O4' B 0, 1.142, 2.036, 2.930, 5.228 max_d=5.228 avg_d=2.036 std_dev=0.894
C2' B 0, 1.144, 2.142, 3.140, 6.200 max_d=6.200 avg_d=2.142 std_dev=0.998
N9 A 0, 1.177, 2.180, 3.183, 3.810 max_d=3.810 avg_d=2.180 std_dev=1.003
C4' B 0, 1.245, 2.341, 3.438, 7.753 max_d=7.753 avg_d=2.341 std_dev=1.097
C8 B 0, 1.224, 2.339, 3.453, 5.310 max_d=5.310 avg_d=2.339 std_dev=1.115
C6 B 0, 1.310, 2.425, 3.539, 4.557 max_d=4.557 avg_d=2.425 std_dev=1.115
N1 A 0, 0.887, 2.013, 3.140, 5.759 max_d=5.759 avg_d=2.013 std_dev=1.127
C2 B 0, 0.892, 2.082, 3.272, 5.233 max_d=5.233 avg_d=2.082 std_dev=1.190
C5 A 0, 0.875, 2.071, 3.268, 4.925 max_d=4.925 avg_d=2.071 std_dev=1.196
C8 A 0, 1.726, 2.931, 4.135, 5.193 max_d=5.193 avg_d=2.931 std_dev=1.205
N7 B 0, 1.481, 2.760, 4.039, 5.814 max_d=5.814 avg_d=2.760 std_dev=1.279
C3' B 0, 1.238, 2.519, 3.799, 8.106 max_d=8.106 avg_d=2.519 std_dev=1.281
C5' B 0, 1.305, 2.636, 3.966, 8.742 max_d=8.742 avg_d=2.636 std_dev=1.331
N7 A 0, 1.635, 3.059, 4.482, 6.567 max_d=6.567 avg_d=3.059 std_dev=1.423
N1 B 0, 0.566, 2.010, 3.454, 5.496 max_d=5.496 avg_d=2.010 std_dev=1.444
O6 B 0, 1.896, 3.351, 4.806, 6.406 max_d=6.406 avg_d=3.351 std_dev=1.455
C6 A 0, 0.784, 2.282, 3.780, 5.658 max_d=5.658 avg_d=2.282 std_dev=1.498
O5' B 0, 1.305, 2.815, 4.325, 8.034 max_d=8.034 avg_d=2.815 std_dev=1.510
O2' B 0, 1.531, 3.107, 4.683, 7.963 max_d=7.963 avg_d=3.107 std_dev=1.576
C1' A 0, 1.131, 2.738, 4.344, 5.631 max_d=5.631 avg_d=2.738 std_dev=1.606
N2 B 0, 1.387, 3.029, 4.671, 7.125 max_d=7.125 avg_d=3.029 std_dev=1.642
O3' B 0, 1.751, 3.514, 5.278, 10.694 max_d=10.694 avg_d=3.514 std_dev=1.764
C2' A 0, 1.911, 3.770, 5.629, 7.166 max_d=7.166 avg_d=3.770 std_dev=1.859
P B 0, 1.903, 3.909, 5.915, 8.931 max_d=8.931 avg_d=3.909 std_dev=2.006
O2' A 0, 2.431, 4.470, 6.509, 9.422 max_d=9.422 avg_d=4.470 std_dev=2.039
N6 A 0, 1.409, 3.459, 5.508, 8.018 max_d=8.018 avg_d=3.459 std_dev=2.049
O4' A 0, 1.220, 3.366, 5.511, 7.472 max_d=7.472 avg_d=3.366 std_dev=2.145
OP2 B 0, 2.539, 4.702, 6.864, 9.103 max_d=9.103 avg_d=4.702 std_dev=2.162
OP1 B 0, 2.169, 4.520, 6.870, 10.238 max_d=10.238 avg_d=4.520 std_dev=2.350
