ClaRNA

Doublet Group distance statistics: 54984

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Distances from reference structure (by RMSD)

1, 0, 0, 0, 0, 0, 0, 0, 1, 3, 1, 2, 1, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C6 A 0, 0.011, 0.019, 0.028, 0.034 max_d=0.034 avg_d=0.019 std_dev=0.008
C2 A 0, 0.003, 0.013, 0.024, 0.030 max_d=0.030 avg_d=0.013 std_dev=0.010
C1' A 0, 0.013, 0.024, 0.036, 0.037 max_d=0.037 avg_d=0.024 std_dev=0.011
C5 A 0, 0.016, 0.028, 0.040, 0.050 max_d=0.050 avg_d=0.028 std_dev=0.012
N3 A 0, 0.014, 0.027, 0.040, 0.053 max_d=0.053 avg_d=0.027 std_dev=0.013
N1 A 0, 0.017, 0.031, 0.045, 0.045 max_d=0.045 avg_d=0.031 std_dev=0.014
C4 A 0, 0.019, 0.035, 0.052, 0.066 max_d=0.066 avg_d=0.035 std_dev=0.017
N6 A 0, 0.026, 0.044, 0.062, 0.067 max_d=0.067 avg_d=0.044 std_dev=0.018
N9 A 0, 0.020, 0.043, 0.067, 0.087 max_d=0.087 avg_d=0.043 std_dev=0.024
N7 A 0, 0.026, 0.052, 0.078, 0.103 max_d=0.103 avg_d=0.052 std_dev=0.026
C8 A 0, 0.031, 0.068, 0.106, 0.143 max_d=0.143 avg_d=0.068 std_dev=0.037
C2' A 0, 0.130, 0.403, 0.676, 0.767 max_d=0.767 avg_d=0.403 std_dev=0.273
O4' A 0, 0.022, 0.341, 0.661, 0.810 max_d=0.810 avg_d=0.341 std_dev=0.319
C4' A 0, 0.263, 0.626, 0.990, 1.196 max_d=1.196 avg_d=0.626 std_dev=0.363
P B 0, 0.108, 0.490, 0.871, 1.120 max_d=1.120 avg_d=0.490 std_dev=0.382
OP1 B 0, 0.613, 1.121, 1.629, 1.706 max_d=1.706 avg_d=1.121 std_dev=0.508
OP2 B 0, 0.544, 1.086, 1.628, 1.764 max_d=1.764 avg_d=1.086 std_dev=0.542
C3' A 0, 0.273, 0.837, 1.401, 1.758 max_d=1.758 avg_d=0.837 std_dev=0.564
O2' A 0, 0.177, 0.916, 1.655, 2.061 max_d=2.061 avg_d=0.916 std_dev=0.739
C5' A 0, 0.419, 1.187, 1.954, 2.378 max_d=2.378 avg_d=1.187 std_dev=0.767
O3' A 0, 0.376, 1.380, 2.384, 2.926 max_d=2.926 avg_d=1.380 std_dev=1.004
O5' A 0, 0.634, 1.795, 2.955, 3.432 max_d=3.432 avg_d=1.795 std_dev=1.160
O5' B 0, 1.130, 2.337, 3.545, 3.844 max_d=3.844 avg_d=2.337 std_dev=1.208
P A 0, 1.578, 3.209, 4.839, 5.164 max_d=5.164 avg_d=3.209 std_dev=1.630
C5' B 0, 1.569, 3.284, 5.000, 5.349 max_d=5.349 avg_d=3.284 std_dev=1.715
