ClaRNA

Doublet Group distance statistics: 41165

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Distances from reference structure (by RMSD)

14, 29, 2, 0, 0, 25, 89, 4, 1, 1, 1, 2, 4, 3, 4, 2, 2, 3, 4, 170,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N1 B 0, 0.285, 0.782, 1.279, 1.811 max_d=1.811 avg_d=0.782 std_dev=0.497
N1 A 0, 0.242, 0.786, 1.329, 2.043 max_d=2.043 avg_d=0.786 std_dev=0.544
C6 A 0, 0.353, 1.007, 1.661, 2.246 max_d=2.246 avg_d=1.007 std_dev=0.654
C6 B 0, 0.348, 1.038, 1.727, 2.780 max_d=2.780 avg_d=1.038 std_dev=0.689
C1' B 0, 0.552, 1.299, 2.045, 3.311 max_d=3.311 avg_d=1.299 std_dev=0.747
C2 B 0, 0.393, 1.267, 2.141, 3.259 max_d=3.259 avg_d=1.267 std_dev=0.874
O2 B 0, 0.679, 1.579, 2.478, 4.506 max_d=4.506 avg_d=1.579 std_dev=0.899
C5 B 0, 0.582, 1.551, 2.519, 3.763 max_d=3.763 avg_d=1.551 std_dev=0.968
C2 A 0, 0.322, 1.313, 2.303, 3.354 max_d=3.354 avg_d=1.313 std_dev=0.991
C5 A 0, 0.365, 1.408, 2.450, 3.346 max_d=3.346 avg_d=1.408 std_dev=1.042
O2 A 0, 0.520, 1.582, 2.645, 4.395 max_d=4.395 avg_d=1.582 std_dev=1.062
C1' A 0, 0.465, 1.568, 2.670, 3.903 max_d=3.903 avg_d=1.568 std_dev=1.102
C2' B 0, 0.788, 1.959, 3.130, 4.581 max_d=4.581 avg_d=1.959 std_dev=1.171
O4' B 0, 0.632, 1.911, 3.190, 5.480 max_d=5.480 avg_d=1.911 std_dev=1.279
O2' B 0, 0.970, 2.352, 3.735, 6.246 max_d=6.246 avg_d=2.352 std_dev=1.383
C4 B 0, 0.639, 2.077, 3.515, 4.668 max_d=4.668 avg_d=2.077 std_dev=1.438
N3 B 0, 0.512, 1.977, 3.442, 4.742 max_d=4.742 avg_d=1.977 std_dev=1.465
C2' A 0, 0.658, 2.408, 4.159, 5.768 max_d=5.768 avg_d=2.408 std_dev=1.750
N3 A 0, 0.374, 2.175, 3.977, 4.894 max_d=4.894 avg_d=2.175 std_dev=1.802
C3' B 0, 0.941, 2.786, 4.630, 6.937 max_d=6.937 avg_d=2.786 std_dev=1.844
C4' B 0, 0.938, 2.815, 4.692, 7.156 max_d=7.156 avg_d=2.815 std_dev=1.877
C4 A 0, 0.279, 2.189, 4.100, 5.002 max_d=5.002 avg_d=2.189 std_dev=1.910
N4 B 0, 1.038, 3.021, 5.004, 6.846 max_d=6.846 avg_d=3.021 std_dev=1.983
O2' A 0, 0.818, 2.804, 4.790, 7.554 max_d=7.554 avg_d=2.804 std_dev=1.986
O4' A 0, 0.454, 2.734, 5.014, 5.548 max_d=5.548 avg_d=2.734 std_dev=2.280
C5' B 0, 1.011, 3.319, 5.627, 9.346 max_d=9.346 avg_d=3.319 std_dev=2.308
O5' B 0, 0.826, 3.211, 5.596, 9.966 max_d=9.966 avg_d=3.211 std_dev=2.385
OP2 B 0, 1.474, 3.997, 6.519, 12.519 max_d=12.519 avg_d=3.997 std_dev=2.522
O3' B 0, 1.179, 3.728, 6.276, 8.664 max_d=8.664 avg_d=3.728 std_dev=2.549
