ClaRNA

Doublet Group distance statistics: 54721

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Distances from reference structure (by RMSD)

2, 4, 3, 4, 5, 2, 1, 1, 1, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.004, 0.007, 0.009, 0.011 max_d=0.011 avg_d=0.007 std_dev=0.003
N3 A 0, 0.004, 0.007, 0.010, 0.013 max_d=0.013 avg_d=0.007 std_dev=0.003
N1 A 0, 0.002, 0.007, 0.012, 0.019 max_d=0.019 avg_d=0.007 std_dev=0.005
C6 A 0, 0.003, 0.009, 0.015, 0.025 max_d=0.025 avg_d=0.009 std_dev=0.006
C1' A 0, 0.005, 0.010, 0.016, 0.028 max_d=0.028 avg_d=0.010 std_dev=0.006
C4 A 0, 0.003, 0.009, 0.015, 0.026 max_d=0.026 avg_d=0.009 std_dev=0.006
C2 A 0, 0.003, 0.009, 0.016, 0.026 max_d=0.026 avg_d=0.009 std_dev=0.006
O2 A 0, 0.011, 0.027, 0.043, 0.060 max_d=0.060 avg_d=0.027 std_dev=0.016
N4 A 0, 0.008, 0.028, 0.048, 0.094 max_d=0.094 avg_d=0.028 std_dev=0.020
P B 0, 0.053, 0.288, 0.522, 0.909 max_d=0.909 avg_d=0.288 std_dev=0.235
O5' B 0, 0.175, 0.447, 0.718, 1.169 max_d=1.169 avg_d=0.447 std_dev=0.272
OP1 B 0, 0.153, 0.444, 0.734, 1.085 max_d=1.085 avg_d=0.444 std_dev=0.291
OP2 B 0, 0.107, 0.454, 0.800, 1.673 max_d=1.673 avg_d=0.454 std_dev=0.346
C2' A 0, -0.242, 0.216, 0.674, 2.333 max_d=2.333 avg_d=0.216 std_dev=0.458
O4' A 0, -0.259, 0.202, 0.663, 2.343 max_d=2.343 avg_d=0.202 std_dev=0.461
O2' A 0, -0.283, 0.270, 0.824, 2.838 max_d=2.838 avg_d=0.270 std_dev=0.554
C4' A 0, -0.315, 0.316, 0.947, 3.239 max_d=3.239 avg_d=0.316 std_dev=0.631
C3' A 0, -0.351, 0.333, 1.018, 3.490 max_d=3.490 avg_d=0.333 std_dev=0.684
C5' B 0, -0.045, 0.733, 1.510, 2.782 max_d=2.782 avg_d=0.733 std_dev=0.777
O3' A 0, -0.411, 0.450, 1.311, 4.434 max_d=4.434 avg_d=0.450 std_dev=0.861
C5' A 0, -0.522, 0.589, 1.700, 5.666 max_d=5.666 avg_d=0.589 std_dev=1.111
O5' A 0, -0.608, 0.519, 1.645, 5.721 max_d=5.721 avg_d=0.519 std_dev=1.126
O4' B 0, -0.399, 0.940, 2.279, 5.329 max_d=5.329 avg_d=0.940 std_dev=1.339
N9 B 0, -0.498, 0.866, 2.230, 7.058 max_d=7.058 avg_d=0.866 std_dev=1.364
C4' B 0, -0.384, 0.987, 2.358, 4.793 max_d=4.793 avg_d=0.987 std_dev=1.371
C1' B 0, -0.417, 1.033, 2.482, 5.995 max_d=5.995 avg_d=1.033 std_dev=1.449
P A 0, -0.664, 0.786, 2.236, 6.772 max_d=6.772 avg_d=0.786 std_dev=1.450
C4 B 0, -0.634, 0.838, 2.310, 7.630 max_d=7.630 avg_d=0.838 std_dev=1.472
C2' B 0, -0.433, 1.125, 2.682, 5.537 max_d=5.537 avg_d=1.125 std_dev=1.558
OP1 A 0, -0.670, 0.929, 2.528, 7.491 max_d=7.491 avg_d=0.929 std_dev=1.599
N3 B 0, -0.651, 0.984, 2.620, 6.964 max_d=6.964 avg_d=0.984 std_dev=1.635
C3' B 0, -0.546, 1.127, 2.801, 6.200 max_d=6.200 avg_d=1.127 std_dev=1.673
