ClaRNA

Doublet Group distance statistics: 48834

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N3 A 0, 0.002, 0.011, 0.021, 0.031 max_d=0.031 avg_d=0.011 std_dev=0.010
C5 A 0, -0.001, 0.017, 0.035, 0.058 max_d=0.058 avg_d=0.017 std_dev=0.018
C6 A 0, 0.007, 0.027, 0.046, 0.055 max_d=0.055 avg_d=0.027 std_dev=0.020
C1' A 0, 0.006, 0.028, 0.050, 0.062 max_d=0.062 avg_d=0.028 std_dev=0.022
N1 A 0, 0.002, 0.026, 0.051, 0.074 max_d=0.074 avg_d=0.026 std_dev=0.024
C4 A 0, 0.005, 0.030, 0.054, 0.074 max_d=0.074 avg_d=0.030 std_dev=0.024
C2 A 0, 0.004, 0.031, 0.057, 0.084 max_d=0.084 avg_d=0.031 std_dev=0.027
O2 A 0, 0.015, 0.062, 0.110, 0.145 max_d=0.145 avg_d=0.062 std_dev=0.047
O4 A 0, 0.042, 0.129, 0.216, 0.238 max_d=0.238 avg_d=0.129 std_dev=0.087
P B 0, 0.167, 0.541, 0.914, 1.105 max_d=1.105 avg_d=0.541 std_dev=0.373
OP2 B 0, 0.285, 0.903, 1.520, 1.615 max_d=1.615 avg_d=0.903 std_dev=0.618
OP1 B 0, 0.066, 0.736, 1.406, 1.878 max_d=1.878 avg_d=0.736 std_dev=0.670
O3' A 0, 0.506, 1.625, 2.745, 2.567 max_d=2.567 avg_d=1.625 std_dev=1.120
O4' A 0, 0.419, 1.584, 2.749, 2.561 max_d=2.561 avg_d=1.584 std_dev=1.165
C2' A 0, 0.422, 1.611, 2.801, 2.561 max_d=2.561 avg_d=1.611 std_dev=1.190
C3' A 0, 0.523, 1.908, 3.292, 3.043 max_d=3.043 avg_d=1.908 std_dev=1.384
C4' A 0, 0.549, 2.051, 3.553, 3.318 max_d=3.318 avg_d=2.051 std_dev=1.502
O5' B 0, 0.608, 2.242, 3.876, 3.657 max_d=3.657 avg_d=2.242 std_dev=1.634
C5 B 0, -0.304, 1.458, 3.220, 4.494 max_d=4.494 avg_d=1.458 std_dev=1.762
C6 B 0, 0.463, 2.236, 4.010, 4.887 max_d=4.887 avg_d=2.236 std_dev=1.773
O2' A 0, 0.623, 2.438, 4.253, 3.964 max_d=3.964 avg_d=2.438 std_dev=1.815
OP1 A 0, 0.846, 3.034, 5.222, 5.217 max_d=5.217 avg_d=3.034 std_dev=2.188
O4 B 0, 0.104, 2.323, 4.542, 6.022 max_d=6.022 avg_d=2.323 std_dev=2.219
C4 B 0, -0.335, 1.946, 4.226, 5.866 max_d=5.866 avg_d=1.946 std_dev=2.281
C5' B 0, 0.953, 3.270, 5.587, 5.122 max_d=5.122 avg_d=3.270 std_dev=2.317
C5' A 0, 0.924, 3.521, 6.119, 5.798 max_d=5.798 avg_d=3.521 std_dev=2.598
N1 B 0, 1.010, 3.636, 6.262, 6.693 max_d=6.693 avg_d=3.636 std_dev=2.626
N3 B 0, 0.429, 3.194, 5.959, 7.477 max_d=7.477 avg_d=3.194 std_dev=2.765
O4' B 0, 1.188, 4.095, 7.002, 6.431 max_d=6.431 avg_d=4.095 std_dev=2.907
O5' A 0, 1.046, 3.986, 6.927, 6.539 max_d=6.539 avg_d=3.986 std_dev=2.940