OP1 A 0, 2.097, 4.051, 6.005, 5.815 max_d=5.815 avg_d=4.051 std_dev=1.954
OP2 A 0, 1.339, 3.894, 6.449, 7.462 max_d=7.462 avg_d=3.894 std_dev=2.555
C4' B 0, 2.407, 4.964, 7.521, 8.199 max_d=8.199 avg_d=4.964 std_dev=2.557
O4' B 0, 2.368, 5.229, 8.090, 9.095 max_d=9.095 avg_d=5.229 std_dev=2.861
C3' B 0, 3.498, 6.622, 9.746, 10.103 max_d=10.103 avg_d=6.622 std_dev=3.124
C6 B 0, 3.468, 6.746, 10.023, 10.431 max_d=10.431 avg_d=6.746 std_dev=3.278
O3' B 0, 4.214, 7.812, 11.411, 11.836 max_d=11.836 avg_d=7.812 std_dev=3.598
C1' B 0, 3.551, 7.157, 10.762, 11.417 max_d=11.417 avg_d=7.157 std_dev=3.605
C2' B 0, 4.248, 7.928, 11.607, 11.784 max_d=11.784 avg_d=7.928 std_dev=3.680
C5 B 0, 3.963, 7.671, 11.378, 11.457 max_d=11.457 avg_d=7.671 std_dev=3.707
N1 B 0, 3.903, 7.724, 11.545, 11.763 max_d=11.763 avg_d=7.724 std_dev=3.821
O2' B 0, 4.851, 9.329, 13.807, 14.068 max_d=14.068 avg_d=9.329 std_dev=4.478
C4 B 0, 4.837, 9.492, 14.147, 14.102 max_d=14.102 avg_d=9.492 std_dev=4.655
C2 B 0, 4.750, 9.507, 14.265, 14.492 max_d=14.492 avg_d=9.507 std_dev=4.758
N3 B 0, 5.132, 10.210, 15.289, 15.399 max_d=15.399 avg_d=10.210 std_dev=5.078
O4 B 0, 5.395, 10.581, 15.767, 15.555 max_d=15.555 avg_d=10.581 std_dev=5.186
O2 B 0, 5.162, 10.530, 15.897, 16.171 max_d=16.171 avg_d=10.530 std_dev=5.367

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 0.03 0.01 0.02 0.01 0.01 0.01 0.09 0.01 0.02 0.02 0.03 0.01 0.02 0.00 0.04 0.27 0.00 0.51 0.48 0.43 0.47
C2 0.03 0.00 0.23 0.11 0.01 0.07 0.02 0.30 0.01 0.02 0.01 0.01 0.01 0.02 0.01 0.68 0.52 0.17 0.67 0.57 1.11 0.76
C2' 0.01 0.23 0.00 0.01 0.13 0.02 0.09 0.19 0.12 0.15 0.18 0.23 0.11 0.12 0.04 0.00 0.01 0.03 0.65 1.13 0.68 0.80
C3' 0.02 0.11 0.01 0.00 0.13 0.01 0.29 0.03 0.24 0.51 0.12 0.12 0.32 0.48 0.23 0.02 0.01 0.01 0.25 0.96 0.15 0.41
C4 0.01 0.01 0.13 0.13 0.00 0.11 0.01 0.31 0.00 0.01 0.01 0.00 0.01 0.01 0.00 0.48 0.23 0.09 0.66 0.48 1.05 0.73
C4' 0.01 0.07 0.02 0.01 0.11 0.00 0.20 0.01 0.18 0.27 0.13 0.05 0.22 0.27 0.14 0.29 0.03 0.00 0.02 0.33 0.35 0.05
