ClaRNA

Doublet Group distance statistics: 55223

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Distances from reference structure (by RMSD)

1, 0, 0, 0, 1, 0, 0, 1, 0, 1, 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, 0.007, 0.017, 0.028, 0.032 max_d=0.032 avg_d=0.017 std_dev=0.011
N1 A 0, 0.010, 0.023, 0.036, 0.034 max_d=0.034 avg_d=0.023 std_dev=0.013
C6 A 0, 0.010, 0.023, 0.036, 0.038 max_d=0.038 avg_d=0.023 std_dev=0.013
C2 A 0, 0.010, 0.024, 0.037, 0.040 max_d=0.040 avg_d=0.024 std_dev=0.014
C5 A 0, 0.008, 0.023, 0.038, 0.044 max_d=0.044 avg_d=0.023 std_dev=0.015
C4 A 0, 0.013, 0.028, 0.043, 0.045 max_d=0.045 avg_d=0.028 std_dev=0.015
C1' A 0, 0.017, 0.034, 0.051, 0.047 max_d=0.047 avg_d=0.034 std_dev=0.017
O4 A 0, 0.021, 0.053, 0.085, 0.098 max_d=0.098 avg_d=0.053 std_dev=0.032
O2 A 0, 0.026, 0.064, 0.102, 0.117 max_d=0.117 avg_d=0.064 std_dev=0.038
C2' B 0, 0.167, 0.416, 0.666, 0.680 max_d=0.680 avg_d=0.416 std_dev=0.250
C2' A 0, 0.118, 0.452, 0.786, 0.838 max_d=0.838 avg_d=0.452 std_dev=0.334
O4' A 0, 0.118, 0.454, 0.789, 0.882 max_d=0.882 avg_d=0.454 std_dev=0.336
C3' B 0, 0.314, 0.766, 1.218, 1.312 max_d=1.312 avg_d=0.766 std_dev=0.452
C1' B 0, 0.259, 0.716, 1.173, 1.400 max_d=1.400 avg_d=0.716 std_dev=0.457
O4' B 0, 0.283, 0.820, 1.357, 1.568 max_d=1.568 avg_d=0.820 std_dev=0.537
O2' B 0, 0.277, 0.837, 1.397, 1.455 max_d=1.455 avg_d=0.837 std_dev=0.560
C4' A 0, 0.068, 0.702, 1.337, 1.658 max_d=1.658 avg_d=0.702 std_dev=0.635
O5' A 0, 0.521, 1.178, 1.834, 1.887 max_d=1.887 avg_d=1.178 std_dev=0.656
O2' A 0, 0.243, 0.919, 1.596, 1.737 max_d=1.737 avg_d=0.919 std_dev=0.677
C4' B 0, 0.403, 1.091, 1.779, 1.857 max_d=1.857 avg_d=1.091 std_dev=0.688
C3' A 0, 0.040, 0.762, 1.484, 1.800 max_d=1.800 avg_d=0.762 std_dev=0.722
OP1 A 0, 0.232, 0.961, 1.690, 1.875 max_d=1.875 avg_d=0.961 std_dev=0.729
C5' A 0, 0.127, 0.887, 1.647, 2.008 max_d=2.008 avg_d=0.887 std_dev=0.760
P A 0, 0.078, 1.147, 2.215, 3.153 max_d=3.153 avg_d=1.147 std_dev=1.068
O3' B 0, -0.106, 1.018, 2.142, 3.195 max_d=3.195 avg_d=1.018 std_dev=1.124
N9 B 0, 0.052, 1.205, 2.359, 3.374 max_d=3.374 avg_d=1.205 std_dev=1.154
