ClaRNA

Doublet Group distance statistics: 54607

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.002, 0.009, 0.016, 0.017 max_d=0.017 avg_d=0.009 std_dev=0.007
N3 A 0, -0.001, 0.010, 0.020, 0.027 max_d=0.027 avg_d=0.010 std_dev=0.010
C6 A 0, -0.003, 0.014, 0.031, 0.043 max_d=0.043 avg_d=0.014 std_dev=0.017
C4 A 0, -0.005, 0.014, 0.032, 0.046 max_d=0.046 avg_d=0.014 std_dev=0.019
N1 A 0, -0.001, 0.019, 0.039, 0.050 max_d=0.050 avg_d=0.019 std_dev=0.020
C1' A 0, -0.003, 0.017, 0.038, 0.052 max_d=0.052 avg_d=0.017 std_dev=0.021
C2 A 0, -0.005, 0.019, 0.044, 0.061 max_d=0.061 avg_d=0.019 std_dev=0.025
O2 A 0, -0.007, 0.034, 0.075, 0.102 max_d=0.102 avg_d=0.034 std_dev=0.041
O4 A 0, -0.010, 0.042, 0.094, 0.131 max_d=0.131 avg_d=0.042 std_dev=0.052
N3 B 0, -0.007, 0.371, 0.749, 0.915 max_d=0.915 avg_d=0.371 std_dev=0.378
C2 B 0, 0.005, 0.404, 0.802, 0.943 max_d=0.943 avg_d=0.404 std_dev=0.399
C4 B 0, 0.000, 0.401, 0.803, 0.938 max_d=0.938 avg_d=0.401 std_dev=0.401
N1 B 0, 0.003, 0.422, 0.842, 0.991 max_d=0.991 avg_d=0.422 std_dev=0.419
C1' B 0, 0.009, 0.449, 0.889, 0.959 max_d=0.959 avg_d=0.449 std_dev=0.440
N9 B 0, 0.010, 0.451, 0.891, 0.945 max_d=0.945 avg_d=0.451 std_dev=0.441
C6 B 0, 0.014, 0.473, 0.931, 1.006 max_d=1.006 avg_d=0.473 std_dev=0.458
N2 B 0, 0.024, 0.483, 0.943, 0.953 max_d=0.953 avg_d=0.483 std_dev=0.459
C5 B 0, 0.012, 0.472, 0.932, 0.974 max_d=0.974 avg_d=0.472 std_dev=0.460
O6 B 0, 0.017, 0.547, 1.077, 1.082 max_d=1.082 avg_d=0.547 std_dev=0.530
C8 B 0, 0.003, 0.549, 1.095, 1.207 max_d=1.207 avg_d=0.549 std_dev=0.546
N7 B 0, 0.002, 0.565, 1.127, 1.256 max_d=1.256 avg_d=0.565 std_dev=0.563
O4' A 0, -0.278, 0.699, 1.676, 2.366 max_d=2.366 avg_d=0.699 std_dev=0.977
O4' B 0, 0.016, 1.002, 1.987, 2.009 max_d=2.009 avg_d=1.002 std_dev=0.986
C2' A 0, -0.313, 0.786, 1.886, 2.662 max_d=2.662 avg_d=0.786 std_dev=1.100
C4' A 0, -0.324, 0.925, 2.175, 3.044 max_d=3.044 avg_d=0.925 std_dev=1.250
O2' A 0, -0.330, 1.004, 2.338, 3.257 max_d=3.257 avg_d=1.004 std_dev=1.334
C2' B 0, 0.011, 1.394, 2.778, 2.779 max_d=2.779 avg_d=1.394 std_dev=1.383
