ClaRNA

Doublet Group distance statistics: 52445

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C6 A 0, 0.005, 0.014, 0.023, 0.036 max_d=0.036 avg_d=0.014 std_dev=0.009
N1 A 0, 0.010, 0.026, 0.041, 0.060 max_d=0.060 avg_d=0.026 std_dev=0.016
N3 A 0, 0.014, 0.031, 0.048, 0.058 max_d=0.058 avg_d=0.031 std_dev=0.017
C2 A 0, 0.015, 0.032, 0.050, 0.058 max_d=0.058 avg_d=0.032 std_dev=0.017
C5 A 0, 0.002, 0.019, 0.037, 0.065 max_d=0.065 avg_d=0.019 std_dev=0.018
C4 A 0, 0.004, 0.025, 0.047, 0.080 max_d=0.080 avg_d=0.025 std_dev=0.022
C1' A 0, 0.016, 0.041, 0.065, 0.086 max_d=0.086 avg_d=0.041 std_dev=0.025
N9 A 0, 0.008, 0.035, 0.061, 0.102 max_d=0.102 avg_d=0.035 std_dev=0.027
N6 A 0, 0.010, 0.048, 0.086, 0.142 max_d=0.142 avg_d=0.048 std_dev=0.038
N7 A 0, 0.001, 0.042, 0.084, 0.150 max_d=0.150 avg_d=0.042 std_dev=0.041
C8 A 0, 0.004, 0.054, 0.103, 0.180 max_d=0.180 avg_d=0.054 std_dev=0.050
C3' B 0, 0.340, 0.707, 1.073, 1.222 max_d=1.222 avg_d=0.707 std_dev=0.366
O2' B 0, 0.191, 0.612, 1.034, 1.419 max_d=1.419 avg_d=0.612 std_dev=0.421
C2' B 0, 0.502, 0.981, 1.460, 1.648 max_d=1.648 avg_d=0.981 std_dev=0.479
O4' A 0, 0.637, 1.223, 1.809, 1.859 max_d=1.859 avg_d=1.223 std_dev=0.586
C2' A 0, 0.623, 1.223, 1.823, 1.895 max_d=1.895 avg_d=1.223 std_dev=0.600
C3' A 0, 0.867, 1.571, 2.275, 2.245 max_d=2.245 avg_d=1.571 std_dev=0.704
C4' A 0, 0.888, 1.598, 2.308, 2.356 max_d=2.356 avg_d=1.598 std_dev=0.710
C4' B 0, 0.298, 1.066, 1.833, 2.793 max_d=2.793 avg_d=1.066 std_dev=0.767
C5' B 0, 0.674, 1.520, 2.367, 2.496 max_d=2.496 avg_d=1.520 std_dev=0.847
O3' A 0, 1.014, 1.883, 2.751, 2.856 max_d=2.856 avg_d=1.883 std_dev=0.869
O2' A 0, 0.835, 1.844, 2.853, 3.121 max_d=3.121 avg_d=1.844 std_dev=1.009
O3' B 0, 1.053, 2.106, 3.159, 3.380 max_d=3.380 avg_d=2.106 std_dev=1.053
C5' A 0, 1.507, 2.619, 3.731, 3.755 max_d=3.755 avg_d=2.619 std_dev=1.112
C1' B 0, 1.358, 2.763, 4.168, 4.152 max_d=4.152 avg_d=2.763 std_dev=1.405
O5' B 0, 0.831, 2.242, 3.653, 4.156 max_d=4.156 avg_d=2.242 std_dev=1.411
O4' B 0, 1.295, 2.708, 4.121, 4.455 max_d=4.455 avg_d=2.708 std_dev=1.413
O5' A 0, 1.453, 3.020, 4.586, 4.730 max_d=4.730 avg_d=3.020 std_dev=1.567
P A 0, 1.712, 3.617, 5.523, 5.207 max_d=5.207 avg_d=3.617 std_dev=1.906
