ClaRNA

Doublet Group distance statistics: 43718

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Distances from reference structure (by RMSD)

46, 15, 9, 0, 0, 0, 2, 0, 0, 0, 0, 0, 0, 1, 3, 28, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4 A 0, -0.020, 0.201, 0.422, 0.679 max_d=0.679 avg_d=0.201 std_dev=0.221
C1' A 0, 0.039, 0.293, 0.546, 0.873 max_d=0.873 avg_d=0.293 std_dev=0.254
C4 B 0, -0.047, 0.229, 0.505, 0.886 max_d=0.886 avg_d=0.229 std_dev=0.276
N1 A 0, -0.003, 0.337, 0.678, 1.342 max_d=1.342 avg_d=0.337 std_dev=0.341
C6 B 0, -0.038, 0.407, 0.852, 1.380 max_d=1.380 avg_d=0.407 std_dev=0.445
O4' B 0, -0.018, 0.583, 1.185, 1.601 max_d=1.601 avg_d=0.583 std_dev=0.602
N1 B 0, -0.107, 0.497, 1.101, 1.639 max_d=1.639 avg_d=0.497 std_dev=0.604
C2' A 0, -0.064, 0.561, 1.187, 2.481 max_d=2.481 avg_d=0.561 std_dev=0.626
O5' B 0, 0.075, 0.713, 1.350, 3.221 max_d=3.221 avg_d=0.713 std_dev=0.638
C1' B 0, -0.090, 0.561, 1.213, 1.641 max_d=1.641 avg_d=0.561 std_dev=0.652
C4' B 0, -0.025, 0.629, 1.283, 1.785 max_d=1.785 avg_d=0.629 std_dev=0.654
N9 A 0, -0.115, 0.562, 1.239, 1.731 max_d=1.731 avg_d=0.562 std_dev=0.677
C6 A 0, -0.118, 0.570, 1.257, 1.719 max_d=1.719 avg_d=0.570 std_dev=0.688
C5' B 0, 0.040, 0.757, 1.475, 2.108 max_d=2.108 avg_d=0.757 std_dev=0.718
N3 B 0, -0.169, 0.556, 1.281, 1.769 max_d=1.769 avg_d=0.556 std_dev=0.725
O2' B 0, -0.058, 0.690, 1.438, 2.057 max_d=2.057 avg_d=0.690 std_dev=0.748
N3 A 0, -0.165, 0.633, 1.432, 1.983 max_d=1.983 avg_d=0.633 std_dev=0.799
C2' B 0, -0.128, 0.683, 1.493, 2.097 max_d=2.097 avg_d=0.683 std_dev=0.811
O6 B 0, -0.116, 0.734, 1.583, 2.354 max_d=2.354 avg_d=0.734 std_dev=0.849
C5 B 0, -0.204, 0.661, 1.525, 2.182 max_d=2.182 avg_d=0.661 std_dev=0.865
N9 B 0, -0.214, 0.689, 1.592, 2.197 max_d=2.197 avg_d=0.689 std_dev=0.903
C3' B 0, -0.129, 0.793, 1.714, 2.473 max_d=2.473 avg_d=0.793 std_dev=0.921
C2 A 0, -0.193, 0.786, 1.766, 2.633 max_d=2.633 avg_d=0.786 std_dev=0.979
C5 A 0, -0.219, 0.764, 1.747, 2.338 max_d=2.338 avg_d=0.764 std_dev=0.983
O2' A 0, -0.140, 0.876, 1.892, 3.811 max_d=3.811 avg_d=0.876 std_dev=1.016
P B 0, -0.070, 0.973, 2.017, 3.820 max_d=3.820 avg_d=0.973 std_dev=1.044
O3' B 0, -0.135, 0.980, 2.095, 3.066 max_d=3.066 avg_d=0.980 std_dev=1.115
O4' A 0, -0.186, 0.941, 2.067, 2.852 max_d=2.852 avg_d=0.941 std_dev=1.127
