ClaRNA

Doublet Group distance statistics: 7095

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Distances from reference structure (by RMSD)

2, 14, 49, 6, 1, 1, 0, 3, 1, 0, 4, 48, 23, 0, 0, 0, 1, 0, 0, 2,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C6 B 0, 0.105, 0.351, 0.596, 1.266 max_d=1.266 avg_d=0.351 std_dev=0.245
C2 A 0, 0.201, 0.539, 0.877, 1.379 max_d=1.379 avg_d=0.539 std_dev=0.338
C5 A 0, 0.112, 0.458, 0.805, 2.346 max_d=2.346 avg_d=0.458 std_dev=0.347
C6 A 0, 0.137, 0.488, 0.839, 1.616 max_d=1.616 avg_d=0.488 std_dev=0.351
N1 A 0, 0.164, 0.525, 0.886, 1.072 max_d=1.072 avg_d=0.525 std_dev=0.361
C5 B 0, 0.047, 0.424, 0.802, 2.041 max_d=2.041 avg_d=0.424 std_dev=0.377
N1 B 0, 0.142, 0.545, 0.949, 1.157 max_d=1.157 avg_d=0.545 std_dev=0.404
C4 A 0, 0.207, 0.683, 1.158, 2.495 max_d=2.495 avg_d=0.683 std_dev=0.475
C2 B 0, 0.195, 0.687, 1.179, 1.435 max_d=1.435 avg_d=0.687 std_dev=0.492
N3 A 0, 0.199, 0.692, 1.185, 2.177 max_d=2.177 avg_d=0.692 std_dev=0.493
O2 A 0, 0.251, 0.775, 1.299, 2.842 max_d=2.842 avg_d=0.775 std_dev=0.524
C4 B 0, 0.160, 0.685, 1.210, 2.366 max_d=2.366 avg_d=0.685 std_dev=0.525
N3 B 0, 0.187, 0.740, 1.294, 2.152 max_d=2.152 avg_d=0.740 std_dev=0.554
C1' A 0, 0.364, 1.003, 1.642, 2.475 max_d=2.475 avg_d=1.003 std_dev=0.639
C3' A 0, 0.559, 1.299, 2.039, 6.361 max_d=6.361 avg_d=1.299 std_dev=0.740
O4' A 0, 0.225, 0.968, 1.712, 4.920 max_d=4.920 avg_d=0.968 std_dev=0.743
C1' B 0, 0.288, 1.038, 1.789, 2.354 max_d=2.354 avg_d=1.038 std_dev=0.750
C2' A 0, 0.670, 1.423, 2.175, 4.075 max_d=4.075 avg_d=1.423 std_dev=0.753
O2 B 0, 0.287, 1.072, 1.857, 2.727 max_d=2.727 avg_d=1.072 std_dev=0.785
N4 A 0, 0.311, 1.118, 1.924, 4.134 max_d=4.134 avg_d=1.118 std_dev=0.806
O4' B 0, 0.215, 1.064, 1.912, 3.028 max_d=3.028 avg_d=1.064 std_dev=0.849
N4 B 0, 0.263, 1.166, 2.068, 3.887 max_d=3.887 avg_d=1.166 std_dev=0.902
C2' B 0, 0.392, 1.306, 2.221, 3.823 max_d=3.823 avg_d=1.306 std_dev=0.915
C4' A 0, 0.472, 1.403, 2.334, 6.787 max_d=6.787 avg_d=1.403 std_dev=0.931
O5' A 0, 0.677, 1.636, 2.594, 7.653 max_d=7.653 avg_d=1.636 std_dev=0.959
O3' A 0, 0.422, 1.431, 2.439, 8.716 max_d=8.716 avg_d=1.431 std_dev=1.009
C5' A 0, 1.034, 2.117, 3.200, 8.028 max_d=8.028 avg_d=2.117 std_dev=1.083
C4' B 0, 0.127, 1.260, 2.394, 5.142 max_d=5.142 avg_d=1.260 std_dev=1.134
C3' B 0, 0.383, 1.545, 2.707, 5.148 max_d=5.148 avg_d=1.545 std_dev=1.162
