ClaRNA

Doublet Group distance statistics: 48178

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Distances from reference structure (by RMSD)

1, 1, 0, 0, 0, 0, 1, 1, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N3 A 0, 0.001, 0.007, 0.014, 0.017 max_d=0.017 avg_d=0.007 std_dev=0.006
C5 A 0, -0.001, 0.012, 0.024, 0.034 max_d=0.034 avg_d=0.012 std_dev=0.012
C4 A 0, -0.002, 0.011, 0.024, 0.036 max_d=0.036 avg_d=0.011 std_dev=0.013
C6 A 0, -0.006, 0.010, 0.025, 0.040 max_d=0.040 avg_d=0.010 std_dev=0.015
N1 A 0, -0.003, 0.016, 0.035, 0.053 max_d=0.053 avg_d=0.016 std_dev=0.019
C1' A 0, -0.005, 0.016, 0.038, 0.058 max_d=0.058 avg_d=0.016 std_dev=0.021
C2 A 0, -0.003, 0.020, 0.043, 0.063 max_d=0.063 avg_d=0.020 std_dev=0.023
N4 A 0, -0.014, 0.035, 0.084, 0.133 max_d=0.133 avg_d=0.035 std_dev=0.049
O2 A 0, -0.016, 0.040, 0.095, 0.148 max_d=0.148 avg_d=0.040 std_dev=0.055
O2' B 0, 0.005, 0.394, 0.783, 1.116 max_d=1.116 avg_d=0.394 std_dev=0.389
C2' B 0, 0.144, 0.605, 1.066, 1.087 max_d=1.087 avg_d=0.605 std_dev=0.461
C3' B 0, 0.241, 1.151, 2.061, 2.070 max_d=2.070 avg_d=1.151 std_dev=0.910
C4' B 0, 0.032, 0.992, 1.953, 2.694 max_d=2.694 avg_d=0.992 std_dev=0.960
O4' B 0, 0.206, 1.292, 2.379, 2.886 max_d=2.886 avg_d=1.292 std_dev=1.086
O4' A 0, 0.024, 1.188, 2.352, 2.588 max_d=2.588 avg_d=1.188 std_dev=1.164
C1' B 0, 0.300, 1.504, 2.708, 2.893 max_d=2.893 avg_d=1.504 std_dev=1.204
C2' A 0, -0.071, 1.162, 2.394, 2.665 max_d=2.665 avg_d=1.162 std_dev=1.232
C5' B 0, 0.352, 1.675, 2.998, 3.012 max_d=3.012 avg_d=1.675 std_dev=1.323
C4' A 0, -0.047, 1.468, 2.983, 3.309 max_d=3.309 avg_d=1.468 std_dev=1.515
O2' A 0, 0.171, 1.790, 3.408, 3.693 max_d=3.693 avg_d=1.790 std_dev=1.618
C3' A 0, 0.150, 1.832, 3.515, 3.813 max_d=3.813 avg_d=1.832 std_dev=1.682
O3' B 0, 0.377, 2.059, 3.742, 3.810 max_d=3.810 avg_d=2.059 std_dev=1.683
O5' B 0, 0.215, 2.151, 4.087, 4.383 max_d=4.383 avg_d=2.151 std_dev=1.936
O3' A 0, 0.421, 2.400, 4.379, 4.583 max_d=4.583 avg_d=2.400 std_dev=1.979
N9 B 0, 0.555, 2.798, 5.040, 4.712 max_d=4.712 avg_d=2.798 std_dev=2.242
OP2 B 0, 0.538, 2.859, 5.181, 5.110 max_d=5.110 avg_d=2.859 std_dev=2.322
C5' A 0, 0.087, 2.867, 5.646, 6.200 max_d=6.200 avg_d=2.867 std_dev=2.779
P B 0, 0.494, 3.291, 6.089, 6.300 max_d=6.300 avg_d=3.291 std_dev=2.797
C8 B 0, 0.617, 3.490, 6.363, 6.330 max_d=6.330 avg_d=3.490 std_dev=2.873
C4 B 0, 0.804, 4.039, 7.274, 6.885 max_d=6.885 avg_d=4.039 std_dev=3.235
O5' A 0, 0.478, 3.750, 7.021, 7.430 max_d=7.430 avg_d=3.750 std_dev=3.271
N3 B 0, 0.901, 4.487, 8.072, 7.964 max_d=7.964 avg_d=4.487 std_dev=3.586
