ClaRNA

Doublet Group distance statistics: 32671

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Distances from reference structure (by RMSD)

50, 5, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 11,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N1 B 0, -0.266, 0.290, 0.846, 2.079 max_d=2.079 avg_d=0.290 std_dev=0.556
N1 A 0, -0.259, 0.299, 0.858, 1.672 max_d=1.672 avg_d=0.299 std_dev=0.558
C6 B 0, -0.259, 0.337, 0.933, 2.139 max_d=2.139 avg_d=0.337 std_dev=0.596
C2 A 0, -0.269, 0.328, 0.926, 2.322 max_d=2.322 avg_d=0.328 std_dev=0.597
C1' B 0, -0.308, 0.330, 0.968, 2.884 max_d=2.884 avg_d=0.330 std_dev=0.638
C2' A 0, -0.233, 0.428, 1.090, 2.622 max_d=2.622 avg_d=0.428 std_dev=0.661
C1' A 0, -0.311, 0.397, 1.104, 3.047 max_d=3.047 avg_d=0.397 std_dev=0.707
O4' B 0, -0.332, 0.378, 1.088, 3.279 max_d=3.279 avg_d=0.378 std_dev=0.710
N3 A 0, -0.372, 0.398, 1.169, 2.652 max_d=2.652 avg_d=0.398 std_dev=0.771
C5 B 0, -0.391, 0.457, 1.305, 3.089 max_d=3.089 avg_d=0.457 std_dev=0.848
C2 B 0, -0.418, 0.466, 1.349, 2.788 max_d=2.788 avg_d=0.466 std_dev=0.883
C6 A 0, -0.430, 0.467, 1.364, 3.037 max_d=3.037 avg_d=0.467 std_dev=0.897
O2 A 0, -0.427, 0.470, 1.367, 4.415 max_d=4.415 avg_d=0.470 std_dev=0.897
C2' B 0, -0.422, 0.476, 1.374, 3.810 max_d=3.810 avg_d=0.476 std_dev=0.898
O5' B 0, -0.476, 0.515, 1.506, 4.995 max_d=4.995 avg_d=0.515 std_dev=0.991
O4' A 0, -0.548, 0.479, 1.506, 4.625 max_d=4.625 avg_d=0.479 std_dev=1.027
C4 B 0, -0.503, 0.527, 1.557, 3.499 max_d=3.499 avg_d=0.527 std_dev=1.030
C4' B 0, -0.514, 0.519, 1.551, 4.634 max_d=4.634 avg_d=0.519 std_dev=1.032
N3 B 0, -0.510, 0.564, 1.638, 3.176 max_d=3.176 avg_d=0.564 std_dev=1.074
C3' B 0, -0.554, 0.540, 1.635, 4.882 max_d=4.882 avg_d=0.540 std_dev=1.095
C4 A 0, -0.569, 0.564, 1.697, 4.374 max_d=4.374 avg_d=0.564 std_dev=1.133
O2 B 0, -0.534, 0.631, 1.796, 4.400 max_d=4.400 avg_d=0.631 std_dev=1.165
O2' B 0, -0.534, 0.639, 1.813, 5.144 max_d=5.144 avg_d=0.639 std_dev=1.174
O2' A 0, -0.402, 0.791, 1.985, 4.277 max_d=4.277 avg_d=0.791 std_dev=1.194
C5 A 0, -0.630, 0.625, 1.881, 4.560 max_d=4.560 avg_d=0.625 std_dev=1.255
C3' A 0, -0.583, 0.675, 1.934, 4.921 max_d=4.921 avg_d=0.675 std_dev=1.258
C5' B 0, -0.635, 0.645, 1.925, 5.787 max_d=5.787 avg_d=0.645 std_dev=1.280
P B 0, -0.701, 0.619, 1.938, 7.021 max_d=7.021 avg_d=0.619 std_dev=1.319
C4' A 0, -0.707, 0.639, 1.986, 5.866 max_d=5.866 avg_d=0.639 std_dev=1.346
N4 B 0, -0.644, 0.717, 2.078, 4.618 max_d=4.618 avg_d=0.717 std_dev=1.361
OP2 B 0, -0.769, 0.727, 2.223, 7.011 max_d=7.011 avg_d=0.727 std_dev=1.496
O3' B 0, -0.765, 0.769, 2.303, 6.903 max_d=6.903 avg_d=0.769 std_dev=1.534
N4 A 0, -0.768, 0.775, 2.318, 6.264 max_d=6.264 avg_d=0.775 std_dev=1.543
C5' A 0, -0.845, 0.754, 2.352, 7.041 max_d=7.041 avg_d=0.754 std_dev=1.599
O5' A 0, -0.976, 0.831, 2.638, 8.091 max_d=8.091 avg_d=0.831 std_dev=1.807
OP1 B 0, -0.867, 1.013, 2.893, 7.490 max_d=7.490 avg_d=1.013 std_dev=1.880
O3' A 0, -0.914, 1.092, 3.097, 6.837 max_d=6.837 avg_d=1.092 std_dev=2.005
P A 0, -1.300, 1.224, 3.748, 10.779 max_d=10.779 avg_d=1.224 std_dev=2.524
OP1 A 0, -1.314, 1.361, 4.037, 11.233 max_d=11.233 avg_d=1.361 std_dev=2.675
OP2 A 0, -1.440, 1.480, 4.400, 12.046 max_d=12.046 avg_d=1.480 std_dev=2.920