O2' B 0, 0.538, 1.822, 3.106, 5.231 max_d=5.231 avg_d=1.822 std_dev=1.284
O5' B 0, -0.070, 1.222, 2.515, 7.929 max_d=7.929 avg_d=1.222 std_dev=1.292
O2' A 0, 1.035, 2.379, 3.722, 5.026 max_d=5.026 avg_d=2.379 std_dev=1.344
OP2 A 0, 0.833, 2.187, 3.542, 7.897 max_d=7.897 avg_d=2.187 std_dev=1.355
C5' B 0, -0.271, 1.091, 2.454, 6.793 max_d=6.793 avg_d=1.091 std_dev=1.363
P A 0, 0.594, 2.032, 3.470, 8.396 max_d=8.396 avg_d=2.032 std_dev=1.438
P B 0, -0.241, 1.309, 2.858, 8.243 max_d=8.243 avg_d=1.309 std_dev=1.550
OP2 B 0, 0.072, 1.718, 3.364, 8.574 max_d=8.574 avg_d=1.718 std_dev=1.646
O3' B 0, 0.444, 2.182, 3.920, 7.045 max_d=7.045 avg_d=2.182 std_dev=1.738
OP1 A 0, 0.629, 2.499, 4.369, 11.043 max_d=11.043 avg_d=2.499 std_dev=1.870
OP1 B 0, -0.249, 1.907, 4.063, 9.973 max_d=9.973 avg_d=1.907 std_dev=2.156

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 0.02 0.00 0.01 0.01 0.01 0.01 0.06 0.02 0.01 0.02 0.02 0.04 0.02 0.37 0.01 0.14 0.35 0.29 0.17
C2 0.02 0.00 0.32 0.34 0.01 0.10 0.01 0.15 0.01 0.01 0.00 0.01 0.01 0.13 0.16 0.24 0.24 0.39 0.39 0.36
C2' 0.00 0.32 0.00 0.00 0.06 0.01 0.20 0.21 0.28 0.03 0.25 0.07 0.56 0.00 0.04 0.02 0.45 0.93 0.67 0.62
C3' 0.01 0.34 0.00 0.00 0.40 0.01 0.33 0.03 0.25 0.24 0.40 0.43 0.33 0.02 0.01 0.02 0.13 0.71 0.25 0.25
C4 0.01 0.01 0.06 0.40 0.00 0.15 0.00 0.20 0.01 0.01 0.00 0.00 0.01 0.35 0.12 0.03 0.42 0.77 0.53 0.68
C4' 0.01 0.10 0.01 0.01 0.15 0.00 0.27 0.01 0.28 0.10 0.08 0.15 0.24 0.31 0.03 0.00 0.02 0.27 0.20 0.07
C5 0.01 0.01 0.20 0.33 0.00 0.27 0.00 0.35 0.00 0.00 0.01 0.01 0.01 0.57 0.12 0.19 0.51 0.88 0.49 0.74
C5' 0.06 0.15 0.21 0.03 0.20 0.01 0.35 0.00 0.34 0.10 0.14 0.22 0.32 0.09 0.23 0.02 0.01 0.19 0.26 0.02
C6 0.02 0.01 0.28 0.25 0.01 0.28 0.00 0.34 0.00 0.00 0.01 0.01 0.02 0.57 0.10 0.27 0.42 0.66 0.36 0.55
N1 0.01 0.01 0.03 0.24 0.01 0.10 0.00 0.10 0.00 0.00 0.01 0.01 0.02 0.22 0.15 0.01 0.22 0.38 0.28 0.30
N3 0.02 0.00 0.25 0.40 0.00 0.08 0.01 0.14 0.01 0.01 0.00 0.01 0.01 0.14 0.13 0.19 0.32 0.56 0.49 0.53
N4 0.02 0.01 0.07 0.43 0.00 0.15 0.01 0.22 0.01 0.01 0.01 0.00 0.01 0.38 0.16 0.04 0.47 0.91 0.63 0.79
O2 0.04 0.01 0.56 0.33 0.01 0.24 0.01 0.32 0.02 0.02 0.01 0.01 0.00 0.45 0.25 0.42 0.25 0.36 0.44 0.33
O2' 0.02 0.13 0.00 0.02 0.35 0.31 0.57 0.09 0.57 0.22 0.14 0.38 0.45 0.00 0.07 0.22 0.34 0.93 0.77 0.61
O3' 0.37 0.16 0.04 0.01 0.12 0.03 0.12 0.23 0.10 0.15 0.13 0.16 0.25 0.07 0.00 0.25 0.28 0.60 0.51 0.24
