ClaRNA

Doublet Group distance statistics: 48220

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N3 A 0, 0.004, 0.009, 0.014, 0.017 max_d=0.017 avg_d=0.009 std_dev=0.005
N1 A 0, 0.003, 0.008, 0.012, 0.018 max_d=0.018 avg_d=0.008 std_dev=0.005
C6 A 0, 0.005, 0.011, 0.016, 0.022 max_d=0.022 avg_d=0.011 std_dev=0.005
C5 A 0, 0.001, 0.007, 0.013, 0.026 max_d=0.026 avg_d=0.007 std_dev=0.006
C2 A 0, 0.006, 0.013, 0.020, 0.028 max_d=0.028 avg_d=0.013 std_dev=0.007
C4 A 0, 0.004, 0.012, 0.021, 0.034 max_d=0.034 avg_d=0.012 std_dev=0.008
C1' A 0, 0.003, 0.014, 0.026, 0.047 max_d=0.047 avg_d=0.014 std_dev=0.012
N4 A 0, 0.019, 0.035, 0.051, 0.062 max_d=0.062 avg_d=0.035 std_dev=0.016
O2 A 0, 0.008, 0.038, 0.069, 0.121 max_d=0.121 avg_d=0.038 std_dev=0.030
O4' A 0, 0.060, 0.136, 0.212, 0.251 max_d=0.251 avg_d=0.136 std_dev=0.076
C2' A 0, 0.090, 0.187, 0.284, 0.372 max_d=0.372 avg_d=0.187 std_dev=0.097
C4' A 0, 0.165, 0.294, 0.422, 0.426 max_d=0.426 avg_d=0.294 std_dev=0.129
C3' A 0, 0.177, 0.344, 0.512, 0.578 max_d=0.578 avg_d=0.344 std_dev=0.167
O2' A 0, 0.079, 0.257, 0.434, 0.575 max_d=0.575 avg_d=0.257 std_dev=0.178
C5' A 0, 0.254, 0.447, 0.640, 0.725 max_d=0.725 avg_d=0.447 std_dev=0.193
O3' A 0, 0.232, 0.527, 0.821, 0.930 max_d=0.930 avg_d=0.527 std_dev=0.294
C2' B 0, 0.224, 0.604, 0.984, 1.145 max_d=1.145 avg_d=0.604 std_dev=0.380
O2' B 0, 0.337, 0.925, 1.514, 1.684 max_d=1.684 avg_d=0.925 std_dev=0.589
O5' A 0, 0.986, 1.631, 2.277, 2.375 max_d=2.375 avg_d=1.631 std_dev=0.645
C3' B 0, 0.488, 1.434, 2.381, 2.522 max_d=2.522 avg_d=1.434 std_dev=0.946
P A 0, 0.872, 2.119, 3.367, 3.593 max_d=3.593 avg_d=2.119 std_dev=1.248
C1' B 0, 0.632, 1.904, 3.176, 3.431 max_d=3.431 avg_d=1.904 std_dev=1.272
OP1 A 0, 0.995, 2.363, 3.732, 4.381 max_d=4.381 avg_d=2.363 std_dev=1.369
O3' B 0, 0.946, 2.699, 4.451, 4.195 max_d=4.195 avg_d=2.699 std_dev=1.753
C4' B 0, 0.797, 2.743, 4.689, 4.949 max_d=4.949 avg_d=2.743 std_dev=1.946
O4' B 0, 0.819, 2.830, 4.841, 5.179 max_d=5.179 avg_d=2.830 std_dev=2.011
OP2 A 0, 1.416, 3.561, 5.705, 6.086 max_d=6.086 avg_d=3.561 std_dev=2.145
OP2 B 0, 0.990, 3.167, 5.344, 5.847 max_d=5.847 avg_d=3.167 std_dev=2.177