C4' B 0, 0.011, 1.463, 2.915, 3.127 max_d=3.127 avg_d=1.463 std_dev=1.452
C3' A 0, -0.448, 1.140, 2.728, 3.848 max_d=3.848 avg_d=1.140 std_dev=1.588
C3' B 0, -0.052, 1.682, 3.416, 4.038 max_d=4.038 avg_d=1.682 std_dev=1.734
O2' B 0, 0.007, 2.104, 4.202, 4.231 max_d=4.231 avg_d=2.104 std_dev=2.098
O3' B 0, -0.308, 1.803, 3.914, 5.183 max_d=5.183 avg_d=1.803 std_dev=2.111
O3' A 0, -0.572, 1.651, 3.874, 5.418 max_d=5.418 avg_d=1.651 std_dev=2.223
C5' A 0, -0.671, 1.693, 4.056, 5.725 max_d=5.725 avg_d=1.693 std_dev=2.364
O5' A 0, -0.715, 2.013, 4.742, 6.642 max_d=6.642 avg_d=2.013 std_dev=2.729
C5' B 0, 0.009, 2.745, 5.482, 5.848 max_d=5.848 avg_d=2.745 std_dev=2.737
O5' B 0, -0.010, 3.526, 7.062, 7.722 max_d=7.722 avg_d=3.526 std_dev=3.536
P A 0, -0.688, 3.183, 7.055, 9.506 max_d=9.506 avg_d=3.183 std_dev=3.872
OP1 A 0, -0.544, 3.476, 7.496, 9.848 max_d=9.848 avg_d=3.476 std_dev=4.020
OP2 A 0, -0.866, 3.600, 8.065, 10.956 max_d=10.956 avg_d=3.600 std_dev=4.466
P B 0, -0.006, 4.929, 9.864, 10.655 max_d=10.655 avg_d=4.929 std_dev=4.935
OP2 B 0, -0.002, 5.218, 10.438, 11.176 max_d=11.176 avg_d=5.218 std_dev=5.220
OP1 B 0, 0.004, 5.725, 11.447, 12.226 max_d=12.226 avg_d=5.725 std_dev=5.721

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 0.01 0.03 0.00 0.02 0.01 0.10 0.01 0.01 0.01 0.04 0.04 0.03 0.00 0.00 0.13 0.25 0.62 0.18
C2 0.02 0.00 0.13 0.37 0.01 0.21 0.01 0.24 0.01 0.01 0.00 0.01 0.10 0.37 0.01 0.13 0.30 0.23 0.47 0.09
C2' 0.01 0.13 0.00 0.01 0.05 0.03 0.18 0.10 0.21 0.03 0.07 0.28 0.01 0.08 0.04 0.00 0.19 0.74 1.06 0.64
C3' 0.03 0.37 0.01 0.00 0.16 0.01 0.44 0.05 0.49 0.10 0.24 0.76 0.05 0.02 0.16 0.03 0.36 0.84 0.95 0.74
C4 0.00 0.01 0.05 0.16 0.00 0.19 0.01 0.51 0.00 0.01 0.01 0.02 0.11 0.15 0.00 0.07 0.24 0.60 1.20 0.69
C4' 0.02 0.21 0.03 0.01 0.19 0.00 0.43 0.01 0.46 0.08 0.08 0.52 0.25 0.06 0.19 0.00 0.03 0.21 0.38 0.18
C5 0.01 0.01 0.18 0.44 0.01 0.43 0.00 0.87 0.00 0.01 0.01 0.02 0.14 0.38 0.01 0.19 0.57 0.91 1.66 1.05
C5' 0.10 0.24 0.10 0.05 0.51 0.01 0.87 0.00 0.85 0.28 0.20 0.66 0.17 0.15 0.54 0.01 0.02 0.15 0.12 0.03
C6 0.01 0.01 0.21 0.49 0.00 0.46 0.00 0.85 0.00 0.01 0.01 0.02 0.13 0.40 0.01 0.22 0.52 0.79 1.53 0.95