O4' 0.01 0.24 0.02 0.02 0.03 0.00 0.19 0.02 0.27 0.01 0.19 0.04 0.42 0.22 0.25 0.00 0.14 0.25 0.22 0.16
O5' 0.14 0.24 0.45 0.13 0.42 0.02 0.51 0.01 0.42 0.22 0.32 0.47 0.25 0.34 0.28 0.14 0.00 0.02 0.02 0.01
OP1 0.35 0.39 0.93 0.71 0.77 0.27 0.88 0.19 0.66 0.38 0.56 0.91 0.36 0.93 0.60 0.25 0.02 0.00 0.01 0.01
OP2 0.29 0.39 0.67 0.25 0.53 0.20 0.49 0.26 0.36 0.28 0.49 0.63 0.44 0.77 0.51 0.22 0.02 0.01 0.00 0.01
P 0.17 0.36 0.62 0.25 0.68 0.07 0.74 0.02 0.55 0.30 0.53 0.79 0.33 0.61 0.24 0.16 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 1.77 1.32 1.74 1.60 0.69 1.77 0.54 1.43 0.94 1.33 0.98 1.00 1.65 2.00 1.93 1.76 0.94 1.16 0.95 0.81
C2 1.26 0.64 1.29 1.16 0.61 1.34 0.29 1.24 0.58 0.77 0.66 1.06 0.90 1.57 1.35 1.26 0.83 1.05 0.82 0.81
C2' 1.62 1.17 1.57 1.44 0.66 1.70 0.38 1.42 0.63 1.10 0.87 1.19 1.63 1.93 1.82 1.65 1.03 0.93 1.23 0.94
C3' 1.67 1.18 1.59 1.49 0.65 1.75 0.51 1.46 0.86 1.22 0.87 1.05 1.53 1.89 1.85 1.75 1.01 1.32 1.20 0.98
C4 0.58 0.55 0.48 0.45 0.80 0.60 0.49 0.60 0.21 0.29 0.81 1.03 0.61 0.75 0.42 0.66 0.65 0.89 1.10 0.71
C4' 1.52 1.09 1.45 1.40 0.80 1.61 0.63 1.32 0.83 1.12 0.91 1.20 1.36 1.70 1.81 1.61 0.89 1.42 1.05 0.88
C5 0.71 0.27 0.58 0.51 0.47 0.66 0.29 0.64 0.32 0.42 0.33 0.78 0.40 0.75 0.46 0.79 0.75 1.25 1.35 0.92
C5' 1.20 0.81 1.08 1.07 0.77 1.32 0.63 1.09 0.65 0.85 0.69 1.26 1.06 1.32 1.44 1.35 0.77 1.59 1.18 0.93
C6 1.17 0.72 1.03 0.83 0.35 1.02 0.31 0.82 0.65 0.88 0.39 0.74 0.88 1.22 0.94 1.18 0.66 1.18 1.20 0.78
N1 1.44 0.89 1.37 1.20 0.47 1.39 0.31 1.16 0.73 1.03 0.59 0.92 1.13 1.60 1.41 1.45 0.75 1.04 0.94 0.71
N3 0.84 0.58 0.85 0.72 0.81 0.88 0.45 0.88 0.36 0.41 0.88 1.12 0.74 1.16 0.83 0.83 0.65 0.90 0.87 0.73
N4 0.67 1.01 0.52 0.71 1.04 0.73 0.76 0.77 0.50 0.69 1.14 1.16 1.08 0.69 0.65 0.74 0.93 0.88 1.30 0.84
O2 1.41 0.78 1.55 1.49 0.67 1.65 0.36 1.57 0.67 0.87 0.77 1.12 1.12 1.89 1.76 1.40 1.08 1.33 0.85 1.06
O2' 1.70 1.38 1.73 1.58 0.76 1.75 0.41 1.47 0.63 1.18 1.11 1.16 1.94 2.14 2.05 1.62 1.18 0.85 1.45 1.13
O3' 1.45 0.98 1.43 1.38 0.67 1.60 0.45 1.37 0.68 1.00 0.80 1.12 1.32 1.75 1.83 1.52 1.04 1.24 1.25 1.02
O4' 1.57 1.17 1.53 1.45 0.83 1.60 0.70 1.29 0.94 1.22 0.98 1.13 1.38 1.73 1.81 1.61 0.84 1.40 0.91 0.80
O5' 1.06 0.74 0.88 0.81 0.72 1.10 0.62 0.92 0.58 0.77 0.61 1.23 0.97 1.10 1.07 1.23 0.67 1.65 1.31 0.97