C3' A 0, 2.331, 4.723, 7.115, 8.996 max_d=8.996 avg_d=4.723 std_dev=2.392
O5' A 0, 2.172, 4.727, 7.282, 10.143 max_d=10.143 avg_d=4.727 std_dev=2.555
C4' A 0, 1.549, 4.301, 7.053, 9.228 max_d=9.228 avg_d=4.301 std_dev=2.752
O3' A 0, 3.319, 6.216, 9.113, 10.784 max_d=10.784 avg_d=6.216 std_dev=2.897
P A 0, 2.453, 5.421, 8.389, 12.266 max_d=12.266 avg_d=5.421 std_dev=2.968
OP2 A 0, 2.557, 5.586, 8.616, 13.671 max_d=13.671 avg_d=5.586 std_dev=3.029
C5' A 0, 1.819, 4.857, 7.895, 10.660 max_d=10.660 avg_d=4.857 std_dev=3.038
OP1 A 0, 2.930, 6.438, 9.947, 13.758 max_d=13.758 avg_d=6.438 std_dev=3.509

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.04 0.00 0.01 0.02 0.01 0.01 0.08 0.02 0.01 0.03 0.04 0.02 0.01 0.01 0.02 0.32 0.01 0.37 0.54 0.41 0.36
C2 0.04 0.00 0.34 0.36 0.01 0.38 0.01 0.72 0.01 0.01 0.00 0.00 0.01 0.01 0.01 0.33 0.34 0.34 0.58 0.84 0.89 0.68
C2' 0.00 0.34 0.00 0.00 0.18 0.02 0.10 0.21 0.17 0.16 0.28 0.34 0.14 0.09 0.03 0.00 0.03 0.02 0.42 0.57 0.47 0.44
C3' 0.01 0.36 0.00 0.00 0.27 0.01 0.35 0.03 0.36 0.42 0.36 0.33 0.40 0.43 0.24 0.02 0.01 0.03 0.27 0.31 0.30 0.21
C4 0.02 0.01 0.18 0.27 0.00 0.16 0.00 0.30 0.01 0.01 0.01 0.00 0.01 0.01 0.00 0.27 0.19 0.18 0.47 0.72 0.77 0.55
C4' 0.01 0.38 0.02 0.01 0.16 0.00 0.12 0.01 0.16 0.31 0.28 0.38 0.14 0.25 0.09 0.33 0.03 0.00 0.02 0.36 0.27 0.14
C5 0.01 0.01 0.10 0.35 0.00 0.12 0.00 0.20 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.35 0.18 0.08 0.68 0.97 1.11 0.82
C5' 0.08 0.72 0.21 0.03 0.30 0.01 0.20 0.00 0.30 0.48 0.54 0.67 0.26 0.40 0.14 0.13 0.24 0.02 0.01 0.33 0.39 0.02
C6 0.02 0.01 0.17 0.36 0.01 0.16 0.01 0.30 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.37 0.22 0.15 0.60 0.94 1.10 0.77
C8 0.01 0.01 0.16 0.42 0.01 0.31 0.01 0.48 0.01 0.00 0.01 0.01 0.02 0.00 0.00 0.36 0.22 0.19 1.06 1.26 1.34 1.16
N1 0.03 0.00 0.28 0.36 0.01 0.28 0.01 0.54 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.35 0.27 0.27 0.52 0.84 0.95 0.66
N3 0.04 0.00 0.34 0.33 0.00 0.38 0.01 0.67 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.29 0.35 0.34 0.52 0.74 0.76 0.60
N6 0.02 0.01 0.14 0.40 0.01 0.14 0.01 0.26 0.00 0.02 0.01 0.01 0.00 0.02 0.02 0.41 0.26 0.11 0.72 1.11 1.32 0.94
