ClaRNA

Doublet Group distance statistics: 50095

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C6 A 0, 0.008, 0.026, 0.043, 0.049 max_d=0.049 avg_d=0.026 std_dev=0.018
C2 A 0, 0.005, 0.025, 0.045, 0.054 max_d=0.054 avg_d=0.025 std_dev=0.020
C1' A 0, 0.011, 0.037, 0.063, 0.063 max_d=0.063 avg_d=0.037 std_dev=0.026
N3 A 0, 0.012, 0.040, 0.068, 0.075 max_d=0.075 avg_d=0.040 std_dev=0.028
N1 A 0, 0.010, 0.041, 0.073, 0.085 max_d=0.085 avg_d=0.041 std_dev=0.031
C5 A 0, 0.015, 0.052, 0.089, 0.103 max_d=0.103 avg_d=0.052 std_dev=0.037
C4 A 0, 0.013, 0.059, 0.106, 0.128 max_d=0.128 avg_d=0.059 std_dev=0.047
N9 A 0, 0.013, 0.070, 0.126, 0.157 max_d=0.157 avg_d=0.070 std_dev=0.057
N6 A 0, 0.031, 0.100, 0.168, 0.193 max_d=0.193 avg_d=0.100 std_dev=0.068
N7 A 0, 0.026, 0.106, 0.185, 0.223 max_d=0.223 avg_d=0.106 std_dev=0.080
C8 A 0, 0.025, 0.125, 0.224, 0.277 max_d=0.277 avg_d=0.125 std_dev=0.100
C2' B 0, 0.267, 0.780, 1.294, 1.370 max_d=1.370 avg_d=0.780 std_dev=0.514
O2' B 0, 0.293, 0.897, 1.500, 1.649 max_d=1.649 avg_d=0.897 std_dev=0.603
C1' B 0, 0.338, 1.294, 2.249, 2.413 max_d=2.413 avg_d=1.294 std_dev=0.955
O4' A 0, -0.017, 1.004, 2.025, 2.573 max_d=2.573 avg_d=1.004 std_dev=1.021
C2' A 0, 0.038, 1.101, 2.163, 2.677 max_d=2.677 avg_d=1.101 std_dev=1.062
C4' A 0, 0.109, 1.255, 2.402, 2.905 max_d=2.905 avg_d=1.255 std_dev=1.146
C3' B 0, 0.351, 1.566, 2.780, 3.014 max_d=3.014 avg_d=1.566 std_dev=1.214
C3' A 0, 0.188, 1.525, 2.861, 2.924 max_d=2.924 avg_d=1.525 std_dev=1.336
O4' B 0, 0.451, 1.823, 3.195, 3.364 max_d=3.364 avg_d=1.823 std_dev=1.372
C4' B 0, 0.466, 1.914, 3.363, 3.538 max_d=3.538 avg_d=1.914 std_dev=1.449
O3' A 0, 0.099, 1.854, 3.610, 4.348 max_d=4.348 avg_d=1.854 std_dev=1.756
O2' A 0, 0.041, 1.802, 3.564, 4.245 max_d=4.245 avg_d=1.802 std_dev=1.761
N1 B 0, 0.338, 2.213, 4.088, 4.072 max_d=4.072 avg_d=2.213 std_dev=1.875
C5' B 0, 0.382, 2.364, 4.347, 5.245 max_d=5.245 avg_d=2.364 std_dev=1.983
O3' B 0, 0.206, 2.195, 4.185, 5.232 max_d=5.232 avg_d=2.195 std_dev=1.989
O2 B 0, 0.234, 2.501, 4.769, 5.190 max_d=5.190 avg_d=2.501 std_dev=2.267
C5' A 0, 0.107, 2.487, 4.867, 5.795 max_d=5.795 avg_d=2.487 std_dev=2.380
C6 B 0, 0.374, 2.819, 5.264, 5.531 max_d=5.531 avg_d=2.819 std_dev=2.445
C2 B 0, 0.274, 2.781, 5.288, 5.747 max_d=5.747 avg_d=2.781 std_dev=2.507
O5' A 0, 0.279, 2.974, 5.669, 6.300 max_d=6.300 avg_d=2.974 std_dev=2.695
O5' B 0, -0.379, 2.573, 5.526, 7.582 max_d=7.582 avg_d=2.573 std_dev=2.952
OP1 A 0, 0.448, 3.633, 6.817, 7.359 max_d=7.359 avg_d=3.633 std_dev=3.185
