ClaRNA

Doublet Group distance statistics: 20542

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Distances from reference structure (by RMSD)

3, 47, 83, 89, 80, 89, 51, 11, 8, 4, 4, 11, 3, 2, 4, 3, 0, 1, 0, 7,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4 A 0, 0.096, 0.238, 0.380, 0.752 max_d=0.752 avg_d=0.238 std_dev=0.142
C4 B 0, 0.101, 0.247, 0.393, 0.959 max_d=0.959 avg_d=0.247 std_dev=0.146
N3 B 0, 0.129, 0.398, 0.667, 1.980 max_d=1.980 avg_d=0.398 std_dev=0.269
C5 A 0, 0.110, 0.392, 0.675, 2.424 max_d=2.424 avg_d=0.392 std_dev=0.283
N3 A 0, 0.116, 0.399, 0.683, 2.218 max_d=2.218 avg_d=0.399 std_dev=0.284
C5 B 0, 0.052, 0.352, 0.651, 2.720 max_d=2.720 avg_d=0.352 std_dev=0.300
N9 A 0, 0.042, 0.380, 0.717, 3.241 max_d=3.241 avg_d=0.380 std_dev=0.338
N9 B 0, 0.051, 0.419, 0.788, 2.782 max_d=2.782 avg_d=0.419 std_dev=0.369
C6 B 0, 0.093, 0.494, 0.894, 3.763 max_d=3.763 avg_d=0.494 std_dev=0.401
C2 A 0, 0.146, 0.549, 0.952, 3.735 max_d=3.735 avg_d=0.549 std_dev=0.403
C6 A 0, 0.114, 0.519, 0.924, 4.008 max_d=4.008 avg_d=0.519 std_dev=0.405
C2 B 0, 0.135, 0.547, 0.960, 3.351 max_d=3.351 avg_d=0.547 std_dev=0.412
N1 A 0, 0.153, 0.590, 1.028, 4.556 max_d=4.556 avg_d=0.590 std_dev=0.437
N1 B 0, 0.123, 0.582, 1.042, 4.011 max_d=4.011 avg_d=0.582 std_dev=0.460
C1' A 0, 0.012, 0.515, 1.018, 5.270 max_d=5.270 avg_d=0.515 std_dev=0.503
N7 A 0, 0.103, 0.617, 1.132, 4.470 max_d=4.470 avg_d=0.617 std_dev=0.514
C8 A 0, 0.077, 0.597, 1.116, 4.708 max_d=4.708 avg_d=0.597 std_dev=0.519
C1' B 0, 0.068, 0.593, 1.119, 4.019 max_d=4.019 avg_d=0.593 std_dev=0.526
N7 B 0, -0.013, 0.553, 1.119, 4.718 max_d=4.718 avg_d=0.553 std_dev=0.566
C8 B 0, 0.011, 0.587, 1.163, 4.648 max_d=4.648 avg_d=0.587 std_dev=0.576
C2' B 0, 0.147, 0.740, 1.334, 5.071 max_d=5.071 avg_d=0.740 std_dev=0.593
N6 B 0, 0.093, 0.726, 1.359, 5.840 max_d=5.840 avg_d=0.726 std_dev=0.633
N6 A 0, 0.108, 0.759, 1.410, 6.354 max_d=6.354 avg_d=0.759 std_dev=0.651
O4' A 0, 0.033, 0.725, 1.416, 7.259 max_d=7.259 avg_d=0.725 std_dev=0.692
O4' B 0, -0.028, 0.694, 1.416, 6.303 max_d=6.303 avg_d=0.694 std_dev=0.722
O2' B 0, 0.198, 0.974, 1.751, 6.773 max_d=6.773 avg_d=0.974 std_dev=0.777
C3' B 0, 0.067, 0.862, 1.658, 7.490 max_d=7.490 avg_d=0.862 std_dev=0.796
