ClaRNA

Doublet Group distance statistics: 32347

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Distances from reference structure (by RMSD)

26, 165, 114, 23, 3, 1, 0, 10, 28, 3, 0, 2, 22, 6, 2, 4, 32, 10, 32, 17,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4 A 0, 0.046, 0.189, 0.333, 0.719 max_d=0.719 avg_d=0.189 std_dev=0.144
N3 A 0, 0.053, 0.330, 0.607, 1.736 max_d=1.736 avg_d=0.330 std_dev=0.277
N1 B 0, -0.009, 0.291, 0.591, 1.106 max_d=1.106 avg_d=0.291 std_dev=0.300
C5 A 0, 0.014, 0.437, 0.861, 1.500 max_d=1.500 avg_d=0.437 std_dev=0.423
C2 A 0, 0.016, 0.545, 1.074, 2.637 max_d=2.637 avg_d=0.545 std_dev=0.529
C2 B 0, 0.000, 0.530, 1.060, 2.162 max_d=2.162 avg_d=0.530 std_dev=0.530
N9 A 0, -0.057, 0.508, 1.074, 2.089 max_d=2.089 avg_d=0.508 std_dev=0.566
C6 B 0, -0.035, 0.542, 1.118, 2.770 max_d=2.770 avg_d=0.542 std_dev=0.577
C6 A 0, -0.006, 0.604, 1.213, 1.974 max_d=1.974 avg_d=0.604 std_dev=0.610
N1 A 0, -0.022, 0.650, 1.323, 2.421 max_d=2.421 avg_d=0.650 std_dev=0.673
N7 A 0, -0.014, 0.758, 1.529, 3.105 max_d=3.105 avg_d=0.758 std_dev=0.772
N3 B 0, -0.053, 0.719, 1.492, 3.333 max_d=3.333 avg_d=0.719 std_dev=0.772
C5 B 0, -0.071, 0.714, 1.500, 3.682 max_d=3.682 avg_d=0.714 std_dev=0.786
C8 A 0, -0.057, 0.768, 1.592, 3.495 max_d=3.495 avg_d=0.768 std_dev=0.824
C4 B 0, -0.105, 0.722, 1.549, 3.830 max_d=3.830 avg_d=0.722 std_dev=0.827
C1' A 0, -0.115, 0.741, 1.598, 2.770 max_d=2.770 avg_d=0.741 std_dev=0.856
C1' B 0, -0.176, 0.755, 1.686, 3.754 max_d=3.754 avg_d=0.755 std_dev=0.931
N6 A 0, -0.021, 0.943, 1.906, 3.018 max_d=3.018 avg_d=0.943 std_dev=0.963
O2' A 0, 0.051, 1.106, 2.160, 6.465 max_d=6.465 avg_d=1.106 std_dev=1.054
O2 B 0, -0.062, 0.994, 2.051, 4.363 max_d=4.363 avg_d=0.994 std_dev=1.056
C2' A 0, -0.094, 0.979, 2.052, 5.230 max_d=5.230 avg_d=0.979 std_dev=1.073
O4' B 0, -0.206, 0.984, 2.173, 4.781 max_d=4.781 avg_d=0.984 std_dev=1.189
O3' A 0, 0.105, 1.341, 2.577, 6.482 max_d=6.482 avg_d=1.341 std_dev=1.236
C3' A 0, -0.046, 1.261, 2.568, 6.024 max_d=6.024 avg_d=1.261 std_dev=1.307