C2 B 0, -0.289, 0.838, 1.965, 2.719 max_d=2.719 avg_d=0.838 std_dev=1.127
C3' A 0, -0.178, 0.977, 2.132, 2.849 max_d=2.849 avg_d=0.977 std_dev=1.155
OP1 B 0, -0.130, 1.154, 2.437, 5.702 max_d=5.702 avg_d=1.154 std_dev=1.283
O3' A 0, -0.198, 1.158, 2.514, 3.871 max_d=3.871 avg_d=1.158 std_dev=1.356
N6 A 0, -0.233, 1.176, 2.585, 3.348 max_d=3.348 avg_d=1.176 std_dev=1.409
OP2 B 0, -0.156, 1.332, 2.820, 4.486 max_d=4.486 avg_d=1.332 std_dev=1.488
C4' A 0, -0.328, 1.317, 2.961, 3.978 max_d=3.978 avg_d=1.317 std_dev=1.645
C8 A 0, -0.389, 1.324, 3.037, 4.040 max_d=4.040 avg_d=1.324 std_dev=1.713
C8 B 0, -0.493, 1.353, 3.199, 4.440 max_d=4.440 avg_d=1.353 std_dev=1.846
N7 B 0, -0.495, 1.367, 3.230, 4.532 max_d=4.532 avg_d=1.367 std_dev=1.863
N7 A 0, -0.453, 1.481, 3.415, 4.531 max_d=4.531 avg_d=1.481 std_dev=1.934
N2 B 0, -0.560, 1.570, 3.699, 4.961 max_d=4.961 avg_d=1.570 std_dev=2.130
O5' A 0, -0.557, 1.853, 4.262, 6.202 max_d=6.202 avg_d=1.853 std_dev=2.409
C5' A 0, -0.551, 1.882, 4.316, 5.739 max_d=5.739 avg_d=1.882 std_dev=2.434
OP2 A 0, -0.714, 2.300, 5.314, 9.968 max_d=9.968 avg_d=2.300 std_dev=3.014
P A 0, -0.885, 2.570, 6.024, 8.950 max_d=8.950 avg_d=2.570 std_dev=3.455
OP1 A 0, -1.116, 3.206, 7.527, 9.943 max_d=9.943 avg_d=3.206 std_dev=4.322

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 0.01 0.02 0.02 0.01 0.02 0.06 0.02 0.02 0.04 0.03 0.02 0.02 0.01 0.02 0.33 0.00 0.11 0.26 0.38 0.13
C2 0.03 0.00 0.16 0.15 0.01 0.28 0.02 0.60 0.05 0.02 0.01 0.01 0.01 0.02 0.01 0.41 0.48 0.26 0.83 1.71 0.62 0.91
C2' 0.01 0.16 0.00 0.01 0.10 0.01 0.07 0.22 0.10 0.08 0.15 0.16 0.09 0.06 0.03 0.00 0.03 0.01 0.43 0.31 0.76 0.43
C3' 0.02 0.15 0.01 0.00 0.23 0.00 0.36 0.02 0.34 0.43 0.24 0.12 0.43 0.46 0.26 0.02 0.01 0.01 0.05 0.13 0.10 0.12
C4 0.02 0.01 0.10 0.23 0.00 0.22 0.01 0.39 0.01 0.01 0.03 0.00 0.01 0.00 0.01 0.34 0.24 0.14 0.57 1.30 0.21 0.56
C4' 0.01 0.28 0.01 0.00 0.22 0.00 0.24 0.01 0.29 0.14 0.29 0.23 0.31 0.20 0.13 0.28 0.03 0.00 0.02 0.18 0.16 0.02
C5 0.02 0.02 0.07 0.36 0.01 0.24 0.00 0.41 0.01 0.01 0.02 0.01 0.01 0.00 0.01 0.40 0.10 0.08 0.60 1.60 0.24 0.64
C5' 0.06 0.60 0.22 0.02 0.39 0.01 0.41 0.00 0.53 0.09 0.61 0.49 0.55 0.23 0.16 0.05 0.19 0.02 0.01 0.35 0.36 0.02
C6 0.02 0.05 0.10 0.34 0.01 0.29 0.01 0.53 0.00 0.01 0.01 0.03 0.01 0.01 0.01 0.45 0.14 0.14 0.77 1.94 0.35 0.88