OP2 B 0, 2.300, 4.547, 6.795, 7.786 max_d=7.786 avg_d=4.547 std_dev=2.247
P B 0, 1.554, 3.865, 6.177, 6.542 max_d=6.542 avg_d=3.865 std_dev=2.312
N9 B 0, 2.136, 4.478, 6.819, 6.580 max_d=6.580 avg_d=4.478 std_dev=2.342
OP2 A 0, 2.178, 4.552, 6.926, 6.977 max_d=6.977 avg_d=4.552 std_dev=2.374
OP1 A 0, 2.606, 5.247, 7.888, 7.564 max_d=7.564 avg_d=5.247 std_dev=2.641
OP1 B 0, 2.583, 5.364, 8.144, 8.681 max_d=8.681 avg_d=5.364 std_dev=2.781
C8 B 0, 2.708, 5.526, 8.344, 7.721 max_d=7.721 avg_d=5.526 std_dev=2.818
C4 B 0, 2.774, 5.914, 9.053, 8.909 max_d=8.909 avg_d=5.914 std_dev=3.140
N3 B 0, 2.926, 6.300, 9.674, 9.932 max_d=9.932 avg_d=6.300 std_dev=3.374
N7 B 0, 3.558, 7.278, 10.998, 10.119 max_d=10.119 avg_d=7.278 std_dev=3.720
C5 B 0, 3.590, 7.421, 11.252, 10.694 max_d=10.694 avg_d=7.421 std_dev=3.831
C2 B 0, 3.822, 7.991, 12.160, 12.496 max_d=12.496 avg_d=7.991 std_dev=4.169
C6 B 0, 4.467, 9.089, 13.712, 13.210 max_d=13.210 avg_d=9.089 std_dev=4.622
N1 B 0, 4.526, 9.248, 13.970, 13.976 max_d=13.976 avg_d=9.248 std_dev=4.722
N6 B 0, 5.355, 10.741, 16.128, 15.210 max_d=15.210 avg_d=10.741 std_dev=5.386

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 0.00 0.01 0.02 0.01 0.01 0.06 0.02 0.01 0.03 0.03 0.02 0.01 0.00 0.02 0.29 0.01 0.24 0.64 0.27 0.29
C2 0.03 0.00 0.37 0.37 0.00 0.09 0.00 0.14 0.01 0.01 0.00 0.00 0.01 0.01 0.01 0.22 0.45 0.20 0.34 0.94 0.45 0.40
C2' 0.00 0.37 0.00 0.00 0.18 0.01 0.08 0.18 0.16 0.22 0.28 0.38 0.11 0.14 0.03 0.00 0.05 0.03 0.49 0.78 0.26 0.53
C3' 0.01 0.37 0.00 0.00 0.26 0.01 0.26 0.02 0.31 0.20 0.36 0.33 0.31 0.22 0.15 0.03 0.01 0.02 0.33 0.35 0.31 0.29
C4 0.02 0.00 0.18 0.26 0.00 0.06 0.00 0.12 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.15 0.27 0.11 0.34 0.93 0.41 0.39
C4' 0.01 0.09 0.01 0.01 0.06 0.00 0.09 0.01 0.09 0.11 0.09 0.08 0.11 0.12 0.06 0.23 0.04 0.01 0.02 0.20 0.22 0.06
C5 0.01 0.00 0.08 0.26 0.00 0.09 0.00 0.15 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.27 0.18 0.06 0.36 1.04 0.48 0.41
C5' 0.06 0.14 0.18 0.02 0.12 0.01 0.15 0.00 0.17 0.16 0.16 0.12 0.20 0.18 0.10 0.08 0.21 0.03 0.01 0.28 0.20 0.02
C6 0.02 0.01 0.16 0.31 0.01 0.09 0.00 0.17 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.24 0.26 0.10 0.37 1.07 0.52 0.42
