ClaRNA

Doublet Group distance statistics: 43989

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Distances from reference structure (by RMSD)

33, 16, 20, 31, 11, 2, 0, 1, 3, 4, 3, 5, 0, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N4 A 0, 0.073, 0.203, 0.332, 0.629 max_d=0.629 avg_d=0.203 std_dev=0.129
N9 B 0, 0.038, 0.243, 0.447, 0.842 max_d=0.842 avg_d=0.243 std_dev=0.204
C8 B 0, 0.083, 0.311, 0.539, 1.201 max_d=1.201 avg_d=0.311 std_dev=0.228
N6 B 0, 0.108, 0.344, 0.581, 0.903 max_d=0.903 avg_d=0.344 std_dev=0.237
N7 B 0, 0.073, 0.315, 0.556, 1.164 max_d=1.164 avg_d=0.315 std_dev=0.242
O2 A 0, 0.031, 0.328, 0.626, 1.349 max_d=1.349 avg_d=0.328 std_dev=0.297
N1 B 0, -0.754, 1.748, 4.250, 6.583 max_d=6.583 avg_d=1.748 std_dev=2.502
C2 B 0, -0.846, 1.750, 4.346, 6.945 max_d=6.945 avg_d=1.750 std_dev=2.596
N1 A 0, -0.965, 1.664, 4.293, 6.682 max_d=6.682 avg_d=1.664 std_dev=2.629
C6 B 0, -0.844, 1.816, 4.476, 7.028 max_d=7.028 avg_d=1.816 std_dev=2.660
C2 A 0, -0.972, 1.698, 4.368, 6.966 max_d=6.966 avg_d=1.698 std_dev=2.670
C6 A 0, -0.935, 1.785, 4.506, 6.849 max_d=6.849 avg_d=1.785 std_dev=2.720
N3 A 0, -1.051, 1.833, 4.717, 7.374 max_d=7.374 avg_d=1.833 std_dev=2.884
N3 B 0, -1.066, 1.832, 4.730, 7.780 max_d=7.780 avg_d=1.832 std_dev=2.898
C5 B 0, -1.053, 1.870, 4.793, 7.475 max_d=7.475 avg_d=1.870 std_dev=2.923
C5 A 0, -1.040, 1.885, 4.810, 7.417 max_d=7.417 avg_d=1.885 std_dev=2.925
C4 A 0, -1.134, 1.841, 4.816, 7.470 max_d=7.470 avg_d=1.841 std_dev=2.975
C4 B 0, -1.139, 1.845, 4.829, 7.504 max_d=7.504 avg_d=1.845 std_dev=2.984
C1' B 0, -1.895, 3.189, 8.273, 12.731 max_d=12.731 avg_d=3.189 std_dev=5.084
C1' A 0, -1.969, 3.116, 8.200, 12.562 max_d=12.562 avg_d=3.116 std_dev=5.084
C2' A 0, -1.858, 3.265, 8.387, 12.803 max_d=12.803 avg_d=3.265 std_dev=5.123
C2' B 0, -1.909, 3.367, 8.643, 13.387 max_d=13.387 avg_d=3.367 std_dev=5.276
O2' A 0, -1.920, 3.654, 9.228, 14.389 max_d=14.389 avg_d=3.654 std_dev=5.574
O2' B 0, -1.939, 3.734, 9.406, 14.757 max_d=14.757 avg_d=3.734 std_dev=5.673
C3' A 0, -2.146, 3.794, 9.735, 14.897 max_d=14.897 avg_d=3.794 std_dev=5.940