C8 0.02 0.02 0.08 0.43 0.01 0.14 0.01 0.09 0.01 0.00 0.02 0.01 0.02 0.00 0.00 0.28 0.29 0.12 0.13 0.78 0.81 0.17
N1 0.04 0.01 0.15 0.24 0.03 0.29 0.02 0.61 0.01 0.02 0.00 0.01 0.01 0.02 0.03 0.46 0.32 0.21 0.86 1.95 0.58 0.99
N3 0.03 0.01 0.16 0.12 0.00 0.23 0.01 0.49 0.03 0.01 0.01 0.00 0.01 0.01 0.01 0.35 0.51 0.25 0.68 1.36 0.44 0.71
N6 0.02 0.01 0.09 0.43 0.01 0.31 0.01 0.55 0.01 0.02 0.01 0.01 0.00 0.02 0.02 0.49 0.12 0.11 0.79 2.17 0.23 0.92
N7 0.02 0.02 0.06 0.46 0.00 0.20 0.00 0.23 0.01 0.00 0.02 0.01 0.02 0.00 0.01 0.37 0.29 0.06 0.35 1.32 0.61 0.36
N9 0.01 0.01 0.03 0.26 0.01 0.13 0.01 0.16 0.01 0.00 0.03 0.01 0.02 0.01 0.00 0.23 0.10 0.02 0.24 0.78 0.39 0.21
O2' 0.02 0.41 0.00 0.02 0.34 0.28 0.40 0.05 0.45 0.28 0.46 0.35 0.49 0.37 0.23 0.00 0.07 0.25 0.35 0.35 0.76 0.40
O3' 0.33 0.48 0.03 0.01 0.24 0.03 0.10 0.19 0.14 0.29 0.32 0.51 0.12 0.29 0.10 0.07 0.00 0.24 0.17 0.20 0.30 0.34
O4' 0.00 0.26 0.01 0.01 0.14 0.00 0.08 0.02 0.14 0.12 0.21 0.25 0.11 0.06 0.02 0.25 0.24 0.00 0.05 0.11 0.09 0.08
O5' 0.11 0.83 0.43 0.05 0.57 0.02 0.60 0.01 0.77 0.13 0.86 0.68 0.79 0.35 0.24 0.35 0.17 0.05 0.00 0.02 0.02 0.01
OP1 0.26 1.71 0.31 0.13 1.30 0.18 1.60 0.35 1.94 0.78 1.95 1.36 2.17 1.32 0.78 0.35 0.20 0.11 0.02 0.00 0.01 0.01
OP2 0.38 0.62 0.76 0.10 0.21 0.16 0.24 0.36 0.35 0.81 0.58 0.44 0.23 0.61 0.39 0.76 0.30 0.09 0.02 0.01 0.00 0.01
P 0.13 0.91 0.43 0.12 0.56 0.02 0.64 0.02 0.88 0.17 0.99 0.71 0.92 0.36 0.21 0.40 0.34 0.08 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.73 0.24 0.80 0.82 0.37 0.78 0.48 0.77 0.30 1.00 0.23 0.48 0.14 0.86 0.69 0.81 0.88 0.72 0.67 0.30 0.38 0.69 0.42
C2 0.72 0.43 0.83 0.91 0.45 0.72 0.73 0.78 0.48 1.38 0.29 0.86 0.26 1.32 0.83 0.71 0.96 0.65 0.52 0.63 0.33 0.93 0.21
C2' 0.41 0.60 0.50 0.51 0.22 0.50 0.24 0.45 0.41 0.51 0.60 0.81 0.41 0.37 0.30 0.59 0.63 0.42 0.52 0.42 0.49 0.93 0.52
C3' 1.09 0.45 1.00 0.94 0.77 1.08 0.80 1.07 0.62 1.21 0.47 0.33 0.58 1.05 1.02 1.02 0.84 1.14 1.23 0.62 1.21 0.57 1.19
C4 0.66 0.54 0.73 0.78 0.28 0.70 0.46 0.72 0.28 1.12 0.44 0.92 0.30 0.98 0.67 0.70 0.83 0.64 0.60 0.30 0.27 0.88 0.24
C4' 1.72 1.11 1.64 1.60 1.47 1.70 1.51 1.72 1.32 1.90 1.14 0.94 1.25 1.76 1.70 1.61 1.47 1.75 1.69 1.32 1.29 0.28 1.31