OP2 A 0, -0.728, 0.982, 2.693, 7.014 max_d=7.014 avg_d=0.982 std_dev=1.710
C8 B 0, -0.630, 1.097, 2.824, 8.783 max_d=8.783 avg_d=1.097 std_dev=1.727
C5 B 0, -0.840, 1.040, 2.921, 9.804 max_d=9.804 avg_d=1.040 std_dev=1.880
N7 B 0, -0.819, 1.181, 3.181, 10.278 max_d=10.278 avg_d=1.181 std_dev=2.000
O2' B 0, -0.645, 1.360, 3.366, 7.319 max_d=7.319 avg_d=1.360 std_dev=2.006
C2 B 0, -0.864, 1.287, 3.438, 8.990 max_d=8.990 avg_d=1.287 std_dev=2.151
O3' B 0, -0.891, 1.460, 3.812, 8.792 max_d=8.792 avg_d=1.460 std_dev=2.351
C6 B 0, -0.971, 1.385, 3.740, 11.547 max_d=11.547 avg_d=1.385 std_dev=2.356
N1 B 0, -0.999, 1.486, 3.971, 11.195 max_d=11.195 avg_d=1.486 std_dev=2.485
N6 B 0, -1.174, 1.735, 4.643, 13.865 max_d=13.865 avg_d=1.735 std_dev=2.908

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 0.01 0.00 0.01 0.01 0.00 0.01 0.04 0.01 0.01 0.01 0.01 0.01 0.02 0.01 0.00 0.11 0.24 0.22 0.12
C2 0.01 0.00 0.17 0.14 0.00 0.10 0.00 0.22 0.01 0.01 0.00 0.01 0.00 0.15 0.16 0.17 0.30 0.23 0.52 0.32
C2' 0.00 0.17 0.00 0.00 0.07 0.02 0.08 0.02 0.11 0.04 0.14 0.07 0.27 0.00 0.02 0.01 0.15 0.38 0.22 0.08
C3' 0.01 0.14 0.00 0.00 0.15 0.00 0.13 0.03 0.11 0.09 0.16 0.16 0.17 0.02 0.01 0.02 0.15 0.34 0.18 0.10
C4 0.01 0.00 0.07 0.15 0.00 0.07 0.00 0.17 0.01 0.01 0.00 0.00 0.01 0.06 0.16 0.03 0.23 0.13 0.66 0.39
C4' 0.00 0.10 0.02 0.00 0.07 0.00 0.13 0.00 0.15 0.04 0.08 0.08 0.19 0.10 0.02 0.00 0.01 0.31 0.11 0.12
C5 0.01 0.00 0.08 0.13 0.00 0.13 0.00 0.20 0.00 0.00 0.00 0.01 0.01 0.15 0.13 0.11 0.25 0.18 0.66 0.42
C5' 0.04 0.22 0.02 0.03 0.17 0.00 0.20 0.00 0.20 0.10 0.22 0.19 0.34 0.09 0.05 0.02 0.00 0.04 0.12 0.01
C6 0.01 0.01 0.11 0.11 0.01 0.15 0.00 0.20 0.00 0.00 0.01 0.01 0.01 0.18 0.10 0.16 0.26 0.19 0.55 0.39
N1 0.01 0.01 0.04 0.09 0.01 0.04 0.00 0.10 0.00 0.00 0.01 0.01 0.01 0.04 0.08 0.01 0.18 0.11 0.42 0.24
N3 0.01 0.00 0.14 0.16 0.00 0.08 0.00 0.22 0.01 0.01 0.00 0.01 0.01 0.12 0.18 0.13 0.30 0.22 0.62 0.39
N4 0.01 0.01 0.07 0.16 0.00 0.08 0.01 0.19 0.01 0.01 0.01 0.00 0.01 0.06 0.18 0.03 0.24 0.18 0.73 0.43
O2 0.01 0.00 0.27 0.17 0.01 0.19 0.01 0.34 0.01 0.01 0.01 0.01 0.00 0.30 0.20 0.29 0.40 0.37 0.52 0.38
O2' 0.02 0.15 0.00 0.02 0.06 0.10 0.15 0.09 0.18 0.04 0.12 0.06 0.30 0.00 0.03 0.07 0.04 0.56 0.19 0.20
O3' 0.01 0.16 0.02 0.01 0.16 0.02 0.13 0.05 0.10 0.08 0.18 0.18 0.20 0.03 0.00 0.01 0.08 0.50 0.30 0.21
O4' 0.00 0.17 0.01 0.02 0.03 0.00 0.11 0.02 0.16 0.01 0.13 0.03 0.29 0.07 0.01 0.00 0.07 0.22 0.19 0.18
O5' 0.11 0.30 0.15 0.15 0.23 0.01 0.25 0.00 0.26 0.18 0.30 0.24 0.40 0.04 0.08 0.07 0.00 0.02 0.01 0.00
OP1 0.24 0.23 0.38 0.34 0.13 0.31 0.18 0.04 0.19 0.11 0.22 0.18 0.37 0.56 0.50 0.22 0.02 0.00 0.01 0.01
