ClaRNA

Doublet Group distance statistics: 52441

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C6 A 0, 0.008, 0.014, 0.021, 0.028 max_d=0.028 avg_d=0.014 std_dev=0.007
C1' A 0, 0.011, 0.018, 0.026, 0.028 max_d=0.028 avg_d=0.018 std_dev=0.008
N1 A 0, 0.009, 0.018, 0.026, 0.029 max_d=0.029 avg_d=0.018 std_dev=0.009
C5 A 0, 0.007, 0.016, 0.025, 0.031 max_d=0.031 avg_d=0.016 std_dev=0.009
C4 A 0, 0.013, 0.022, 0.030, 0.035 max_d=0.035 avg_d=0.022 std_dev=0.009
N3 A 0, 0.011, 0.021, 0.031, 0.034 max_d=0.034 avg_d=0.021 std_dev=0.010
N9 A 0, 0.012, 0.022, 0.032, 0.032 max_d=0.032 avg_d=0.022 std_dev=0.010
C2 A 0, 0.005, 0.015, 0.026, 0.032 max_d=0.032 avg_d=0.015 std_dev=0.011
C8 A 0, 0.024, 0.039, 0.055, 0.061 max_d=0.061 avg_d=0.039 std_dev=0.015
N7 A 0, 0.017, 0.033, 0.050, 0.060 max_d=0.060 avg_d=0.033 std_dev=0.016
N6 A 0, 0.022, 0.044, 0.066, 0.081 max_d=0.081 avg_d=0.044 std_dev=0.022
C2' A 0, 0.042, 0.409, 0.775, 1.100 max_d=1.100 avg_d=0.409 std_dev=0.366
O5' A 0, 0.517, 0.894, 1.272, 1.497 max_d=1.497 avg_d=0.894 std_dev=0.377
O4' A 0, -0.027, 0.359, 0.745, 1.103 max_d=1.103 avg_d=0.359 std_dev=0.386
O2' B 0, 0.296, 0.686, 1.076, 1.532 max_d=1.532 avg_d=0.686 std_dev=0.390
C2' B 0, 0.255, 0.797, 1.338, 1.781 max_d=1.781 avg_d=0.797 std_dev=0.542
C4' A 0, 0.159, 0.789, 1.420, 1.956 max_d=1.956 avg_d=0.789 std_dev=0.630
O2' A 0, 0.424, 1.113, 1.802, 2.007 max_d=2.007 avg_d=1.113 std_dev=0.689
C3' A 0, 0.307, 1.004, 1.701, 1.916 max_d=1.916 avg_d=1.004 std_dev=0.697
C5' A 0, 0.211, 1.012, 1.813, 2.520 max_d=2.520 avg_d=1.012 std_dev=0.801
P A 0, 0.481, 1.325, 2.169, 2.984 max_d=2.984 avg_d=1.325 std_dev=0.844
OP1 A 0, 0.749, 1.675, 2.602, 3.381 max_d=3.381 avg_d=1.675 std_dev=0.926
C8 B 0, 0.963, 1.920, 2.876, 3.138 max_d=3.138 avg_d=1.920 std_dev=0.956
O3' B 0, 0.159, 1.187, 2.215, 3.281 max_d=3.281 avg_d=1.187 std_dev=1.028
OP2 A 0, 0.733, 1.885, 3.037, 4.006 max_d=4.006 avg_d=1.885 std_dev=1.152
O3' A 0, 0.659, 1.866, 3.073, 2.963 max_d=2.963 avg_d=1.866 std_dev=1.207
C3' B 0, 0.246, 1.461, 2.676, 3.700 max_d=3.700 avg_d=1.461 std_dev=1.215
C1' B 0, 0.603, 1.830, 3.056, 3.592 max_d=3.592 avg_d=1.830 std_dev=1.226