C5 0.58 0.83 0.62 0.65 0.21 0.62 0.32 0.64 0.38 1.01 0.74 1.25 0.52 0.83 0.54 0.62 0.71 0.58 0.60 0.35 0.38 0.93 0.28
C5' 1.95 1.37 1.75 1.66 1.72 1.84 1.77 1.88 1.57 2.16 1.40 1.21 1.51 2.03 1.95 1.71 1.40 2.02 1.94 1.56 1.48 0.21 1.30
C6 0.58 0.88 0.64 0.69 0.23 0.61 0.38 0.65 0.36 1.11 0.74 1.35 0.56 0.96 0.59 0.60 0.74 0.56 0.56 0.34 0.36 0.97 0.27
C8 0.54 0.84 0.55 0.54 0.24 0.62 0.29 0.58 0.56 0.74 0.85 1.16 0.53 0.52 0.41 0.65 0.60 0.59 0.71 0.56 0.68 0.86 0.44
N1 0.65 0.67 0.74 0.81 0.32 0.66 0.58 0.72 0.35 1.29 0.49 1.15 0.41 1.20 0.73 0.64 0.86 0.59 0.52 0.45 0.35 0.98 0.24
N3 0.74 0.34 0.84 0.91 0.46 0.74 0.70 0.80 0.46 1.31 0.24 0.72 0.20 1.23 0.82 0.74 0.96 0.67 0.55 0.58 0.24 0.87 0.20
N6 0.48 1.19 0.56 0.62 0.29 0.58 0.31 0.61 0.55 1.02 1.06 1.72 0.80 0.83 0.47 0.55 0.70 0.48 0.55 0.48 0.21 1.01 0.22
N7 0.50 1.03 0.51 0.51 0.31 0.57 0.33 0.55 0.65 0.78 1.01 1.41 0.68 0.55 0.40 0.59 0.57 0.55 0.66 0.65 0.60 0.91 0.38
N9 0.65 0.52 0.70 0.71 0.23 0.70 0.35 0.70 0.27 0.96 0.48 0.84 0.28 0.78 0.59 0.72 0.77 0.66 0.66 0.25 0.42 0.82 0.35
O2' 0.35 1.00 0.50 0.55 0.58 0.43 0.55 0.42 0.75 0.35 0.97 1.22 0.81 0.37 0.36 0.55 0.75 0.34 0.61 0.73 0.83 1.22 0.69
O3' 1.71 1.11 1.64 1.56 1.41 1.70 1.41 1.64 1.24 1.76 1.12 0.94 1.25 1.61 1.63 1.65 1.42 1.74 1.72 1.20 1.55 1.11 1.89
O4' 1.43 0.71 1.43 1.42 1.15 1.41 1.25 1.42 1.03 1.70 0.79 0.50 0.88 1.57 1.43 1.40 1.38 1.41 1.29 1.06 0.83 0.27 0.87
O5' 1.25 0.50 1.04 0.93 0.92 1.16 0.98 1.14 0.76 1.48 0.54 0.33 0.68 1.32 1.22 1.07 0.73 1.35 1.35 0.75 1.13 0.69 0.74
OP1 0.81 0.33 0.53 0.40 0.45 0.71 0.43 0.61 0.31 0.82 0.29 0.40 0.40 0.66 0.68 0.70 0.47 1.00 1.03 0.31 1.31 0.88 0.53
OP2 1.34 0.64 1.12 0.97 1.07 1.12 1.20 1.03 0.98 1.72 0.73 0.39 0.78 1.60 1.37 1.14 0.77 1.37 1.17 0.94 0.69 1.07 0.39
P 1.42 0.64 1.11 0.92 1.06 1.25 1.10 1.18 0.86 1.62 0.66 0.46 0.83 1.44 1.37 1.19 0.68 1.55 1.50 0.81 1.31 0.64 0.76

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.03 0.00 0.01 0.01 0.01 0.01 0.04 0.02 0.02 0.03 0.04 0.03 0.02 0.01 0.02 0.02 0.01 0.11 0.02 0.13 0.58 0.13
C2 0.03 0.00 0.60 0.41 0.01 0.20 0.02 0.46 0.02 0.02 0.01 0.01 0.01 0.02 0.01 0.62 0.60 0.48 0.79 0.02 1.33 0.50 1.11
C2' 0.00 0.60 0.00 0.01 0.32 0.01 0.17 0.02 0.29 0.28 0.48 0.72 0.59 0.14 0.04 0.01 0.02 0.01 0.11 0.22 0.22 0.68 0.22
C3' 0.01 0.41 0.01 0.00 0.23 0.00 0.17 0.02 0.24 0.21 0.35 0.48 0.37 0.15 0.08 0.02 0.01 0.02 0.15 0.19 0.28 0.47 0.21