N9 B 0, 1.070, 3.253, 5.435, 5.387 max_d=5.387 avg_d=3.253 std_dev=2.183
O5' B 0, 0.910, 3.169, 5.427, 6.119 max_d=6.119 avg_d=3.169 std_dev=2.259
N3 B 0, 1.335, 4.012, 6.690, 6.517 max_d=6.517 avg_d=4.012 std_dev=2.677
P B 0, 1.218, 3.963, 6.708, 6.720 max_d=6.720 avg_d=3.963 std_dev=2.745
C4 B 0, 1.362, 4.133, 6.903, 6.558 max_d=6.558 avg_d=4.133 std_dev=2.770
C5' B 0, 1.066, 3.855, 6.644, 6.748 max_d=6.748 avg_d=3.855 std_dev=2.789
C8 B 0, 1.380, 4.274, 7.167, 7.006 max_d=7.006 avg_d=4.274 std_dev=2.893
C2 B 0, 1.749, 5.377, 9.004, 8.335 max_d=8.335 avg_d=5.377 std_dev=3.628
OP1 B 0, 1.579, 5.221, 8.864, 9.202 max_d=9.202 avg_d=5.221 std_dev=3.643
C5 B 0, 1.771, 5.458, 9.145, 8.597 max_d=8.597 avg_d=5.458 std_dev=3.687
N7 B 0, 1.791, 5.479, 9.167, 8.699 max_d=8.699 avg_d=5.479 std_dev=3.688
N2 B 0, 1.876, 5.770, 9.663, 9.210 max_d=9.210 avg_d=5.770 std_dev=3.893
N1 B 0, 2.119, 6.615, 11.112, 10.286 max_d=10.286 avg_d=6.615 std_dev=4.496
C6 B 0, 2.175, 6.762, 11.349, 10.526 max_d=10.526 avg_d=6.762 std_dev=4.587
O6 B 0, 2.592, 8.049, 13.506, 12.455 max_d=12.455 avg_d=8.049 std_dev=5.457

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 0.02 0.00 0.01 0.02 0.01 0.02 0.01 0.01 0.01 0.02 0.02 0.04 0.01 0.02 0.01 0.33 0.37 0.43 0.34
C2 0.02 0.00 0.06 0.10 0.01 0.07 0.01 0.08 0.01 0.01 0.01 0.02 0.01 0.05 0.11 0.03 0.60 0.61 0.98 0.67
C2' 0.00 0.06 0.00 0.01 0.05 0.01 0.07 0.02 0.07 0.04 0.06 0.05 0.12 0.01 0.02 0.01 0.30 0.56 0.30 0.30
C3' 0.01 0.10 0.01 0.00 0.13 0.00 0.14 0.02 0.13 0.08 0.12 0.14 0.13 0.02 0.01 0.01 0.34 0.71 0.25 0.31
C4 0.02 0.01 0.05 0.13 0.00 0.09 0.00 0.14 0.00 0.01 0.00 0.01 0.01 0.02 0.16 0.05 0.80 0.81 1.49 0.96
C4' 0.01 0.07 0.01 0.00 0.09 0.00 0.10 0.00 0.09 0.06 0.08 0.10 0.08 0.03 0.03 0.01 0.02 0.29 0.26 0.05
C5 0.02 0.01 0.07 0.14 0.00 0.10 0.00 0.15 0.00 0.01 0.00 0.00 0.01 0.04 0.19 0.05 0.82 0.80 1.50 0.97
C5' 0.01 0.08 0.02 0.02 0.14 0.00 0.15 0.00 0.12 0.07 0.11 0.15 0.08 0.03 0.03 0.01 0.01 0.35 0.24 0.02
C6 0.01 0.01 0.07 0.13 0.00 0.09 0.00 0.12 0.00 0.00 0.01 0.01 0.01 0.04 0.16 0.05 0.73 0.67 1.18 0.81