N7 0.01 0.01 0.09 0.43 0.01 0.25 0.00 0.40 0.01 0.00 0.01 0.01 0.02 0.00 0.01 0.40 0.25 0.10 1.03 1.33 1.49 1.20
N9 0.01 0.01 0.03 0.24 0.00 0.09 0.01 0.14 0.01 0.00 0.01 0.01 0.02 0.01 0.00 0.22 0.13 0.01 0.61 0.78 0.78 0.64
O2' 0.02 0.33 0.00 0.02 0.27 0.33 0.35 0.13 0.37 0.36 0.35 0.29 0.41 0.40 0.22 0.00 0.06 0.23 0.32 0.49 0.48 0.36
O3' 0.32 0.34 0.03 0.01 0.19 0.03 0.18 0.24 0.22 0.22 0.27 0.35 0.26 0.25 0.13 0.06 0.00 0.23 0.43 0.59 0.53 0.42
O4' 0.01 0.34 0.02 0.03 0.18 0.00 0.08 0.02 0.15 0.19 0.27 0.34 0.11 0.10 0.01 0.23 0.23 0.00 0.31 0.52 0.26 0.31
O5' 0.37 0.58 0.42 0.27 0.47 0.02 0.68 0.01 0.60 1.06 0.52 0.52 0.72 1.03 0.61 0.32 0.43 0.31 0.00 0.02 0.02 0.00
OP1 0.54 0.84 0.57 0.31 0.72 0.36 0.97 0.33 0.94 1.26 0.84 0.74 1.11 1.33 0.78 0.49 0.59 0.52 0.02 0.00 0.01 0.01
OP2 0.41 0.89 0.47 0.30 0.77 0.27 1.11 0.39 1.10 1.34 0.95 0.76 1.32 1.49 0.78 0.48 0.53 0.26 0.02 0.01 0.00 0.01
P 0.36 0.68 0.44 0.21 0.55 0.14 0.82 0.02 0.77 1.16 0.66 0.60 0.94 1.20 0.64 0.36 0.42 0.31 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' 2.65 3.90 2.27 1.94 3.28 1.97 3.47 1.37 3.80 2.98 3.97 4.21 3.52 3.35 2.90 2.43 2.04 2.47 1.32 3.97 1.09 1.13 0.81
C2 1.70 2.75 1.29 1.11 2.33 1.22 2.45 0.85 2.70 1.96 2.83 2.88 2.50 2.22 1.97 1.34 1.29 1.62 0.82 2.73 0.97 0.94 0.34
C2' 2.72 3.72 2.45 2.14 3.23 2.15 3.45 1.58 3.74 3.01 3.81 3.99 3.42 3.39 2.91 2.69 2.25 2.54 1.36 3.96 1.27 1.24 0.98
C3' 2.82 3.91 2.61 2.27 3.33 2.21 3.53 1.64 3.89 3.04 4.01 4.24 3.57 3.43 2.98 2.91 2.40 2.59 1.44 4.15 1.38 1.31 1.06
C4 2.23 3.55 1.80 1.53 2.99 1.56 3.20 1.05 3.55 2.63 3.70 3.73 3.17 2.99 2.57 1.88 1.68 2.04 1.02 3.64 0.99 0.99 0.49
C4' 2.98 4.29 2.69 2.32 3.58 2.26 3.73 1.63 4.14 3.15 4.34 4.69 3.90 3.55 3.16 2.93 2.46 2.71 1.49 4.36 1.40 1.31 1.08
C5 2.34 3.77 1.90 1.60 3.18 1.57 3.43 1.04 3.86 2.75 4.00 3.92 3.35 3.14 2.72 2.00 1.77 2.06 0.96 4.01 0.96 1.00 0.41
C5' 3.05 4.58 2.79 2.46 3.76 2.34 3.94 1.77 4.45 3.20 4.69 5.03 4.12 3.67 3.26 3.01 2.64 2.74 1.65 4.73 1.74 1.50 1.34
C6 2.24 3.51 1.82 1.55 2.97 1.53 3.16 1.06 3.57 2.49 3.70 3.65 3.15 2.85 2.53 1.95 1.76 1.97 0.90 3.73 0.97 1.02 0.44