C2' A 0, -0.180, 0.627, 1.433, 7.026 max_d=7.026 avg_d=0.627 std_dev=0.807
C4' B 0, -0.012, 0.827, 1.665, 7.612 max_d=7.612 avg_d=0.827 std_dev=0.838
C4' A 0, -0.152, 0.802, 1.757, 9.670 max_d=9.670 avg_d=0.802 std_dev=0.954
C3' A 0, -0.270, 0.688, 1.645, 9.072 max_d=9.072 avg_d=0.688 std_dev=0.957
C5' B 0, -0.104, 0.917, 1.938, 9.453 max_d=9.453 avg_d=0.917 std_dev=1.021
O3' B 0, 0.090, 1.160, 2.230, 9.190 max_d=9.190 avg_d=1.160 std_dev=1.070
O5' B 0, -0.139, 0.940, 2.020, 9.155 max_d=9.155 avg_d=0.940 std_dev=1.079
O2' A 0, -0.155, 0.939, 2.032, 8.570 max_d=8.570 avg_d=0.939 std_dev=1.093
O3' A 0, -0.352, 0.835, 2.023, 11.457 max_d=11.457 avg_d=0.835 std_dev=1.188
C5' A 0, -0.053, 1.197, 2.447, 11.619 max_d=11.619 avg_d=1.197 std_dev=1.250
O5' A 0, 0.268, 1.608, 2.949, 11.125 max_d=11.125 avg_d=1.608 std_dev=1.341
P B 0, -0.382, 1.034, 2.450, 11.141 max_d=11.141 avg_d=1.034 std_dev=1.416
OP1 B 0, -0.340, 1.252, 2.843, 13.381 max_d=13.381 avg_d=1.252 std_dev=1.592
OP2 B 0, -0.379, 1.234, 2.847, 11.707 max_d=11.707 avg_d=1.234 std_dev=1.613
P A 0, 0.364, 2.107, 3.851, 13.002 max_d=13.002 avg_d=2.107 std_dev=1.744
OP1 A 0, 0.569, 2.449, 4.328, 14.896 max_d=14.896 avg_d=2.449 std_dev=1.879
OP2 A 0, 0.834, 2.795, 4.755, 12.565 max_d=12.565 avg_d=2.795 std_dev=1.960

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 0.04 0.01 0.02 0.02 0.01 0.02 0.06 0.02 0.02 0.04 0.04 0.03 0.01 0.01 0.02 0.19 0.01 0.24 0.46 0.42 0.24
C2 0.04 0.00 0.29 0.28 0.01 0.20 0.01 0.35 0.01 0.02 0.01 0.01 0.01 0.02 0.02 0.28 0.34 0.24 0.50 0.76 0.91 0.61
C2' 0.01 0.29 0.00 0.01 0.16 0.02 0.09 0.12 0.15 0.14 0.24 0.29 0.12 0.09 0.03 0.00 0.03 0.02 0.34 0.45 0.58 0.36
C3' 0.02 0.28 0.01 0.00 0.21 0.01 0.24 0.03 0.27 0.25 0.28 0.26 0.28 0.26 0.15 0.03 0.01 0.02 0.32 0.39 0.50 0.28
C4 0.02 0.01 0.16 0.21 0.00 0.10 0.01 0.22 0.01 0.01 0.01 0.01 0.02 0.01 0.01 0.16 0.19 0.13 0.45 0.70 0.83 0.53
C4' 0.01 0.20 0.02 0.01 0.10 0.00 0.11 0.01 0.12 0.20 0.15 0.19 0.13 0.18 0.08 0.19 0.03 0.01 0.02 0.35 0.31 0.16
C5 0.02 0.01 0.09 0.24 0.01 0.11 0.00 0.25 0.01 0.01 0.01 0.01 0.02 0.01 0.01 0.19 0.17 0.06 0.56 0.88 1.07 0.71
C5' 0.06 0.35 0.12 0.03 0.22 0.01 0.25 0.00 0.28 0.32 0.32 0.32 0.30 0.32 0.17 0.10 0.14 0.02 0.01 0.27 0.35 0.02