N9 B 0, 0.979, 2.218, 3.457, 4.002 max_d=4.002 avg_d=2.218 std_dev=1.239
N7 B 0, 1.268, 2.607, 3.946, 4.135 max_d=4.135 avg_d=2.607 std_dev=1.339
C5 B 0, 1.927, 3.767, 5.608, 6.185 max_d=6.185 avg_d=3.767 std_dev=1.840
C4 B 0, 1.791, 3.664, 5.538, 6.008 max_d=6.008 avg_d=3.664 std_dev=1.874
C4' B 0, 0.643, 2.637, 4.631, 5.735 max_d=5.735 avg_d=2.637 std_dev=1.994
O5' B 0, 1.473, 3.501, 5.529, 5.980 max_d=5.980 avg_d=3.501 std_dev=2.028
O4' B 0, 0.392, 2.438, 4.484, 5.405 max_d=5.405 avg_d=2.438 std_dev=2.046
OP2 B 0, 2.601, 5.022, 7.443, 8.490 max_d=8.490 avg_d=5.022 std_dev=2.421
C5' B 0, 1.270, 3.703, 6.136, 7.279 max_d=7.279 avg_d=3.703 std_dev=2.433
C6 B 0, 2.730, 5.270, 7.809, 8.421 max_d=8.421 avg_d=5.270 std_dev=2.539
N3 B 0, 2.322, 4.945, 7.569, 7.719 max_d=7.719 avg_d=4.945 std_dev=2.624
N6 B 0, 2.961, 5.606, 8.250, 8.920 max_d=8.920 avg_d=5.606 std_dev=2.645
P B 0, 2.189, 4.876, 7.563, 7.913 max_d=7.913 avg_d=4.876 std_dev=2.687
N1 B 0, 3.257, 6.527, 9.798, 10.179 max_d=10.179 avg_d=6.527 std_dev=3.271
C2 B 0, 3.013, 6.303, 9.594, 9.715 max_d=9.715 avg_d=6.303 std_dev=3.290
OP1 B 0, 1.942, 5.272, 8.602, 9.038 max_d=9.038 avg_d=5.272 std_dev=3.330

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 0.03 0.00 0.01 0.02 0.01 0.01 0.11 0.01 0.01 0.02 0.03 0.02 0.01 0.00 0.03 0.31 0.01 0.31 0.26 0.40 0.23
C2 0.03 0.00 0.22 0.36 0.01 0.13 0.01 0.26 0.01 0.02 0.00 0.00 0.01 0.01 0.02 0.33 0.41 0.06 0.46 0.42 0.78 0.46
C2' 0.00 0.22 0.00 0.00 0.12 0.01 0.07 0.25 0.12 0.09 0.18 0.23 0.09 0.05 0.02 0.00 0.02 0.01 0.64 0.71 0.70 0.63
C3' 0.01 0.36 0.00 0.00 0.30 0.00 0.34 0.04 0.39 0.28 0.39 0.32 0.41 0.33 0.21 0.02 0.01 0.02 0.36 0.48 0.16 0.27
C4 0.02 0.01 0.12 0.30 0.00 0.11 0.00 0.24 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.28 0.23 0.02 0.44 0.36 0.67 0.40
C4' 0.01 0.13 0.01 0.00 0.11 0.00 0.14 0.01 0.17 0.09 0.16 0.11 0.19 0.13 0.07 0.29 0.04 0.00 0.02 0.17 0.29 0.03
C5 0.01 0.01 0.07 0.34 0.00 0.14 0.00 0.30 0.01 0.01 0.01 0.00 0.02 0.00 0.00 0.32 0.20 0.02 0.45 0.40 0.73 0.45
C5' 0.11 0.26 0.25 0.04 0.24 0.01 0.30 0.00 0.33 0.27 0.31 0.21 0.37 0.31 0.20 0.06 0.24 0.01 0.01 0.25 0.39 0.01
C6 0.01 0.01 0.12 0.39 0.01 0.17 0.01 0.33 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.37 0.28 0.02 0.47 0.44 0.81 0.49