O3' A 0, -0.107, 1.235, 2.576, 3.071 max_d=3.071 avg_d=1.235 std_dev=1.341
C5' B 0, 0.282, 1.677, 3.072, 3.904 max_d=3.904 avg_d=1.677 std_dev=1.395
C8 B 0, 0.155, 1.699, 3.243, 4.503 max_d=4.503 avg_d=1.699 std_dev=1.544
O5' B 0, 0.540, 2.296, 4.052, 5.024 max_d=5.024 avg_d=2.296 std_dev=1.756
C4 B 0, -0.426, 1.427, 3.281, 5.063 max_d=5.063 avg_d=1.427 std_dev=1.853
OP2 A 0, -0.129, 1.896, 3.920, 5.782 max_d=5.782 avg_d=1.896 std_dev=2.024
N3 B 0, -0.526, 1.576, 3.679, 5.740 max_d=5.740 avg_d=1.576 std_dev=2.102
N7 B 0, -0.106, 2.103, 4.311, 6.292 max_d=6.292 avg_d=2.103 std_dev=2.208
C5 B 0, -0.480, 1.889, 4.259, 6.523 max_d=6.523 avg_d=1.889 std_dev=2.370
P B 0, 0.838, 3.230, 5.621, 7.299 max_d=7.299 avg_d=3.230 std_dev=2.391
OP1 B 0, 0.882, 3.577, 6.272, 8.182 max_d=8.182 avg_d=3.577 std_dev=2.695
OP2 B 0, 0.951, 3.670, 6.389, 8.353 max_d=8.353 avg_d=3.670 std_dev=2.719
C2 B 0, -0.763, 2.038, 4.840, 7.596 max_d=7.596 avg_d=2.038 std_dev=2.801
C6 B 0, -0.946, 2.194, 5.334, 8.386 max_d=8.386 avg_d=2.194 std_dev=3.140
N1 B 0, -1.001, 2.238, 5.477, 8.678 max_d=8.678 avg_d=2.238 std_dev=3.239
N2 B 0, -0.765, 2.489, 5.744, 8.892 max_d=8.892 avg_d=2.489 std_dev=3.254
O6 B 0, -1.076, 2.626, 6.328, 9.917 max_d=9.917 avg_d=2.626 std_dev=3.702

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.02 0.02 0.01 0.02 0.08 0.02 0.00 0.02 0.04 0.02 0.37 0.03 0.00 0.22 0.10 0.91 0.50
C2 0.02 0.00 0.22 0.29 0.02 0.08 0.02 0.07 0.01 0.01 0.01 0.00 0.22 0.17 0.03 0.09 0.50 0.35 1.37 0.79
C2' 0.00 0.22 0.00 0.00 0.04 0.01 0.10 0.23 0.15 0.02 0.17 0.38 0.00 0.03 0.05 0.02 0.34 0.47 1.01 0.57
C3' 0.02 0.29 0.00 0.00 0.37 0.01 0.33 0.02 0.25 0.22 0.36 0.25 0.03 0.01 0.40 0.03 0.09 0.12 0.46 0.21
C4 0.02 0.02 0.04 0.37 0.00 0.14 0.01 0.14 0.01 0.02 0.01 0.03 0.37 0.13 0.01 0.04 0.78 0.63 1.93 1.14
C4' 0.01 0.08 0.01 0.01 0.14 0.00 0.14 0.01 0.12 0.08 0.11 0.07 0.33 0.02 0.15 0.01 0.02 0.18 0.26 0.12
C5 0.02 0.02 0.10 0.33 0.01 0.14 0.00 0.13 0.01 0.01 0.02 0.02 0.40 0.12 0.02 0.06 0.79 0.64 1.99 1.19
C5' 0.08 0.07 0.23 0.02 0.14 0.01 0.13 0.00 0.08 0.05 0.11 0.05 0.10 0.25 0.17 0.01 0.01 0.24 0.10 0.02