OP2 B 0, -1.418, 4.567, 10.553, 20.207 max_d=20.207 avg_d=4.567 std_dev=5.986
O4' A 0, -2.259, 3.732, 9.722, 14.839 max_d=14.839 avg_d=3.732 std_dev=5.991
OP2 A 0, -1.641, 4.371, 10.382, 17.587 max_d=17.587 avg_d=4.371 std_dev=6.012
O4' B 0, -2.194, 3.829, 9.852, 15.007 max_d=15.007 avg_d=3.829 std_dev=6.023
C3' B 0, -2.180, 3.938, 10.057, 15.285 max_d=15.285 avg_d=3.938 std_dev=6.118
C4' A 0, -2.441, 4.171, 10.783, 16.363 max_d=16.363 avg_d=4.171 std_dev=6.612
O5' A 0, -2.159, 4.469, 11.097, 17.742 max_d=17.742 avg_d=4.469 std_dev=6.628
O5' B 0, -2.087, 4.556, 11.199, 17.947 max_d=17.947 avg_d=4.556 std_dev=6.643
O3' A 0, -2.273, 4.377, 11.027, 16.820 max_d=16.820 avg_d=4.377 std_dev=6.650
C4' B 0, -2.365, 4.342, 11.048, 16.725 max_d=16.725 avg_d=4.342 std_dev=6.706
O3' B 0, -2.421, 4.479, 11.379, 17.429 max_d=17.429 avg_d=4.479 std_dev=6.900
P A 0, -2.103, 4.814, 11.732, 19.219 max_d=19.219 avg_d=4.814 std_dev=6.918
P B 0, -1.973, 4.956, 11.886, 19.772 max_d=19.772 avg_d=4.956 std_dev=6.930
C5' A 0, -2.590, 4.547, 11.685, 17.756 max_d=17.756 avg_d=4.547 std_dev=7.138
C5' B 0, -2.406, 4.854, 12.113, 18.204 max_d=18.204 avg_d=4.854 std_dev=7.260
OP1 B 0, -2.140, 5.695, 13.531, 20.581 max_d=20.581 avg_d=5.695 std_dev=7.836
OP1 A 0, -2.354, 5.560, 13.475, 21.774 max_d=21.774 avg_d=5.560 std_dev=7.914

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 0.80 0.01 0.01 0.70 0.01 0.04 0.05 1.03 1.55 0.29 0.03 0.05 0.02 0.19 0.01 0.23 0.36 0.38 0.25
C2 0.80 0.00 0.58 0.68 0.06 0.81 0.04 0.88 0.04 0.02 0.01 0.02 0.01 0.47 0.63 0.90 1.13 1.15 1.03 1.10
C2' 0.01 0.58 0.00 0.00 0.75 0.02 0.11 0.11 0.97 1.31 0.51 0.05 0.26 0.01 0.02 0.01 0.23 0.33 0.34 0.21
C3' 0.01 0.68 0.00 0.00 0.62 0.01 0.29 0.02 1.24 1.47 0.38 0.27 0.14 0.02 0.01 0.02 0.31 0.40 0.30 0.27
C4 0.70 0.06 0.75 0.62 0.00 0.52 0.02 0.34 0.02 0.04 0.01 0.01 0.02 0.84 0.59 0.51 0.66 0.72 0.90 0.73
C4' 0.01 0.81 0.02 0.01 0.52 0.00 0.27 0.01 1.37 1.64 0.21 0.09 0.14 0.18 0.02 0.00 0.02 0.22 0.29 0.07
C5 0.04 0.04 0.11 0.29 0.02 0.27 0.00 0.45 0.03 0.02 0.02 0.01 0.02 0.25 0.24 0.19 1.04 1.04 1.19 1.10