C2 B 0, 1.048, 4.144, 7.240, 8.034 max_d=8.034 avg_d=4.144 std_dev=3.096
C4' B 0, 1.269, 4.413, 7.557, 7.150 max_d=7.150 avg_d=4.413 std_dev=3.144
P A 0, 1.116, 4.341, 7.566, 7.142 max_d=7.142 avg_d=4.341 std_dev=3.225
C1' B 0, 1.380, 4.698, 8.017, 7.432 max_d=7.432 avg_d=4.698 std_dev=3.319
C3' B 0, 1.479, 5.093, 8.706, 8.342 max_d=8.342 avg_d=5.093 std_dev=3.613
O2 B 0, 1.455, 5.387, 9.319, 9.673 max_d=9.673 avg_d=5.387 std_dev=3.932
C2' B 0, 1.642, 5.651, 9.659, 9.243 max_d=9.243 avg_d=5.651 std_dev=4.009
OP2 A 0, 1.484, 5.846, 10.208, 9.624 max_d=9.624 avg_d=5.846 std_dev=4.362
O3' B 0, 1.712, 6.235, 10.758, 10.728 max_d=10.728 avg_d=6.235 std_dev=4.523
O2' B 0, 1.942, 6.915, 11.888, 11.672 max_d=11.672 avg_d=6.915 std_dev=4.973

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 0.14 0.02 0.01 0.02 0.07 0.02 0.30 0.03 0.00 0.27 0.76 0.19 0.38
C2 0.03 0.00 0.13 0.48 0.03 0.35 0.04 0.42 0.02 0.01 0.01 0.01 0.36 0.11 0.02 0.22 0.15 0.82 0.35 0.68
C2' 0.01 0.13 0.00 0.01 0.05 0.05 0.16 0.29 0.18 0.03 0.08 0.27 0.01 0.02 0.05 0.02 0.50 0.31 0.38 0.32
C3' 0.02 0.48 0.01 0.00 0.18 0.01 0.11 0.01 0.19 0.11 0.41 0.78 0.03 0.01 0.21 0.03 0.30 0.33 0.28 0.29
C4 0.02 0.03 0.05 0.18 0.00 0.11 0.01 0.38 0.02 0.02 0.01 0.04 0.30 0.09 0.00 0.05 0.54 0.34 0.37 0.14
C4' 0.01 0.35 0.05 0.01 0.11 0.00 0.33 0.01 0.39 0.05 0.26 0.65 0.23 0.02 0.12 0.00 0.02 0.53 0.12 0.25
C5 0.02 0.04 0.16 0.11 0.01 0.33 0.00 0.74 0.00 0.03 0.01 0.05 0.19 0.27 0.01 0.20 1.01 0.29 0.85 0.44
C5' 0.14 0.42 0.29 0.01 0.38 0.01 0.74 0.00 0.79 0.25 0.36 0.86 0.16 0.22 0.39 0.01 0.01 0.27 0.18 0.02
C6 0.02 0.02 0.18 0.19 0.02 0.39 0.00 0.79 0.00 0.01 0.02 0.03 0.11 0.34 0.02 0.26 1.02 0.16 0.76 0.39
N1 0.01 0.01 0.03 0.11 0.02 0.05 0.03 0.25 0.01 0.00 0.01 0.03 0.17 0.17 0.02 0.01 0.41 0.58 0.17 0.26
N3 0.02 0.01 0.08 0.41 0.01 0.26 0.01 0.36 0.02 0.01 0.00 0.02 0.38 0.10 0.01 0.16 0.11 0.65 0.20 0.54
O2 0.07 0.01 0.27 0.78 0.04 0.65 0.05 0.86 0.03 0.03 0.02 0.00 0.45 0.32 0.03 0.38 0.57 1.08 0.77 1.07
O2' 0.02 0.36 0.01 0.03 0.30 0.23 0.19 0.16 0.11 0.17 0.38 0.45 0.00 0.06 0.33 0.14 0.34 0.49 0.33 0.37
O3' 0.30 0.11 0.02 0.01 0.09 0.02 0.27 0.22 0.34 0.17 0.10 0.32 0.06 0.00 0.07 0.26 0.19 0.39 0.21 0.28
O4 0.03 0.02 0.05 0.21 0.00 0.12 0.01 0.39 0.02 0.02 0.01 0.03 0.33 0.07 0.00 0.06 0.54 0.35 0.42 0.19
O4' 0.00 0.22 0.02 0.03 0.05 0.00 0.20 0.01 0.26 0.01 0.16 0.38 0.14 0.26 0.06 0.00 0.11 1.02 0.25 0.56
