ClaRNA

Doublet Group distance statistics: 54727

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Distances from reference structure (by RMSD)

2, 1, 2, 3, 1, 1, 0, 1, 2, 2, 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, 0.004, 0.007, 0.012 max_d=0.012 avg_d=0.004 std_dev=0.003
C5 A 0, 0.002, 0.006, 0.009, 0.013 max_d=0.013 avg_d=0.006 std_dev=0.004
N1 A 0, 0.001, 0.010, 0.018, 0.026 max_d=0.026 avg_d=0.010 std_dev=0.009
C4 A 0, 0.002, 0.011, 0.020, 0.032 max_d=0.032 avg_d=0.011 std_dev=0.009
C6 A 0, 0.002, 0.011, 0.021, 0.032 max_d=0.032 avg_d=0.011 std_dev=0.009
C1' A 0, 0.003, 0.012, 0.022, 0.032 max_d=0.032 avg_d=0.012 std_dev=0.009
C2 A 0, 0.002, 0.012, 0.022, 0.034 max_d=0.034 avg_d=0.012 std_dev=0.010
O2 A 0, 0.003, 0.026, 0.049, 0.087 max_d=0.087 avg_d=0.026 std_dev=0.023
N4 A 0, 0.004, 0.035, 0.066, 0.104 max_d=0.104 avg_d=0.035 std_dev=0.031
P B 0, 0.118, 0.389, 0.660, 0.886 max_d=0.886 avg_d=0.389 std_dev=0.271
OP2 B 0, 0.169, 0.444, 0.720, 0.925 max_d=0.925 avg_d=0.444 std_dev=0.275
OP1 B 0, 0.115, 0.697, 1.278, 2.018 max_d=2.018 avg_d=0.697 std_dev=0.582
C2' A 0, -0.279, 0.649, 1.577, 2.366 max_d=2.366 avg_d=0.649 std_dev=0.928
O4' A 0, -0.298, 0.639, 1.577, 2.385 max_d=2.385 avg_d=0.639 std_dev=0.938
O5' B 0, -0.050, 0.975, 2.000, 2.857 max_d=2.857 avg_d=0.975 std_dev=1.025
O3' A 0, -0.377, 0.755, 1.887, 2.880 max_d=2.880 avg_d=0.755 std_dev=1.132
C3' A 0, -0.390, 0.811, 2.011, 2.978 max_d=2.978 avg_d=0.811 std_dev=1.200
O2' A 0, -0.368, 0.946, 2.260, 3.406 max_d=3.406 avg_d=0.946 std_dev=1.314
C4' A 0, -0.440, 0.892, 2.224, 3.327 max_d=3.327 avg_d=0.892 std_dev=1.332
C5' B 0, -0.155, 1.320, 2.794, 3.746 max_d=3.746 avg_d=1.320 std_dev=1.474
C5' A 0, -0.690, 1.453, 3.595, 5.508 max_d=5.508 avg_d=1.453 std_dev=2.143
O5' A 0, -0.732, 1.809, 4.350, 6.234 max_d=6.234 avg_d=1.809 std_dev=2.541
C4' B 0, -0.560, 2.174, 4.908, 6.643 max_d=6.643 avg_d=2.174 std_dev=2.734
C3' B 0, -0.744, 2.576, 5.897, 7.731 max_d=7.731 avg_d=2.576 std_dev=3.321
O4' B 0, -0.772, 2.675, 6.121, 8.261 max_d=8.261 avg_d=2.675 std_dev=3.447
P A 0, -1.016, 2.525, 6.067, 8.692 max_d=8.692 avg_d=2.525 std_dev=3.542
C8 B 0, -0.821, 2.734, 6.288, 8.797 max_d=8.797 avg_d=2.734 std_dev=3.554
O3' B 0, -0.860, 2.881, 6.622, 8.718 max_d=8.718 avg_d=2.881 std_dev=3.741
N7 B 0, -0.908, 2.946, 6.799, 9.329 max_d=9.329 avg_d=2.946 std_dev=3.853
OP1 A 0, -1.219, 2.711, 6.641, 10.004 max_d=10.004 avg_d=2.711 std_dev=3.930
OP2 A 0, -1.092, 2.916, 6.924, 9.256 max_d=9.256 avg_d=2.916 std_dev=4.008
N9 B 0, -1.022, 3.188, 7.397, 9.809 max_d=9.809 avg_d=3.188 std_dev=4.209