N1 0.01 0.01 0.04 0.08 0.01 0.06 0.01 0.07 0.00 0.00 0.01 0.01 0.02 0.02 0.08 0.03 0.58 0.56 0.88 0.63
N3 0.02 0.01 0.06 0.12 0.00 0.08 0.00 0.11 0.01 0.01 0.00 0.01 0.01 0.04 0.14 0.03 0.71 0.73 1.27 0.84
N4 0.02 0.02 0.05 0.14 0.01 0.10 0.00 0.15 0.01 0.01 0.01 0.00 0.02 0.02 0.18 0.05 0.85 0.89 1.67 1.05
O2 0.04 0.01 0.12 0.13 0.01 0.08 0.01 0.08 0.01 0.02 0.01 0.02 0.00 0.12 0.14 0.04 0.48 0.54 0.78 0.55
O2' 0.01 0.05 0.01 0.02 0.02 0.03 0.04 0.03 0.04 0.02 0.04 0.02 0.12 0.00 0.04 0.03 0.04 0.36 0.32 0.11
O3' 0.02 0.11 0.02 0.01 0.16 0.03 0.19 0.03 0.16 0.08 0.14 0.18 0.14 0.04 0.00 0.02 0.18 0.77 0.43 0.23
O4' 0.01 0.03 0.01 0.01 0.05 0.01 0.05 0.01 0.05 0.03 0.03 0.05 0.04 0.03 0.02 0.00 0.20 0.23 0.26 0.22
O5' 0.33 0.60 0.30 0.34 0.80 0.02 0.82 0.01 0.73 0.58 0.71 0.85 0.48 0.04 0.18 0.20 0.00 0.02 0.02 0.01
OP1 0.37 0.61 0.56 0.71 0.81 0.29 0.80 0.35 0.67 0.56 0.73 0.89 0.54 0.36 0.77 0.23 0.02 0.00 0.01 0.00
OP2 0.43 0.98 0.30 0.25 1.49 0.26 1.50 0.24 1.18 0.88 1.27 1.67 0.78 0.32 0.43 0.26 0.02 0.01 0.00 0.01
P 0.34 0.67 0.30 0.31 0.96 0.05 0.97 0.02 0.81 0.63 0.84 1.05 0.55 0.11 0.23 0.22 0.01 0.00 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.41 2.98 0.16 0.38 1.72 0.84 1.93 1.04 2.60 0.89 3.09 3.60 2.22 1.43 0.93 0.24 0.28 0.52 1.03 2.75 1.18 1.41 1.21
C2 0.51 3.12 0.09 0.45 2.04 0.79 2.39 0.83 3.07 1.33 3.42 3.46 2.34 1.94 1.25 0.16 0.68 0.35 0.82 3.28 0.99 1.22 0.97
C2' 0.24 2.84 0.25 0.53 1.57 1.09 1.81 1.39 2.51 0.80 3.00 3.47 2.07 1.33 0.76 0.21 0.42 0.65 1.35 2.71 1.62 1.71 1.58
C3' 0.29 2.45 0.36 0.63 1.18 1.31 1.31 1.72 1.96 0.53 2.48 3.11 1.76 0.88 0.41 0.25 0.36 0.96 1.61 2.09 1.91 1.86 1.84
C4 0.45 2.46 0.10 0.52 1.80 0.82 2.07 0.80 2.50 1.25 2.66 2.52 1.97 1.73 1.16 0.08 0.90 0.28 0.75 2.61 0.87 1.03 0.82
C4' 0.39 2.43 0.31 0.48 1.18 1.10 1.23 1.48 1.84 0.35 2.39 3.13 1.80 0.71 0.43 0.29 0.15 0.89 1.40 1.92 1.58 1.61 1.57
C5 0.30 2.20 0.17 0.47 1.44 0.93 1.56 0.98 1.94 0.83 2.21 2.41 1.80 1.21 0.82 0.15 0.55 0.48 0.93 1.98 0.95 1.13 0.98
C5' 0.54 1.97 0.42 0.53 0.80 1.22 0.72 1.68 1.25 0.41 1.82 2.64 1.45 0.33 0.27 0.32 0.19 1.12 1.55 1.26 1.70 1.63 1.70