O5' 0.27 0.15 0.50 0.30 0.54 0.02 1.01 0.01 1.02 0.41 0.11 0.57 0.34 0.19 0.54 0.11 0.00 0.02 0.02 0.01
OP1 0.76 0.82 0.31 0.33 0.34 0.53 0.29 0.27 0.16 0.58 0.65 1.08 0.49 0.39 0.35 1.02 0.02 0.00 0.01 0.01
OP2 0.19 0.35 0.38 0.28 0.37 0.12 0.85 0.18 0.76 0.17 0.20 0.77 0.33 0.21 0.42 0.25 0.02 0.01 0.00 0.01
P 0.38 0.68 0.32 0.29 0.14 0.25 0.44 0.02 0.39 0.26 0.54 1.07 0.37 0.28 0.19 0.56 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 1.46 1.01 1.57 1.38 0.19 1.45 0.19 0.99 0.50 0.97 0.61 1.40 2.00 1.75 0.19 1.42 0.86 0.17 0.60 0.33
C2 1.11 0.70 1.15 1.05 0.30 1.17 0.37 0.83 0.43 0.72 0.41 0.97 1.44 1.38 0.40 1.16 0.88 0.16 0.60 0.37
C2' 1.57 1.07 1.77 1.57 0.22 1.56 0.32 1.05 0.58 1.05 0.62 1.50 2.25 2.07 0.30 1.53 0.94 0.41 0.71 0.56
C3' 2.16 1.68 2.13 1.75 0.94 1.94 0.99 1.35 1.28 1.67 1.27 2.07 2.66 2.08 0.77 2.12 1.45 0.86 0.97 1.13
C4 0.92 0.73 0.97 0.95 0.70 1.06 0.73 0.88 0.66 0.74 0.67 0.82 1.11 1.18 0.77 0.98 1.12 0.06 0.41 0.33
C4' 2.17 1.74 2.10 1.69 1.01 1.91 1.01 1.30 1.29 1.71 1.35 2.12 2.61 1.90 0.83 2.11 1.44 0.61 0.87 0.97
C5 0.98 0.72 1.09 1.05 0.63 1.12 0.67 0.88 0.61 0.73 0.61 0.88 1.29 1.34 0.72 1.01 1.11 0.07 0.45 0.34
C5' 2.57 2.18 2.41 1.90 1.60 2.16 1.59 1.47 1.80 2.16 1.86 2.50 2.91 1.99 1.48 2.47 1.76 0.83 1.26 1.32
C6 1.08 0.72 1.19 1.08 0.45 1.17 0.52 0.83 0.50 0.73 0.49 0.97 1.48 1.39 0.56 1.10 1.05 0.12 0.54 0.37
N1 1.19 0.77 1.27 1.13 0.28 1.23 0.36 0.85 0.44 0.77 0.44 1.07 1.61 1.47 0.39 1.20 0.93 0.15 0.59 0.36
N3 0.91 0.62 0.92 0.85 0.51 1.00 0.56 0.75 0.52 0.65 0.49 0.77 1.11 1.10 0.60 0.99 1.01 0.06 0.50 0.35
O2 1.26 0.81 1.33 1.26 0.17 1.33 0.23 0.98 0.44 0.82 0.46 1.13 1.65 1.64 0.24 1.30 0.70 0.22 0.66 0.36
O2' 1.57 1.26 2.06 2.00 0.82 1.67 0.68 1.22 0.65 1.11 0.99 1.67 2.50 2.61 0.98 1.38 0.52 0.29 1.03 0.27
O3' 2.08 1.65 2.16 1.80 0.69 1.84 0.66 1.22 1.04 1.56 1.19 2.13 2.74 2.22 0.41 1.96 1.01 0.53 0.72 0.74
O4 0.98 0.92 1.03 1.07 0.92 1.14 0.91 1.05 0.85 0.90 0.91 0.95 1.09 1.28 0.97 1.03 1.16 0.13 0.31 0.30
O4' 1.83 1.41 1.79 1.45 0.71 1.66 0.70 1.11 0.97 1.38 1.04 1.77 2.22 1.65 0.56 1.79 1.24 0.33 0.64 0.67
O5' 2.50 2.14 2.43 1.94 1.44 2.08 1.36 1.35 1.62 2.07 1.80 2.51 2.93 2.09 1.28 2.33 1.55 0.35 0.78 0.90
OP1 2.68 2.26 2.75 2.39 1.63 2.52 1.60 1.88 1.83 2.23 1.92 2.59 3.24 2.63 1.52 2.59 2.11 0.81 1.13 1.32