C1' B 0, -1.040, 3.269, 7.578, 10.098 max_d=10.098 avg_d=3.269 std_dev=4.309
C2' B 0, -1.085, 3.351, 7.787, 10.292 max_d=10.292 avg_d=3.351 std_dev=4.436
C5 B 0, -1.145, 3.477, 8.098, 10.891 max_d=10.891 avg_d=3.477 std_dev=4.622
C4 B 0, -1.246, 3.693, 8.631, 11.584 max_d=11.584 avg_d=3.693 std_dev=4.939
N6 B 0, -1.276, 3.888, 9.052, 12.303 max_d=12.303 avg_d=3.888 std_dev=5.164
C6 B 0, -1.325, 3.926, 9.177, 12.450 max_d=12.450 avg_d=3.926 std_dev=5.251
O2' B 0, -1.335, 3.976, 9.287, 12.359 max_d=12.359 avg_d=3.976 std_dev=5.311
N3 B 0, -1.530, 4.374, 10.277, 13.815 max_d=13.815 avg_d=4.374 std_dev=5.904
N1 B 0, -1.582, 4.528, 10.639, 14.451 max_d=14.451 avg_d=4.528 std_dev=6.110
C2 B 0, -1.675, 4.735, 11.144, 15.054 max_d=15.054 avg_d=4.735 std_dev=6.410

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 0.01 0.00 0.01 0.01 0.00 0.01 0.08 0.01 0.00 0.01 0.01 0.02 0.01 0.32 0.00 0.34 0.21 0.40 0.35
C2 0.01 0.00 0.29 0.26 0.01 0.14 0.00 0.26 0.00 0.00 0.00 0.01 0.00 0.15 0.13 0.33 0.31 0.08 0.43 0.25
C2' 0.00 0.29 0.00 0.00 0.05 0.01 0.21 0.20 0.28 0.02 0.22 0.05 0.52 0.00 0.02 0.01 0.31 0.30 0.39 0.28
C3' 0.01 0.26 0.00 0.00 0.32 0.00 0.29 0.02 0.24 0.20 0.31 0.34 0.25 0.02 0.00 0.01 0.22 0.26 0.26 0.16
C4 0.01 0.01 0.05 0.32 0.00 0.08 0.00 0.09 0.00 0.00 0.00 0.00 0.01 0.28 0.07 0.04 0.72 0.49 1.10 0.91
C4' 0.00 0.14 0.01 0.00 0.08 0.00 0.25 0.00 0.29 0.06 0.10 0.09 0.32 0.27 0.02 0.00 0.01 0.14 0.33 0.07
C5 0.01 0.00 0.21 0.29 0.00 0.25 0.00 0.26 0.00 0.00 0.00 0.01 0.01 0.55 0.11 0.22 1.03 0.89 1.64 1.36
C5' 0.08 0.26 0.20 0.02 0.09 0.00 0.26 0.00 0.30 0.05 0.22 0.10 0.45 0.08 0.22 0.01 0.01 0.18 0.26 0.01
C6 0.01 0.00 0.28 0.24 0.00 0.29 0.00 0.30 0.00 0.00 0.00 0.01 0.01 0.57 0.10 0.32 1.02 0.84 1.49 1.28
N1 0.00 0.00 0.02 0.20 0.00 0.06 0.00 0.05 0.00 0.00 0.00 0.01 0.01 0.18 0.13 0.01 0.56 0.34 0.73 0.63
N3 0.01 0.00 0.22 0.31 0.00 0.10 0.00 0.22 0.00 0.00 0.00 0.01 0.01 0.06 0.07 0.25 0.42 0.12 0.59 0.44
N4 0.01 0.01 0.05 0.34 0.00 0.09 0.01 0.10 0.01 0.01 0.01 0.00 0.01 0.30 0.10 0.04 0.75 0.52 1.19 0.97
O2 0.02 0.00 0.52 0.25 0.01 0.32 0.01 0.45 0.01 0.01 0.01 0.01 0.00 0.51 0.22 0.56 0.22 0.38 0.59 0.23
O2' 0.01 0.15 0.00 0.02 0.28 0.27 0.55 0.08 0.57 0.18 0.06 0.30 0.51 0.00 0.05 0.19 0.28 0.28 0.48 0.34
O3' 0.32 0.13 0.02 0.00 0.07 0.02 0.11 0.22 0.10 0.13 0.07 0.10 0.22 0.05 0.00 0.24 0.12 0.29 0.16 0.09
O4' 0.00 0.33 0.01 0.01 0.04 0.00 0.22 0.01 0.32 0.01 0.25 0.04 0.56 0.19 0.24 0.00 0.38 0.24 0.41 0.33
O5' 0.34 0.31 0.31 0.22 0.72 0.01 1.03 0.01 1.02 0.56 0.42 0.75 0.22 0.28 0.12 0.38 0.00 0.01 0.01 0.00
OP1 0.21 0.08 0.30 0.26 0.49 0.14 0.89 0.18 0.84 0.34 0.12 0.52 0.38 0.28 0.29 0.24 0.01 0.00 0.01 0.00
