ClaRNA

Doublet Group distance statistics: 48108

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C2 A 0, 0.007, 0.018, 0.030, 0.032 max_d=0.032 avg_d=0.018 std_dev=0.012
C6 A 0, 0.001, 0.016, 0.032, 0.044 max_d=0.044 avg_d=0.016 std_dev=0.015
N3 A 0, 0.009, 0.028, 0.047, 0.052 max_d=0.052 avg_d=0.028 std_dev=0.019
N1 A 0, 0.006, 0.026, 0.045, 0.056 max_d=0.056 avg_d=0.026 std_dev=0.020
C5 A 0, -0.004, 0.019, 0.043, 0.065 max_d=0.065 avg_d=0.019 std_dev=0.024
C1' A 0, 0.005, 0.032, 0.059, 0.080 max_d=0.080 avg_d=0.032 std_dev=0.027
C4 A 0, 0.004, 0.034, 0.065, 0.088 max_d=0.088 avg_d=0.034 std_dev=0.030
N9 A 0, 0.002, 0.039, 0.075, 0.105 max_d=0.105 avg_d=0.039 std_dev=0.037
N6 A 0, -0.005, 0.044, 0.092, 0.137 max_d=0.137 avg_d=0.044 std_dev=0.049
N7 A 0, -0.015, 0.036, 0.088, 0.139 max_d=0.139 avg_d=0.036 std_dev=0.052
C8 A 0, -0.011, 0.053, 0.118, 0.178 max_d=0.178 avg_d=0.053 std_dev=0.064
P B 0, 0.045, 0.453, 0.861, 1.163 max_d=1.163 avg_d=0.453 std_dev=0.408
OP1 B 0, 0.294, 0.877, 1.460, 1.827 max_d=1.827 avg_d=0.877 std_dev=0.583
C2' A 0, -0.001, 0.620, 1.241, 1.518 max_d=1.518 avg_d=0.620 std_dev=0.621
OP2 B 0, 0.283, 0.904, 1.526, 1.606 max_d=1.606 avg_d=0.904 std_dev=0.621
O4' A 0, -0.101, 0.611, 1.323, 1.847 max_d=1.847 avg_d=0.611 std_dev=0.712
O5' B 0, 0.254, 1.164, 2.075, 2.239 max_d=2.239 avg_d=1.164 std_dev=0.910
O2' A 0, -0.017, 0.914, 1.845, 2.100 max_d=2.100 avg_d=0.914 std_dev=0.931
C3' A 0, 0.017, 1.004, 1.991, 2.416 max_d=2.416 avg_d=1.004 std_dev=0.987
C4' A 0, -0.171, 0.884, 1.939, 2.840 max_d=2.840 avg_d=0.884 std_dev=1.055
O3' A 0, 0.117, 1.300, 2.483, 3.054 max_d=3.054 avg_d=1.300 std_dev=1.183
C5' B 0, -0.063, 1.700, 3.464, 4.678 max_d=4.678 avg_d=1.700 std_dev=1.764
C5' A 0, -0.311, 1.592, 3.495, 5.004 max_d=5.004 avg_d=1.592 std_dev=1.903
C4' B 0, 0.001, 2.342, 4.683, 5.341 max_d=5.341 avg_d=2.342 std_dev=2.341
O5' A 0, -0.661, 1.747, 4.156, 6.496 max_d=6.496 avg_d=1.747 std_dev=2.408
C3' B 0, 0.065, 2.638, 5.211, 5.951 max_d=5.951 avg_d=2.638 std_dev=2.573