C6 0.02 0.01 0.15 0.27 0.01 0.12 0.01 0.28 0.00 0.02 0.01 0.01 0.01 0.01 0.02 0.20 0.23 0.11 0.57 0.93 1.15 0.76
C8 0.02 0.02 0.14 0.25 0.01 0.20 0.01 0.32 0.02 0.00 0.02 0.01 0.03 0.00 0.01 0.27 0.18 0.14 0.62 0.88 0.98 0.72
N1 0.04 0.01 0.24 0.28 0.01 0.15 0.01 0.32 0.01 0.02 0.00 0.01 0.01 0.02 0.02 0.24 0.30 0.19 0.54 0.85 1.05 0.69
N3 0.04 0.01 0.29 0.26 0.01 0.19 0.01 0.32 0.01 0.01 0.01 0.00 0.02 0.01 0.01 0.27 0.32 0.24 0.44 0.67 0.78 0.52
N6 0.03 0.01 0.12 0.28 0.02 0.13 0.02 0.30 0.01 0.03 0.01 0.02 0.00 0.03 0.02 0.22 0.24 0.09 0.63 1.05 1.31 0.87
N7 0.01 0.02 0.09 0.26 0.01 0.18 0.01 0.32 0.01 0.00 0.02 0.01 0.03 0.00 0.01 0.26 0.19 0.08 0.66 1.02 1.20 0.85
N9 0.01 0.02 0.03 0.15 0.01 0.08 0.01 0.17 0.02 0.01 0.02 0.01 0.02 0.01 0.00 0.13 0.10 0.02 0.43 0.63 0.70 0.46
O2' 0.02 0.28 0.00 0.03 0.16 0.19 0.19 0.10 0.20 0.27 0.24 0.27 0.22 0.26 0.13 0.00 0.07 0.14 0.19 0.55 0.56 0.35
O3' 0.19 0.34 0.03 0.01 0.19 0.03 0.17 0.14 0.23 0.18 0.30 0.32 0.24 0.19 0.10 0.07 0.00 0.14 0.33 0.61 0.56 0.33
O4' 0.01 0.24 0.02 0.02 0.13 0.01 0.06 0.02 0.11 0.14 0.19 0.24 0.09 0.08 0.02 0.14 0.14 0.00 0.20 0.47 0.33 0.26
O5' 0.24 0.50 0.34 0.32 0.45 0.02 0.56 0.01 0.57 0.62 0.54 0.44 0.63 0.66 0.43 0.19 0.33 0.20 0.00 0.02 0.02 0.01
OP1 0.46 0.76 0.45 0.39 0.70 0.35 0.88 0.27 0.93 0.88 0.85 0.67 1.05 1.02 0.63 0.55 0.61 0.47 0.02 0.00 0.02 0.01
OP2 0.42 0.91 0.58 0.50 0.83 0.31 1.07 0.35 1.15 0.98 1.05 0.78 1.31 1.20 0.70 0.56 0.56 0.33 0.02 0.02 0.00 0.01
P 0.24 0.61 0.36 0.28 0.53 0.16 0.71 0.02 0.76 0.72 0.69 0.52 0.87 0.85 0.46 0.35 0.33 0.26 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.49 0.84 0.41 0.50 0.47 0.67 0.53 0.78 0.71 0.60 0.85 0.67 0.80 0.61 0.42 0.47 0.55 0.68 0.91 1.01 1.14 1.09
C2 0.88 0.62 0.87 0.87 0.50 0.92 0.57 0.88 0.65 0.81 0.73 0.44 0.76 0.71 0.73 0.94 0.90 0.92 0.87 0.74 0.86 0.78
C2' 0.74 0.79 0.66 0.81 0.50 1.00 0.53 1.15 0.67 0.74 0.80 0.66 0.80 0.67 0.59 0.71 0.82 0.99 1.27 1.32 1.38 1.40
C3' 0.77 0.69 0.73 0.89 0.50 1.04 0.53 1.22 0.58 0.85 0.67 0.61 0.71 0.76 0.65 0.74 0.94 0.99 1.42 1.59 1.71 1.71
C4 0.55 0.67 0.51 0.52 0.28 0.62 0.34 0.63 0.52 0.61 0.69 0.47 0.61 0.52 0.43 0.59 0.57 0.65 0.74 0.64 0.93 0.77