C8 2.61 4.22 2.19 1.83 3.52 1.77 3.85 1.16 4.35 3.13 4.49 4.46 3.71 3.61 3.02 2.31 1.96 2.30 1.11 4.59 0.99 1.02 0.54
N1 1.93 3.00 1.52 1.32 2.55 1.39 2.70 1.01 3.03 2.11 3.14 3.13 2.71 2.43 2.16 1.62 1.53 1.77 0.86 3.13 0.98 1.00 0.45
N3 1.92 3.04 1.52 1.32 2.56 1.41 2.67 0.97 2.93 2.23 3.09 3.20 2.76 2.49 2.19 1.58 1.47 1.84 0.99 2.96 1.00 0.99 0.50
N6 2.41 3.71 2.04 1.74 3.11 1.68 3.29 1.18 3.76 2.57 3.91 3.89 3.34 2.95 2.65 2.25 2.00 2.06 0.94 3.98 1.01 1.10 0.56
N7 2.56 4.18 2.13 1.77 3.49 1.69 3.80 1.10 4.33 3.05 4.48 4.38 3.67 3.51 2.97 2.25 1.94 2.20 1.01 4.55 0.96 1.01 0.45
N9 2.49 3.90 2.07 1.76 3.27 1.76 3.52 1.18 3.91 2.93 4.07 4.14 3.47 3.34 2.83 2.19 1.88 2.27 1.15 4.08 1.02 1.04 0.61
O2' 2.94 3.72 2.69 2.32 3.34 2.31 3.52 1.66 3.72 3.21 3.75 3.96 3.50 3.53 3.09 2.91 2.35 2.73 1.44 3.86 1.02 1.39 0.98
O3' 3.05 3.87 2.91 2.53 3.42 2.41 3.58 1.83 3.84 3.23 3.93 4.17 3.61 3.54 3.16 3.27 2.60 2.77 1.65 4.06 1.32 1.55 1.19
O4' 2.85 4.26 2.49 2.16 3.51 2.12 3.67 1.49 4.07 3.09 4.32 4.67 3.84 3.46 3.08 2.66 2.30 2.61 1.44 4.25 1.26 1.25 0.96
O5' 3.01 4.49 2.80 2.49 3.69 2.34 3.89 1.76 4.42 3.19 4.65 4.90 4.01 3.63 3.21 3.05 2.70 2.70 1.63 4.72 1.66 1.36 1.23
OP1 3.39 4.82 3.22 2.85 4.05 2.64 4.27 2.02 4.77 3.61 4.99 5.25 4.36 4.06 3.60 3.49 3.05 3.00 1.87 5.10 1.85 1.55 1.44
OP2 2.92 4.40 2.76 2.54 3.55 2.39 3.76 1.90 4.35 3.01 4.61 4.82 3.89 3.45 3.07 3.04 2.83 2.63 1.71 4.69 1.85 1.40 1.36
P 3.14 4.65 2.96 2.66 3.82 2.47 4.04 1.88 4.59 3.32 4.83 5.07 4.15 3.77 3.34 3.22 2.91 2.79 1.72 4.91 1.73 1.40 1.30

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.05 0.01 0.02 0.02 0.02 0.01 0.11 0.02 0.02 0.04 0.06 0.04 0.01 0.01 0.03 0.31 0.01 0.33 0.02 0.45 0.51 0.38
C2 0.05 0.00 0.48 0.64 0.01 0.46 0.01 0.75 0.01 0.01 0.00 0.01 0.01 0.01 0.02 0.35 0.51 0.42 0.92 0.01 1.14 1.10 1.02
C2' 0.01 0.48 0.00 0.01 0.24 0.03 0.13 0.23 0.21 0.26 0.37 0.58 0.47 0.16 0.05 0.00 0.03 0.02 0.59 0.17 0.57 0.72 0.59
C3' 0.02 0.64 0.01 0.00 0.37 0.01 0.38 0.04 0.44 0.48 0.54 0.79 0.60 0.46 0.25 0.02 0.01 0.03 0.40 0.45 0.35 0.49 0.29
C4 0.02 0.01 0.24 0.37 0.00 0.19 0.00 0.32 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.18 0.21 0.22 0.56 0.01 0.72 0.90 0.64
