ClaRNA

Doublet Group distance statistics: 52298

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Distances from reference structure (by RMSD)

1, 3, 0, 2, 2, 0, 0, 0, 0, 2, 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, 0.004, 0.008, 0.011, 0.013 max_d=0.013 avg_d=0.008 std_dev=0.004
N3 A 0, 0.007, 0.012, 0.017, 0.019 max_d=0.019 avg_d=0.012 std_dev=0.005
N1 A 0, 0.004, 0.009, 0.014, 0.019 max_d=0.019 avg_d=0.009 std_dev=0.005
C6 A 0, 0.005, 0.011, 0.018, 0.019 max_d=0.019 avg_d=0.011 std_dev=0.006
C1' A 0, 0.008, 0.015, 0.022, 0.024 max_d=0.024 avg_d=0.015 std_dev=0.007
C2 A 0, 0.008, 0.015, 0.022, 0.023 max_d=0.023 avg_d=0.015 std_dev=0.007
C4 A 0, 0.006, 0.013, 0.021, 0.026 max_d=0.026 avg_d=0.013 std_dev=0.008
N4 A 0, 0.013, 0.034, 0.055, 0.064 max_d=0.064 avg_d=0.034 std_dev=0.021
O2 A 0, 0.017, 0.042, 0.066, 0.074 max_d=0.074 avg_d=0.042 std_dev=0.025
P B 0, 0.068, 0.352, 0.636, 1.016 max_d=1.016 avg_d=0.352 std_dev=0.284
OP1 B 0, 0.046, 0.389, 0.731, 1.280 max_d=1.280 avg_d=0.389 std_dev=0.342
O4' A 0, -0.158, 0.228, 0.615, 1.263 max_d=1.263 avg_d=0.228 std_dev=0.386
OP2 B 0, 0.022, 0.408, 0.794, 1.208 max_d=1.208 avg_d=0.408 std_dev=0.386
C2' A 0, -0.146, 0.274, 0.695, 1.414 max_d=1.414 avg_d=0.274 std_dev=0.421
C4' A 0, -0.181, 0.325, 0.831, 1.416 max_d=1.416 avg_d=0.325 std_dev=0.506
C3' A 0, -0.155, 0.353, 0.861, 1.563 max_d=1.563 avg_d=0.353 std_dev=0.508
O5' B 0, -0.082, 0.553, 1.188, 2.345 max_d=2.345 avg_d=0.553 std_dev=0.635
C5' B 0, -0.011, 0.689, 1.390, 2.129 max_d=2.129 avg_d=0.689 std_dev=0.700
O2' A 0, -0.234, 0.506, 1.247, 2.416 max_d=2.416 avg_d=0.506 std_dev=0.741
C5' A 0, -0.322, 0.476, 1.274, 2.553 max_d=2.553 avg_d=0.476 std_dev=0.798
O3' A 0, -0.366, 0.453, 1.272, 2.862 max_d=2.862 avg_d=0.453 std_dev=0.819
C4' B 0, -0.221, 1.003, 2.227, 3.796 max_d=3.796 avg_d=1.003 std_dev=1.224
O5' A 0, -0.592, 0.685, 1.963, 4.337 max_d=4.337 avg_d=0.685 std_dev=1.278
O4' B 0, -0.451, 1.181, 2.813, 5.371 max_d=5.371 avg_d=1.181 std_dev=1.632
C3' B 0, -0.538, 1.309, 3.156, 6.089 max_d=6.089 avg_d=1.309 std_dev=1.847
P A 0, -0.888, 0.995, 2.878, 6.384 max_d=6.384 avg_d=0.995 std_dev=1.883