O4' A 0, -0.232, 1.121, 2.474, 4.284 max_d=4.284 avg_d=1.121 std_dev=1.353
N4 B 0, -0.221, 1.176, 2.574, 6.239 max_d=6.239 avg_d=1.176 std_dev=1.398
C2' B 0, -0.435, 1.171, 2.777, 5.599 max_d=5.599 avg_d=1.171 std_dev=1.606
C4' A 0, -0.278, 1.412, 3.102, 5.574 max_d=5.574 avg_d=1.412 std_dev=1.690
C4' B 0, -0.345, 1.543, 3.430, 6.505 max_d=6.505 avg_d=1.543 std_dev=1.888
C3' B 0, -0.349, 1.619, 3.586, 7.059 max_d=7.059 avg_d=1.619 std_dev=1.967
O2' B 0, -0.304, 1.755, 3.814, 7.344 max_d=7.344 avg_d=1.755 std_dev=2.059
O5' B 0, -0.352, 1.890, 4.132, 9.113 max_d=9.113 avg_d=1.890 std_dev=2.242
O5' A 0, -0.378, 1.870, 4.117, 7.987 max_d=7.987 avg_d=1.870 std_dev=2.247
C5' A 0, -0.429, 1.834, 4.097, 7.856 max_d=7.856 avg_d=1.834 std_dev=2.263
C5' B 0, -0.416, 1.859, 4.133, 8.312 max_d=8.312 avg_d=1.859 std_dev=2.274
OP2 A 0, -0.352, 2.203, 4.757, 12.327 max_d=12.327 avg_d=2.203 std_dev=2.555
OP2 B 0, 0.007, 2.655, 5.302, 12.332 max_d=12.332 avg_d=2.655 std_dev=2.647
O3' B 0, -0.402, 2.311, 5.025, 9.704 max_d=9.704 avg_d=2.311 std_dev=2.713
P B 0, -0.410, 2.362, 5.134, 12.110 max_d=12.110 avg_d=2.362 std_dev=2.772
P A 0, -0.583, 2.274, 5.131, 9.867 max_d=9.867 avg_d=2.274 std_dev=2.857
OP1 A 0, -0.319, 2.832, 5.983, 10.502 max_d=10.502 avg_d=2.832 std_dev=3.151
OP1 B 0, -0.125, 3.151, 6.426, 13.803 max_d=13.803 avg_d=3.151 std_dev=3.275

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 0.02 0.01 0.01 0.01 0.08 0.02 0.02 0.02 0.03 0.02 0.01 0.00 0.02 0.28 0.00 0.20 0.79 0.26 0.29
C2 0.03 0.00 0.29 0.22 0.01 0.26 0.01 0.39 0.01 0.01 0.00 0.00 0.01 0.01 0.01 0.52 0.36 0.33 0.42 1.12 0.75 0.48
C2' 0.00 0.29 0.00 0.00 0.15 0.01 0.09 0.18 0.15 0.16 0.23 0.28 0.12 0.09 0.04 0.00 0.04 0.02 0.42 0.70 0.54 0.51
C3' 0.02 0.22 0.00 0.00 0.22 0.01 0.30 0.02 0.30 0.33 0.26 0.19 0.34 0.36 0.21 0.02 0.01 0.02 0.14 0.40 0.36 0.21
C4 0.01 0.01 0.15 0.22 0.00 0.13 0.00 0.21 0.01 0.01 0.01 0.00 0.01 0.01 0.00 0.31 0.21 0.17 0.31 1.12 0.57 0.37
C4' 0.01 0.26 0.01 0.01 0.13 0.00 0.13 0.01 0.15 0.22 0.21 0.24 0.16 0.19 0.08 0.26 0.03 0.00 0.02 0.24 0.25 0.08