C6 0.02 0.01 0.15 0.25 0.01 0.12 0.01 0.08 0.00 0.01 0.01 0.01 0.34 0.07 0.02 0.09 0.66 0.48 1.69 1.03
N1 0.00 0.01 0.02 0.22 0.02 0.08 0.01 0.05 0.01 0.00 0.01 0.01 0.22 0.15 0.02 0.01 0.48 0.31 1.34 0.79
N3 0.02 0.01 0.17 0.36 0.01 0.11 0.02 0.11 0.01 0.01 0.00 0.02 0.30 0.12 0.03 0.08 0.65 0.50 1.66 0.97
O2 0.04 0.00 0.38 0.25 0.03 0.07 0.02 0.05 0.01 0.01 0.02 0.00 0.22 0.26 0.04 0.14 0.38 0.25 1.14 0.64
O2' 0.02 0.22 0.00 0.03 0.37 0.33 0.40 0.10 0.34 0.22 0.30 0.22 0.00 0.03 0.41 0.22 0.25 0.43 1.14 0.57
O3' 0.37 0.17 0.03 0.01 0.13 0.02 0.12 0.25 0.07 0.15 0.12 0.26 0.03 0.00 0.16 0.24 0.18 0.18 0.32 0.17
O4 0.03 0.03 0.05 0.40 0.01 0.15 0.02 0.17 0.02 0.02 0.03 0.04 0.41 0.16 0.00 0.05 0.84 0.71 2.07 1.22
O4' 0.00 0.09 0.02 0.03 0.04 0.01 0.06 0.01 0.09 0.01 0.08 0.14 0.22 0.24 0.05 0.00 0.30 0.28 0.73 0.53
O5' 0.22 0.50 0.34 0.09 0.78 0.02 0.79 0.01 0.66 0.48 0.65 0.38 0.25 0.18 0.84 0.30 0.00 0.01 0.01 0.01
OP1 0.10 0.35 0.47 0.12 0.63 0.18 0.64 0.24 0.48 0.31 0.50 0.25 0.43 0.18 0.71 0.28 0.01 0.00 0.01 0.00
OP2 0.91 1.37 1.01 0.46 1.93 0.26 1.99 0.10 1.69 1.34 1.66 1.14 1.14 0.32 2.07 0.73 0.01 0.01 0.00 0.01
P 0.50 0.79 0.57 0.21 1.14 0.12 1.19 0.02 1.03 0.79 0.97 0.64 0.57 0.17 1.22 0.53 0.01 0.00 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.42 1.42 0.07 0.77 0.78 0.78 0.56 1.30 0.80 0.14 1.19 1.83 1.26 0.18 0.39 0.47 1.35 0.38 1.22 0.69 2.04 1.26 1.47
C2 0.54 2.02 0.14 0.66 1.22 0.83 1.10 1.24 1.45 0.38 1.86 2.49 1.72 0.63 0.71 0.51 1.23 0.54 1.02 1.41 1.72 0.80 1.12
C2' 0.60 1.49 0.42 0.62 0.87 0.39 0.61 0.92 0.82 0.20 1.23 1.90 1.35 0.23 0.52 0.81 1.18 0.26 1.02 0.69 1.94 1.25 1.39
C3' 0.38 1.09 0.11 0.75 0.52 0.42 0.26 0.91 0.42 0.33 0.81 1.47 0.99 0.30 0.23 0.37 1.34 0.18 1.17 0.29 1.97 1.47 1.51
C4 0.64 2.36 0.20 0.48 1.54 0.76 1.54 1.00 1.93 0.81 2.29 2.80 1.97 1.12 0.99 0.52 0.97 0.66 0.81 1.94 1.17 0.33 0.62
C4' 0.39 0.95 0.09 0.72 0.48 0.37 0.29 0.95 0.38 0.44 0.69 1.30 0.90 0.44 0.26 0.45 1.32 0.20 1.29 0.32 2.06 1.59 1.63
C5 0.62 2.05 0.18 0.48 1.38 0.72 1.32 0.92 1.62 0.69 1.94 2.40 1.79 0.94 0.90 0.51 0.97 0.63 0.76 1.60 1.07 0.32 0.57