C8 0.01 0.01 0.22 0.20 0.00 0.11 0.00 0.16 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.41 0.13 0.13 0.35 1.00 0.40 0.38
N1 0.03 0.00 0.28 0.36 0.01 0.09 0.00 0.16 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.18 0.38 0.16 0.36 1.03 0.50 0.42
N3 0.03 0.00 0.38 0.33 0.00 0.08 0.00 0.12 0.01 0.00 0.01 0.00 0.01 0.00 0.01 0.23 0.43 0.20 0.32 0.87 0.40 0.38
N6 0.02 0.01 0.11 0.31 0.01 0.11 0.01 0.20 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.31 0.22 0.08 0.37 1.12 0.56 0.42
N7 0.01 0.01 0.14 0.22 0.00 0.12 0.00 0.18 0.01 0.00 0.01 0.00 0.01 0.00 0.01 0.41 0.10 0.08 0.37 1.08 0.48 0.40
N9 0.00 0.01 0.03 0.15 0.00 0.06 0.00 0.10 0.01 0.00 0.01 0.01 0.01 0.01 0.00 0.20 0.16 0.02 0.32 0.87 0.36 0.36
O2' 0.02 0.22 0.00 0.03 0.15 0.23 0.27 0.08 0.24 0.41 0.18 0.23 0.31 0.41 0.20 0.00 0.11 0.15 0.36 0.69 0.24 0.42
O3' 0.29 0.45 0.05 0.01 0.27 0.04 0.18 0.21 0.26 0.13 0.38 0.43 0.22 0.10 0.16 0.11 0.00 0.19 0.27 0.29 0.62 0.36
O4' 0.01 0.20 0.03 0.02 0.11 0.01 0.06 0.03 0.10 0.13 0.16 0.20 0.08 0.08 0.02 0.15 0.19 0.00 0.10 0.44 0.38 0.19
O5' 0.24 0.34 0.49 0.33 0.34 0.02 0.36 0.01 0.37 0.35 0.36 0.32 0.37 0.37 0.32 0.36 0.27 0.10 0.00 0.03 0.02 0.01
OP1 0.64 0.94 0.78 0.35 0.93 0.20 1.04 0.28 1.07 1.00 1.03 0.87 1.12 1.08 0.87 0.69 0.29 0.44 0.03 0.00 0.01 0.01
OP2 0.27 0.45 0.26 0.31 0.41 0.22 0.48 0.20 0.52 0.40 0.50 0.40 0.56 0.48 0.36 0.24 0.62 0.38 0.02 0.01 0.00 0.01
P 0.29 0.40 0.53 0.29 0.39 0.06 0.41 0.02 0.42 0.38 0.42 0.38 0.42 0.40 0.36 0.42 0.36 0.19 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' 0.63 1.97 0.26 0.20 1.28 0.32 1.27 0.31 1.55 0.87 1.88 1.68 1.51 1.03 0.86 0.42 0.35 0.53 0.54 0.82 1.33 0.74
C2 0.58 1.88 0.28 0.29 1.26 0.56 1.55 0.63 1.97 1.11 2.10 1.47 2.23 1.44 0.89 0.27 0.55 0.62 0.62 1.12 1.67 1.05
C2' 0.27 1.69 0.46 0.65 0.73 0.51 0.61 0.57 1.02 0.54 1.52 1.34 0.94 0.45 0.24 0.58 0.70 0.30 0.74 0.77 1.14 0.67
C3' 0.46 1.71 0.46 0.51 0.94 0.46 0.90 0.47 1.21 0.75 1.61 1.40 1.16 0.74 0.59 0.49 0.53 0.42 0.78 0.98 1.01 0.68
C4 0.57 1.78 0.28 0.28 1.23 0.52 1.48 0.57 1.82 1.06 1.93 1.43 1.96 1.35 0.87 0.28 0.52 0.59 0.59 1.03 1.60 0.98
C4' 0.60 1.77 0.35 0.25 1.15 0.26 1.08 0.28 1.35 0.70 1.66 1.54 1.30 0.83 0.76 0.51 0.32 0.45 0.59 0.99 0.96 0.63