C4 0.01 0.01 0.32 0.23 0.00 0.11 0.00 0.26 0.01 0.01 0.02 0.01 0.01 0.01 0.01 0.28 0.30 0.25 0.39 0.02 0.64 0.29 0.61
C4' 0.01 0.20 0.01 0.00 0.11 0.00 0.10 0.01 0.13 0.15 0.17 0.24 0.18 0.13 0.06 0.06 0.03 0.00 0.02 0.12 0.15 0.58 0.22
C5 0.01 0.02 0.17 0.17 0.00 0.10 0.00 0.25 0.01 0.01 0.01 0.02 0.01 0.00 0.01 0.14 0.22 0.12 0.34 0.01 0.55 0.48 0.63
C5' 0.04 0.46 0.02 0.02 0.26 0.01 0.25 0.00 0.31 0.30 0.41 0.55 0.40 0.27 0.14 0.05 0.05 0.02 0.01 0.29 0.18 0.15 0.03
C6 0.02 0.02 0.29 0.24 0.01 0.13 0.01 0.31 0.00 0.01 0.01 0.02 0.01 0.01 0.02 0.27 0.34 0.22 0.46 0.01 0.87 0.65 0.89
C8 0.02 0.02 0.28 0.21 0.01 0.15 0.01 0.30 0.01 0.00 0.02 0.02 0.01 0.00 0.01 0.25 0.26 0.26 0.51 0.02 0.40 0.46 0.34
N1 0.03 0.01 0.48 0.35 0.02 0.17 0.01 0.41 0.01 0.02 0.00 0.02 0.01 0.01 0.02 0.48 0.51 0.38 0.68 0.01 1.23 0.65 1.10
N2 0.04 0.01 0.72 0.48 0.01 0.24 0.02 0.55 0.02 0.02 0.02 0.00 0.01 0.02 0.02 0.78 0.74 0.57 0.99 0.03 1.67 0.57 1.31
N3 0.03 0.01 0.59 0.37 0.01 0.18 0.01 0.40 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.58 0.52 0.46 0.67 0.02 1.07 0.28 0.88
N7 0.02 0.02 0.14 0.15 0.01 0.13 0.00 0.27 0.01 0.00 0.01 0.02 0.01 0.00 0.01 0.13 0.17 0.12 0.42 0.02 0.31 0.51 0.42
N9 0.01 0.01 0.04 0.08 0.01 0.06 0.01 0.14 0.02 0.01 0.02 0.02 0.01 0.01 0.00 0.02 0.08 0.01 0.22 0.02 0.21 0.33 0.25
O2' 0.02 0.62 0.01 0.02 0.28 0.06 0.14 0.05 0.27 0.25 0.48 0.78 0.58 0.13 0.02 0.00 0.04 0.07 0.08 0.21 0.25 1.04 0.39
O3' 0.02 0.60 0.02 0.01 0.30 0.03 0.22 0.05 0.34 0.26 0.51 0.74 0.52 0.17 0.08 0.04 0.00 0.03 0.14 0.28 0.34 0.61 0.35
O4' 0.01 0.48 0.01 0.02 0.25 0.00 0.12 0.02 0.22 0.26 0.38 0.57 0.46 0.12 0.01 0.07 0.03 0.00 0.09 0.17 0.12 0.52 0.14
O5' 0.11 0.79 0.11 0.15 0.39 0.02 0.34 0.01 0.46 0.51 0.68 0.99 0.67 0.42 0.22 0.08 0.14 0.09 0.00 0.42 0.02 0.02 0.01
O6 0.02 0.02 0.22 0.19 0.02 0.12 0.01 0.29 0.01 0.02 0.01 0.03 0.02 0.02 0.02 0.21 0.28 0.17 0.42 0.00 0.84 0.78 0.91
OP1 0.13 1.33 0.22 0.28 0.64 0.15 0.55 0.18 0.87 0.40 1.23 1.67 1.07 0.31 0.21 0.25 0.34 0.12 0.02 0.84 0.00 0.02 0.01
OP2 0.58 0.50 0.68 0.47 0.29 0.58 0.48 0.15 0.65 0.46 0.65 0.57 0.28 0.51 0.33 1.04 0.61 0.52 0.02 0.78 0.02 0.00 0.01
P 0.13 1.11 0.22 0.21 0.61 0.22 0.63 0.03 0.89 0.34 1.10 1.31 0.88 0.42 0.25 0.39 0.35 0.14 0.01 0.91 0.01 0.01 0.00