OP1 B 0, 0.553, 4.176, 7.799, 8.158 max_d=8.158 avg_d=4.176 std_dev=3.623
N7 B 0, 0.921, 4.873, 8.826, 8.572 max_d=8.572 avg_d=4.873 std_dev=3.953
C5 B 0, 1.011, 5.140, 9.268, 8.612 max_d=8.612 avg_d=5.140 std_dev=4.128
P A 0, 0.467, 5.017, 9.566, 10.261 max_d=10.261 avg_d=5.017 std_dev=4.550
OP1 A 0, 0.578, 5.129, 9.681, 10.299 max_d=10.299 avg_d=5.129 std_dev=4.552
C2 B 0, 1.166, 5.861, 10.555, 10.319 max_d=10.319 avg_d=5.861 std_dev=4.695
OP2 A 0, 0.186, 5.328, 10.470, 11.432 max_d=11.432 avg_d=5.328 std_dev=5.142
C6 B 0, 1.292, 6.529, 11.767, 10.920 max_d=10.920 avg_d=6.529 std_dev=5.237
N1 B 0, 1.342, 6.789, 12.236, 11.770 max_d=11.770 avg_d=6.789 std_dev=5.447
N6 B 0, 1.543, 7.767, 13.992, 12.927 max_d=12.927 avg_d=7.767 std_dev=6.224

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 0.00 0.02 0.01 0.01 0.02 0.02 0.03 0.01 0.02 0.01 0.08 0.01 0.20 0.00 0.26 0.50 0.11 0.32
C2 0.03 0.00 0.25 0.51 0.01 0.36 0.02 0.60 0.02 0.01 0.00 0.02 0.00 0.13 0.39 0.21 0.66 1.12 0.76 0.86
C2' 0.00 0.25 0.00 0.00 0.05 0.01 0.28 0.11 0.35 0.04 0.16 0.05 0.51 0.00 0.01 0.02 0.39 0.42 0.23 0.36
C3' 0.02 0.51 0.00 0.00 0.18 0.01 0.33 0.03 0.41 0.11 0.42 0.19 0.91 0.01 0.02 0.01 0.13 0.34 0.14 0.04
C4 0.01 0.01 0.05 0.18 0.00 0.07 0.00 0.15 0.01 0.01 0.01 0.00 0.01 0.24 0.07 0.03 0.50 1.20 0.37 0.73
C4' 0.01 0.36 0.01 0.01 0.07 0.00 0.21 0.01 0.28 0.05 0.30 0.08 0.70 0.19 0.03 0.01 0.05 0.22 0.15 0.02
C5 0.02 0.02 0.28 0.33 0.00 0.21 0.00 0.28 0.00 0.00 0.01 0.02 0.03 0.29 0.24 0.10 0.55 1.07 0.22 0.70
C5' 0.02 0.60 0.11 0.03 0.15 0.01 0.28 0.00 0.38 0.08 0.53 0.18 1.12 0.10 0.16 0.02 0.01 0.23 0.13 0.02
C6 0.03 0.02 0.35 0.41 0.01 0.28 0.00 0.38 0.00 0.00 0.00 0.02 0.03 0.26 0.33 0.15 0.56 0.89 0.35 0.64
N1 0.01 0.01 0.04 0.11 0.01 0.05 0.00 0.08 0.00 0.00 0.01 0.01 0.03 0.15 0.11 0.01 0.37 0.79 0.14 0.48
N3 0.02 0.00 0.16 0.42 0.01 0.30 0.01 0.53 0.00 0.01 0.00 0.02 0.01 0.18 0.34 0.16 0.66 1.29 0.81 0.93
N4 0.01 0.02 0.05 0.19 0.00 0.08 0.02 0.18 0.02 0.01 0.02 0.00 0.01 0.26 0.08 0.05 0.54 1.33 0.47 0.81
O2 0.08 0.00 0.51 0.91 0.01 0.70 0.03 1.12 0.03 0.03 0.01 0.01 0.00 0.13 0.73 0.41 1.11 1.32 1.28 1.29
O2' 0.01 0.13 0.00 0.01 0.24 0.19 0.29 0.10 0.26 0.15 0.18 0.26 0.13 0.00 0.06 0.13 0.22 0.45 0.06 0.22
O3' 0.20 0.39 0.01 0.02 0.07 0.03 0.24 0.16 0.33 0.11 0.34 0.08 0.73 0.06 0.00 0.13 0.11 0.70 0.31 0.26
O4' 0.00 0.21 0.02 0.01 0.03 0.01 0.10 0.02 0.15 0.01 0.16 0.05 0.41 0.13 0.13 0.00 0.23 0.48 0.12 0.26
O5' 0.26 0.66 0.39 0.13 0.50 0.05 0.55 0.01 0.56 0.37 0.66 0.54 1.11 0.22 0.11 0.23 0.00 0.02 0.02 0.01