C5 0.57 1.59 0.29 0.34 1.18 0.63 1.52 0.72 1.83 1.12 1.81 1.29 2.07 1.48 0.87 0.23 0.62 0.65 0.70 1.24 1.73 1.15
C5' 0.52 1.54 0.43 0.38 1.06 0.35 1.02 0.45 1.25 0.59 1.48 1.35 1.22 0.76 0.70 0.52 0.38 0.40 0.55 1.02 0.76 0.58
C6 0.59 1.67 0.30 0.36 1.22 0.68 1.59 0.81 1.95 1.17 1.92 1.34 2.29 1.56 0.89 0.22 0.66 0.70 0.76 1.38 1.81 1.26
C8 0.53 1.39 0.29 0.31 1.10 0.53 1.31 0.58 1.48 1.01 1.49 1.19 1.56 1.25 0.82 0.25 0.55 0.56 0.61 1.02 1.57 0.98
N1 0.58 1.76 0.29 0.34 1.23 0.64 1.59 0.75 1.99 1.15 2.02 1.39 2.33 1.54 0.89 0.23 0.62 0.67 0.71 1.30 1.77 1.19
N3 0.59 1.95 0.27 0.26 1.28 0.49 1.50 0.53 1.90 1.05 2.10 1.54 2.06 1.34 0.88 0.31 0.49 0.59 0.57 1.00 1.57 0.95
N6 0.62 1.75 0.31 0.40 1.25 0.75 1.63 0.93 1.99 1.20 1.96 1.43 2.38 1.64 0.91 0.23 0.72 0.76 0.87 1.59 1.90 1.41
N7 0.57 1.41 0.30 0.37 1.11 0.66 1.43 0.75 1.64 1.11 1.57 1.20 1.84 1.44 0.85 0.22 0.65 0.66 0.73 1.27 1.74 1.18
N9 0.57 1.74 0.27 0.25 1.22 0.44 1.36 0.47 1.62 0.98 1.78 1.45 1.67 1.20 0.85 0.33 0.46 0.54 0.55 0.91 1.49 0.87
O2' 0.43 1.80 0.58 0.68 0.76 0.51 0.58 0.67 0.96 0.74 1.56 1.43 0.81 0.60 0.42 0.73 0.65 0.41 0.93 0.92 1.42 0.94
O3' 0.78 1.72 0.74 0.70 1.08 0.70 1.11 0.70 1.32 1.23 1.64 1.41 1.30 1.18 0.94 0.59 0.55 0.80 1.10 1.33 1.16 0.99
O4' 0.91 1.94 0.56 0.31 1.44 0.46 1.39 0.44 1.60 1.01 1.85 1.76 1.54 1.16 1.09 0.65 0.26 0.74 0.68 1.07 1.35 0.90
O5' 0.44 0.90 0.33 0.17 0.58 0.07 0.52 0.19 0.65 0.42 0.83 0.80 0.62 0.43 0.42 0.59 0.02 0.27 0.37 0.80 0.72 0.40
OP1 0.99 1.25 0.72 0.34 1.08 0.51 0.98 0.49 1.05 0.76 1.17 1.24 0.99 0.80 0.95 0.88 0.02 0.82 0.43 1.19 0.62 0.62
OP2 0.27 0.69 0.51 0.33 0.57 0.37 0.70 0.70 0.79 0.61 0.77 0.58 0.87 0.72 0.47 0.69 0.05 0.18 0.61 0.89 1.16 0.77
P 0.34 0.59 0.25 0.02 0.39 0.20 0.35 0.36 0.44 0.18 0.54 0.54 0.43 0.23 0.26 0.46 0.01 0.25 0.32 0.90 0.69 0.46

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.04 0.00 0.01 0.02 0.02 0.01 0.12 0.02 0.02 0.03 0.04 0.02 0.01 0.00 0.03 0.21 0.00 0.22 0.36 0.65 0.22
C2 0.04 0.00 0.40 0.33 0.01 0.28 0.01 0.38 0.01 0.01 0.00 0.00 0.01 0.01 0.01 0.48 0.35 0.35 0.55 1.35 1.20 0.80
C2' 0.00 0.40 0.00 0.01 0.21 0.02 0.15 0.21 0.21 0.24 0.32 0.40 0.19 0.18 0.07 0.00 0.07 0.02 0.49 0.49 1.01 0.54