C6 0.32 2.48 0.18 0.41 1.48 0.92 1.58 1.05 2.07 0.74 2.46 2.90 1.96 1.16 0.78 0.20 0.33 0.55 1.02 2.12 1.07 1.28 1.12
N1 0.41 2.92 0.14 0.41 1.77 0.85 1.99 0.97 2.61 0.99 3.03 3.41 2.22 1.52 1.00 0.20 0.43 0.46 0.96 2.74 1.07 1.31 1.10
N3 0.54 2.91 0.09 0.50 2.06 0.77 2.45 0.75 3.05 1.46 3.26 3.03 2.23 2.06 1.33 0.11 0.89 0.28 0.72 3.25 0.90 1.09 0.84
N4 0.49 2.04 0.13 0.60 1.71 0.76 2.03 0.69 2.33 1.36 2.32 1.95 1.68 1.81 1.21 0.08 1.20 0.18 0.61 2.45 0.78 0.85 0.64
O2 0.56 3.28 0.09 0.44 2.16 0.75 2.60 0.79 3.38 1.47 3.71 3.65 2.43 2.15 1.35 0.17 0.69 0.36 0.79 3.68 0.99 1.25 0.96
O2' 0.32 3.01 0.21 0.48 1.70 1.01 1.97 1.31 2.73 0.87 3.23 3.66 2.19 1.46 0.86 0.22 0.37 0.60 1.28 2.98 1.57 1.70 1.54
O3' 0.35 2.35 0.45 0.73 1.04 1.48 1.20 1.98 1.86 0.62 2.39 3.04 1.64 0.86 0.32 0.25 0.41 1.12 1.86 2.01 2.27 2.13 2.16
O4' 0.42 2.70 0.19 0.34 1.48 0.83 1.56 1.07 2.16 0.58 2.68 3.36 2.05 1.04 0.72 0.28 0.16 0.63 1.06 2.25 1.16 1.36 1.20
O5' 0.27 2.02 0.68 0.78 1.07 0.63 1.08 1.18 1.48 0.66 1.91 2.57 1.59 0.82 0.56 0.67 1.10 0.50 1.31 1.51 1.57 1.77 1.53
OP1 0.58 1.29 0.88 1.14 0.59 1.09 0.60 1.69 0.76 0.94 1.13 1.81 0.98 0.82 0.60 0.73 1.46 1.03 1.69 0.76 2.01 1.99 1.88
OP2 1.16 2.05 1.76 1.84 1.53 1.22 1.57 1.60 1.76 1.44 2.00 2.39 1.78 1.50 1.33 1.77 2.10 0.96 1.84 1.79 2.00 2.27 1.95
P 0.47 1.65 1.02 1.19 0.89 0.83 0.89 1.39 1.16 0.82 1.52 2.13 1.32 0.83 0.62 1.01 1.55 0.66 1.47 1.16 1.69 1.82 1.61

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.02 0.00 0.01 0.01 0.01 0.01 0.08 0.01 0.01 0.02 0.02 0.02 0.01 0.01 0.01 0.31 0.01 0.34 0.02 0.28 0.38 0.23
C2 0.02 0.00 0.24 0.22 0.01 0.05 0.01 0.05 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.22 0.24 0.11 0.59 0.01 0.26 0.86 0.61
C2' 0.00 0.24 0.00 0.00 0.14 0.01 0.10 0.22 0.15 0.08 0.21 0.27 0.23 0.04 0.04 0.01 0.02 0.02 0.33 0.14 0.44 0.58 0.38
C3' 0.01 0.22 0.00 0.00 0.27 0.00 0.39 0.02 0.41 0.39 0.33 0.15 0.16 0.45 0.25 0.02 0.01 0.01 0.13 0.47 0.49 0.46 0.32
C4 0.01 0.01 0.14 0.27 0.00 0.07 0.00 0.07 0.01 0.00 0.01 0.01 0.00 0.00 0.00 0.23 0.10 0.06 0.69 0.01 0.35 1.01 0.74
C4' 0.01 0.05 0.01 0.00 0.07 0.00 0.14 0.01 0.14 0.21 0.08 0.08 0.05 0.21 0.10 0.29 0.03 0.00 0.01 0.17 0.46 0.36 0.21