C8 0.01 0.02 0.09 0.28 0.01 0.09 0.01 0.27 0.01 0.00 0.01 0.02 0.02 0.00 0.01 0.22 0.10 0.05 0.41 0.33 0.53 0.36
N1 0.02 0.00 0.18 0.39 0.01 0.16 0.01 0.31 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.37 0.36 0.04 0.47 0.44 0.83 0.49
N3 0.03 0.00 0.23 0.32 0.01 0.11 0.00 0.21 0.01 0.02 0.01 0.00 0.01 0.01 0.02 0.28 0.38 0.06 0.44 0.38 0.70 0.41
N6 0.02 0.01 0.09 0.41 0.01 0.19 0.02 0.37 0.00 0.02 0.01 0.01 0.00 0.03 0.02 0.39 0.29 0.03 0.46 0.47 0.84 0.52
N7 0.01 0.01 0.05 0.33 0.01 0.13 0.00 0.31 0.01 0.00 0.01 0.01 0.03 0.00 0.01 0.29 0.16 0.04 0.43 0.39 0.66 0.43
N9 0.00 0.02 0.02 0.21 0.01 0.07 0.00 0.20 0.01 0.01 0.01 0.02 0.02 0.01 0.00 0.19 0.11 0.01 0.40 0.31 0.53 0.33
O2' 0.03 0.33 0.00 0.02 0.28 0.29 0.32 0.06 0.37 0.22 0.37 0.28 0.39 0.29 0.19 0.00 0.06 0.19 0.44 0.54 0.77 0.52
O3' 0.31 0.41 0.02 0.01 0.23 0.04 0.20 0.24 0.28 0.10 0.36 0.38 0.29 0.16 0.11 0.06 0.00 0.25 0.37 0.52 0.37 0.36
O4' 0.01 0.06 0.01 0.02 0.02 0.00 0.02 0.01 0.02 0.05 0.04 0.06 0.03 0.04 0.01 0.19 0.25 0.00 0.11 0.18 0.31 0.16
O5' 0.31 0.46 0.64 0.36 0.44 0.02 0.45 0.01 0.47 0.41 0.47 0.44 0.46 0.43 0.40 0.44 0.37 0.11 0.00 0.03 0.01 0.01
OP1 0.26 0.42 0.71 0.48 0.36 0.17 0.40 0.25 0.44 0.33 0.44 0.38 0.47 0.39 0.31 0.54 0.52 0.18 0.03 0.00 0.01 0.01
OP2 0.40 0.78 0.70 0.16 0.67 0.29 0.73 0.39 0.81 0.53 0.83 0.70 0.84 0.66 0.53 0.77 0.37 0.31 0.01 0.01 0.00 0.01
P 0.23 0.46 0.63 0.27 0.40 0.03 0.45 0.01 0.49 0.36 0.49 0.41 0.52 0.43 0.33 0.52 0.36 0.16 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' 0.75 2.11 0.28 0.21 1.44 0.22 1.41 0.27 1.70 0.86 2.02 1.85 1.66 1.08 0.99 0.35 0.10 0.62 0.55 0.57 1.12 0.58
C2 0.91 3.56 0.26 0.36 2.23 0.14 2.35 0.69 3.08 1.23 3.67 2.85 3.15 1.74 1.39 0.32 0.20 0.69 1.00 0.95 2.02 1.32
C2' 0.61 1.83 0.27 0.53 1.22 0.38 1.26 0.60 1.56 0.83 1.83 1.53 1.57 1.02 0.84 0.40 0.42 0.47 0.79 0.47 1.39 0.76
C3' 0.68 1.37 0.43 0.28 0.99 0.37 1.00 0.34 1.18 0.73 1.35 1.19 1.17 0.83 0.78 0.62 0.24 0.58 0.64 0.65 1.03 0.47
C4 0.85 3.05 0.26 0.35 1.99 0.12 2.03 0.60 2.55 1.10 3.02 2.55 2.52 1.51 1.27 0.33 0.19 0.61 0.91 0.75 1.78 1.13
C4' 0.62 1.07 0.31 0.22 0.78 0.36 0.74 0.32 0.86 0.59 1.01 0.97 0.84 0.63 0.63 0.47 0.13 0.56 0.49 0.72 0.79 0.36