O4 A 0, 0.476, 3.181, 5.887, 7.283 max_d=7.283 avg_d=3.181 std_dev=2.706
C3' A 0, 0.851, 3.603, 6.355, 7.440 max_d=7.440 avg_d=3.603 std_dev=2.752
O5' A 0, 1.104, 3.863, 6.622, 8.224 max_d=8.224 avg_d=3.863 std_dev=2.759
P B 0, 1.030, 3.808, 6.586, 12.702 max_d=12.702 avg_d=3.808 std_dev=2.778
C4' A 0, 0.690, 3.737, 6.783, 7.624 max_d=7.624 avg_d=3.737 std_dev=3.046
P A 0, 1.160, 4.300, 7.440, 10.533 max_d=10.533 avg_d=4.300 std_dev=3.140
OP2 A 0, 1.263, 4.479, 7.695, 11.636 max_d=11.636 avg_d=4.479 std_dev=3.216
OP1 B 0, 1.939, 5.161, 8.383, 14.836 max_d=14.836 avg_d=5.161 std_dev=3.222
O3' A 0, 1.079, 4.528, 7.976, 9.617 max_d=9.617 avg_d=4.528 std_dev=3.448
C5' A 0, 0.821, 4.442, 8.063, 8.950 max_d=8.950 avg_d=4.442 std_dev=3.621
OP1 A 0, 1.425, 5.340, 9.255, 11.749 max_d=11.749 avg_d=5.340 std_dev=3.915

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.03 0.01 0.02 0.02 0.01 0.02 0.11 0.02 0.01 0.02 0.05 0.02 0.36 0.03 0.01 0.37 0.62 0.53 0.42
C2 0.03 0.00 0.26 0.32 0.01 0.09 0.01 0.18 0.01 0.01 0.01 0.01 0.20 0.19 0.02 0.18 0.57 0.95 1.02 0.68
C2' 0.01 0.26 0.00 0.01 0.06 0.02 0.18 0.25 0.23 0.03 0.19 0.45 0.01 0.04 0.07 0.02 0.54 0.61 0.49 0.54
C3' 0.02 0.32 0.01 0.00 0.42 0.01 0.39 0.03 0.32 0.25 0.40 0.30 0.02 0.01 0.45 0.02 0.24 0.31 0.28 0.19
C4 0.02 0.01 0.06 0.42 0.00 0.15 0.01 0.20 0.01 0.01 0.01 0.02 0.38 0.21 0.01 0.04 0.75 1.12 1.42 0.87
C4' 0.01 0.09 0.02 0.01 0.15 0.00 0.21 0.01 0.22 0.09 0.10 0.17 0.34 0.03 0.15 0.01 0.02 0.20 0.22 0.11
C5 0.02 0.01 0.18 0.39 0.01 0.21 0.00 0.28 0.00 0.01 0.01 0.02 0.48 0.24 0.01 0.13 0.81 1.09 1.42 0.92
C5' 0.11 0.18 0.25 0.03 0.20 0.01 0.28 0.00 0.27 0.13 0.18 0.28 0.11 0.26 0.22 0.02 0.01 0.21 0.31 0.02
C6 0.02 0.01 0.23 0.32 0.01 0.22 0.00 0.27 0.00 0.01 0.01 0.02 0.45 0.17 0.01 0.19 0.74 0.95 1.13 0.79
N1 0.01 0.01 0.03 0.25 0.01 0.09 0.01 0.13 0.01 0.00 0.01 0.02 0.23 0.13 0.02 0.02 0.56 0.84 0.88 0.62
N3 0.02 0.01 0.19 0.40 0.01 0.10 0.01 0.18 0.01 0.01 0.00 0.01 0.27 0.16 0.01 0.14 0.66 1.07 1.25 0.78
O2 0.05 0.01 0.45 0.30 0.02 0.17 0.02 0.28 0.02 0.02 0.01 0.00 0.34 0.33 0.02 0.30 0.54 0.94 0.97 0.68
O2' 0.02 0.20 0.01 0.02 0.38 0.34 0.48 0.11 0.45 0.23 0.27 0.34 0.00 0.07 0.41 0.24 0.41 0.46 0.48 0.45
O3' 0.36 0.19 0.04 0.01 0.21 0.03 0.24 0.26 0.17 0.13 0.16 0.33 0.07 0.00 0.25 0.26 0.31 0.58 0.41 0.36
O4 0.03 0.02 0.07 0.45 0.01 0.15 0.01 0.22 0.01 0.02 0.01 0.02 0.41 0.25 0.00 0.05 0.79 1.18 1.56 0.93