C3' 0.01 0.33 0.01 0.00 0.21 0.01 0.18 0.05 0.24 0.12 0.30 0.30 0.23 0.13 0.09 0.02 0.01 0.03 0.44 0.57 0.68 0.41
C4 0.02 0.01 0.21 0.21 0.00 0.12 0.00 0.23 0.01 0.00 0.01 0.00 0.01 0.01 0.00 0.23 0.23 0.19 0.32 0.85 0.99 0.45
C4' 0.02 0.28 0.02 0.01 0.12 0.00 0.09 0.01 0.11 0.26 0.20 0.28 0.11 0.21 0.07 0.20 0.05 0.01 0.02 0.43 0.30 0.18
C5 0.01 0.01 0.15 0.18 0.00 0.09 0.00 0.35 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.24 0.20 0.09 0.35 0.87 1.21 0.57
C5' 0.12 0.38 0.21 0.05 0.23 0.01 0.35 0.00 0.31 0.61 0.31 0.35 0.38 0.57 0.29 0.09 0.19 0.02 0.01 0.37 0.32 0.03
C6 0.02 0.01 0.21 0.24 0.01 0.11 0.01 0.31 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.29 0.25 0.17 0.36 1.11 1.23 0.64
C8 0.02 0.01 0.24 0.12 0.00 0.26 0.00 0.61 0.01 0.00 0.01 0.01 0.02 0.00 0.01 0.35 0.14 0.19 0.63 0.52 1.39 0.80
N1 0.03 0.00 0.32 0.30 0.01 0.20 0.01 0.31 0.00 0.01 0.00 0.00 0.01 0.01 0.01 0.39 0.32 0.28 0.46 1.32 1.21 0.74
N3 0.04 0.00 0.40 0.30 0.00 0.28 0.01 0.35 0.01 0.01 0.00 0.00 0.01 0.01 0.01 0.46 0.32 0.35 0.50 1.14 1.06 0.67
N6 0.02 0.01 0.19 0.23 0.01 0.11 0.01 0.38 0.00 0.02 0.01 0.01 0.00 0.02 0.02 0.30 0.24 0.12 0.37 1.14 1.35 0.72
N7 0.01 0.01 0.18 0.13 0.01 0.21 0.00 0.57 0.01 0.00 0.01 0.01 0.02 0.00 0.01 0.33 0.14 0.10 0.55 0.70 1.49 0.81
N9 0.00 0.01 0.07 0.09 0.00 0.07 0.01 0.29 0.01 0.01 0.01 0.01 0.02 0.01 0.00 0.14 0.16 0.01 0.32 0.46 0.95 0.38
O2' 0.03 0.48 0.00 0.02 0.23 0.20 0.24 0.09 0.29 0.35 0.39 0.46 0.30 0.33 0.14 0.00 0.12 0.11 0.44 0.71 1.04 0.59
O3' 0.21 0.35 0.07 0.01 0.23 0.05 0.20 0.19 0.25 0.14 0.32 0.32 0.24 0.14 0.16 0.12 0.00 0.16 0.34 0.80 0.57 0.40
O4' 0.00 0.35 0.02 0.03 0.19 0.01 0.09 0.02 0.17 0.19 0.28 0.35 0.12 0.10 0.01 0.11 0.16 0.00 0.24 0.54 0.34 0.26
O5' 0.22 0.55 0.49 0.44 0.32 0.02 0.35 0.01 0.36 0.63 0.46 0.50 0.37 0.55 0.32 0.44 0.34 0.24 0.00 0.02 0.03 0.01
OP1 0.36 1.35 0.49 0.57 0.85 0.43 0.87 0.37 1.11 0.52 1.32 1.14 1.14 0.70 0.46 0.71 0.80 0.54 0.02 0.00 0.01 0.00
OP2 0.65 1.20 1.01 0.68 0.99 0.30 1.21 0.32 1.23 1.39 1.21 1.06 1.35 1.49 0.95 1.04 0.57 0.34 0.03 0.01 0.00 0.00
P 0.22 0.80 0.54 0.41 0.45 0.18 0.57 0.03 0.64 0.80 0.74 0.67 0.72 0.81 0.38 0.59 0.40 0.26 0.01 0.00 0.00 0.00