OP2 A 0, -0.706, 1.357, 3.421, 6.844 max_d=6.844 avg_d=1.357 std_dev=2.064
OP1 A 0, -0.461, 1.771, 4.004, 6.817 max_d=6.817 avg_d=1.771 std_dev=2.233
O3' B 0, -0.744, 1.507, 3.759, 7.475 max_d=7.475 avg_d=1.507 std_dev=2.252
C1' B 0, -0.774, 1.508, 3.790, 7.686 max_d=7.686 avg_d=1.508 std_dev=2.282
C2' B 0, -0.796, 1.622, 4.040, 8.071 max_d=8.071 avg_d=1.622 std_dev=2.418
C8 B 0, -1.199, 1.412, 4.024, 9.139 max_d=9.139 avg_d=1.412 std_dev=2.611
N9 B 0, -1.155, 1.601, 4.356, 9.529 max_d=9.529 avg_d=1.601 std_dev=2.756
O2' B 0, -0.985, 1.907, 4.798, 9.571 max_d=9.571 avg_d=1.907 std_dev=2.892
N7 B 0, -1.638, 1.623, 4.884, 11.360 max_d=11.360 avg_d=1.623 std_dev=3.261
C4 B 0, -1.548, 2.007, 5.561, 12.171 max_d=12.171 avg_d=2.007 std_dev=3.555
C5 B 0, -1.831, 1.987, 5.804, 13.247 max_d=13.247 avg_d=1.987 std_dev=3.818
N3 B 0, -1.658, 2.396, 6.450, 13.463 max_d=13.463 avg_d=2.396 std_dev=4.054
C6 B 0, -2.226, 2.412, 7.049, 16.029 max_d=16.029 avg_d=2.412 std_dev=4.638
C2 B 0, -2.039, 2.773, 7.584, 16.015 max_d=16.015 avg_d=2.773 std_dev=4.812
O6 B 0, -2.506, 2.515, 7.536, 17.411 max_d=17.411 avg_d=2.515 std_dev=5.021
N1 B 0, -2.288, 2.785, 7.858, 17.242 max_d=17.242 avg_d=2.785 std_dev=5.073
N2 B 0, -2.221, 3.206, 8.634, 17.606 max_d=17.606 avg_d=3.206 std_dev=5.428

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 0.01 0.01 0.06 0.01 0.00 0.01 0.01 0.03 0.01 0.22 0.00 0.36 0.75 0.71 0.39
C2 0.01 0.00 0.15 0.18 0.00 0.09 0.00 0.17 0.00 0.01 0.00 0.01 0.01 0.22 0.09 0.13 0.41 1.06 0.94 0.50
C2' 0.00 0.15 0.00 0.01 0.04 0.02 0.13 0.15 0.17 0.03 0.12 0.05 0.27 0.00 0.02 0.01 0.50 0.65 0.54 0.52
C3' 0.01 0.18 0.01 0.00 0.25 0.01 0.26 0.02 0.22 0.16 0.23 0.27 0.14 0.02 0.01 0.02 0.22 0.27 0.17 0.16
C4 0.01 0.00 0.04 0.25 0.00 0.09 0.00 0.14 0.01 0.01 0.00 0.00 0.01 0.23 0.08 0.02 0.56 1.42 1.25 0.80
C4' 0.01 0.09 0.02 0.01 0.09 0.00 0.11 0.00 0.11 0.06 0.09 0.09 0.13 0.20 0.03 0.00 0.01 0.33 0.21 0.09
C5 0.01 0.00 0.13 0.26 0.00 0.11 0.00 0.11 0.00 0.00 0.00 0.01 0.01 0.32 0.14 0.10 0.65 1.56 1.37 0.95
C5' 0.06 0.17 0.15 0.02 0.14 0.00 0.11 0.00 0.09 0.09 0.17 0.15 0.20 0.12 0.16 0.01 0.01 0.13 0.25 0.01