C5 0.01 0.01 0.09 0.30 0.00 0.13 0.00 0.22 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.30 0.17 0.09 0.38 1.31 0.74 0.46
C5' 0.08 0.39 0.18 0.02 0.21 0.01 0.22 0.00 0.27 0.31 0.34 0.35 0.28 0.29 0.14 0.11 0.18 0.02 0.01 0.17 0.39 0.02
C6 0.02 0.01 0.15 0.30 0.01 0.15 0.01 0.27 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.36 0.20 0.16 0.39 1.31 0.82 0.47
C8 0.02 0.01 0.16 0.33 0.01 0.22 0.01 0.31 0.01 0.00 0.01 0.01 0.02 0.00 0.00 0.34 0.19 0.18 0.48 1.37 0.68 0.60
N1 0.02 0.00 0.23 0.26 0.01 0.21 0.01 0.34 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.46 0.27 0.26 0.40 1.22 0.81 0.46
N3 0.03 0.00 0.28 0.19 0.00 0.24 0.01 0.35 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.48 0.38 0.32 0.38 1.03 0.62 0.43
N6 0.02 0.01 0.12 0.34 0.01 0.16 0.01 0.28 0.00 0.02 0.01 0.01 0.00 0.02 0.02 0.36 0.21 0.12 0.43 1.40 0.94 0.53
N7 0.01 0.01 0.09 0.36 0.01 0.19 0.00 0.29 0.01 0.00 0.01 0.01 0.02 0.00 0.01 0.32 0.22 0.10 0.49 1.47 0.84 0.62
N9 0.00 0.01 0.04 0.21 0.00 0.08 0.01 0.14 0.01 0.00 0.01 0.01 0.02 0.01 0.00 0.18 0.13 0.02 0.29 1.09 0.45 0.38
O2' 0.02 0.52 0.00 0.02 0.31 0.26 0.30 0.11 0.36 0.34 0.46 0.48 0.36 0.32 0.18 0.00 0.06 0.18 0.32 0.62 0.65 0.45
O3' 0.28 0.36 0.04 0.01 0.21 0.03 0.17 0.18 0.20 0.19 0.27 0.38 0.21 0.22 0.13 0.06 0.00 0.20 0.22 0.51 0.44 0.30
O4' 0.00 0.33 0.02 0.02 0.17 0.00 0.09 0.02 0.16 0.18 0.26 0.32 0.12 0.10 0.02 0.18 0.20 0.00 0.11 0.71 0.19 0.24
O5' 0.20 0.42 0.42 0.14 0.31 0.02 0.38 0.01 0.39 0.48 0.40 0.38 0.43 0.49 0.29 0.32 0.22 0.11 0.00 0.02 0.02 0.01
OP1 0.79 1.12 0.70 0.40 1.12 0.24 1.31 0.17 1.31 1.37 1.22 1.03 1.40 1.47 1.09 0.62 0.51 0.71 0.02 0.00 0.01 0.01
OP2 0.26 0.75 0.54 0.36 0.57 0.25 0.74 0.39 0.82 0.68 0.81 0.62 0.94 0.84 0.45 0.65 0.44 0.19 0.02 0.01 0.00 0.01
P 0.29 0.48 0.51 0.21 0.37 0.08 0.46 0.02 0.47 0.60 0.46 0.43 0.53 0.62 0.38 0.45 0.30 0.24 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' 1.11 0.54 1.43 1.72 0.41 1.56 0.52 1.59 0.86 0.81 0.45 0.84 0.65 1.55 1.98 1.24 1.67 1.93 1.34 1.57
C2 0.70 0.73 0.76 0.76 0.42 0.69 0.49 0.69 0.49 0.61 0.62 0.46 0.93 1.04 0.78 0.66 0.86 1.28 1.15 0.90