O3' B 0, 0.243, 2.864, 5.485, 6.527 max_d=6.527 avg_d=2.864 std_dev=2.621
O4' B 0, -0.044, 2.764, 5.572, 6.343 max_d=6.343 avg_d=2.764 std_dev=2.808
C6 B 0, 0.049, 3.132, 6.216, 7.016 max_d=7.016 avg_d=3.132 std_dev=3.084
OP1 A 0, -0.389, 2.811, 6.011, 8.994 max_d=8.994 avg_d=2.811 std_dev=3.200
P A 0, -0.965, 2.258, 5.481, 8.599 max_d=8.599 avg_d=2.258 std_dev=3.223
OP2 A 0, -0.652, 2.597, 5.847, 8.937 max_d=8.937 avg_d=2.597 std_dev=3.249
C2' B 0, 0.062, 3.332, 6.602, 7.627 max_d=7.627 avg_d=3.332 std_dev=3.270
C1' B 0, -0.034, 3.332, 6.699, 7.899 max_d=7.899 avg_d=3.332 std_dev=3.366
C5 B 0, -0.032, 3.403, 6.837, 7.924 max_d=7.924 avg_d=3.403 std_dev=3.435
N1 B 0, -0.092, 3.479, 7.049, 8.196 max_d=8.196 avg_d=3.479 std_dev=3.571
O2' B 0, 0.049, 3.882, 7.715, 9.638 max_d=9.638 avg_d=3.882 std_dev=3.833
C4 B 0, -0.237, 3.962, 8.160, 9.654 max_d=9.654 avg_d=3.962 std_dev=4.198
C2 B 0, -0.313, 4.098, 8.509, 10.170 max_d=10.170 avg_d=4.098 std_dev=4.411
N4 B 0, -0.300, 4.279, 8.858, 10.655 max_d=10.655 avg_d=4.279 std_dev=4.579
N3 B 0, -0.365, 4.285, 8.935, 10.675 max_d=10.675 avg_d=4.285 std_dev=4.650
O2 B 0, -0.457, 4.532, 9.520, 11.642 max_d=11.642 avg_d=4.532 std_dev=4.988

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 0.05 0.01 0.05 0.04 0.02 0.04 0.07 0.04 0.02 0.05 0.05 0.04 0.03 0.02 0.03 0.27 0.01 0.30 0.32 0.93 0.41
C2 0.05 0.00 0.41 0.22 0.01 0.28 0.01 0.27 0.01 0.00 0.00 0.01 0.01 0.01 0.01 0.45 0.24 0.38 0.61 0.55 1.08 0.55
C2' 0.01 0.41 0.00 0.02 0.21 0.04 0.07 0.05 0.16 0.24 0.30 0.42 0.09 0.15 0.02 0.01 0.16 0.01 0.06 0.26 0.87 0.27
C3' 0.05 0.22 0.02 0.00 0.12 0.01 0.18 0.01 0.17 0.31 0.17 0.21 0.20 0.29 0.14 0.01 0.01 0.08 0.30 0.34 0.81 0.36
C4 0.04 0.01 0.21 0.12 0.00 0.08 0.01 0.07 0.01 0.00 0.01 0.00 0.01 0.00 0.01 0.22 0.15 0.19 0.41 0.44 1.07 0.54
C4' 0.02 0.28 0.04 0.01 0.08 0.00 0.09 0.00 0.06 0.32 0.17 0.27 0.09 0.26 0.10 0.13 0.13 0.01 0.03 0.22 0.62 0.13
C5 0.04 0.01 0.07 0.18 0.01 0.09 0.00 0.27 0.01 0.00 0.01 0.01 0.01 0.00 0.02 0.18 0.16 0.07 0.33 0.50 1.04 0.62