C5' 0.05 0.88 0.11 0.02 0.34 0.01 0.45 0.00 1.50 1.65 0.14 0.11 0.22 0.08 0.12 0.02 0.01 0.28 0.35 0.02
C6 1.03 0.04 0.97 1.24 0.02 1.37 0.03 1.50 0.00 0.01 0.06 0.01 0.02 0.87 1.18 1.31 1.84 1.72 1.55 1.72
N1 1.55 0.02 1.31 1.47 0.04 1.64 0.02 1.65 0.01 0.00 0.02 0.02 0.02 1.18 1.39 1.67 1.83 1.73 1.44 1.68
N3 0.29 0.01 0.51 0.38 0.01 0.21 0.02 0.14 0.06 0.02 0.00 0.01 0.01 0.66 0.42 0.15 0.58 0.72 0.81 0.68
N4 0.03 0.02 0.05 0.27 0.01 0.09 0.01 0.11 0.01 0.02 0.01 0.00 0.02 0.24 0.12 0.04 0.78 0.87 1.07 0.89
O2 0.05 0.01 0.26 0.14 0.02 0.14 0.02 0.22 0.02 0.02 0.01 0.02 0.00 0.26 0.37 0.25 0.36 0.70 0.50 0.51
O2' 0.02 0.47 0.01 0.02 0.84 0.18 0.25 0.08 0.87 1.18 0.66 0.24 0.26 0.00 0.04 0.12 0.11 0.28 0.29 0.12
O3' 0.19 0.63 0.02 0.01 0.59 0.02 0.24 0.12 1.18 1.39 0.42 0.12 0.37 0.04 0.00 0.13 0.30 0.50 0.33 0.31
O4' 0.01 0.90 0.01 0.02 0.51 0.00 0.19 0.02 1.31 1.67 0.15 0.04 0.25 0.12 0.13 0.00 0.25 0.38 0.40 0.29
O5' 0.23 1.13 0.23 0.31 0.66 0.02 1.04 0.01 1.84 1.83 0.58 0.78 0.36 0.11 0.30 0.25 0.00 0.02 0.02 0.01
OP1 0.36 1.15 0.33 0.40 0.72 0.22 1.04 0.28 1.72 1.73 0.72 0.87 0.70 0.28 0.50 0.38 0.02 0.00 0.01 0.01
OP2 0.38 1.03 0.34 0.30 0.90 0.29 1.19 0.35 1.55 1.44 0.81 1.07 0.50 0.29 0.33 0.40 0.02 0.01 0.00 0.01
P 0.25 1.10 0.21 0.27 0.73 0.07 1.10 0.02 1.72 1.68 0.68 0.89 0.51 0.12 0.31 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' 0.64 1.02 0.71 0.66 0.54 0.64 0.78 0.63 1.58 0.49 1.71 0.64 0.44 0.47 0.56 0.86 0.76 0.62 0.56 0.94 0.77 0.64
C2 1.06 0.53 1.17 1.06 0.77 1.04 0.61 0.96 1.08 0.41 1.01 0.88 0.45 0.44 0.38 1.36 1.18 1.01 0.81 1.09 0.94 0.86
C2' 0.74 1.19 0.78 0.73 0.60 0.73 0.98 0.72 1.76 0.57 1.89 0.70 0.50 0.53 0.64 0.92 0.81 0.74 0.60 0.96 0.69 0.64
C3' 0.74 1.10 0.74 0.69 0.62 0.72 0.94 0.72 1.73 0.66 1.82 0.69 0.59 0.65 0.70 0.87 0.75 0.74 0.60 0.93 0.72 0.62
C4 0.41 0.70 0.42 0.37 0.37 0.43 0.93 0.58 1.69 0.37 1.53 0.49 0.28 0.38 0.34 0.59 0.41 0.45 0.63 0.99 0.97 0.75
C4' 0.62 0.98 0.68 0.62 0.57 0.60 0.74 0.60 1.57 0.53 1.69 0.64 0.48 0.51 0.57 0.83 0.72 0.60 0.53 0.90 0.77 0.60