C4' 0.63 0.79 0.58 0.73 0.50 0.88 0.55 1.03 0.66 0.70 0.78 0.67 0.77 0.70 0.53 0.62 0.84 0.82 1.15 1.47 1.55 1.50
C5 0.65 0.65 0.63 0.59 0.41 0.63 0.31 0.58 0.43 0.59 0.62 0.56 0.54 0.49 0.53 0.75 0.66 0.66 0.69 0.53 0.94 0.69
C5' 0.76 0.88 0.75 0.87 0.65 0.96 0.67 1.03 0.76 0.78 0.86 0.79 0.88 0.80 0.66 0.79 1.02 0.89 1.15 1.51 1.69 1.52
C6 0.81 0.51 0.82 0.76 0.49 0.76 0.39 0.69 0.37 0.70 0.49 0.54 0.59 0.61 0.68 0.94 0.84 0.78 0.72 0.54 0.89 0.66
C8 0.56 0.88 0.54 0.52 0.55 0.61 0.53 0.60 0.70 0.52 0.86 0.75 0.76 0.52 0.48 0.66 0.62 0.63 0.76 0.73 1.13 0.90
N1 0.91 0.46 0.92 0.88 0.51 0.88 0.53 0.80 0.57 0.79 0.59 0.45 0.75 0.70 0.75 1.02 0.94 0.88 0.80 0.63 0.85 0.69
N3 0.71 0.68 0.68 0.71 0.40 0.81 0.49 0.83 0.62 0.75 0.74 0.45 0.70 0.65 0.59 0.72 0.72 0.83 0.86 0.77 0.91 0.83
N6 0.92 0.68 0.96 0.88 0.66 0.86 0.53 0.78 0.46 0.75 0.56 0.75 0.65 0.67 0.78 1.10 0.98 0.86 0.78 0.63 0.97 0.72
N7 0.66 0.84 0.66 0.60 0.59 0.65 0.50 0.61 0.63 0.57 0.80 0.76 0.67 0.52 0.57 0.80 0.70 0.68 0.73 0.62 1.07 0.80
N9 0.45 0.80 0.39 0.43 0.40 0.56 0.44 0.61 0.64 0.53 0.80 0.62 0.71 0.52 0.36 0.50 0.50 0.59 0.77 0.76 1.05 0.90
O2' 0.82 1.00 0.76 0.91 0.67 1.13 0.75 1.30 0.94 0.80 1.04 0.84 1.10 0.83 0.68 0.82 0.90 1.08 1.32 1.43 1.36 1.43
O3' 0.84 0.66 0.85 1.06 0.50 1.22 0.55 1.49 0.58 0.90 0.65 0.58 0.74 0.81 0.70 0.85 1.10 1.09 1.67 2.00 1.89 2.05
O4' 0.51 0.87 0.45 0.54 0.52 0.68 0.56 0.79 0.72 0.59 0.86 0.72 0.80 0.62 0.45 0.50 0.65 0.67 0.89 1.11 1.24 1.16
O5' 0.87 1.02 0.91 1.00 0.83 1.02 0.87 1.05 0.95 0.92 1.01 0.94 1.06 0.98 0.81 0.96 1.15 0.94 1.18 1.40 1.75 1.48
OP1 1.07 1.27 1.17 1.27 1.04 1.28 1.11 1.31 1.26 1.02 1.31 1.15 1.43 1.14 0.98 1.23 1.43 1.14 1.35 1.68 1.85 1.60
OP2 1.10 1.42 1.23 1.26 1.22 1.14 1.35 1.12 1.48 1.23 1.48 1.31 1.66 1.41 1.13 1.30 1.42 1.05 1.26 1.41 1.86 1.47
P 0.99 1.20 1.09 1.15 0.99 1.11 1.07 1.09 1.19 1.02 1.22 1.10 1.34 1.14 0.93 1.16 1.33 1.01 1.19 1.41 1.77 1.45

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.04 0.01 0.02 0.02 0.01 0.02 0.06 0.02 0.02 0.03 0.04 0.02 0.02 0.01 0.02 0.18 0.01 0.20 0.23 0.32 0.18
C2 0.04 0.00 0.27 0.27 0.01 0.14 0.01 0.26 0.01 0.02 0.01 0.01 0.02 0.02 0.02 0.28 0.35 0.16 0.36 0.40 0.63 0.41
C2' 0.01 0.27 0.00 0.01 0.14 0.02 0.08 0.12 0.13 0.13 0.21 0.27 0.11 0.09 0.03 0.01 0.03 0.02 0.26 0.36 0.36 0.27