N1 0.01 0.01 0.03 0.10 0.01 0.08 0.01 0.28 0.01 0.00 0.01 0.02 0.06 0.08 0.01 0.02 0.07 0.32 0.85 0.37
N3 0.01 0.00 0.07 0.24 0.01 0.08 0.01 0.20 0.01 0.01 0.00 0.01 0.10 0.27 0.01 0.06 0.12 0.26 0.68 0.25
O2 0.04 0.01 0.28 0.76 0.02 0.52 0.02 0.66 0.02 0.02 0.01 0.00 0.17 0.73 0.02 0.27 0.66 0.54 0.41 0.44
O2' 0.04 0.10 0.01 0.05 0.11 0.25 0.14 0.17 0.13 0.06 0.10 0.17 0.00 0.09 0.12 0.12 0.13 0.61 0.85 0.41
O3' 0.03 0.37 0.08 0.02 0.15 0.06 0.38 0.15 0.40 0.08 0.27 0.73 0.09 0.00 0.16 0.05 0.44 0.99 0.89 0.79
O4 0.00 0.01 0.04 0.16 0.00 0.19 0.01 0.54 0.01 0.01 0.01 0.02 0.12 0.16 0.00 0.07 0.28 0.67 1.27 0.76
O4' 0.00 0.13 0.00 0.03 0.07 0.00 0.19 0.01 0.22 0.02 0.06 0.27 0.12 0.05 0.07 0.00 0.34 0.16 0.25 0.20
O5' 0.13 0.30 0.19 0.36 0.24 0.03 0.57 0.02 0.52 0.07 0.12 0.66 0.13 0.44 0.28 0.34 0.00 0.01 0.02 0.01
OP1 0.25 0.23 0.74 0.84 0.60 0.21 0.91 0.15 0.79 0.32 0.26 0.54 0.61 0.99 0.67 0.16 0.01 0.00 0.01 0.01
OP2 0.62 0.47 1.06 0.95 1.20 0.38 1.66 0.12 1.53 0.85 0.68 0.41 0.85 0.89 1.27 0.25 0.02 0.01 0.00 0.01
P 0.18 0.09 0.64 0.74 0.69 0.18 1.05 0.03 0.95 0.37 0.25 0.44 0.41 0.79 0.76 0.20 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.04 0.18 0.59 0.26 0.14 0.66 0.29 1.12 0.29 0.36 0.20 0.25 0.16 0.43 0.15 1.30 0.37 0.77 1.64 0.37 1.91 1.84 2.01
C2 0.13 0.13 0.44 0.33 0.05 0.49 0.20 0.77 0.21 0.26 0.11 0.21 0.12 0.33 0.13 1.00 0.13 0.57 1.48 0.33 1.67 1.80 1.77
C2' 0.73 0.31 0.79 1.08 0.64 1.50 0.77 2.13 0.61 1.15 0.38 0.23 0.42 1.07 0.84 1.20 0.61 1.44 2.72 0.68 2.93 2.91 3.08
C3' 0.11 0.03 0.62 0.44 0.33 0.96 0.69 1.73 0.65 0.94 0.31 0.21 0.05 1.08 0.44 1.49 0.31 0.95 2.33 0.86 2.87 2.97 3.05
C4 0.23 0.17 0.57 0.40 0.22 0.23 0.25 0.51 0.20 0.30 0.09 0.25 0.19 0.30 0.25 0.97 0.37 0.42 0.82 0.25 0.80 1.06 0.90
C4' 0.76 0.58 1.14 0.64 0.43 0.61 0.19 0.96 0.16 0.26 0.29 0.75 0.69 0.36 0.44 1.91 1.21 0.73 1.32 0.33 1.93 1.89 2.03
C5 0.17 0.14 0.79 0.55 0.13 0.19 0.20 0.51 0.16 0.28 0.01 0.30 0.13 0.29 0.20 1.23 0.66 0.44 0.73 0.23 0.70 1.01 0.80
C5' 1.40 1.12 1.87 1.49 0.90 0.95 0.36 0.37 0.25 0.34 0.67 1.38 1.30 0.15 0.90 2.61 2.14 0.97 0.56 0.14 1.32 1.43 1.42