C5 0.01 0.02 0.09 0.29 0.01 0.20 0.00 0.42 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.46 0.05 0.07 0.68 0.46 1.33 0.83
C5' 0.09 0.30 0.19 0.03 0.31 0.01 0.42 0.00 0.44 0.41 0.38 0.24 0.49 0.47 0.27 0.13 0.16 0.02 0.01 0.27 0.23 0.03
C6 0.01 0.01 0.12 0.24 0.00 0.18 0.01 0.44 0.00 0.01 0.01 0.01 0.01 0.01 0.01 0.56 0.12 0.09 0.71 0.49 1.43 0.88
C8 0.02 0.02 0.15 0.51 0.01 0.27 0.01 0.41 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.24 0.33 0.14 0.63 0.43 1.19 0.79
N1 0.02 0.01 0.18 0.12 0.01 0.13 0.01 0.38 0.01 0.01 0.00 0.01 0.01 0.02 0.01 0.65 0.34 0.14 0.70 0.54 1.32 0.84
N3 0.03 0.01 0.23 0.12 0.00 0.05 0.01 0.24 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.63 0.54 0.17 0.63 0.56 0.94 0.69
N6 0.01 0.01 0.11 0.32 0.01 0.22 0.01 0.49 0.01 0.01 0.01 0.01 0.00 0.02 0.01 0.56 0.08 0.08 0.71 0.49 1.59 0.93
N7 0.02 0.02 0.12 0.48 0.01 0.27 0.00 0.47 0.01 0.00 0.02 0.01 0.02 0.00 0.02 0.34 0.30 0.11 0.65 0.45 1.42 0.87
N9 0.00 0.01 0.04 0.23 0.00 0.14 0.01 0.27 0.01 0.01 0.01 0.01 0.01 0.02 0.00 0.25 0.05 0.04 0.61 0.43 0.89 0.66
O2' 0.04 0.68 0.00 0.02 0.48 0.29 0.46 0.13 0.56 0.24 0.65 0.63 0.56 0.34 0.25 0.00 0.03 0.22 0.33 0.91 0.28 0.44
O3' 0.27 0.52 0.01 0.01 0.23 0.03 0.05 0.16 0.12 0.33 0.34 0.54 0.08 0.30 0.05 0.03 0.00 0.20 0.39 0.73 0.63 0.30
O4' 0.00 0.17 0.03 0.01 0.09 0.00 0.07 0.02 0.09 0.14 0.14 0.17 0.08 0.11 0.04 0.22 0.20 0.00 0.36 0.16 0.16 0.20
O5' 0.51 0.67 0.65 0.25 0.66 0.02 0.68 0.01 0.71 0.63 0.70 0.63 0.71 0.65 0.61 0.33 0.39 0.36 0.00 0.01 0.01 0.01
OP1 0.48 0.57 1.13 0.96 0.48 0.33 0.46 0.27 0.49 0.43 0.54 0.56 0.49 0.45 0.43 0.91 0.73 0.16 0.01 0.00 0.02 0.01
OP2 0.43 1.11 0.68 0.15 1.05 0.35 1.33 0.23 1.43 1.19 1.32 0.94 1.59 1.42 0.89 0.28 0.63 0.16 0.01 0.02 0.00 0.00
P 0.47 0.76 0.80 0.41 0.73 0.05 0.83 0.03 0.88 0.79 0.84 0.69 0.93 0.87 0.66 0.44 0.30 0.20 0.01 0.01 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.79 1.83 1.03 0.93 2.76 0.43 2.45 0.63 1.79 1.47 2.43 1.69 1.08 1.02 3.27 0.62 0.48 0.25 0.26 0.25
C2 0.71 1.03 1.21 1.11 1.89 1.09 1.71 1.20 1.03 0.75 1.47 1.06 1.58 1.11 2.34 0.82 0.25 0.26 0.34 0.22