C5' 0.43 0.74 0.07 0.59 0.39 0.35 0.31 0.74 0.31 0.53 0.48 1.02 0.74 0.57 0.26 0.54 1.12 0.47 1.23 0.37 1.64 1.48 1.44
C6 0.54 1.73 0.13 0.61 1.10 0.76 0.97 1.04 1.22 0.38 1.56 2.07 1.54 0.57 0.67 0.50 1.15 0.54 0.85 1.16 1.32 0.53 0.81
N1 0.49 1.74 0.11 0.68 1.04 0.80 0.88 1.21 1.16 0.24 1.54 2.14 1.52 0.43 0.59 0.50 1.26 0.49 1.03 1.09 1.69 0.85 1.13
N3 0.61 2.30 0.18 0.57 1.45 0.81 1.40 1.14 1.79 0.64 2.20 2.78 1.92 0.93 0.89 0.51 1.11 0.62 0.91 1.79 1.46 0.50 0.86
O2 0.50 1.99 0.11 0.71 1.16 0.86 1.02 1.34 1.37 0.28 1.81 2.48 1.67 0.52 0.64 0.50 1.28 0.51 1.14 1.32 1.97 1.04 1.33
O2' 0.50 1.47 0.35 0.71 0.78 0.63 0.50 1.22 0.73 0.20 1.18 1.94 1.31 0.17 0.40 0.80 1.22 0.31 1.28 0.59 2.42 1.61 1.75
O3' 0.40 1.18 0.11 0.77 0.57 0.38 0.33 0.92 0.48 0.42 0.88 1.61 1.07 0.42 0.26 0.36 1.39 0.20 1.30 0.38 2.20 1.75 1.72
O4 0.67 2.57 0.21 0.39 1.70 0.72 1.79 0.93 2.23 1.01 2.58 3.03 2.09 1.38 1.12 0.51 0.84 0.70 0.79 2.30 1.03 0.40 0.51
O4' 0.36 1.13 0.18 0.86 0.60 0.74 0.40 1.27 0.56 0.33 0.90 1.48 1.04 0.31 0.29 0.40 1.44 0.24 1.31 0.47 2.02 1.37 1.53
O5' 0.43 0.61 0.51 0.93 0.41 0.36 0.46 0.57 0.43 0.67 0.44 0.84 0.61 0.69 0.41 0.37 1.40 0.22 0.88 0.50 1.16 1.05 1.00
OP1 0.37 0.40 0.63 0.65 0.57 0.36 0.84 0.59 0.83 0.99 0.60 0.32 0.36 1.09 0.62 0.83 0.77 0.30 0.83 0.97 0.47 0.75 0.68
OP2 1.47 1.65 1.50 1.39 1.63 0.64 1.67 0.27 1.70 1.61 1.68 1.64 1.62 1.67 1.58 1.35 1.67 0.96 0.32 1.73 0.62 0.64 0.45
P 0.86 0.86 1.04 1.19 0.91 0.42 1.01 0.32 0.99 1.11 0.90 0.87 0.86 1.14 0.94 0.83 1.52 0.45 0.52 1.06 0.65 0.68 0.55

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.06 0.00 0.01 0.03 0.01 0.02 0.08 0.02 0.02 0.04 0.09 0.06 0.01 0.00 0.02 0.29 0.01 0.33 0.02 0.43 0.54 0.37
C2 0.06 0.00 0.38 0.27 0.01 0.46 0.01 0.68 0.01 0.01 0.01 0.00 0.01 0.01 0.02 0.50 0.40 0.55 0.95 0.01 0.71 0.64 0.65
C2' 0.00 0.38 0.00 0.01 0.20 0.01 0.10 0.21 0.17 0.17 0.29 0.46 0.37 0.08 0.01 0.00 0.02 0.01 0.57 0.14 0.87 0.66 0.58
C3' 0.01 0.27 0.01 0.00 0.23 0.01 0.32 0.01 0.31 0.41 0.28 0.33 0.25 0.42 0.23 0.04 0.01 0.02 0.34 0.35 0.68 0.23 0.22
C4 0.03 0.01 0.20 0.23 0.00 0.18 0.01 0.31 0.01 0.00 0.02 0.01 0.01 0.01 0.01 0.26 0.18 0.27 0.65 0.02 0.48 0.55 0.43