C6 0.10 0.16 0.85 0.50 0.07 0.22 0.21 0.48 0.19 0.29 0.10 0.30 0.13 0.32 0.15 1.44 0.69 0.54 0.87 0.27 0.87 1.04 1.00
N1 0.06 0.17 0.64 0.30 0.06 0.44 0.22 0.75 0.23 0.30 0.14 0.27 0.15 0.36 0.12 1.28 0.40 0.63 1.32 0.31 1.45 1.51 1.57
N3 0.20 0.12 0.43 0.33 0.18 0.35 0.24 0.55 0.21 0.29 0.03 0.19 0.15 0.32 0.22 0.90 0.14 0.47 1.16 0.30 1.25 1.41 1.34
O2 0.12 0.13 0.28 0.45 0.02 0.63 0.16 1.01 0.22 0.20 0.14 0.19 0.12 0.30 0.08 0.88 0.14 0.60 1.84 0.36 2.20 2.37 2.28
O2' 1.12 0.42 1.21 1.61 0.72 2.08 0.67 2.73 0.48 1.10 0.35 0.36 0.60 0.88 0.99 1.40 1.21 1.88 3.06 0.48 3.29 2.96 3.30
O3' 0.47 0.30 0.64 0.91 0.62 1.46 0.93 2.40 0.85 1.23 0.54 0.13 0.32 1.31 0.75 1.29 0.49 1.30 2.94 1.03 3.73 3.58 3.84
O4 0.28 0.25 0.51 0.42 0.29 0.25 0.30 0.61 0.26 0.31 0.22 0.27 0.27 0.31 0.30 0.81 0.32 0.36 0.73 0.26 0.72 1.04 0.78
O4' 0.98 0.70 1.36 0.87 0.72 0.63 0.48 0.57 0.37 0.55 0.49 0.77 0.83 0.41 0.78 2.02 1.35 0.77 0.93 0.27 1.39 1.31 1.46
O5' 1.78 1.16 2.40 2.17 1.13 1.36 0.75 0.55 0.58 0.94 0.77 1.36 1.39 0.74 1.28 2.97 2.90 1.12 0.58 0.51 0.77 1.14 0.91
OP1 1.92 1.44 2.62 2.68 1.29 1.78 0.83 1.18 0.66 0.97 0.98 1.71 1.63 0.73 1.38 3.00 3.44 1.36 1.58 0.44 1.59 1.78 1.55
OP2 2.35 2.03 3.27 3.19 1.75 2.22 1.10 1.68 0.94 1.10 1.44 2.37 2.24 0.75 1.76 3.82 3.68 1.78 1.81 0.47 1.70 1.97 1.63
P 2.24 1.68 3.02 3.03 1.55 2.09 1.04 1.46 0.85 1.17 1.19 1.94 1.91 0.88 1.66 3.44 3.75 1.66 1.63 0.56 1.49 1.75 1.48

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.02 0.00 0.02 0.01 0.01 0.01 0.04 0.01 0.00 0.02 0.03 0.02 0.01 0.00 0.02 0.24 0.01 0.41 0.01 0.45 0.31 0.43
C2 0.02 0.00 0.29 0.33 0.00 0.53 0.00 1.04 0.00 0.01 0.00 0.00 0.00 0.00 0.01 0.51 0.25 0.35 0.47 0.01 0.58 0.86 0.61
C2' 0.00 0.29 0.00 0.00 0.12 0.00 0.04 0.18 0.10 0.17 0.21 0.36 0.28 0.11 0.03 0.00 0.01 0.01 0.35 0.08 0.28 0.36 0.37
C3' 0.02 0.33 0.00 0.00 0.22 0.01 0.39 0.02 0.33 0.67 0.25 0.49 0.32 0.63 0.33 0.01 0.02 0.03 0.04 0.40 0.17 0.12 0.03
C4 0.01 0.00 0.12 0.22 0.00 0.20 0.01 0.40 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.38 0.04 0.17 0.48 0.01 0.48 0.45 0.44