C3' 0.02 0.27 0.01 0.00 0.19 0.01 0.23 0.03 0.25 0.26 0.26 0.24 0.27 0.27 0.15 0.03 0.01 0.02 0.23 0.33 0.26 0.21
C4 0.02 0.01 0.14 0.19 0.00 0.08 0.01 0.17 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.18 0.19 0.09 0.36 0.33 0.58 0.35
C4' 0.01 0.14 0.02 0.01 0.08 0.00 0.10 0.01 0.10 0.17 0.11 0.13 0.12 0.16 0.07 0.18 0.03 0.01 0.02 0.18 0.21 0.08
C5 0.02 0.01 0.08 0.23 0.01 0.10 0.00 0.21 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.20 0.17 0.05 0.46 0.43 0.76 0.47
C5' 0.06 0.26 0.12 0.03 0.17 0.01 0.21 0.00 0.23 0.26 0.24 0.24 0.25 0.27 0.14 0.09 0.13 0.02 0.01 0.20 0.24 0.02
C6 0.02 0.01 0.13 0.25 0.01 0.10 0.01 0.23 0.00 0.01 0.01 0.01 0.01 0.01 0.01 0.22 0.22 0.08 0.46 0.45 0.80 0.49
C8 0.02 0.02 0.13 0.26 0.01 0.17 0.01 0.26 0.01 0.00 0.01 0.01 0.02 0.00 0.01 0.20 0.20 0.10 0.54 0.46 0.73 0.51
N1 0.03 0.01 0.21 0.26 0.01 0.11 0.01 0.24 0.01 0.01 0.00 0.01 0.01 0.01 0.02 0.25 0.29 0.13 0.41 0.42 0.73 0.45
N3 0.04 0.01 0.27 0.24 0.01 0.13 0.01 0.24 0.01 0.01 0.01 0.00 0.01 0.01 0.02 0.26 0.33 0.16 0.32 0.35 0.55 0.35
N6 0.02 0.02 0.11 0.27 0.01 0.12 0.01 0.25 0.01 0.02 0.01 0.01 0.00 0.02 0.02 0.23 0.23 0.07 0.52 0.53 0.92 0.58
N7 0.02 0.02 0.09 0.27 0.01 0.16 0.00 0.27 0.01 0.00 0.01 0.01 0.02 0.00 0.01 0.21 0.20 0.06 0.57 0.52 0.88 0.59
N9 0.01 0.02 0.03 0.15 0.01 0.07 0.01 0.14 0.01 0.01 0.02 0.02 0.02 0.01 0.00 0.12 0.10 0.02 0.35 0.30 0.51 0.31
O2' 0.02 0.28 0.01 0.03 0.18 0.18 0.20 0.09 0.22 0.20 0.25 0.26 0.23 0.21 0.12 0.00 0.06 0.13 0.17 0.35 0.35 0.23
O3' 0.18 0.35 0.03 0.01 0.19 0.03 0.17 0.13 0.22 0.20 0.29 0.33 0.23 0.20 0.10 0.06 0.00 0.13 0.26 0.47 0.34 0.29
O4' 0.01 0.16 0.02 0.02 0.09 0.01 0.05 0.02 0.08 0.10 0.13 0.16 0.07 0.06 0.02 0.13 0.13 0.00 0.17 0.21 0.30 0.20
O5' 0.20 0.36 0.26 0.23 0.36 0.02 0.46 0.01 0.46 0.54 0.41 0.32 0.52 0.57 0.35 0.17 0.26 0.17 0.00 0.02 0.02 0.01
OP1 0.23 0.40 0.36 0.33 0.33 0.18 0.43 0.20 0.45 0.46 0.42 0.35 0.53 0.52 0.30 0.35 0.47 0.21 0.02 0.00 0.02 0.01
OP2 0.32 0.63 0.36 0.26 0.58 0.21 0.76 0.24 0.80 0.73 0.73 0.55 0.92 0.88 0.51 0.35 0.34 0.30 0.02 0.02 0.00 0.01
P 0.18 0.41 0.27 0.21 0.35 0.08 0.47 0.02 0.49 0.51 0.45 0.35 0.58 0.59 0.31 0.23 0.29 0.20 0.01 0.01 0.01 0.00