C2' 0.60 1.46 0.93 0.79 2.39 0.39 2.19 0.63 1.59 1.20 2.01 1.28 1.04 0.83 2.87 0.54 0.46 0.30 0.33 0.28
C3' 0.92 1.78 1.21 1.12 2.66 0.53 2.44 0.49 1.85 1.51 2.32 1.62 1.21 1.27 3.14 0.72 0.80 0.44 0.33 0.42
C4 0.67 1.58 0.91 0.83 2.44 0.45 2.24 0.67 1.64 1.30 2.10 1.42 0.98 0.85 2.82 0.55 0.44 0.25 0.27 0.24
C4' 1.28 2.35 1.44 1.23 3.22 0.56 2.85 0.37 2.22 1.96 2.94 2.22 1.38 1.38 3.75 0.95 0.80 0.39 0.29 0.41
C5 1.00 1.80 1.08 0.97 2.48 0.39 2.37 0.41 1.89 1.58 2.21 1.63 0.99 1.04 2.73 0.75 0.62 0.25 0.26 0.27
C5' 2.02 3.07 2.09 1.74 3.80 1.12 3.40 0.55 2.82 2.65 3.60 2.98 2.01 1.93 4.28 1.59 1.24 0.69 0.51 0.72
C6 0.73 1.40 0.82 0.73 2.03 0.34 2.00 0.52 1.58 1.25 1.75 1.23 0.78 0.74 2.22 0.58 0.51 0.25 0.27 0.25
C8 1.42 2.35 1.51 1.30 3.09 0.61 2.85 0.30 2.29 2.04 2.83 2.21 1.41 1.48 3.43 1.04 0.77 0.26 0.26 0.29
N1 0.50 0.96 0.92 0.79 1.75 0.82 1.70 1.02 1.12 0.77 1.37 0.88 1.14 0.72 2.05 0.60 0.23 0.25 0.33 0.22
N3 0.54 1.21 1.02 0.98 2.15 0.87 1.91 1.03 1.22 0.89 1.75 1.15 1.37 1.01 2.64 0.65 0.26 0.25 0.31 0.23
N6 1.06 1.52 1.02 1.02 1.89 0.53 1.92 0.24 1.70 1.46 1.73 1.39 0.91 1.10 1.96 0.88 0.77 0.25 0.24 0.28
N7 1.54 2.36 1.59 1.42 2.97 0.74 2.84 0.30 2.35 2.11 2.74 2.21 1.49 1.61 3.20 1.16 0.85 0.26 0.26 0.30
N9 0.94 1.92 1.11 0.97 2.76 0.39 2.51 0.51 1.90 1.60 2.46 1.76 1.07 1.06 3.17 0.70 0.56 0.25 0.26 0.26
O2' 0.47 0.73 1.06 0.94 1.70 0.96 1.56 1.23 1.00 0.54 1.29 0.69 1.47 0.88 2.23 0.71 0.37 0.67 0.68 0.65
O3' 0.38 1.09 1.02 1.02 2.05 0.63 1.88 0.81 1.28 0.86 1.64 0.97 1.31 1.18 2.56 0.45 0.40 0.26 0.28 0.25
O4' 1.25 2.42 1.36 1.16 3.29 0.49 2.85 0.44 2.19 1.96 3.03 2.31 1.31 1.29 3.81 0.90 0.66 0.28 0.26 0.32
O5' 1.84 2.84 1.85 1.41 3.49 0.89 3.14 0.48 2.59 2.43 3.32 2.81 1.83 1.59 3.92 1.45 0.95 0.71 0.92 0.75
OP1 2.25 3.18 2.40 1.93 3.55 1.27 3.16 0.52 2.73 2.71 3.56 3.29 2.48 2.16 3.92 1.69 1.14 0.63 0.76 0.65
OP2 1.94 2.71 1.91 1.51 3.21 1.27 2.96 1.28 2.57 2.39 3.11 2.70 1.92 1.60 3.57 1.67 1.39 1.65 1.88 1.60
P 2.04 2.98 2.05 1.58 3.49 1.08 3.13 0.63 2.66 2.55 3.40 3.01 2.08 1.78 3.89 1.60 1.07 0.93 1.18 0.94