C6 0.01 0.00 0.17 0.22 0.01 0.11 0.00 0.09 0.00 0.00 0.00 0.01 0.01 0.33 0.10 0.14 0.64 1.40 1.26 0.88
N1 0.00 0.01 0.03 0.16 0.01 0.06 0.00 0.09 0.00 0.00 0.00 0.01 0.02 0.14 0.06 0.00 0.48 1.07 0.99 0.59
N3 0.01 0.00 0.12 0.23 0.00 0.09 0.00 0.17 0.00 0.00 0.00 0.01 0.01 0.21 0.03 0.10 0.47 1.23 1.08 0.62
N4 0.01 0.01 0.05 0.27 0.00 0.09 0.01 0.15 0.01 0.01 0.01 0.00 0.01 0.25 0.11 0.02 0.58 1.50 1.30 0.84
O2 0.03 0.01 0.27 0.14 0.01 0.13 0.01 0.20 0.01 0.02 0.01 0.01 0.00 0.38 0.20 0.22 0.29 0.94 0.78 0.36
O2' 0.01 0.22 0.00 0.02 0.23 0.20 0.32 0.12 0.33 0.14 0.21 0.25 0.38 0.00 0.04 0.14 0.31 0.45 0.49 0.35
O3' 0.22 0.09 0.02 0.01 0.08 0.03 0.14 0.16 0.10 0.06 0.03 0.11 0.20 0.04 0.00 0.15 0.04 0.34 0.24 0.14
O4' 0.00 0.13 0.01 0.02 0.02 0.00 0.10 0.01 0.14 0.00 0.10 0.02 0.22 0.14 0.15 0.00 0.22 0.61 0.62 0.19
O5' 0.36 0.41 0.50 0.22 0.56 0.01 0.65 0.01 0.64 0.48 0.47 0.58 0.29 0.31 0.04 0.22 0.00 0.01 0.01 0.01
OP1 0.75 1.06 0.65 0.27 1.42 0.33 1.56 0.13 1.40 1.07 1.23 1.50 0.94 0.45 0.34 0.61 0.01 0.00 0.01 0.01
OP2 0.71 0.94 0.54 0.17 1.25 0.21 1.37 0.25 1.26 0.99 1.08 1.30 0.78 0.49 0.24 0.62 0.01 0.01 0.00 0.01
P 0.39 0.50 0.52 0.16 0.80 0.09 0.95 0.01 0.88 0.59 0.62 0.84 0.36 0.35 0.14 0.19 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' 1.00 2.48 1.14 1.20 1.54 0.81 1.33 0.52 1.67 0.68 2.24 3.08 2.13 0.87 1.05 1.20 1.53 0.76 0.41 1.55 0.08 0.41 0.15
C2 0.90 2.54 0.89 0.94 1.61 0.64 1.57 0.41 1.98 0.91 2.46 3.04 2.11 1.20 1.09 0.87 1.16 0.69 0.34 1.97 0.14 0.32 0.09
C2' 1.18 2.47 1.37 1.44 1.56 1.09 1.23 0.79 1.52 0.57 2.13 3.07 2.20 0.66 1.10 1.48 1.80 0.97 0.55 1.30 0.22 0.37 0.18
C3' 1.06 2.30 1.27 1.23 1.37 0.92 0.97 0.65 1.25 0.36 1.91 2.94 2.04 0.34 0.93 1.42 1.58 0.84 0.31 0.96 0.30 0.29 0.22
C4 0.77 2.30 0.68 0.74 1.52 0.52 1.54 0.35 1.91 0.94 2.29 2.62 1.91 1.23 1.03 0.63 0.89 0.63 0.31 1.91 0.17 0.29 0.07
C4' 1.05 2.40 1.26 1.26 1.45 0.81 1.09 0.45 1.39 0.41 2.04 3.06 2.11 0.48 0.98 1.40 1.65 0.76 0.29 1.15 0.25 0.41 0.19
C5 0.82 2.21 0.83 0.93 1.44 0.64 1.32 0.44 1.63 0.73 2.06 2.56 1.90 0.94 0.96 0.82 1.13 0.65 0.37 1.54 0.11 0.41 0.14