OP2 0.40 0.43 0.39 0.26 1.10 0.33 1.64 0.26 1.49 0.73 0.59 1.19 0.59 0.48 0.16 0.41 0.01 0.01 0.00 0.00
P 0.35 0.25 0.28 0.16 0.91 0.07 1.36 0.01 1.28 0.63 0.44 0.97 0.23 0.34 0.09 0.33 0.00 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 3.14 4.50 3.57 2.76 3.61 2.12 3.07 1.16 3.33 2.23 4.03 4.35 2.81 2.22 3.04 3.81 2.71 2.35 0.74 0.34 0.15 0.12
C2 2.52 3.93 2.68 2.00 3.16 1.62 2.94 0.92 3.28 2.07 3.77 3.65 2.94 2.22 2.61 2.80 1.80 1.92 0.55 0.26 0.17 0.16
C2' 2.49 4.11 3.03 2.27 3.03 1.52 2.54 0.66 2.93 1.58 3.71 3.84 2.50 1.64 2.40 3.31 2.33 1.67 0.23 1.00 0.48 0.61
C3' 2.95 4.27 3.58 2.87 3.32 2.06 2.79 1.09 3.10 1.95 3.83 4.10 2.64 1.95 2.78 3.91 3.03 2.14 0.69 0.36 0.25 0.13
C4 1.64 2.37 1.66 1.24 2.05 1.06 1.97 0.65 2.11 1.48 2.30 2.25 1.93 1.61 1.75 1.69 1.02 1.31 0.37 0.25 0.20 0.22
C4' 3.48 4.48 4.09 3.30 3.67 2.56 3.06 1.51 3.26 2.36 3.96 4.43 2.75 2.27 3.22 4.49 3.43 2.70 1.06 0.25 0.39 0.41
C5 1.74 2.27 1.92 1.55 2.00 1.22 1.78 0.72 1.83 1.40 2.08 2.24 1.55 1.40 1.76 1.92 1.41 1.37 0.43 0.24 0.19 0.17
C5' 3.29 3.99 3.91 3.26 3.33 2.52 2.77 1.50 2.92 2.21 3.52 3.99 2.46 2.09 2.99 4.33 3.50 2.59 1.09 0.42 0.46 0.53
C6 2.34 3.05 2.68 2.18 2.63 1.65 2.26 0.93 2.34 1.74 2.75 3.02 1.95 1.70 2.30 2.72 2.07 1.78 0.58 0.28 0.16 0.12
N1 2.70 3.88 3.01 2.34 3.20 1.81 2.82 1.01 3.03 2.06 3.56 3.74 2.59 2.09 2.70 3.13 2.21 2.04 0.62 0.29 0.15 0.13
N3 2.03 3.17 2.07 1.51 2.62 1.28 2.54 0.76 2.84 1.82 3.14 2.93 2.65 2.01 2.17 2.14 1.27 1.59 0.44 0.24 0.19 0.20
N4 1.06 1.54 0.95 0.63 1.38 0.66 1.40 0.47 1.50 1.09 1.56 1.45 1.45 1.24 1.18 0.98 0.41 0.92 0.29 0.29 0.22 0.27
O2 2.73 4.46 2.88 2.12 3.45 1.73 3.21 0.98 3.68 2.23 4.32 4.05 3.35 2.40 2.82 3.07 1.92 2.08 0.58 0.27 0.16 0.15
O2' 2.29 4.09 2.86 2.05 2.82 1.29 2.26 0.45 2.70 1.25 3.61 3.76 2.21 1.29 2.14 3.24 2.18 1.42 0.29 1.43 0.81 1.00
O3' 2.91 4.22 3.58 2.87 3.19 2.06 2.60 1.07 2.91 1.78 3.72 4.04 2.41 1.73 2.66 4.02 3.13 2.10 0.64 0.37 0.22 0.15
O4' 3.70 4.61 4.21 3.36 3.90 2.71 3.28 1.69 3.42 2.63 4.07 4.61 2.86 2.51 3.47 4.51 3.33 2.93 1.23 0.36 0.46 0.54
O5' 4.20 4.60 4.81 4.25 4.11 3.54 3.54 2.53 3.61 3.09 4.14 4.68 3.15 2.92 3.85 5.17 4.48 3.57 2.10 1.27 1.39 1.50
OP1 3.75 3.83 4.19 3.87 3.51 3.38 3.05 2.55 3.07 2.80 3.46 3.92 2.71 2.62 3.38 4.58 4.31 3.33 2.18 1.83 1.46 1.78
OP2 4.40 4.33 4.74 4.57 4.18 4.13 3.78 3.47 3.72 3.64 4.00 4.45 3.37 3.44 4.12 4.87 4.70 4.07 3.16 2.77 2.55 2.81
P 4.51 4.51 4.98 4.70 4.24 4.13 3.75 3.26 3.73 3.52 4.11 4.64 3.32 3.31 4.14 5.26 5.06 4.08 2.85 2.25 2.06 2.34