P A 0, 0.296, 3.735, 7.174, 7.925 max_d=7.925 avg_d=3.735 std_dev=3.439
C5 B 0, 0.404, 3.847, 7.290, 7.474 max_d=7.474 avg_d=3.847 std_dev=3.443
N3 B 0, 0.291, 3.842, 7.393, 8.158 max_d=8.158 avg_d=3.842 std_dev=3.551
OP2 A 0, 0.366, 4.230, 8.093, 8.670 max_d=8.670 avg_d=4.230 std_dev=3.864
C4 B 0, 0.359, 4.327, 8.294, 9.034 max_d=9.034 avg_d=4.327 std_dev=3.967
OP1 B 0, -0.119, 3.922, 7.964, 10.481 max_d=10.481 avg_d=3.922 std_dev=4.042
P B 0, -0.733, 3.346, 7.425, 10.316 max_d=10.316 avg_d=3.346 std_dev=4.079
OP2 B 0, -0.532, 4.343, 9.217, 12.422 max_d=12.422 avg_d=4.343 std_dev=4.874
N4 B 0, 0.403, 5.422, 10.441, 11.552 max_d=11.552 avg_d=5.422 std_dev=5.019

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 0.01 0.01 0.01 0.01 0.07 0.02 0.01 0.03 0.03 0.02 0.01 0.00 0.02 0.28 0.01 0.05 0.59 0.22 0.33
C2 0.03 0.00 0.66 0.40 0.01 0.20 0.00 0.35 0.01 0.01 0.00 0.01 0.01 0.01 0.02 0.87 0.56 0.42 0.52 1.44 0.94 1.03
C2' 0.01 0.66 0.00 0.00 0.32 0.01 0.12 0.16 0.27 0.35 0.50 0.66 0.16 0.21 0.03 0.00 0.03 0.01 0.25 0.37 0.16 0.17
C3' 0.01 0.40 0.00 0.00 0.23 0.01 0.33 0.02 0.31 0.51 0.33 0.38 0.36 0.50 0.25 0.02 0.01 0.03 0.24 0.27 0.29 0.20
C4 0.01 0.01 0.32 0.23 0.00 0.03 0.00 0.10 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.48 0.30 0.21 0.09 0.91 0.39 0.53
C4' 0.01 0.20 0.01 0.01 0.03 0.00 0.17 0.00 0.10 0.39 0.07 0.22 0.18 0.37 0.14 0.25 0.02 0.00 0.01 0.21 0.08 0.11
C5 0.01 0.00 0.12 0.33 0.00 0.17 0.00 0.32 0.01 0.00 0.01 0.01 0.01 0.00 0.00 0.38 0.24 0.06 0.25 0.77 0.29 0.41
C5' 0.07 0.35 0.16 0.02 0.10 0.00 0.32 0.00 0.21 0.70 0.15 0.37 0.36 0.68 0.25 0.09 0.19 0.01 0.01 0.11 0.02 0.01
C6 0.02 0.01 0.27 0.31 0.01 0.10 0.01 0.21 0.00 0.01 0.00 0.01 0.01 0.02 0.01 0.54 0.34 0.15 0.11 0.91 0.34 0.49
C8 0.01 0.01 0.35 0.51 0.00 0.39 0.00 0.70 0.01 0.00 0.01 0.01 0.02 0.00 0.00 0.27 0.21 0.28 0.67 0.74 0.65 0.65
N1 0.03 0.00 0.50 0.33 0.01 0.07 0.01 0.15 0.00 0.01 0.00 0.01 0.02 0.01 0.02 0.75 0.47 0.31 0.25 1.20 0.67 0.78
N3 0.03 0.01 0.66 0.38 0.00 0.22 0.01 0.37 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.81 0.52 0.44 0.52 1.38 0.86 0.99
N6 0.02 0.01 0.16 0.36 0.01 0.18 0.01 0.36 0.01 0.02 0.02 0.01 0.00 0.03 0.01 0.49 0.32 0.08 0.31 0.86 0.33 0.47
N7 0.01 0.01 0.21 0.50 0.00 0.37 0.00 0.68 0.02 0.00 0.01 0.01 0.03 0.00 0.01 0.24 0.23 0.18 0.66 0.79 0.62 0.66
N9 0.00 0.02 0.03 0.25 0.00 0.14 0.00 0.25 0.01 0.00 0.02 0.01 0.01 0.01 0.00 0.16 0.10 0.02 0.17 0.62 0.24 0.33
O2' 0.02 0.87 0.00 0.02 0.48 0.25 0.38 0.09 0.54 0.27 0.75 0.81 0.49 0.24 0.16 0.00 0.07 0.21 0.05 0.57 0.21 0.27