C5' 1.23 2.47 1.46 1.38 1.57 0.92 1.18 0.51 1.43 0.56 2.07 3.10 2.24 0.57 1.13 1.64 1.77 0.92 0.33 1.15 0.31 0.37 0.18
C6 0.91 2.31 1.00 1.10 1.46 0.75 1.27 0.50 1.58 0.65 2.08 2.78 2.01 0.83 0.98 1.02 1.37 0.70 0.40 1.45 0.08 0.43 0.16
N1 0.94 2.47 1.02 1.08 1.55 0.74 1.39 0.48 1.75 0.75 2.28 3.01 2.10 0.97 1.04 1.04 1.36 0.72 0.38 1.66 0.09 0.39 0.13
N3 0.83 2.47 0.74 0.78 1.61 0.54 1.65 0.35 2.07 1.01 2.48 2.86 2.02 1.34 1.10 0.69 0.94 0.66 0.31 2.11 0.18 0.26 0.06
N4 0.67 2.09 0.46 0.49 1.46 0.37 1.59 0.24 1.96 1.05 2.20 2.29 1.72 1.38 1.01 0.40 0.58 0.58 0.23 2.02 0.22 0.16 0.05
O2 0.92 2.60 0.91 0.95 1.66 0.64 1.64 0.41 2.07 0.95 2.54 3.14 2.15 1.26 1.13 0.90 1.17 0.71 0.33 2.09 0.15 0.29 0.08
O2' 1.27 2.50 1.45 1.58 1.64 1.26 1.35 1.01 1.63 0.74 2.20 3.06 2.24 0.86 1.21 1.55 1.95 1.11 0.78 1.45 0.56 0.54 0.47
O3' 0.93 2.16 1.13 1.14 1.22 0.84 0.83 0.63 1.11 0.26 1.79 2.81 1.89 0.23 0.80 1.28 1.49 0.74 0.29 0.83 0.35 0.27 0.22
O4' 0.99 2.49 1.16 1.19 1.52 0.72 1.28 0.36 1.62 0.63 2.22 3.14 2.14 0.78 1.03 1.24 1.56 0.69 0.38 1.47 0.26 0.50 0.27
O5' 1.01 2.18 1.33 1.35 1.30 0.77 0.91 0.45 1.15 0.41 1.78 2.81 1.96 0.41 0.89 1.58 1.83 0.65 0.73 0.88 1.01 1.15 0.94
OP1 1.45 2.15 1.74 2.04 1.50 1.58 1.29 1.61 1.39 1.29 1.85 2.72 1.94 1.19 1.37 1.88 2.50 1.32 1.90 1.21 2.11 2.15 2.04
OP2 0.92 1.73 1.06 1.18 1.12 0.92 1.05 1.14 1.15 1.08 1.47 2.25 1.53 1.12 0.96 1.25 1.58 0.88 1.41 1.11 1.90 1.83 1.74
P 0.87 1.96 1.22 1.37 1.10 0.84 0.75 0.87 0.98 0.47 1.59 2.58 1.72 0.39 0.75 1.48 1.88 0.58 1.18 0.73 1.64 1.56 1.47

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.03 0.00 0.01 0.01 0.00 0.01 0.09 0.01 0.01 0.02 0.04 0.03 0.01 0.00 0.02 0.23 0.00 0.12 0.01 0.19 0.22 0.11
C2 0.03 0.00 0.31 0.50 0.00 0.33 0.00 0.57 0.01 0.01 0.00 0.00 0.00 0.00 0.01 0.14 0.43 0.15 0.78 0.02 1.03 1.22 0.93
C2' 0.00 0.31 0.00 0.00 0.17 0.01 0.10 0.18 0.15 0.15 0.24 0.37 0.31 0.10 0.04 0.00 0.02 0.01 0.24 0.13 0.26 0.19 0.32
C3' 0.01 0.50 0.00 0.00 0.31 0.00 0.28 0.01 0.34 0.26 0.43 0.58 0.47 0.27 0.16 0.02 0.01 0.01 0.08 0.34 0.12 0.08 0.06
C4 0.01 0.00 0.17 0.31 0.00 0.20 0.00 0.35 0.01 0.00 0.01 0.00 0.00 0.00 0.00 0.08 0.18 0.09 0.56 0.01 0.61 0.88 0.59