OP1 0.50 1.12 0.42 0.34 1.20 0.22 1.07 0.23 0.89 0.79 1.29 1.33 1.32 0.45 0.70 0.48 0.02 0.00 0.02 0.00
OP2 0.11 0.76 0.23 0.14 0.37 0.15 0.22 0.13 0.35 0.14 0.81 0.47 1.28 0.06 0.31 0.12 0.02 0.02 0.00 0.00
P 0.32 0.86 0.36 0.04 0.73 0.02 0.70 0.02 0.64 0.48 0.93 0.81 1.29 0.22 0.26 0.26 0.01 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.35 0.73 0.36 0.28 0.94 0.79 1.80 1.03 1.91 1.74 1.30 0.44 2.50 2.28 0.92 0.09 1.16 0.84 1.35 2.26 1.33 1.69
C2 0.42 1.38 0.33 0.41 1.32 0.92 2.05 1.00 2.39 1.55 2.03 0.93 2.84 2.12 1.02 0.16 1.15 0.88 0.97 1.59 0.96 1.19
C2' 0.56 0.66 0.27 0.85 0.35 1.00 1.09 0.54 1.26 1.01 0.76 0.71 1.89 1.55 0.22 0.38 1.79 0.95 0.56 1.74 0.45 0.97
C3' 0.66 1.22 0.43 0.90 0.71 1.05 1.24 0.63 1.53 0.96 1.26 1.13 2.18 1.55 0.43 0.48 1.76 0.97 0.46 1.50 0.38 0.75
C4 0.35 1.34 0.26 0.41 1.16 0.86 1.55 0.81 1.79 1.05 1.68 1.00 1.96 1.44 0.81 0.16 0.96 0.77 0.58 0.93 0.47 0.69
C4' 0.17 1.43 0.21 0.45 1.02 0.69 1.79 0.78 2.13 1.49 1.75 1.11 2.87 2.14 0.74 0.23 1.31 0.54 1.00 1.94 0.97 1.31
C5 0.36 0.73 0.32 0.34 0.80 0.87 1.20 0.82 1.26 1.03 1.04 0.51 1.44 1.29 0.67 0.13 0.95 0.86 0.78 1.16 0.54 0.89
C5' 0.45 2.03 0.37 0.55 1.39 0.65 2.02 0.60 2.52 1.44 2.33 1.60 3.26 2.14 0.93 0.40 1.31 0.46 0.67 1.56 0.52 0.91
C6 0.39 0.59 0.36 0.30 0.76 0.86 1.37 0.95 1.37 1.37 0.96 0.36 1.66 1.69 0.76 0.11 1.04 0.94 1.12 1.70 0.90 1.30
N1 0.40 0.88 0.35 0.34 1.05 0.88 1.81 1.01 1.95 1.60 1.46 0.55 2.39 2.10 0.93 0.12 1.14 0.91 1.16 1.86 1.07 1.40
N3 0.40 1.62 0.28 0.44 1.37 0.90 1.92 0.90 2.30 1.31 2.14 1.15 2.59 1.82 0.97 0.17 1.07 0.81 0.70 1.17 0.68 0.87
N4 0.29 1.51 0.17 0.40 1.11 0.76 1.33 0.66 1.62 0.75 1.69 1.18 1.71 1.10 0.68 0.14 0.78 0.61 0.24 0.53 0.20 0.31
O2 0.44 1.52 0.33 0.42 1.41 0.92 2.22 1.04 2.66 1.67 2.28 1.00 3.25 2.30 1.09 0.16 1.18 0.89 1.03 1.72 1.09 1.29
O2' 0.72 0.47 0.24 0.84 0.45 1.06 1.09 0.56 1.14 1.19 0.49 0.68 1.78 1.65 0.51 0.43 1.82 1.10 0.77 2.07 0.73 1.24
O3' 0.79 0.92 0.37 0.98 0.26 1.30 0.83 0.97 1.07 0.78 0.73 0.96 1.80 1.30 0.06 0.46 1.81 1.26 0.80 1.56 0.84 0.94
O4' 0.25 1.34 0.37 0.22 1.22 0.75 2.11 1.13 2.37 1.85 1.85 0.96 3.07 2.51 1.04 0.05 1.01 0.68 1.38 2.21 1.38 1.68
O5' 0.32 1.90 0.24 0.60 1.27 0.75 1.99 0.76 2.51 1.40 2.27 1.44 3.34 2.15 0.81 0.56 1.34 0.48 0.74 1.54 0.64 0.96
OP1 0.72 1.90 0.79 1.28 0.94 1.57 1.53 1.61 2.18 0.81 2.18 1.38 2.94 1.57 0.31 1.18 1.84 1.14 1.18 1.26 1.19 1.19
OP2 0.49 2.62 0.32 0.42 1.79 0.57 2.42 0.66 3.11 1.57 3.09 1.96 3.85 2.32 1.18 0.33 1.04 0.25 0.58 1.29 0.35 0.69
P 0.48 2.26 0.41 0.79 1.41 0.96 2.02 0.93 2.65 1.24 2.61 1.69 3.41 2.01 0.81 0.77 1.43 0.60 0.65 1.22 0.54 0.74