OP1 1.37 1.21 1.17 1.07 1.21 1.29 1.21 1.11 1.17 1.22 1.14 1.41 1.36 1.37 1.17 1.47 0.99 2.44 1.53 1.47
OP2 0.69 0.55 0.66 0.69 0.77 0.75 0.81 0.72 0.56 0.52 0.54 1.20 0.76 0.77 0.83 0.86 0.80 1.53 1.57 1.07
P 1.07 0.81 0.84 0.77 0.65 1.08 0.66 0.94 0.67 0.82 0.62 1.00 1.05 1.07 0.91 1.26 0.76 2.05 1.47 1.23

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.01 0.01 0.01 0.01 0.07 0.01 0.01 0.01 0.01 0.04 0.02 0.23 0.01 0.18 0.32 0.28 0.11
C2 0.02 0.00 0.20 0.17 0.01 0.09 0.01 0.20 0.01 0.01 0.00 0.01 0.00 0.30 0.26 0.16 0.34 0.76 0.39 0.21
C2' 0.00 0.20 0.00 0.00 0.08 0.01 0.10 0.17 0.15 0.04 0.17 0.09 0.32 0.00 0.02 0.02 0.39 0.36 0.47 0.37
C3' 0.01 0.17 0.00 0.00 0.26 0.01 0.32 0.03 0.31 0.16 0.21 0.28 0.21 0.02 0.01 0.02 0.15 0.56 0.24 0.24
C4 0.01 0.01 0.08 0.26 0.00 0.11 0.00 0.20 0.01 0.01 0.00 0.00 0.01 0.33 0.13 0.05 0.38 1.15 0.67 0.34
C4' 0.01 0.09 0.01 0.01 0.11 0.00 0.13 0.01 0.13 0.06 0.11 0.13 0.13 0.23 0.03 0.00 0.02 0.30 0.42 0.07
C5 0.01 0.01 0.10 0.32 0.00 0.13 0.00 0.18 0.00 0.01 0.01 0.01 0.01 0.28 0.22 0.09 0.32 1.17 0.62 0.34
C5' 0.07 0.20 0.17 0.03 0.20 0.01 0.18 0.00 0.17 0.12 0.22 0.22 0.25 0.07 0.17 0.02 0.01 0.39 0.48 0.02
C6 0.01 0.01 0.15 0.31 0.01 0.13 0.00 0.17 0.00 0.00 0.01 0.01 0.02 0.22 0.21 0.15 0.27 0.91 0.38 0.27
N1 0.01 0.01 0.04 0.16 0.01 0.06 0.01 0.12 0.00 0.00 0.01 0.01 0.02 0.17 0.09 0.02 0.25 0.67 0.28 0.17
N3 0.01 0.00 0.17 0.21 0.00 0.11 0.01 0.22 0.01 0.01 0.00 0.01 0.01 0.35 0.21 0.14 0.39 0.97 0.56 0.29
N4 0.01 0.01 0.09 0.28 0.00 0.13 0.01 0.22 0.01 0.01 0.01 0.00 0.01 0.36 0.16 0.06 0.41 1.27 0.81 0.39
O2 0.04 0.00 0.32 0.21 0.01 0.13 0.01 0.25 0.02 0.02 0.01 0.01 0.00 0.37 0.46 0.26 0.36 0.61 0.33 0.20
O2' 0.02 0.30 0.00 0.02 0.33 0.23 0.28 0.07 0.22 0.17 0.35 0.36 0.37 0.00 0.05 0.17 0.29 0.42 0.48 0.31
O3' 0.23 0.26 0.02 0.01 0.13 0.03 0.22 0.17 0.21 0.09 0.21 0.16 0.46 0.05 0.00 0.16 0.19 0.90 0.31 0.37
O4' 0.01 0.16 0.02 0.02 0.05 0.00 0.09 0.02 0.15 0.02 0.14 0.06 0.26 0.17 0.16 0.00 0.10 0.38 0.59 0.26
O5' 0.18 0.34 0.39 0.15 0.38 0.02 0.32 0.01 0.27 0.25 0.39 0.41 0.36 0.29 0.19 0.10 0.00 0.02 0.02 0.01
OP1 0.32 0.76 0.36 0.56 1.15 0.30 1.17 0.39 0.91 0.67 0.97 1.27 0.61 0.42 0.90 0.38 0.02 0.00 0.01 0.01
OP2 0.28 0.39 0.47 0.24 0.67 0.42 0.62 0.48 0.38 0.28 0.56 0.81 0.33 0.48 0.31 0.59 0.02 0.01 0.00 0.01
P 0.11 0.21 0.37 0.24 0.34 0.07 0.34 0.02 0.27 0.17 0.29 0.39 0.20 0.31 0.37 0.26 0.01 0.01 0.01 0.00