C4' 0.02 0.46 0.03 0.01 0.19 0.00 0.13 0.01 0.18 0.36 0.33 0.60 0.44 0.28 0.10 0.32 0.04 0.01 0.02 0.16 0.30 0.25 0.17
C5 0.01 0.01 0.13 0.38 0.00 0.13 0.00 0.29 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.25 0.22 0.10 0.65 0.01 0.90 1.26 0.86
C5' 0.11 0.75 0.23 0.04 0.32 0.01 0.29 0.00 0.36 0.59 0.57 0.99 0.68 0.51 0.22 0.12 0.23 0.02 0.01 0.35 0.21 0.33 0.02
C6 0.02 0.01 0.21 0.44 0.01 0.18 0.01 0.36 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.24 0.25 0.19 0.67 0.01 0.96 1.25 0.86
C8 0.02 0.01 0.26 0.48 0.01 0.36 0.01 0.59 0.01 0.00 0.01 0.02 0.01 0.00 0.00 0.42 0.40 0.24 0.98 0.02 1.17 1.57 1.23
N1 0.04 0.00 0.37 0.54 0.01 0.33 0.01 0.57 0.00 0.01 0.00 0.01 0.01 0.01 0.02 0.26 0.37 0.33 0.78 0.01 1.04 1.11 0.90
N2 0.06 0.01 0.58 0.79 0.01 0.60 0.01 0.99 0.01 0.02 0.01 0.00 0.01 0.01 0.02 0.49 0.71 0.50 1.18 0.02 1.46 1.39 1.36
N3 0.04 0.01 0.47 0.60 0.00 0.44 0.01 0.68 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.34 0.49 0.41 0.82 0.01 0.95 0.93 0.86
N7 0.01 0.01 0.16 0.46 0.01 0.28 0.00 0.51 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.41 0.39 0.13 0.93 0.02 1.21 1.71 1.25
N9 0.01 0.02 0.05 0.25 0.01 0.10 0.01 0.22 0.01 0.00 0.02 0.02 0.01 0.01 0.00 0.19 0.16 0.02 0.54 0.02 0.68 0.93 0.66
O2' 0.03 0.35 0.00 0.02 0.18 0.32 0.25 0.12 0.24 0.42 0.26 0.49 0.34 0.41 0.19 0.00 0.07 0.21 0.44 0.28 0.42 0.68 0.45
O3' 0.31 0.51 0.03 0.01 0.21 0.04 0.22 0.23 0.25 0.40 0.37 0.71 0.49 0.39 0.16 0.07 0.00 0.23 0.35 0.30 0.52 0.62 0.37
O4' 0.01 0.42 0.02 0.03 0.22 0.01 0.10 0.02 0.19 0.24 0.33 0.50 0.41 0.13 0.02 0.21 0.23 0.00 0.15 0.14 0.38 0.40 0.29
O5' 0.33 0.92 0.59 0.40 0.56 0.02 0.65 0.01 0.67 0.98 0.78 1.18 0.82 0.93 0.54 0.44 0.35 0.15 0.00 0.71 0.02 0.02 0.01
O6 0.02 0.01 0.17 0.45 0.01 0.16 0.01 0.35 0.01 0.02 0.01 0.02 0.01 0.02 0.02 0.28 0.30 0.14 0.71 0.00 1.06 1.45 0.98
OP1 0.45 1.14 0.57 0.35 0.72 0.30 0.90 0.21 0.96 1.17 1.04 1.46 0.95 1.21 0.68 0.42 0.52 0.38 0.02 1.06 0.00 0.01 0.01
OP2 0.51 1.10 0.72 0.49 0.90 0.25 1.26 0.33 1.25 1.57 1.11 1.39 0.93 1.71 0.93 0.68 0.62 0.40 0.02 1.45 0.01 0.00 0.01
P 0.38 1.02 0.59 0.29 0.64 0.17 0.86 0.02 0.86 1.23 0.90 1.36 0.86 1.25 0.66 0.45 0.37 0.29 0.01 0.98 0.01 0.01 0.00