O3' 0.28 0.56 0.03 0.01 0.30 0.02 0.24 0.19 0.34 0.21 0.47 0.52 0.32 0.23 0.10 0.07 0.00 0.19 0.17 0.38 0.30 0.16
O4' 0.01 0.42 0.01 0.03 0.21 0.00 0.06 0.01 0.15 0.28 0.31 0.44 0.08 0.18 0.02 0.21 0.19 0.00 0.14 0.57 0.33 0.40
O5' 0.05 0.52 0.25 0.24 0.09 0.01 0.25 0.01 0.11 0.67 0.25 0.52 0.31 0.66 0.17 0.05 0.17 0.14 0.00 0.02 0.02 0.00
OP1 0.59 1.44 0.37 0.27 0.91 0.21 0.77 0.11 0.91 0.74 1.20 1.38 0.86 0.79 0.62 0.57 0.38 0.57 0.02 0.00 0.00 0.00
OP2 0.22 0.94 0.16 0.29 0.39 0.08 0.29 0.02 0.34 0.65 0.67 0.86 0.33 0.62 0.24 0.21 0.30 0.33 0.02 0.00 0.00 0.00
P 0.33 1.03 0.17 0.20 0.53 0.11 0.41 0.01 0.49 0.65 0.78 0.99 0.47 0.66 0.33 0.27 0.16 0.40 0.00 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.61 1.40 0.19 0.65 1.60 0.62 1.19 0.63 0.88 0.94 1.73 1.86 1.51 0.31 1.29 0.50 0.52 1.49 0.41 0.88
C2 0.56 1.43 0.27 0.80 1.46 1.08 1.06 1.37 0.84 0.91 1.68 1.68 1.64 0.26 1.13 0.69 1.42 2.91 1.88 2.24
C2' 0.31 0.88 0.23 0.67 1.14 0.67 0.79 0.70 0.50 0.51 1.21 1.40 0.91 0.51 1.23 0.42 0.60 1.53 0.51 0.97
C3' 0.61 0.79 0.66 1.20 1.06 1.09 0.71 1.13 0.51 0.52 1.13 1.36 0.81 0.93 1.82 0.76 1.04 1.77 0.87 1.21
C4 0.51 1.19 0.19 0.62 1.15 0.72 0.80 0.86 0.62 0.76 1.35 1.30 1.40 0.31 1.07 0.46 0.85 2.06 1.06 1.46
C4' 0.86 1.33 0.69 1.33 1.56 1.17 1.15 1.20 0.90 0.96 1.68 1.86 1.41 0.82 2.01 0.91 1.12 1.75 0.86 1.15
C5 0.47 1.07 0.24 0.64 1.04 0.75 0.77 0.88 0.64 0.72 1.20 1.15 1.25 0.32 1.00 0.45 0.89 1.99 1.10 1.45
C5' 1.25 1.28 1.22 1.91 1.33 1.69 1.08 1.76 1.07 1.12 1.47 1.53 1.39 1.27 2.56 1.36 1.75 2.24 1.54 1.72
C6 0.51 1.28 0.32 0.83 1.37 1.10 1.09 1.28 0.89 0.88 1.50 1.52 1.39 0.26 1.09 0.69 1.31 2.53 1.63 1.98
C8 0.53 1.18 0.22 0.70 1.23 0.55 0.92 0.57 0.72 0.79 1.38 1.37 1.33 0.37 1.31 0.41 0.57 1.24 0.48 0.74
N1 0.57 1.47 0.33 0.91 1.60 1.24 1.23 1.53 0.99 0.98 1.77 1.82 1.61 0.24 1.19 0.79 1.59 3.03 2.04 2.39
N3 0.54 1.31 0.20 0.67 1.28 0.86 0.87 1.08 0.68 0.82 1.51 1.47 1.55 0.28 1.08 0.55 1.09 2.48 1.43 1.83
N6 0.54 1.31 0.41 0.98 1.57 1.34 1.34 1.47 1.10 0.98 1.60 1.74 1.24 0.23 1.15 0.88 1.49 2.55 1.76 2.08
N7 0.43 0.91 0.24 0.61 0.88 0.50 0.66 0.56 0.55 0.62 1.01 0.96 1.07 0.38 1.07 0.30 0.62 1.39 0.68 0.93
N9 0.55 1.23 0.18 0.63 1.29 0.59 0.93 0.64 0.71 0.81 1.45 1.47 1.39 0.33 1.20 0.44 0.59 1.59 0.59 1.01
O2' 0.33 1.17 0.30 0.20 1.54 0.26 1.20 0.27 0.85 0.79 1.55 1.83 1.12 0.25 0.72 0.14 0.13 1.21 0.23 0.70
O3' 0.36 1.09 0.27 0.80 1.56 0.69 1.15 0.71 0.76 0.69 1.57 1.94 1.02 0.61 1.42 0.40 0.64 1.27 0.45 0.69
O4' 0.86 1.57 0.47 1.04 1.74 0.93 1.30 0.93 1.01 1.10 1.91 2.01 1.71 0.50 1.74 0.80 0.81 1.59 0.56 0.94