C2' 1.46 0.74 1.76 2.17 0.54 2.07 0.78 2.19 1.21 1.12 0.57 0.95 0.82 1.81 2.42 1.69 2.29 2.56 1.88 2.20
C3' 1.68 0.84 2.04 2.48 0.62 2.41 0.78 2.59 1.26 1.23 0.65 1.08 0.93 2.13 2.84 1.94 2.64 3.01 2.11 2.59
C4 0.39 0.29 0.51 0.56 0.21 0.47 0.32 0.49 0.38 0.29 0.31 0.39 0.40 0.88 0.62 0.42 0.74 1.13 0.95 0.77
C4' 1.68 0.78 2.13 2.55 0.43 2.40 0.61 2.47 1.15 1.19 0.48 0.92 0.92 2.28 3.01 1.90 2.41 2.67 1.77 2.28
C5 0.42 0.36 0.50 0.37 0.18 0.34 0.32 0.47 0.34 0.32 0.31 0.25 0.49 0.98 0.38 0.37 0.67 1.03 1.18 0.82
C5' 2.13 1.12 2.64 3.05 0.48 2.88 0.75 2.86 1.37 1.54 0.62 0.80 1.30 2.86 3.63 2.32 2.60 2.68 1.70 2.30
C6 0.66 0.34 0.74 0.91 0.30 0.88 0.47 1.02 0.57 0.51 0.26 0.50 0.45 1.07 0.96 0.75 1.11 1.34 1.44 1.17
C8 1.19 0.86 1.53 1.40 0.40 1.14 0.45 0.91 0.73 0.93 0.59 0.58 1.03 1.77 1.53 1.03 0.84 0.93 0.95 0.73
N1 0.92 0.69 1.06 1.13 0.41 1.04 0.53 1.04 0.65 0.75 0.45 0.59 0.84 1.29 1.19 0.92 1.08 1.31 1.28 1.05
N3 0.36 0.49 0.37 0.53 0.35 0.48 0.42 0.59 0.39 0.32 0.54 0.44 0.66 0.74 0.56 0.43 0.88 1.38 1.13 0.97
N6 0.97 0.47 1.15 1.48 0.42 1.43 0.59 1.63 0.82 0.71 0.49 0.72 0.61 1.37 1.61 1.15 1.69 1.88 1.92 1.75
N7 0.90 0.83 1.13 0.81 0.34 0.66 0.39 0.58 0.54 0.74 0.64 0.37 1.03 1.51 0.86 0.68 0.66 1.00 1.33 0.90
N9 0.90 0.53 1.17 1.26 0.33 1.07 0.40 1.00 0.67 0.69 0.40 0.64 0.64 1.37 1.41 0.90 1.07 1.28 0.92 0.96
O2' 1.35 0.75 1.55 1.98 0.72 1.97 1.06 2.18 1.34 1.11 0.68 1.00 0.78 1.57 2.15 1.64 2.37 2.78 2.32 2.44
O3' 1.53 0.71 1.88 2.34 0.62 2.32 0.74 2.60 1.18 1.09 0.64 1.13 0.80 1.93 2.67 1.85 2.72 3.27 2.46 2.87
O4' 1.38 0.68 1.79 2.09 0.36 1.89 0.48 1.87 0.93 0.98 0.44 0.81 0.81 1.94 2.46 1.50 1.85 2.04 1.32 1.70
O5' 2.43 1.43 2.94 3.32 0.65 3.09 0.93 2.94 1.57 1.81 0.87 0.70 1.64 3.17 3.86 2.57 2.59 2.42 1.50 2.12
OP1 3.34 2.53 4.00 3.99 1.42 3.58 1.50 3.07 2.17 2.69 1.91 1.01 2.91 4.37 4.60 3.18 2.56 2.02 1.36 1.88
OP2 2.30 1.39 2.85 3.00 0.76 2.82 0.88 2.54 1.28 1.63 0.89 0.96 1.70 3.38 3.76 2.33 1.94 1.78 1.29 1.53
P 2.94 1.93 3.51 3.75 0.92 3.46 1.12 3.08 1.81 2.23 1.30 0.66 2.26 3.88 4.50 2.97 2.51 2.12 1.30 1.90