C5' 0.07 0.27 0.05 0.01 0.07 0.00 0.27 0.00 0.18 0.60 0.13 0.26 0.30 0.56 0.24 0.11 0.03 0.04 0.00 0.33 0.37 0.02
C6 0.04 0.01 0.16 0.17 0.01 0.06 0.01 0.18 0.00 0.01 0.00 0.01 0.00 0.01 0.02 0.24 0.13 0.15 0.39 0.54 1.04 0.60
C8 0.02 0.00 0.24 0.31 0.00 0.32 0.00 0.60 0.01 0.00 0.01 0.00 0.01 0.00 0.01 0.28 0.30 0.22 0.33 0.49 0.98 0.70
N1 0.05 0.00 0.30 0.17 0.01 0.17 0.01 0.13 0.00 0.01 0.00 0.01 0.01 0.01 0.02 0.35 0.16 0.29 0.52 0.53 1.06 0.56
N3 0.05 0.01 0.42 0.21 0.00 0.27 0.01 0.26 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.45 0.25 0.38 0.57 0.52 1.08 0.53
N6 0.04 0.01 0.09 0.20 0.01 0.09 0.01 0.30 0.00 0.01 0.01 0.01 0.00 0.01 0.02 0.23 0.15 0.09 0.34 0.61 0.98 0.65
N7 0.03 0.01 0.15 0.29 0.00 0.26 0.00 0.56 0.01 0.00 0.01 0.00 0.01 0.00 0.02 0.25 0.28 0.13 0.30 0.59 0.98 0.73
N9 0.02 0.01 0.02 0.14 0.01 0.10 0.02 0.24 0.02 0.01 0.02 0.00 0.02 0.02 0.00 0.10 0.19 0.01 0.31 0.36 1.02 0.54
O2' 0.03 0.45 0.01 0.01 0.22 0.13 0.18 0.11 0.24 0.28 0.35 0.45 0.23 0.25 0.10 0.00 0.25 0.13 0.22 0.31 0.86 0.32
O3' 0.27 0.24 0.16 0.01 0.15 0.13 0.16 0.03 0.13 0.30 0.16 0.25 0.15 0.28 0.19 0.25 0.00 0.21 0.66 0.67 1.07 0.74
O4' 0.01 0.38 0.01 0.08 0.19 0.01 0.07 0.04 0.15 0.22 0.29 0.38 0.09 0.13 0.01 0.13 0.21 0.00 0.48 0.46 0.87 0.50
O5' 0.30 0.61 0.06 0.30 0.41 0.03 0.33 0.00 0.39 0.33 0.52 0.57 0.34 0.30 0.31 0.22 0.66 0.48 0.00 0.02 0.03 0.01
OP1 0.32 0.55 0.26 0.34 0.44 0.22 0.50 0.33 0.54 0.49 0.53 0.52 0.61 0.59 0.36 0.31 0.67 0.46 0.02 0.00 0.05 0.00
OP2 0.93 1.08 0.87 0.81 1.07 0.62 1.04 0.37 1.04 0.98 1.06 1.08 0.98 0.98 1.02 0.86 1.07 0.87 0.03 0.05 0.00 0.01
P 0.41 0.55 0.27 0.36 0.54 0.13 0.62 0.02 0.60 0.70 0.56 0.53 0.65 0.73 0.54 0.32 0.74 0.50 0.01 0.00 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 1.05 0.98 1.30 1.06 0.39 0.86 0.14 0.27 0.30 0.76 0.76 0.26 1.35 1.73 1.42 0.77 0.67 0.49 0.29 0.26
C2 1.54 1.61 1.65 1.38 1.13 1.24 0.87 0.76 0.98 1.37 1.46 1.05 1.94 2.01 1.55 1.26 0.65 0.63 0.20 0.24
C2' 1.65 1.61 1.79 1.46 1.03 1.38 0.83 1.04 0.97 1.38 1.40 0.90 1.99 2.26 1.71 1.41 1.32 0.61 0.78 0.88