O5' 1.31 1.31 1.32 2.06 1.39 1.84 1.12 1.95 1.12 1.16 1.53 1.63 1.41 1.36 2.68 1.45 1.92 2.51 1.70 1.94
OP1 1.49 1.39 1.59 2.49 1.58 2.36 1.19 2.47 1.15 1.21 1.72 1.94 1.49 1.58 3.23 1.79 2.25 3.05 1.90 2.34
OP2 1.38 1.28 1.47 2.32 1.37 2.14 1.06 2.30 1.09 1.14 1.53 1.66 1.40 1.45 2.96 1.61 2.20 3.01 1.96 2.31
P 1.40 1.28 1.51 2.37 1.38 2.17 1.07 2.31 1.10 1.14 1.54 1.66 1.40 1.50 3.05 1.63 2.21 2.98 1.95 2.30

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.01 0.02 0.01 0.01 0.07 0.01 0.00 0.02 0.02 0.03 0.03 0.29 0.00 0.25 0.18 0.49 0.19
C2 0.02 0.00 0.15 0.25 0.01 0.04 0.02 0.11 0.01 0.01 0.00 0.02 0.01 0.13 0.18 0.11 0.33 0.05 0.88 0.44
C2' 0.00 0.15 0.00 0.00 0.04 0.01 0.06 0.19 0.11 0.02 0.13 0.04 0.24 0.00 0.02 0.01 0.58 0.41 0.79 0.48
C3' 0.01 0.25 0.00 0.00 0.40 0.01 0.40 0.01 0.33 0.24 0.34 0.43 0.15 0.00 0.00 0.01 0.36 0.22 0.39 0.14
C4 0.02 0.01 0.04 0.40 0.00 0.15 0.00 0.21 0.02 0.01 0.01 0.01 0.02 0.31 0.22 0.03 0.40 0.26 1.23 0.71
C4' 0.01 0.04 0.01 0.01 0.15 0.00 0.21 0.00 0.20 0.09 0.08 0.16 0.07 0.28 0.01 0.00 0.01 0.41 0.04 0.18
C5 0.01 0.02 0.06 0.40 0.00 0.21 0.00 0.25 0.00 0.01 0.01 0.00 0.02 0.34 0.28 0.06 0.40 0.33 1.26 0.76
C5' 0.07 0.11 0.19 0.01 0.21 0.00 0.25 0.00 0.21 0.11 0.15 0.24 0.11 0.08 0.21 0.01 0.01 0.17 0.05 0.00
C6 0.01 0.01 0.11 0.33 0.02 0.20 0.00 0.21 0.00 0.00 0.01 0.01 0.01 0.30 0.19 0.10 0.37 0.22 1.04 0.62
N1 0.00 0.01 0.02 0.24 0.01 0.09 0.01 0.11 0.00 0.00 0.01 0.02 0.01 0.18 0.10 0.01 0.32 0.06 0.82 0.42
N3 0.02 0.00 0.13 0.34 0.01 0.08 0.01 0.15 0.01 0.01 0.00 0.02 0.01 0.21 0.16 0.10 0.37 0.14 1.07 0.58
N4 0.02 0.02 0.04 0.43 0.01 0.16 0.00 0.24 0.01 0.02 0.02 0.00 0.02 0.33 0.28 0.04 0.41 0.34 1.34 0.79
O2 0.03 0.01 0.24 0.15 0.02 0.07 0.02 0.11 0.01 0.01 0.01 0.02 0.00 0.08 0.34 0.18 0.31 0.11 0.73 0.32
O2' 0.03 0.13 0.00 0.00 0.31 0.28 0.34 0.08 0.30 0.18 0.21 0.33 0.08 0.00 0.03 0.21 0.33 0.57 0.61 0.39
O3' 0.29 0.18 0.02 0.00 0.22 0.01 0.28 0.21 0.19 0.10 0.16 0.28 0.34 0.03 0.00 0.20 0.25 0.66 0.24 0.29
O4' 0.00 0.11 0.01 0.01 0.03 0.00 0.06 0.01 0.10 0.01 0.10 0.04 0.18 0.21 0.20 0.00 0.03 0.26 0.13 0.07
O5' 0.25 0.33 0.58 0.36 0.40 0.01 0.40 0.01 0.37 0.32 0.37 0.41 0.31 0.33 0.25 0.03 0.00 0.01 0.02 0.00
OP1 0.18 0.05 0.41 0.22 0.26 0.41 0.33 0.17 0.22 0.06 0.14 0.34 0.11 0.57 0.66 0.26 0.01 0.00 0.01 0.00
OP2 0.49 0.88 0.79 0.39 1.23 0.04 1.26 0.05 1.04 0.82 1.07 1.34 0.73 0.61 0.24 0.13 0.02 0.01 0.00 0.01
P 0.19 0.44 0.48 0.14 0.71 0.18 0.76 0.00 0.62 0.42 0.58 0.79 0.32 0.39 0.29 0.07 0.00 0.00 0.01 0.00