OP2 0.22 0.52 0.22 0.18 0.66 0.11 0.66 0.12 0.55 0.42 0.62 0.73 0.52 0.19 0.30 0.19 0.01 0.01 0.00 0.01
P 0.12 0.32 0.08 0.10 0.39 0.12 0.42 0.01 0.39 0.24 0.39 0.43 0.38 0.20 0.21 0.18 0.00 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 1.00 1.30 0.94 0.86 0.52 1.00 0.50 0.62 0.71 1.16 1.21 0.89 0.68 0.86 0.81 0.89 0.89 1.03 0.30 0.17 0.20 0.13
C2 1.07 1.14 0.92 0.75 0.78 0.85 0.87 0.51 0.81 1.44 1.04 0.89 0.83 1.27 1.04 0.81 0.72 1.04 0.29 0.20 0.17 0.13
C2' 1.01 1.50 0.95 0.92 0.66 1.04 0.57 0.72 0.81 1.12 1.35 1.10 0.73 0.84 0.81 0.93 0.98 1.04 0.51 0.37 0.33 0.37
C3' 0.46 1.77 0.45 0.51 0.61 0.55 0.42 0.35 0.94 0.65 1.59 1.32 0.83 0.36 0.26 0.51 0.69 0.52 0.31 0.15 0.21 0.17
C4 0.94 0.94 0.82 0.61 0.83 0.63 1.02 0.39 0.90 1.51 0.89 0.79 1.00 1.44 1.06 0.64 0.49 0.90 0.26 0.25 0.17 0.16
C4' 0.48 1.80 0.43 0.38 0.58 0.60 0.50 0.42 1.07 0.70 1.70 1.26 1.02 0.40 0.27 0.41 0.47 0.59 0.38 0.31 0.31 0.28
C5 0.86 0.91 0.82 0.63 0.68 0.64 0.82 0.43 0.72 1.36 0.81 0.72 0.78 1.24 0.93 0.63 0.49 0.84 0.27 0.23 0.17 0.15
C5' 0.52 2.19 0.52 0.49 1.02 0.59 0.96 0.63 1.47 0.74 2.08 1.66 1.41 0.66 0.57 0.49 0.47 0.60 0.72 0.64 0.52 0.58
C6 0.91 1.05 0.88 0.74 0.57 0.81 0.64 0.55 0.63 1.25 0.93 0.77 0.63 1.04 0.86 0.73 0.64 0.91 0.29 0.19 0.19 0.13
N1 1.01 1.16 0.92 0.79 0.63 0.90 0.68 0.57 0.70 1.29 1.05 0.85 0.68 1.07 0.92 0.81 0.75 1.01 0.29 0.19 0.19 0.13
N3 1.04 1.05 0.88 0.67 0.87 0.73 1.02 0.44 0.92 1.53 0.98 0.87 0.99 1.43 1.11 0.73 0.60 0.99 0.27 0.23 0.17 0.14
N4 0.89 0.88 0.75 0.52 0.90 0.52 1.16 0.32 1.04 1.56 0.89 0.78 1.20 1.57 1.09 0.56 0.38 0.83 0.25 0.28 0.18 0.18
O2 1.11 1.21 0.95 0.78 0.80 0.89 0.87 0.52 0.84 1.44 1.11 0.94 0.84 1.26 1.06 0.87 0.79 1.08 0.29 0.20 0.17 0.13
O2' 1.34 1.49 1.31 1.28 0.83 1.37 0.75 0.94 0.91 1.34 1.40 1.12 0.85 1.02 1.09 1.33 1.37 1.35 0.71 0.59 0.45 0.56
O3' 0.45 1.89 0.52 0.66 0.70 0.56 0.49 0.39 1.04 0.57 1.71 1.43 0.93 0.28 0.22 0.65 0.91 0.49 0.33 0.18 0.20 0.19
O4' 0.68 1.48 0.68 0.62 0.34 0.79 0.28 0.52 0.81 0.84 1.40 0.97 0.78 0.49 0.43 0.63 0.67 0.74 0.34 0.24 0.30 0.26
O5' 0.64 2.09 0.63 0.58 1.03 0.70 0.96 0.65 1.42 0.76 1.98 1.61 1.36 0.65 0.64 0.60 0.55 0.70 0.80 0.66 0.46 0.64
OP1 0.75 2.82 0.67 0.62 1.63 0.64 1.68 0.59 2.33 0.82 2.91 2.17 2.36 1.09 0.98 0.66 0.60 0.73 0.87 0.75 0.43 0.70
OP2 0.87 2.19 0.77 0.68 1.34 0.68 1.28 0.61 1.68 0.92 2.13 1.80 1.61 0.92 0.95 0.79 0.67 0.84 1.03 0.93 0.70 0.96
P 0.82 2.31 0.76 0.70 1.29 0.78 1.27 0.66 1.77 0.84 2.30 1.80 1.74 0.85 0.86 0.75 0.73 0.85 0.91 0.77 0.53 0.77