C3' 2.08 2.00 2.33 1.98 1.29 1.81 1.00 1.30 1.22 1.76 1.75 1.12 2.44 2.84 2.31 1.76 1.44 0.41 0.50 0.74
C4 1.37 1.35 1.53 1.31 0.86 1.17 0.63 0.67 0.76 1.15 1.18 0.76 1.67 1.88 1.53 1.12 0.67 0.62 0.21 0.25
C4' 1.57 1.45 1.92 1.68 0.83 1.40 0.58 0.77 0.75 1.24 1.21 0.71 1.83 2.37 2.14 1.24 1.04 0.60 0.52 0.55
C5 1.51 1.44 1.66 1.53 0.98 1.42 0.79 1.02 0.94 1.29 1.27 0.88 1.71 1.95 1.75 1.32 0.74 0.66 0.21 0.23
C5' 1.98 1.85 2.33 2.15 1.32 1.85 1.11 1.23 1.26 1.68 1.64 1.22 2.17 2.68 2.62 1.67 1.52 1.16 1.15 1.20
C6 1.68 1.64 1.82 1.68 1.20 1.56 1.01 1.18 1.14 1.48 1.48 1.11 1.91 2.12 1.91 1.50 0.76 0.67 0.23 0.22
C8 1.17 1.04 1.40 1.32 0.58 1.18 0.41 0.75 0.56 0.91 0.86 0.46 1.32 1.67 1.59 0.99 0.73 0.65 0.22 0.25
N1 1.67 1.70 1.78 1.57 1.26 1.45 1.03 1.03 1.14 1.50 1.56 1.18 2.00 2.12 1.78 1.44 0.70 0.66 0.21 0.23
N3 1.41 1.45 1.54 1.25 0.94 1.10 0.68 0.56 0.80 1.21 1.29 0.85 1.80 1.93 1.44 1.11 0.64 0.60 0.21 0.25
N6 1.83 1.74 2.00 1.91 1.32 1.78 1.15 1.43 1.30 1.62 1.58 1.22 1.98 2.30 2.20 1.67 0.84 0.68 0.27 0.21
N7 1.41 1.26 1.60 1.56 0.83 1.47 0.68 1.13 0.84 1.16 1.08 0.71 1.50 1.84 1.80 1.28 0.80 0.67 0.23 0.22
N9 1.18 1.12 1.39 1.20 0.60 1.03 0.38 0.47 0.52 0.93 0.93 0.49 1.44 1.75 1.48 0.93 0.67 0.59 0.23 0.26
O2' 1.55 1.51 1.68 1.38 1.02 1.34 0.90 1.11 0.99 1.31 1.32 0.93 1.86 2.11 1.64 1.36 1.33 0.53 0.88 0.88
O3' 2.27 2.22 2.59 2.19 1.44 1.94 1.10 1.40 1.34 1.93 1.95 1.25 2.71 3.17 2.56 1.88 1.48 0.37 0.45 0.70
O4' 1.11 1.01 1.42 1.25 0.56 1.01 0.44 0.43 0.48 0.84 0.82 0.52 1.33 1.81 1.66 0.84 0.79 0.61 0.56 0.47
O5' 1.83 1.82 2.29 1.99 1.31 1.49 1.06 0.69 1.14 1.58 1.64 1.25 2.17 2.74 2.54 1.36 0.87 0.56 0.81 0.61
OP1 2.31 2.40 2.66 2.22 1.91 1.76 1.62 1.15 1.72 2.16 2.24 1.82 2.69 3.04 2.37 1.83 1.08 0.68 1.15 0.92
OP2 2.60 2.74 2.94 2.30 2.06 1.91 1.64 0.93 1.77 2.37 2.54 1.94 3.17 3.50 2.48 2.03 0.97 0.31 0.38 0.39
P 2.43 2.49 2.84 2.43 1.95 1.90 1.65 0.98 1.76 2.23 2.32 1.86 2.81 3.24 2.79 1.91 1.08 0.47 0.93 0.74

Atoms distances Chain-B - Chain-B