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.02 0.01 0.01 0.00 0.05 0.01 0.01 0.01 0.02 0.01 0.01 0.00 0.01 0.03 0.01 0.21 0.32 0.64 0.24
C2 0.02 0.00 0.13 0.17 0.00 0.11 0.00 0.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.19 0.20 0.02 0.22 0.24 0.72 0.20
C2' 0.00 0.13 0.00 0.01 0.06 0.01 0.02 0.02 0.05 0.08 0.09 0.14 0.03 0.06 0.02 0.00 0.02 0.01 0.18 0.27 0.70 0.20
C3' 0.02 0.17 0.01 0.00 0.11 0.00 0.14 0.02 0.13 0.22 0.14 0.17 0.16 0.21 0.11 0.01 0.01 0.01 0.21 0.36 0.58 0.23
C4 0.01 0.00 0.06 0.11 0.00 0.08 0.00 0.19 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.12 0.09 0.01 0.27 0.31 0.63 0.22
C4' 0.01 0.11 0.01 0.00 0.08 0.00 0.10 0.00 0.10 0.13 0.10 0.10 0.11 0.12 0.06 0.08 0.01 0.00 0.01 0.19 0.45 0.11
C5 0.00 0.00 0.02 0.14 0.00 0.10 0.00 0.23 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.11 0.12 0.01 0.36 0.41 0.51 0.27
C5' 0.05 0.22 0.02 0.02 0.19 0.00 0.23 0.00 0.25 0.25 0.23 0.19 0.27 0.27 0.16 0.07 0.08 0.02 0.01 0.25 0.23 0.01
C6 0.01 0.00 0.05 0.13 0.00 0.10 0.00 0.25 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.15 0.12 0.01 0.34 0.35 0.51 0.23
C8 0.01 0.00 0.08 0.22 0.00 0.13 0.00 0.25 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.04 0.20 0.02 0.46 0.59 0.48 0.41
N1 0.01 0.00 0.09 0.14 0.00 0.10 0.00 0.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.17 0.15 0.02 0.27 0.26 0.61 0.18
N3 0.02 0.00 0.14 0.17 0.00 0.10 0.00 0.19 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.17 0.20 0.02 0.20 0.24 0.74 0.22
N6 0.01 0.00 0.03 0.16 0.00 0.11 0.01 0.27 0.00 0.01 0.00 0.00 0.00 0.01 0.01 0.14 0.14 0.01 0.38 0.41 0.42 0.28
N7 0.01 0.00 0.06 0.21 0.00 0.12 0.00 0.27 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.07 0.20 0.01 0.46 0.58 0.44 0.41
N9 0.00 0.00 0.02 0.11 0.00 0.06 0.00 0.16 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.06 0.07 0.01 0.31 0.39 0.59 0.26
O2' 0.01 0.19 0.00 0.01 0.12 0.08 0.11 0.07 0.15 0.04 0.17 0.17 0.14 0.07 0.06 0.00 0.05 0.08 0.13 0.28 0.66 0.18
O3' 0.03 0.20 0.02 0.01 0.09 0.01 0.12 0.08 0.12 0.20 0.15 0.20 0.14 0.20 0.07 0.05 0.00 0.02 0.25 0.61 0.55 0.37
O4' 0.01 0.02 0.01 0.01 0.01 0.00 0.01 0.02 0.01 0.02 0.02 0.02 0.01 0.01 0.01 0.08 0.02 0.00 0.21 0.41 0.58 0.30
O5' 0.21 0.22 0.18 0.21 0.27 0.01 0.36 0.01 0.34 0.46 0.27 0.20 0.38 0.46 0.31 0.13 0.25 0.21 0.00 0.01 0.01 0.00
OP1 0.32 0.24 0.27 0.36 0.31 0.19 0.41 0.25 0.35 0.59 0.26 0.24 0.41 0.58 0.39 0.28 0.61 0.41 0.01 0.00 0.01 0.01
OP2 0.64 0.72 0.70 0.58 0.63 0.45 0.51 0.23 0.51 0.48 0.61 0.74 0.42 0.44 0.59 0.66 0.55 0.58 0.01 0.01 0.00 0.00
P 0.24 0.20 0.20 0.23 0.22 0.11 0.27 0.01 0.23 0.41 0.18 0.22 0.28 0.41 0.26 0.18 0.37 0.30 0.00 0.01 0.00 0.00