C5 0.01 0.01 0.10 0.39 0.00 0.14 0.00 0.14 0.01 0.00 0.01 0.01 0.00 0.00 0.00 0.31 0.13 0.03 0.90 0.01 0.63 1.51 1.08
C5' 0.08 0.05 0.22 0.02 0.07 0.01 0.14 0.00 0.14 0.19 0.08 0.07 0.06 0.21 0.08 0.08 0.18 0.01 0.01 0.18 0.23 0.27 0.02
C6 0.01 0.00 0.15 0.41 0.01 0.14 0.01 0.14 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.31 0.14 0.05 0.92 0.01 0.67 1.59 1.13
C8 0.01 0.01 0.08 0.39 0.00 0.21 0.00 0.19 0.01 0.00 0.01 0.01 0.01 0.00 0.00 0.30 0.22 0.09 0.97 0.01 0.72 1.51 1.13
N1 0.02 0.00 0.21 0.33 0.01 0.08 0.01 0.08 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.27 0.10 0.09 0.77 0.01 0.44 1.25 0.89
N2 0.02 0.01 0.27 0.15 0.01 0.08 0.01 0.07 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.20 0.36 0.14 0.49 0.01 0.27 0.64 0.45
N3 0.02 0.01 0.23 0.16 0.00 0.05 0.00 0.06 0.01 0.01 0.01 0.01 0.00 0.00 0.01 0.19 0.30 0.11 0.51 0.01 0.24 0.68 0.48
N7 0.01 0.01 0.04 0.45 0.00 0.21 0.00 0.21 0.01 0.00 0.01 0.01 0.00 0.00 0.00 0.34 0.28 0.06 1.06 0.01 0.88 1.84 1.33
N9 0.01 0.01 0.04 0.25 0.00 0.10 0.00 0.08 0.01 0.00 0.01 0.01 0.01 0.00 0.00 0.21 0.04 0.02 0.67 0.01 0.34 0.93 0.69
O2' 0.01 0.22 0.01 0.02 0.23 0.29 0.31 0.08 0.31 0.30 0.27 0.20 0.19 0.34 0.21 0.00 0.05 0.20 0.28 0.34 0.40 0.68 0.36
O3' 0.31 0.24 0.02 0.01 0.10 0.03 0.13 0.18 0.14 0.22 0.10 0.36 0.30 0.28 0.04 0.05 0.00 0.23 0.14 0.24 0.60 0.58 0.38
O4' 0.01 0.11 0.02 0.01 0.06 0.00 0.03 0.01 0.05 0.09 0.09 0.14 0.11 0.06 0.02 0.20 0.23 0.00 0.35 0.03 0.33 0.34 0.24
O5' 0.34 0.59 0.33 0.13 0.69 0.01 0.90 0.01 0.92 0.97 0.77 0.49 0.51 1.06 0.67 0.28 0.14 0.35 0.00 1.03 0.02 0.01 0.01
O6 0.02 0.01 0.14 0.47 0.01 0.17 0.01 0.18 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.34 0.24 0.03 1.03 0.00 0.86 1.88 1.32
OP1 0.28 0.26 0.44 0.49 0.35 0.46 0.63 0.23 0.67 0.72 0.44 0.27 0.24 0.88 0.34 0.40 0.60 0.33 0.02 0.86 0.00 0.01 0.00
OP2 0.38 0.86 0.58 0.46 1.01 0.36 1.51 0.27 1.59 1.51 1.25 0.64 0.68 1.84 0.93 0.68 0.58 0.34 0.01 1.88 0.01 0.00 0.00
P 0.23 0.61 0.38 0.32 0.74 0.21 1.08 0.02 1.13 1.13 0.89 0.45 0.48 1.33 0.69 0.36 0.38 0.24 0.01 1.32 0.00 0.00 0.00