C5 0.93 0.68 1.07 0.94 1.09 0.86 0.46 0.77 0.93 0.47 0.90 1.22 0.27 0.45 0.52 1.22 1.04 0.82 0.75 1.03 0.96 0.81
C5' 0.57 0.85 0.63 0.57 0.66 0.55 0.63 0.58 1.45 0.52 1.56 0.68 0.45 0.52 0.53 0.76 0.67 0.55 0.56 0.90 0.88 0.66
C6 1.74 1.15 1.90 1.81 1.80 1.72 1.01 1.61 0.48 0.51 0.58 1.89 0.33 0.48 0.59 2.01 1.91 1.64 1.55 1.70 1.59 1.56
N1 1.81 1.03 1.96 1.87 1.59 1.80 0.93 1.69 0.54 0.45 0.53 1.71 0.41 0.44 0.49 2.10 1.98 1.72 1.57 1.72 1.57 1.57
N3 0.50 0.82 0.49 0.48 0.44 0.53 1.09 0.64 1.80 0.40 1.67 0.42 0.39 0.44 0.34 0.66 0.52 0.55 0.63 0.99 0.92 0.73
N4 0.26 0.38 0.20 0.25 0.25 0.35 0.25 0.52 0.27 0.35 0.39 0.31 0.20 0.35 0.27 0.22 0.20 0.34 0.53 0.91 0.94 0.68
O2 0.40 0.42 0.44 0.49 0.41 0.47 0.45 0.58 0.45 0.47 0.40 0.42 0.51 0.50 0.42 0.42 0.51 0.43 0.49 0.91 0.78 0.62
O2' 0.85 1.34 0.89 0.84 0.67 0.86 1.11 0.85 1.85 0.61 2.00 0.78 0.59 0.57 0.67 1.03 0.93 0.86 0.76 1.08 0.80 0.80
O3' 0.77 1.19 0.75 0.69 0.58 0.76 1.04 0.77 1.83 0.62 1.93 0.65 0.55 0.60 0.64 0.88 0.74 0.80 0.64 0.96 0.70 0.65
O4' 0.59 0.92 0.69 0.63 0.58 0.59 0.64 0.60 1.47 0.46 1.60 0.64 0.42 0.45 0.52 0.84 0.75 0.56 0.56 0.93 0.84 0.66
O5' 0.86 1.11 0.83 0.83 0.89 0.86 1.04 0.92 1.75 0.98 1.80 0.86 0.88 1.00 0.92 0.89 0.84 0.90 0.87 1.13 1.16 0.94
OP1 0.96 1.09 0.92 0.93 1.06 0.97 1.04 1.03 1.65 1.09 1.70 1.02 0.95 1.10 1.03 0.98 0.94 1.01 1.04 1.24 1.33 1.10
OP2 1.16 1.09 1.12 1.14 1.33 1.20 1.18 1.27 1.60 1.35 1.57 1.26 1.08 1.36 1.25 1.14 1.14 1.22 1.26 1.44 1.55 1.33
P 0.95 1.04 0.91 0.92 1.08 0.97 1.02 1.04 1.61 1.12 1.63 1.02 0.98 1.13 1.04 0.96 0.94 0.99 1.02 1.24 1.32 1.09

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.81 0.01 0.01 0.73 0.01 0.04 0.04 1.02 0.02 1.56 0.27 0.03 0.02 0.01 0.02 0.06 0.01 0.26 0.40 0.35 0.20
C2 0.81 0.00 0.58 0.68 0.10 0.84 0.07 0.91 0.05 0.02 0.03 0.02 0.01 0.03 0.02 0.48 0.59 0.93 1.04 1.16 1.23 1.12
C2' 0.01 0.58 0.00 0.01 0.76 0.02 0.07 0.04 0.97 0.08 1.32 0.48 0.07 0.07 0.02 0.01 0.02 0.01 0.23 0.34 0.34 0.17
C3' 0.01 0.68 0.01 0.00 0.60 0.01 0.22 0.02 1.22 0.12 1.46 0.32 0.09 0.10 0.04 0.02 0.01 0.02 0.26 0.34 0.31 0.19