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.05 0.01 0.02 0.04 0.03 0.03 0.08 0.02 0.02 0.05 0.06 0.02 0.24 0.05 0.01 0.16 0.27 0.16 0.31
C2 0.05 0.00 0.24 0.25 0.04 0.09 0.02 0.14 0.02 0.01 0.01 0.01 0.32 0.24 0.02 0.14 0.22 0.38 0.36 0.39
C2' 0.01 0.24 0.00 0.00 0.08 0.04 0.11 0.21 0.15 0.05 0.20 0.37 0.01 0.03 0.11 0.02 0.10 0.12 0.25 0.16
C3' 0.02 0.25 0.00 0.00 0.36 0.01 0.39 0.03 0.34 0.22 0.31 0.24 0.01 0.02 0.39 0.04 0.41 0.47 0.15 0.27
C4 0.04 0.04 0.08 0.36 0.00 0.13 0.01 0.24 0.01 0.03 0.02 0.03 0.24 0.25 0.03 0.04 0.38 0.71 0.68 0.62
C4' 0.03 0.09 0.04 0.01 0.13 0.00 0.18 0.01 0.18 0.08 0.09 0.17 0.27 0.01 0.14 0.01 0.02 0.27 0.24 0.08
C5 0.03 0.02 0.11 0.39 0.01 0.18 0.00 0.30 0.01 0.02 0.02 0.02 0.23 0.30 0.01 0.13 0.47 0.78 0.76 0.73
C5' 0.08 0.14 0.21 0.03 0.24 0.01 0.30 0.00 0.27 0.13 0.16 0.21 0.12 0.23 0.27 0.02 0.01 0.40 0.46 0.02
C6 0.02 0.02 0.15 0.34 0.01 0.18 0.01 0.27 0.00 0.01 0.03 0.02 0.21 0.24 0.02 0.17 0.41 0.62 0.58 0.64
N1 0.02 0.01 0.05 0.22 0.03 0.08 0.02 0.13 0.01 0.00 0.03 0.02 0.16 0.13 0.03 0.02 0.25 0.40 0.35 0.44
N3 0.05 0.01 0.20 0.31 0.02 0.09 0.02 0.16 0.03 0.03 0.00 0.00 0.31 0.24 0.02 0.08 0.30 0.53 0.51 0.50
O2 0.06 0.01 0.37 0.24 0.03 0.17 0.02 0.21 0.02 0.02 0.00 0.00 0.46 0.38 0.02 0.27 0.17 0.26 0.29 0.29
O2' 0.02 0.32 0.01 0.01 0.24 0.27 0.23 0.12 0.21 0.16 0.31 0.46 0.00 0.06 0.28 0.15 0.20 0.24 0.19 0.09
O3' 0.24 0.24 0.03 0.02 0.25 0.01 0.30 0.23 0.24 0.13 0.24 0.38 0.06 0.00 0.29 0.16 0.53 0.71 0.30 0.47
O4 0.05 0.02 0.11 0.39 0.03 0.14 0.01 0.27 0.02 0.03 0.02 0.02 0.28 0.29 0.00 0.04 0.43 0.81 0.78 0.69
O4' 0.01 0.14 0.02 0.04 0.04 0.01 0.13 0.02 0.17 0.02 0.08 0.27 0.15 0.16 0.04 0.00 0.27 0.43 0.16 0.38
O5' 0.16 0.22 0.10 0.41 0.38 0.02 0.47 0.01 0.41 0.25 0.30 0.17 0.20 0.53 0.43 0.27 0.00 0.01 0.01 0.01
OP1 0.27 0.38 0.12 0.47 0.71 0.27 0.78 0.40 0.62 0.40 0.53 0.26 0.24 0.71 0.81 0.43 0.01 0.00 0.00 0.00
OP2 0.16 0.36 0.25 0.15 0.68 0.24 0.76 0.46 0.58 0.35 0.51 0.29 0.19 0.30 0.78 0.16 0.01 0.00 0.00 0.00
P 0.31 0.39 0.16 0.27 0.62 0.08 0.73 0.02 0.64 0.44 0.50 0.29 0.09 0.47 0.69 0.38 0.01 0.00 0.00 0.00