C5 0.82 3.16 0.27 0.42 2.10 0.19 2.19 0.79 2.75 1.14 3.19 2.64 2.73 1.62 1.30 0.33 0.25 0.51 1.07 1.04 2.06 1.41
C5' 0.59 0.57 0.37 0.34 0.42 0.43 0.37 0.40 0.39 0.46 0.51 0.53 0.36 0.38 0.46 0.57 0.28 0.57 0.57 0.70 0.84 0.46
C6 0.86 3.54 0.27 0.44 2.27 0.22 2.44 0.90 3.18 1.22 3.68 2.87 3.26 1.80 1.38 0.33 0.27 0.53 1.17 1.29 2.30 1.62
C8 0.69 2.19 0.27 0.39 1.57 0.17 1.54 0.60 1.82 0.89 2.12 1.97 1.75 1.16 1.03 0.33 0.24 0.41 0.86 0.67 1.59 1.02
N1 0.91 3.69 0.27 0.41 2.31 0.17 2.49 0.83 3.28 1.26 3.86 2.94 3.41 1.83 1.41 0.33 0.24 0.63 1.12 1.21 2.25 1.54
N3 0.89 3.26 0.26 0.33 2.07 0.14 2.13 0.57 2.73 1.15 3.28 2.66 2.74 1.58 1.31 0.32 0.17 0.69 0.88 0.73 1.78 1.10
N6 0.85 3.64 0.29 0.47 2.31 0.30 2.53 1.03 3.32 1.23 3.79 2.94 3.49 1.88 1.38 0.35 0.31 0.47 1.29 1.60 2.54 1.85
N7 0.73 2.67 0.28 0.46 1.86 0.26 1.90 0.83 2.29 1.03 2.62 2.34 2.23 1.43 1.17 0.33 0.29 0.38 1.08 1.02 1.99 1.39
N9 0.78 2.47 0.27 0.31 1.69 0.12 1.66 0.46 2.02 0.96 2.39 2.16 1.96 1.25 1.11 0.34 0.16 0.57 0.76 0.57 1.48 0.88
O2' 0.67 2.11 0.26 0.45 1.36 0.30 1.39 0.56 1.75 0.84 2.09 1.76 1.77 1.07 0.91 0.39 0.26 0.50 0.69 0.64 1.36 0.75
O3' 0.65 1.18 0.43 0.33 0.82 0.45 0.81 0.39 0.97 0.63 1.15 1.02 0.96 0.68 0.67 0.61 0.35 0.61 0.65 0.79 1.00 0.49
O4' 0.75 1.55 0.30 0.12 1.13 0.41 1.06 0.25 1.23 0.73 1.44 1.43 1.18 0.85 0.85 0.37 0.21 0.69 0.43 0.69 0.79 0.36
O5' 0.45 0.57 0.31 0.15 0.45 0.14 0.44 0.16 0.49 0.42 0.55 0.53 0.47 0.42 0.42 0.54 0.01 0.30 0.34 0.77 0.65 0.22
OP1 0.28 0.42 0.11 0.10 0.19 0.15 0.23 0.45 0.24 0.35 0.29 0.42 0.32 0.40 0.11 0.27 0.02 0.27 0.36 1.27 0.41 0.60
OP2 0.22 0.95 0.42 0.03 0.78 0.30 0.91 0.31 1.03 0.69 1.05 0.80 1.09 0.86 0.58 0.58 0.02 0.13 0.51 0.73 1.06 0.55
P 0.19 0.28 0.21 0.01 0.19 0.12 0.31 0.18 0.33 0.35 0.31 0.22 0.40 0.40 0.17 0.38 0.01 0.17 0.29 0.87 0.55 0.30

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.03 0.01 0.02 0.02 0.01 0.01 0.10 0.01 0.02 0.03 0.04 0.02 0.02 0.00 0.02 0.31 0.00 0.30 0.31 0.28 0.24
C2 0.03 0.00 0.36 0.26 0.01 0.12 0.02 0.14 0.01 0.02 0.00 0.01 0.01 0.03 0.01 0.26 0.34 0.25 0.50 0.76 0.74 0.53
C2' 0.01 0.36 0.00 0.00 0.17 0.02 0.08 0.22 0.15 0.22 0.27 0.36 0.11 0.14 0.03 0.01 0.02 0.02 0.60 0.26 0.82 0.49