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.01 0.02 0.01 0.01 0.06 0.01 0.01 0.02 0.02 0.03 0.02 0.25 0.01 0.18 0.50 0.29 0.18
C2 0.02 0.00 0.14 0.19 0.01 0.09 0.01 0.16 0.01 0.01 0.00 0.01 0.01 0.15 0.20 0.11 0.30 0.74 0.43 0.22
C2' 0.00 0.14 0.00 0.00 0.05 0.01 0.12 0.15 0.15 0.02 0.11 0.06 0.25 0.00 0.03 0.02 0.39 0.54 0.38 0.40
C3' 0.01 0.19 0.00 0.00 0.30 0.01 0.33 0.02 0.30 0.18 0.25 0.32 0.20 0.02 0.01 0.02 0.21 0.31 0.14 0.15
C4 0.02 0.01 0.05 0.30 0.00 0.13 0.00 0.19 0.01 0.01 0.00 0.00 0.01 0.32 0.12 0.03 0.46 0.91 0.72 0.38
C4' 0.01 0.09 0.01 0.01 0.13 0.00 0.21 0.01 0.21 0.08 0.09 0.15 0.18 0.24 0.02 0.00 0.02 0.16 0.31 0.07
C5 0.01 0.01 0.12 0.33 0.00 0.21 0.00 0.27 0.00 0.01 0.01 0.01 0.01 0.36 0.21 0.10 0.53 0.94 0.79 0.47
C5' 0.06 0.16 0.15 0.02 0.19 0.01 0.27 0.00 0.25 0.09 0.16 0.22 0.28 0.09 0.18 0.02 0.01 0.27 0.37 0.02
C6 0.01 0.01 0.15 0.30 0.01 0.21 0.00 0.25 0.00 0.00 0.01 0.01 0.01 0.31 0.18 0.13 0.47 0.82 0.59 0.39
N1 0.01 0.01 0.02 0.18 0.01 0.08 0.01 0.09 0.00 0.00 0.01 0.01 0.01 0.18 0.09 0.02 0.29 0.68 0.37 0.20
N3 0.02 0.00 0.11 0.25 0.00 0.09 0.01 0.16 0.01 0.01 0.00 0.01 0.01 0.23 0.14 0.08 0.37 0.84 0.57 0.28
N4 0.02 0.01 0.06 0.32 0.00 0.15 0.01 0.22 0.01 0.01 0.01 0.00 0.02 0.36 0.15 0.04 0.49 0.97 0.85 0.44
O2 0.03 0.01 0.25 0.20 0.01 0.18 0.01 0.28 0.01 0.01 0.01 0.02 0.00 0.17 0.37 0.20 0.33 0.72 0.43 0.30
O2' 0.02 0.15 0.00 0.02 0.32 0.24 0.36 0.09 0.31 0.18 0.23 0.36 0.17 0.00 0.06 0.17 0.26 0.41 0.43 0.32
O3' 0.25 0.20 0.03 0.01 0.12 0.02 0.21 0.18 0.18 0.09 0.14 0.15 0.37 0.06 0.00 0.16 0.22 0.47 0.25 0.26
O4' 0.01 0.11 0.02 0.02 0.03 0.00 0.10 0.02 0.13 0.02 0.08 0.04 0.20 0.17 0.16 0.00 0.08 0.39 0.41 0.19
O5' 0.18 0.30 0.39 0.21 0.46 0.02 0.53 0.01 0.47 0.29 0.37 0.49 0.33 0.26 0.22 0.08 0.00 0.02 0.02 0.01
OP1 0.50 0.74 0.54 0.31 0.91 0.16 0.94 0.27 0.82 0.68 0.84 0.97 0.72 0.41 0.47 0.39 0.02 0.00 0.01 0.01
OP2 0.29 0.43 0.38 0.14 0.72 0.31 0.79 0.37 0.59 0.37 0.57 0.85 0.43 0.43 0.25 0.41 0.02 0.01 0.00 0.01
P 0.18 0.22 0.40 0.15 0.38 0.07 0.47 0.02 0.39 0.20 0.28 0.44 0.30 0.32 0.26 0.19 0.01 0.01 0.01 0.00