C4' 0.01 0.53 0.00 0.01 0.20 0.00 0.19 0.01 0.19 0.54 0.35 0.72 0.52 0.45 0.17 0.27 0.01 0.00 0.01 0.21 0.18 0.16 0.03
C5 0.01 0.00 0.04 0.39 0.01 0.19 0.00 0.29 0.01 0.00 0.01 0.00 0.00 0.00 0.00 0.42 0.22 0.04 0.99 0.01 1.10 1.17 1.09
C5' 0.04 1.04 0.18 0.02 0.40 0.01 0.29 0.00 0.38 0.81 0.73 1.41 0.98 0.69 0.20 0.07 0.22 0.02 0.00 0.36 0.37 0.29 0.02
C6 0.01 0.00 0.10 0.33 0.00 0.19 0.01 0.38 0.00 0.01 0.00 0.00 0.00 0.01 0.01 0.50 0.17 0.11 0.80 0.01 0.90 0.99 0.87
C8 0.00 0.01 0.17 0.67 0.01 0.54 0.00 0.81 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.21 0.43 0.25 1.68 0.01 1.82 1.88 1.85
N1 0.02 0.00 0.21 0.25 0.00 0.35 0.01 0.73 0.00 0.01 0.00 0.00 0.00 0.00 0.01 0.53 0.06 0.25 0.38 0.01 0.37 0.53 0.34
N2 0.03 0.00 0.36 0.49 0.01 0.72 0.00 1.41 0.00 0.01 0.00 0.00 0.01 0.01 0.01 0.54 0.42 0.44 0.92 0.01 1.21 1.58 1.25
N3 0.02 0.00 0.28 0.32 0.00 0.52 0.00 0.98 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.45 0.29 0.36 0.40 0.01 0.46 0.71 0.50
N7 0.01 0.00 0.11 0.63 0.01 0.45 0.00 0.69 0.01 0.00 0.00 0.01 0.01 0.00 0.01 0.33 0.45 0.16 1.64 0.01 1.88 2.06 1.90
N9 0.00 0.01 0.03 0.33 0.01 0.17 0.00 0.20 0.01 0.01 0.01 0.01 0.01 0.01 0.00 0.21 0.09 0.02 0.85 0.00 0.89 0.83 0.88
O2' 0.02 0.51 0.00 0.01 0.38 0.27 0.42 0.07 0.50 0.21 0.53 0.54 0.45 0.33 0.21 0.00 0.05 0.25 0.29 0.52 0.20 0.43 0.31
O3' 0.24 0.25 0.01 0.02 0.04 0.01 0.22 0.22 0.17 0.43 0.06 0.42 0.29 0.45 0.09 0.05 0.00 0.15 0.20 0.27 0.48 0.30 0.27
O4' 0.01 0.35 0.01 0.03 0.17 0.00 0.04 0.02 0.11 0.25 0.25 0.44 0.36 0.16 0.02 0.25 0.15 0.00 0.32 0.06 0.44 0.18 0.35
O5' 0.41 0.47 0.35 0.04 0.48 0.01 0.99 0.00 0.80 1.68 0.38 0.92 0.40 1.64 0.85 0.29 0.20 0.32 0.00 1.04 0.01 0.01 0.00
O6 0.01 0.01 0.08 0.40 0.01 0.21 0.01 0.36 0.01 0.01 0.01 0.01 0.01 0.01 0.00 0.52 0.27 0.06 1.04 0.00 1.24 1.38 1.21
OP1 0.45 0.58 0.28 0.17 0.48 0.18 1.10 0.37 0.90 1.82 0.37 1.21 0.46 1.88 0.89 0.20 0.48 0.44 0.01 1.24 0.00 0.00 0.00
OP2 0.31 0.86 0.36 0.12 0.45 0.16 1.17 0.29 0.99 1.88 0.53 1.58 0.71 2.06 0.83 0.43 0.30 0.18 0.01 1.38 0.00 0.00 0.01
P 0.43 0.61 0.37 0.03 0.44 0.03 1.09 0.02 0.87 1.85 0.34 1.25 0.50 1.90 0.88 0.31 0.27 0.35 0.00 1.21 0.00 0.01 0.00