O4' 0.01 0.18 0.02 0.02 0.04 0.01 0.13 0.02 0.19 0.02 0.14 0.30 0.24 0.26 0.05 0.00 0.32 0.52 0.55 0.42
O5' 0.37 0.57 0.54 0.24 0.75 0.02 0.81 0.01 0.74 0.56 0.66 0.54 0.41 0.31 0.79 0.32 0.00 0.02 0.02 0.01
OP1 0.62 0.95 0.61 0.31 1.12 0.20 1.09 0.21 0.95 0.84 1.07 0.94 0.46 0.58 1.18 0.52 0.02 0.00 0.01 0.01
OP2 0.53 1.02 0.49 0.28 1.42 0.22 1.42 0.31 1.13 0.88 1.25 0.97 0.48 0.41 1.56 0.55 0.02 0.01 0.00 0.01
P 0.42 0.68 0.54 0.19 0.87 0.11 0.92 0.02 0.79 0.62 0.78 0.68 0.45 0.36 0.93 0.42 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' 0.72 1.43 0.74 0.58 1.61 0.54 1.39 0.75 1.15 1.11 1.65 1.76 1.48 0.71 0.66 0.62 0.85 1.19 1.11 1.04
C2 0.88 2.18 0.79 0.72 2.75 0.63 2.33 0.85 1.81 1.65 2.72 3.09 2.04 0.69 0.80 0.67 1.07 1.34 1.55 1.26
C2' 0.90 1.07 0.94 0.72 1.14 0.87 1.03 0.95 0.93 0.92 1.18 1.25 1.17 1.19 0.78 0.92 0.95 1.18 1.01 1.10
C3' 0.65 0.92 0.65 0.39 1.10 0.54 1.06 0.74 0.92 0.81 1.05 1.20 0.96 0.78 0.43 0.66 0.85 1.14 1.08 1.05
C4 0.86 2.41 0.72 0.85 3.40 0.80 2.96 1.03 2.25 1.89 3.18 3.85 2.04 0.70 0.96 0.68 1.34 1.56 2.06 1.57
C4' 0.62 0.84 0.67 0.51 0.96 0.51 0.94 0.67 0.82 0.73 0.93 1.05 0.93 0.83 0.66 0.61 0.75 1.12 1.01 0.96
C5 0.76 2.08 0.67 0.83 2.79 0.76 2.50 0.95 1.96 1.67 2.63 3.07 1.77 0.73 0.96 0.62 1.23 1.42 1.84 1.41
C5' 0.64 0.64 0.75 0.63 0.75 0.56 0.79 0.56 0.69 0.60 0.68 0.83 0.74 1.02 0.88 0.60 0.61 0.93 0.89 0.76
C6 0.69 1.74 0.65 0.71 2.16 0.59 1.91 0.77 1.54 1.38 2.10 2.35 1.58 0.69 0.85 0.54 0.99 1.20 1.43 1.14
N1 0.76 1.81 0.73 0.67 2.19 0.56 1.88 0.77 1.51 1.39 2.18 2.41 1.72 0.66 0.77 0.59 0.95 1.22 1.34 1.12
N3 0.91 2.43 0.77 0.80 3.29 0.72 2.79 0.95 2.13 1.86 3.16 3.74 2.15 0.68 0.89 0.69 1.23 1.48 1.86 1.45
O2 0.94 2.18 0.84 0.70 2.70 0.63 2.26 0.85 1.76 1.64 2.71 3.07 2.10 0.73 0.76 0.72 1.04 1.36 1.49 1.25
O2' 1.16 1.38 1.11 0.82 1.34 1.02 1.21 1.11 1.14 1.20 1.44 1.41 1.53 1.31 0.76 1.13 1.11 1.37 1.15 1.27
O3' 0.70 1.00 0.60 0.40 1.20 0.67 1.17 0.96 1.03 0.88 1.15 1.32 1.03 0.70 0.38 0.77 1.06 1.44 1.31 1.32
O4 0.89 2.55 0.73 0.90 3.84 0.90 3.36 1.16 2.49 2.01 3.48 4.46 2.10 0.73 1.00 0.75 1.50 1.75 2.38 1.78
O4' 1.09 1.52 1.08 0.88 1.57 0.79 1.44 0.89 1.29 1.31 1.61 1.64 1.60 1.02 0.85 0.96 0.99 1.27 1.20 1.12
O5' 0.56 0.60 0.83 0.77 0.69 0.48 0.70 0.42 0.60 0.54 0.64 0.77 0.68 0.96 1.03 0.40 0.53 0.81 0.75 0.62