C4 0.73 0.10 0.76 0.60 0.00 0.53 0.02 0.36 0.02 0.01 0.06 0.02 0.02 0.01 0.01 0.84 0.61 0.53 0.54 0.68 0.82 0.53
C4' 0.01 0.84 0.02 0.01 0.53 0.00 0.25 0.01 1.35 0.08 1.65 0.17 0.07 0.08 0.04 0.09 0.02 0.01 0.02 0.20 0.28 0.13
C5 0.04 0.07 0.07 0.22 0.02 0.25 0.00 0.44 0.03 0.01 0.02 0.03 0.02 0.01 0.01 0.17 0.21 0.17 0.82 1.08 1.23 0.99
C5' 0.04 0.91 0.04 0.02 0.36 0.01 0.44 0.00 1.47 0.17 1.66 0.12 0.19 0.19 0.11 0.07 0.07 0.02 0.01 0.24 0.30 0.02
C6 1.02 0.05 0.97 1.22 0.02 1.35 0.03 1.47 0.00 0.02 0.02 0.07 0.01 0.02 0.02 0.88 1.16 1.28 1.62 1.74 1.74 1.69
C8 0.02 0.02 0.08 0.12 0.01 0.08 0.01 0.17 0.02 0.00 0.02 0.01 0.03 0.00 0.01 0.05 0.13 0.06 0.65 0.85 0.67 0.62
N1 1.56 0.03 1.32 1.46 0.06 1.65 0.02 1.66 0.02 0.02 0.00 0.03 0.01 0.02 0.03 1.20 1.35 1.68 1.70 1.76 1.69 1.71
N3 0.27 0.02 0.48 0.32 0.02 0.17 0.03 0.12 0.07 0.01 0.03 0.00 0.02 0.01 0.01 0.63 0.41 0.12 0.48 0.65 0.86 0.57
N6 0.03 0.01 0.07 0.09 0.02 0.07 0.02 0.19 0.01 0.03 0.01 0.02 0.00 0.03 0.03 0.08 0.12 0.06 0.70 0.89 0.97 0.80
N7 0.02 0.03 0.07 0.10 0.01 0.08 0.01 0.19 0.02 0.00 0.02 0.01 0.03 0.00 0.01 0.05 0.12 0.06 0.69 0.99 0.86 0.74
N9 0.01 0.02 0.02 0.04 0.01 0.04 0.01 0.11 0.02 0.01 0.03 0.01 0.03 0.01 0.00 0.03 0.04 0.02 0.49 0.64 0.46 0.41
O2' 0.02 0.48 0.01 0.02 0.84 0.09 0.17 0.07 0.88 0.05 1.20 0.63 0.08 0.05 0.03 0.00 0.06 0.07 0.10 0.34 0.30 0.22
O3' 0.06 0.59 0.02 0.01 0.61 0.02 0.21 0.07 1.16 0.13 1.35 0.41 0.12 0.12 0.04 0.06 0.00 0.04 0.28 0.42 0.31 0.27
O4' 0.01 0.93 0.01 0.02 0.53 0.01 0.17 0.02 1.28 0.06 1.68 0.12 0.06 0.06 0.02 0.07 0.04 0.00 0.24 0.36 0.35 0.20
O5' 0.26 1.04 0.23 0.26 0.54 0.02 0.82 0.01 1.62 0.65 1.70 0.48 0.70 0.69 0.49 0.10 0.28 0.24 0.00 0.02 0.02 0.01
OP1 0.40 1.16 0.34 0.34 0.68 0.20 1.08 0.24 1.74 0.85 1.76 0.65 0.89 0.99 0.64 0.34 0.42 0.36 0.02 0.00 0.01 0.01
OP2 0.35 1.23 0.34 0.31 0.82 0.28 1.23 0.30 1.74 0.67 1.69 0.86 0.97 0.86 0.46 0.30 0.31 0.35 0.02 0.01 0.00 0.01
P 0.20 1.12 0.17 0.19 0.53 0.13 0.99 0.02 1.69 0.62 1.71 0.57 0.80 0.74 0.41 0.22 0.27 0.20 0.01 0.01 0.01 0.00