C3' 0.02 0.26 0.00 0.00 0.23 0.01 0.29 0.02 0.30 0.32 0.28 0.24 0.32 0.33 0.20 0.02 0.01 0.01 0.35 0.48 0.54 0.20
C4 0.02 0.01 0.17 0.23 0.00 0.03 0.01 0.17 0.01 0.01 0.02 0.00 0.01 0.01 0.00 0.17 0.19 0.13 0.49 0.73 0.68 0.53
C4' 0.01 0.12 0.02 0.01 0.03 0.00 0.12 0.00 0.08 0.27 0.05 0.13 0.14 0.24 0.10 0.29 0.03 0.00 0.01 0.49 0.24 0.24
C5 0.01 0.02 0.08 0.29 0.01 0.12 0.00 0.28 0.01 0.01 0.01 0.01 0.02 0.01 0.00 0.29 0.09 0.06 0.58 1.00 0.89 0.74
C5' 0.10 0.14 0.22 0.02 0.17 0.00 0.28 0.00 0.26 0.38 0.18 0.13 0.33 0.40 0.19 0.11 0.21 0.02 0.01 0.28 0.41 0.01
C6 0.01 0.01 0.15 0.30 0.01 0.08 0.01 0.26 0.00 0.02 0.00 0.01 0.00 0.02 0.01 0.27 0.11 0.10 0.60 1.09 0.99 0.79
C8 0.02 0.02 0.22 0.32 0.01 0.27 0.01 0.38 0.02 0.00 0.01 0.01 0.03 0.00 0.01 0.42 0.21 0.17 0.54 0.86 0.73 0.68
N1 0.03 0.00 0.27 0.28 0.02 0.05 0.01 0.18 0.00 0.01 0.00 0.01 0.01 0.02 0.01 0.23 0.23 0.18 0.56 0.95 0.90 0.67
N3 0.04 0.01 0.36 0.24 0.00 0.13 0.01 0.13 0.01 0.01 0.01 0.00 0.01 0.02 0.00 0.26 0.36 0.25 0.46 0.61 0.61 0.43
N6 0.02 0.01 0.11 0.32 0.01 0.14 0.02 0.33 0.00 0.03 0.01 0.01 0.00 0.04 0.02 0.34 0.09 0.08 0.66 1.29 1.13 0.93
N7 0.02 0.03 0.14 0.33 0.01 0.24 0.01 0.40 0.02 0.00 0.02 0.02 0.04 0.00 0.01 0.43 0.19 0.10 0.61 1.11 0.95 0.84
N9 0.00 0.01 0.03 0.20 0.00 0.10 0.00 0.19 0.01 0.01 0.01 0.00 0.02 0.01 0.00 0.21 0.14 0.01 0.44 0.59 0.54 0.46
O2' 0.02 0.26 0.01 0.02 0.17 0.29 0.29 0.11 0.27 0.42 0.23 0.26 0.34 0.43 0.21 0.00 0.06 0.21 0.34 0.43 0.61 0.30
O3' 0.31 0.34 0.02 0.01 0.19 0.03 0.09 0.21 0.11 0.21 0.23 0.36 0.09 0.19 0.14 0.06 0.00 0.22 0.28 0.88 0.36 0.34
O4' 0.00 0.25 0.02 0.01 0.13 0.00 0.06 0.02 0.10 0.17 0.18 0.25 0.08 0.10 0.01 0.21 0.22 0.00 0.18 0.40 0.19 0.33
O5' 0.30 0.50 0.60 0.35 0.49 0.01 0.58 0.01 0.60 0.54 0.56 0.46 0.66 0.61 0.44 0.34 0.28 0.18 0.00 0.02 0.01 0.00
OP1 0.31 0.76 0.26 0.48 0.73 0.49 1.00 0.28 1.09 0.86 0.95 0.61 1.29 1.11 0.59 0.43 0.88 0.40 0.02 0.00 0.02 0.01
OP2 0.28 0.74 0.82 0.54 0.68 0.24 0.89 0.41 0.99 0.73 0.90 0.61 1.13 0.95 0.54 0.61 0.36 0.19 0.01 0.02 0.00 0.00
P 0.24 0.53 0.49 0.20 0.53 0.24 0.74 0.01 0.79 0.68 0.67 0.43 0.93 0.84 0.46 0.30 0.34 0.33 0.00 0.01 0.00 0.00