OP1 0.80 0.70 0.85 0.93 0.63 0.82 0.63 0.78 0.61 0.66 0.65 0.68 0.83 0.96 1.23 0.77 0.71 0.97 0.86 0.77
OP2 0.58 0.61 0.87 1.03 0.80 0.79 0.87 0.90 0.77 0.61 0.69 0.90 0.63 0.90 1.20 0.56 1.01 1.20 1.19 1.07
P 0.60 0.46 0.86 1.02 0.49 0.76 0.55 0.73 0.51 0.47 0.44 0.56 0.57 0.93 1.32 0.55 0.72 0.92 0.80 0.74

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.03 0.01 0.02 0.02 0.01 0.02 0.06 0.02 0.01 0.02 0.02 0.05 0.03 0.15 0.01 0.20 0.35 0.39 0.23
C2 0.03 0.00 0.14 0.17 0.01 0.08 0.01 0.17 0.01 0.01 0.01 0.02 0.01 0.16 0.15 0.10 0.37 0.72 0.67 0.41
C2' 0.01 0.14 0.00 0.01 0.07 0.02 0.14 0.12 0.16 0.03 0.10 0.09 0.26 0.01 0.03 0.01 0.28 0.37 0.42 0.31
C3' 0.02 0.17 0.01 0.00 0.22 0.01 0.25 0.02 0.24 0.13 0.19 0.23 0.22 0.02 0.01 0.02 0.24 0.33 0.23 0.22
C4 0.02 0.01 0.07 0.22 0.00 0.10 0.01 0.20 0.01 0.01 0.01 0.00 0.02 0.21 0.18 0.04 0.53 1.04 0.97 0.60
C4' 0.01 0.08 0.02 0.01 0.10 0.00 0.16 0.01 0.17 0.06 0.08 0.11 0.16 0.18 0.03 0.01 0.02 0.25 0.30 0.08
C5 0.02 0.01 0.14 0.25 0.01 0.16 0.00 0.27 0.00 0.01 0.01 0.01 0.02 0.25 0.24 0.10 0.60 1.07 1.01 0.68
C5' 0.06 0.17 0.12 0.02 0.20 0.01 0.27 0.00 0.26 0.12 0.18 0.22 0.28 0.08 0.12 0.02 0.01 0.33 0.41 0.02
C6 0.02 0.01 0.16 0.24 0.01 0.17 0.00 0.26 0.00 0.00 0.01 0.01 0.01 0.23 0.21 0.12 0.55 0.84 0.80 0.57
N1 0.01 0.01 0.03 0.13 0.01 0.06 0.01 0.12 0.00 0.00 0.01 0.01 0.02 0.11 0.09 0.02 0.36 0.62 0.60 0.38
N3 0.02 0.01 0.10 0.19 0.01 0.08 0.01 0.18 0.01 0.01 0.00 0.01 0.01 0.18 0.16 0.07 0.44 0.90 0.83 0.50
N4 0.02 0.02 0.09 0.23 0.00 0.11 0.01 0.22 0.01 0.01 0.01 0.00 0.02 0.23 0.21 0.04 0.56 1.16 1.08 0.67
O2 0.05 0.01 0.26 0.22 0.02 0.16 0.02 0.28 0.01 0.02 0.01 0.02 0.00 0.27 0.27 0.18 0.37 0.66 0.63 0.42
O2' 0.03 0.16 0.01 0.02 0.21 0.18 0.25 0.08 0.23 0.11 0.18 0.23 0.27 0.00 0.07 0.13 0.19 0.34 0.44 0.26
O3' 0.15 0.15 0.03 0.01 0.18 0.03 0.24 0.12 0.21 0.09 0.16 0.21 0.27 0.07 0.00 0.11 0.25 0.50 0.34 0.29
O4' 0.01 0.10 0.01 0.02 0.04 0.01 0.10 0.02 0.12 0.02 0.07 0.04 0.18 0.13 0.11 0.00 0.17 0.27 0.36 0.22
O5' 0.20 0.37 0.28 0.24 0.53 0.02 0.60 0.01 0.55 0.36 0.44 0.56 0.37 0.19 0.25 0.17 0.00 0.02 0.02 0.01
OP1 0.35 0.72 0.37 0.33 1.04 0.25 1.07 0.33 0.84 0.62 0.90 1.16 0.66 0.34 0.50 0.27 0.02 0.00 0.02 0.01
OP2 0.39 0.67 0.42 0.23 0.97 0.30 1.01 0.41 0.80 0.60 0.83 1.08 0.63 0.44 0.34 0.36 0.02 0.02 0.00 0.01
P 0.23 0.41 0.31 0.22 0.60 0.08 0.68 0.02 0.57 0.38 0.50 0.67 0.42 0.26 0.29 0.22 0.01 0.01 0.01 0.00