C4' 0.00 0.33 0.01 0.00 0.20 0.00 0.15 0.00 0.21 0.11 0.29 0.38 0.30 0.07 0.07 0.19 0.02 0.00 0.01 0.20 0.05 0.02 0.01
C5 0.01 0.00 0.10 0.28 0.00 0.15 0.00 0.30 0.01 0.01 0.00 0.01 0.00 0.00 0.01 0.15 0.10 0.07 0.57 0.01 0.56 1.02 0.60
C5' 0.09 0.57 0.18 0.01 0.35 0.00 0.30 0.00 0.41 0.10 0.53 0.65 0.49 0.10 0.14 0.03 0.16 0.01 0.01 0.39 0.08 0.03 0.02
C6 0.01 0.01 0.15 0.34 0.01 0.21 0.01 0.41 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.14 0.17 0.10 0.68 0.01 0.78 1.25 0.80
C8 0.01 0.01 0.15 0.26 0.00 0.11 0.01 0.10 0.01 0.00 0.01 0.01 0.01 0.00 0.00 0.22 0.21 0.06 0.31 0.02 0.21 0.63 0.18
N1 0.02 0.00 0.24 0.43 0.01 0.29 0.00 0.53 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.11 0.31 0.14 0.78 0.01 1.00 1.33 0.94
N2 0.04 0.00 0.37 0.58 0.00 0.38 0.01 0.65 0.01 0.01 0.01 0.00 0.00 0.01 0.01 0.21 0.57 0.17 0.83 0.02 1.19 1.29 1.03
N3 0.03 0.00 0.31 0.47 0.00 0.30 0.00 0.49 0.00 0.01 0.00 0.00 0.00 0.00 0.01 0.14 0.41 0.14 0.67 0.01 0.85 0.99 0.77
N7 0.01 0.00 0.10 0.27 0.00 0.07 0.00 0.10 0.01 0.00 0.01 0.01 0.00 0.00 0.01 0.23 0.19 0.02 0.41 0.02 0.26 0.86 0.34
N9 0.00 0.01 0.04 0.16 0.00 0.07 0.01 0.14 0.01 0.00 0.01 0.01 0.01 0.01 0.00 0.11 0.07 0.02 0.32 0.02 0.29 0.54 0.26
O2' 0.02 0.14 0.00 0.02 0.08 0.19 0.15 0.03 0.14 0.22 0.11 0.21 0.14 0.23 0.11 0.00 0.05 0.15 0.21 0.17 0.16 0.28 0.31
O3' 0.23 0.43 0.02 0.01 0.18 0.02 0.10 0.16 0.17 0.21 0.31 0.57 0.41 0.19 0.07 0.05 0.00 0.19 0.15 0.17 0.43 0.20 0.20
O4' 0.00 0.15 0.01 0.01 0.09 0.00 0.07 0.01 0.10 0.06 0.14 0.17 0.14 0.02 0.02 0.15 0.19 0.00 0.19 0.10 0.09 0.27 0.13
O5' 0.12 0.78 0.24 0.08 0.56 0.01 0.57 0.01 0.68 0.31 0.78 0.83 0.67 0.41 0.32 0.21 0.15 0.19 0.00 0.67 0.02 0.02 0.01
O6 0.01 0.02 0.13 0.34 0.01 0.20 0.01 0.39 0.01 0.02 0.01 0.02 0.01 0.02 0.02 0.17 0.17 0.10 0.67 0.00 0.75 1.31 0.79
OP1 0.19 1.03 0.26 0.12 0.61 0.05 0.56 0.08 0.78 0.21 1.00 1.19 0.85 0.26 0.29 0.16 0.43 0.09 0.02 0.75 0.00 0.01 0.00
OP2 0.22 1.22 0.19 0.08 0.88 0.02 1.02 0.03 1.25 0.63 1.33 1.29 0.99 0.86 0.54 0.28 0.20 0.27 0.02 1.31 0.01 0.00 0.00
P 0.11 0.93 0.32 0.06 0.59 0.01 0.60 0.02 0.80 0.18 0.94 1.03 0.77 0.34 0.26 0.31 0.20 0.13 0.01 0.79 0.00 0.00 0.00