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.03 0.01 0.03 0.02 0.01 0.02 0.06 0.03 0.02 0.03 0.03 0.02 0.02 0.01 0.02 0.27 0.00 0.07 0.26 0.62 0.26
C2 0.03 0.00 0.15 0.03 0.01 0.12 0.01 0.10 0.01 0.01 0.00 0.00 0.01 0.01 0.01 0.30 0.40 0.17 0.11 0.19 0.87 0.30
C2' 0.01 0.15 0.00 0.00 0.05 0.02 0.02 0.18 0.03 0.17 0.10 0.14 0.01 0.12 0.04 0.01 0.02 0.03 0.41 0.51 0.66 0.45
C3' 0.03 0.03 0.00 0.00 0.10 0.00 0.20 0.01 0.17 0.30 0.09 0.04 0.23 0.30 0.15 0.00 0.01 0.01 0.12 0.07 0.26 0.02
C4 0.02 0.01 0.05 0.10 0.00 0.04 0.00 0.03 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.22 0.23 0.09 0.13 0.19 0.77 0.28
C4' 0.01 0.12 0.02 0.00 0.04 0.00 0.08 0.01 0.06 0.18 0.08 0.13 0.09 0.17 0.06 0.19 0.03 0.00 0.03 0.07 0.36 0.10
C5 0.02 0.01 0.02 0.20 0.00 0.08 0.00 0.08 0.00 0.00 0.01 0.00 0.00 0.00 0.01 0.30 0.13 0.05 0.25 0.24 0.74 0.31
C5' 0.06 0.10 0.18 0.01 0.03 0.01 0.08 0.00 0.08 0.18 0.06 0.11 0.12 0.18 0.04 0.03 0.17 0.02 0.01 0.01 0.21 0.04
C6 0.03 0.01 0.03 0.17 0.01 0.06 0.00 0.08 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.31 0.16 0.09 0.26 0.26 0.79 0.33
C8 0.02 0.01 0.17 0.30 0.00 0.18 0.00 0.18 0.01 0.00 0.01 0.01 0.01 0.00 0.00 0.37 0.21 0.09 0.26 0.22 0.56 0.26
N1 0.03 0.00 0.10 0.09 0.01 0.08 0.01 0.06 0.00 0.01 0.00 0.00 0.00 0.01 0.01 0.29 0.28 0.14 0.20 0.23 0.86 0.32
N3 0.03 0.00 0.14 0.04 0.00 0.13 0.00 0.11 0.01 0.01 0.00 0.00 0.01 0.01 0.01 0.27 0.42 0.17 0.06 0.19 0.83 0.29
N6 0.02 0.01 0.01 0.23 0.01 0.09 0.00 0.12 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.34 0.12 0.06 0.32 0.32 0.76 0.36
N7 0.02 0.01 0.12 0.30 0.00 0.17 0.00 0.18 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.38 0.19 0.05 0.33 0.28 0.62 0.32
N9 0.01 0.01 0.04 0.15 0.00 0.06 0.01 0.04 0.01 0.00 0.01 0.01 0.01 0.01 0.00 0.21 0.15 0.01 0.10 0.21 0.67 0.25
O2' 0.02 0.30 0.01 0.00 0.22 0.19 0.30 0.03 0.31 0.37 0.29 0.27 0.34 0.38 0.21 0.00 0.02 0.14 0.34 0.61 0.57 0.41
O3' 0.27 0.40 0.02 0.01 0.23 0.03 0.13 0.17 0.16 0.21 0.28 0.42 0.12 0.19 0.15 0.02 0.00 0.16 0.02 0.21 0.14 0.19
O4' 0.00 0.17 0.03 0.01 0.09 0.00 0.05 0.02 0.09 0.09 0.14 0.17 0.06 0.05 0.01 0.14 0.16 0.00 0.12 0.19 0.63 0.26
O5' 0.07 0.11 0.41 0.12 0.13 0.03 0.25 0.01 0.26 0.26 0.20 0.06 0.32 0.33 0.10 0.34 0.02 0.12 0.00 0.01 0.05 0.01
OP1 0.26 0.19 0.51 0.07 0.19 0.07 0.24 0.01 0.26 0.22 0.23 0.19 0.32 0.28 0.21 0.61 0.21 0.19 0.01 0.00 0.03 0.00
OP2 0.62 0.87 0.66 0.26 0.77 0.36 0.74 0.21 0.79 0.56 0.86 0.83 0.76 0.62 0.67 0.57 0.14 0.63 0.05 0.03 0.00 0.00
P 0.26 0.30 0.45 0.02 0.28 0.10 0.31 0.04 0.33 0.26 0.32 0.29 0.36 0.32 0.25 0.41 0.19 0.26 0.01 0.00 0.00 0.00