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.01 0.01 0.00 0.01 0.08 0.01 0.01 0.02 0.03 0.01 0.00 0.00 0.01 0.23 0.00 0.21 0.43 0.25 0.18
C2 0.02 0.00 0.12 0.56 0.00 0.65 0.00 0.94 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.73 0.33 0.45 0.67 0.21 0.53 0.40
C2' 0.00 0.12 0.00 0.00 0.07 0.01 0.07 0.17 0.09 0.03 0.11 0.11 0.08 0.04 0.03 0.00 0.02 0.01 0.53 0.40 0.48 0.53
C3' 0.01 0.56 0.00 0.00 0.34 0.00 0.28 0.01 0.37 0.04 0.49 0.53 0.33 0.11 0.13 0.01 0.00 0.01 0.27 0.25 0.28 0.33
C4 0.01 0.00 0.07 0.34 0.00 0.32 0.00 0.36 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.44 0.12 0.23 0.18 0.34 0.19 0.11
C4' 0.00 0.65 0.01 0.00 0.32 0.00 0.17 0.00 0.31 0.23 0.52 0.63 0.23 0.11 0.04 0.21 0.01 0.00 0.01 0.56 0.13 0.18
C5 0.01 0.00 0.07 0.28 0.00 0.17 0.00 0.16 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.36 0.11 0.10 0.19 0.58 0.43 0.29
C5' 0.08 0.94 0.17 0.01 0.36 0.00 0.16 0.00 0.38 0.47 0.73 0.85 0.26 0.31 0.09 0.05 0.17 0.02 0.01 0.23 0.12 0.01
C6 0.01 0.00 0.09 0.37 0.00 0.31 0.00 0.38 0.00 0.01 0.00 0.00 0.00 0.01 0.00 0.49 0.20 0.20 0.21 0.56 0.31 0.18
C8 0.01 0.00 0.03 0.04 0.00 0.23 0.00 0.47 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.04 0.15 0.25 0.64 0.67 0.87 0.63
N1 0.02 0.00 0.11 0.49 0.00 0.52 0.00 0.73 0.00 0.01 0.00 0.00 0.00 0.01 0.00 0.65 0.30 0.35 0.48 0.36 0.35 0.22
N3 0.03 0.00 0.11 0.53 0.00 0.63 0.00 0.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.68 0.26 0.45 0.58 0.24 0.43 0.36
N6 0.01 0.00 0.08 0.33 0.00 0.23 0.01 0.26 0.00 0.01 0.00 0.00 0.00 0.01 0.01 0.44 0.19 0.14 0.19 0.73 0.45 0.30
N7 0.00 0.00 0.04 0.11 0.00 0.11 0.00 0.31 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.14 0.07 0.13 0.52 0.78 0.83 0.61
N9 0.00 0.00 0.03 0.13 0.00 0.04 0.00 0.09 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.16 0.09 0.01 0.28 0.39 0.41 0.27
O2' 0.01 0.73 0.00 0.01 0.44 0.21 0.36 0.05 0.49 0.04 0.65 0.68 0.44 0.14 0.16 0.00 0.05 0.14 0.33 0.37 0.28 0.35
O3' 0.23 0.33 0.02 0.00 0.12 0.01 0.11 0.17 0.20 0.15 0.30 0.26 0.19 0.07 0.09 0.05 0.00 0.17 0.09 0.35 0.12 0.18
O4' 0.00 0.45 0.01 0.01 0.23 0.00 0.10 0.02 0.20 0.25 0.35 0.45 0.14 0.13 0.01 0.14 0.17 0.00 0.11 0.69 0.24 0.33
O5' 0.21 0.67 0.53 0.27 0.18 0.01 0.19 0.01 0.21 0.64 0.48 0.58 0.19 0.52 0.28 0.33 0.09 0.11 0.00 0.01 0.01 0.00
OP1 0.43 0.21 0.40 0.25 0.34 0.56 0.58 0.23 0.56 0.67 0.36 0.24 0.73 0.78 0.39 0.37 0.35 0.69 0.01 0.00 0.01 0.01
OP2 0.25 0.53 0.48 0.28 0.19 0.13 0.43 0.12 0.31 0.87 0.35 0.43 0.45 0.83 0.41 0.28 0.12 0.24 0.01 0.01 0.00 0.00
P 0.18 0.40 0.53 0.33 0.11 0.18 0.29 0.01 0.18 0.63 0.22 0.36 0.30 0.61 0.27 0.35 0.18 0.33 0.00 0.01 0.00 0.00