C4' 0.01 0.46 0.01 0.01 0.18 0.00 0.11 0.01 0.17 0.31 0.33 0.61 0.43 0.24 0.09 0.32 0.02 0.01 0.01 0.14 0.29 0.38 0.14
C5 0.02 0.01 0.10 0.32 0.01 0.11 0.00 0.16 0.01 0.02 0.02 0.01 0.01 0.01 0.02 0.28 0.09 0.13 0.58 0.02 0.35 0.47 0.33
C5' 0.08 0.68 0.21 0.01 0.31 0.01 0.16 0.00 0.30 0.32 0.54 0.88 0.61 0.21 0.03 0.09 0.21 0.01 0.00 0.24 0.32 0.36 0.01
C6 0.02 0.01 0.17 0.31 0.01 0.17 0.01 0.30 0.00 0.03 0.01 0.02 0.01 0.03 0.02 0.30 0.14 0.24 0.71 0.00 0.40 0.48 0.40
C8 0.02 0.01 0.17 0.41 0.00 0.31 0.02 0.32 0.03 0.00 0.03 0.01 0.01 0.00 0.00 0.50 0.26 0.26 0.42 0.05 0.30 0.53 0.39
N1 0.04 0.01 0.29 0.28 0.02 0.33 0.02 0.54 0.01 0.03 0.00 0.02 0.01 0.03 0.02 0.39 0.26 0.42 0.87 0.01 0.57 0.57 0.55
N2 0.09 0.00 0.46 0.33 0.01 0.61 0.01 0.88 0.02 0.01 0.02 0.00 0.02 0.01 0.03 0.65 0.57 0.67 1.08 0.03 0.86 0.72 0.79
N3 0.06 0.01 0.37 0.25 0.01 0.43 0.01 0.61 0.01 0.01 0.01 0.02 0.00 0.01 0.02 0.47 0.41 0.54 0.86 0.01 0.68 0.64 0.61
N7 0.01 0.01 0.08 0.42 0.01 0.24 0.01 0.21 0.03 0.00 0.03 0.01 0.01 0.00 0.01 0.43 0.25 0.13 0.45 0.05 0.29 0.47 0.33
N9 0.00 0.02 0.01 0.23 0.01 0.09 0.02 0.03 0.02 0.00 0.02 0.03 0.02 0.01 0.00 0.21 0.05 0.01 0.42 0.03 0.37 0.53 0.34
O2' 0.02 0.50 0.00 0.04 0.26 0.32 0.28 0.09 0.30 0.50 0.39 0.65 0.47 0.43 0.21 0.00 0.06 0.22 0.28 0.32 0.76 0.75 0.48
O3' 0.29 0.40 0.02 0.01 0.18 0.02 0.09 0.21 0.14 0.26 0.26 0.57 0.41 0.25 0.05 0.06 0.00 0.21 0.41 0.15 0.74 0.38 0.38
O4' 0.01 0.55 0.01 0.02 0.27 0.01 0.13 0.01 0.24 0.26 0.42 0.67 0.54 0.13 0.01 0.22 0.21 0.00 0.19 0.18 0.29 0.59 0.43
O5' 0.33 0.95 0.57 0.34 0.65 0.01 0.58 0.00 0.71 0.42 0.87 1.08 0.86 0.45 0.42 0.28 0.41 0.19 0.00 0.69 0.01 0.01 0.01
O6 0.02 0.01 0.14 0.35 0.02 0.14 0.02 0.24 0.00 0.05 0.01 0.03 0.01 0.05 0.03 0.32 0.15 0.18 0.69 0.00 0.35 0.45 0.37
OP1 0.43 0.71 0.87 0.68 0.48 0.29 0.35 0.32 0.40 0.30 0.57 0.86 0.68 0.29 0.37 0.76 0.74 0.29 0.01 0.35 0.00 0.01 0.01
OP2 0.54 0.64 0.66 0.23 0.55 0.38 0.47 0.36 0.48 0.53 0.57 0.72 0.64 0.47 0.53 0.75 0.38 0.59 0.01 0.45 0.01 0.00 0.00
P 0.37 0.65 0.58 0.22 0.43 0.14 0.33 0.01 0.40 0.39 0.55 0.79 0.61 0.33 0.34 0.48 0.38 0.43 0.01 0.37 0.01 0.00 0.00