OP2 3.07 2.81 3.09 2.55 2.11 2.58 1.95 1.76 2.18 2.67 2.50 3.20 3.61 2.65 1.96 2.80 1.99 0.50 1.09 1.19
P 3.10 2.75 3.09 2.62 2.06 2.74 1.97 2.00 2.22 2.67 2.41 3.10 3.59 2.74 1.90 2.93 2.24 0.86 1.30 1.47

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.05 0.00 0.01 0.04 0.01 0.02 0.02 0.01 0.02 0.05 0.10 0.02 0.01 0.04 0.01 0.13 0.11 0.76 0.36
C2 0.05 0.00 0.13 0.14 0.01 0.06 0.01 0.13 0.01 0.02 0.00 0.01 0.17 0.15 0.01 0.05 0.32 0.15 0.71 0.31
C2' 0.00 0.13 0.00 0.01 0.08 0.05 0.11 0.02 0.11 0.04 0.10 0.23 0.01 0.02 0.10 0.03 0.26 0.28 0.47 0.08
C3' 0.01 0.14 0.01 0.00 0.08 0.01 0.15 0.02 0.17 0.05 0.12 0.24 0.04 0.01 0.10 0.01 0.38 0.53 0.25 0.17
C4 0.04 0.01 0.08 0.08 0.00 0.05 0.01 0.15 0.01 0.03 0.00 0.02 0.12 0.09 0.00 0.04 0.50 0.32 0.65 0.36
C4' 0.01 0.06 0.05 0.01 0.05 0.00 0.08 0.01 0.08 0.03 0.06 0.11 0.16 0.02 0.07 0.00 0.01 0.18 0.55 0.18
C5 0.02 0.01 0.11 0.15 0.01 0.08 0.00 0.14 0.01 0.01 0.01 0.01 0.09 0.18 0.02 0.03 0.54 0.36 0.66 0.38
C5' 0.02 0.13 0.02 0.02 0.15 0.01 0.14 0.00 0.10 0.08 0.16 0.14 0.16 0.04 0.18 0.02 0.01 0.30 0.43 0.02
C6 0.01 0.01 0.11 0.17 0.01 0.08 0.01 0.10 0.00 0.01 0.01 0.02 0.08 0.18 0.02 0.03 0.47 0.27 0.72 0.34
N1 0.02 0.02 0.04 0.05 0.03 0.03 0.01 0.08 0.01 0.00 0.02 0.03 0.06 0.04 0.03 0.02 0.31 0.16 0.74 0.33
N3 0.05 0.00 0.10 0.12 0.00 0.06 0.01 0.16 0.01 0.02 0.00 0.02 0.16 0.13 0.01 0.04 0.41 0.23 0.68 0.33
O2 0.10 0.01 0.23 0.24 0.02 0.11 0.01 0.14 0.02 0.03 0.02 0.00 0.29 0.28 0.02 0.11 0.24 0.09 0.70 0.29
O2' 0.02 0.17 0.01 0.04 0.12 0.16 0.09 0.16 0.08 0.06 0.16 0.29 0.00 0.06 0.15 0.11 0.16 0.29 0.48 0.14
O3' 0.01 0.15 0.02 0.01 0.09 0.02 0.18 0.04 0.18 0.04 0.13 0.28 0.06 0.00 0.12 0.02 0.35 0.81 0.15 0.35
O4 0.04 0.01 0.10 0.10 0.00 0.07 0.02 0.18 0.02 0.03 0.01 0.02 0.15 0.12 0.00 0.05 0.52 0.38 0.63 0.38
O4' 0.01 0.05 0.03 0.01 0.04 0.00 0.03 0.02 0.03 0.02 0.04 0.11 0.11 0.02 0.05 0.00 0.07 0.22 0.85 0.48
O5' 0.13 0.32 0.26 0.38 0.50 0.01 0.54 0.01 0.47 0.31 0.41 0.24 0.16 0.35 0.52 0.07 0.00 0.01 0.02 0.01
OP1 0.11 0.15 0.28 0.53 0.32 0.18 0.36 0.30 0.27 0.16 0.23 0.09 0.29 0.81 0.38 0.22 0.01 0.00 0.02 0.01
OP2 0.76 0.71 0.47 0.25 0.65 0.55 0.66 0.43 0.72 0.74 0.68 0.70 0.48 0.15 0.63 0.85 0.02 0.02 0.00 0.01
P 0.36 0.31 0.08 0.17 0.36 0.18 0.38 0.02 0.34 0.33 0.33 0.29 0.14 0.35 0.38 0.48 0.01 0.01 0.01 0.00