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 0.01 0.01 0.01 0.01 0.00 0.01 0.02 0.06 0.00 0.33 0.28 0.70 0.43
C2 0.01 0.00 0.10 0.10 0.00 0.02 0.00 0.04 0.00 0.00 0.00 0.01 0.00 0.12 0.15 0.04 0.54 0.41 0.87 0.63
C2' 0.00 0.10 0.00 0.01 0.07 0.01 0.10 0.01 0.11 0.03 0.09 0.07 0.19 0.00 0.06 0.01 0.17 0.31 0.36 0.09
C3' 0.01 0.10 0.01 0.00 0.17 0.00 0.21 0.01 0.20 0.10 0.13 0.19 0.15 0.02 0.01 0.01 0.26 0.44 0.36 0.30
C4 0.01 0.00 0.07 0.17 0.00 0.08 0.00 0.12 0.00 0.00 0.00 0.00 0.00 0.04 0.17 0.01 0.81 0.77 1.10 0.92
C4' 0.01 0.02 0.01 0.00 0.08 0.00 0.11 0.01 0.11 0.05 0.04 0.09 0.04 0.05 0.03 0.00 0.02 0.10 0.39 0.10
C5 0.01 0.00 0.10 0.21 0.00 0.11 0.00 0.16 0.00 0.00 0.00 0.01 0.01 0.05 0.22 0.04 0.89 0.90 1.14 1.00
C5' 0.01 0.04 0.01 0.01 0.12 0.01 0.16 0.00 0.13 0.06 0.07 0.14 0.02 0.05 0.04 0.02 0.02 0.30 0.34 0.03
C6 0.01 0.00 0.11 0.20 0.00 0.11 0.00 0.13 0.00 0.00 0.01 0.01 0.00 0.06 0.19 0.05 0.80 0.77 1.02 0.88
N1 0.01 0.00 0.03 0.10 0.00 0.05 0.00 0.06 0.00 0.00 0.01 0.00 0.00 0.03 0.08 0.01 0.58 0.49 0.86 0.65
N3 0.01 0.00 0.09 0.13 0.00 0.04 0.00 0.07 0.01 0.01 0.00 0.00 0.00 0.10 0.15 0.03 0.67 0.56 0.98 0.77
N4 0.00 0.01 0.07 0.19 0.00 0.09 0.01 0.14 0.01 0.00 0.00 0.00 0.01 0.04 0.20 0.01 0.86 0.86 1.16 1.00
O2 0.01 0.00 0.19 0.15 0.00 0.04 0.01 0.02 0.00 0.00 0.00 0.01 0.00 0.23 0.26 0.07 0.38 0.24 0.77 0.48
O2' 0.02 0.12 0.00 0.02 0.04 0.05 0.05 0.05 0.06 0.03 0.10 0.04 0.23 0.00 0.14 0.03 0.10 0.48 0.40 0.17
O3' 0.06 0.15 0.06 0.01 0.17 0.03 0.22 0.04 0.19 0.08 0.15 0.20 0.26 0.14 0.00 0.04 0.53 1.03 0.75 0.78
O4' 0.00 0.04 0.01 0.01 0.01 0.00 0.04 0.02 0.05 0.01 0.03 0.01 0.07 0.03 0.04 0.00 0.41 0.48 0.80 0.58
O5' 0.33 0.54 0.17 0.26 0.81 0.02 0.89 0.02 0.80 0.58 0.67 0.86 0.38 0.10 0.53 0.41 0.00 0.01 0.03 0.00
OP1 0.28 0.41 0.31 0.44 0.77 0.10 0.90 0.30 0.77 0.49 0.56 0.86 0.24 0.48 1.03 0.48 0.01 0.00 0.01 0.00
OP2 0.70 0.87 0.36 0.36 1.10 0.39 1.14 0.34 1.02 0.86 0.98 1.16 0.77 0.40 0.75 0.80 0.03 0.01 0.00 0.00
P 0.43 0.63 0.09 0.30 0.92 0.10 1.00 0.03 0.88 0.65 0.77 1.00 0.48 0.17 0.78 0.58 0.00 0.00 0.00 0.00