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 0.01 0.01 0.06 0.01 0.01 0.01 0.01 0.02 0.01 0.27 0.00 0.08 0.32 0.77 0.36
C2 0.01 0.00 0.06 0.12 0.01 0.12 0.01 0.22 0.01 0.01 0.00 0.01 0.00 0.32 0.25 0.11 0.29 0.86 1.22 0.81
C2' 0.00 0.06 0.00 0.00 0.04 0.01 0.07 0.18 0.09 0.02 0.05 0.04 0.11 0.00 0.03 0.02 0.19 0.26 0.54 0.21
C3' 0.01 0.12 0.00 0.00 0.32 0.00 0.42 0.02 0.39 0.20 0.21 0.35 0.06 0.02 0.00 0.01 0.16 0.18 0.49 0.17
C4 0.01 0.01 0.04 0.32 0.00 0.14 0.00 0.20 0.01 0.01 0.00 0.00 0.01 0.33 0.13 0.02 0.26 0.81 0.90 0.65
C4' 0.01 0.12 0.01 0.00 0.14 0.00 0.14 0.01 0.12 0.09 0.14 0.16 0.14 0.25 0.03 0.00 0.01 0.13 0.39 0.12
C5 0.01 0.01 0.07 0.42 0.00 0.14 0.00 0.15 0.00 0.01 0.01 0.01 0.01 0.24 0.34 0.08 0.30 0.58 0.60 0.44
C5' 0.06 0.22 0.18 0.02 0.20 0.01 0.15 0.00 0.14 0.10 0.25 0.23 0.28 0.08 0.14 0.01 0.01 0.15 0.24 0.02
C6 0.01 0.01 0.09 0.39 0.01 0.12 0.00 0.14 0.00 0.00 0.01 0.01 0.01 0.18 0.30 0.11 0.30 0.45 0.55 0.34
N1 0.01 0.01 0.02 0.20 0.01 0.09 0.01 0.10 0.00 0.00 0.01 0.01 0.01 0.19 0.06 0.01 0.16 0.53 0.86 0.50
N3 0.01 0.00 0.05 0.21 0.00 0.14 0.01 0.25 0.01 0.01 0.00 0.01 0.01 0.36 0.13 0.08 0.30 0.97 1.18 0.84
N4 0.01 0.01 0.04 0.35 0.00 0.16 0.01 0.23 0.01 0.01 0.01 0.00 0.02 0.36 0.18 0.02 0.28 0.90 0.89 0.70
O2 0.02 0.00 0.11 0.06 0.01 0.14 0.01 0.28 0.01 0.01 0.01 0.02 0.00 0.35 0.51 0.21 0.41 1.00 1.48 1.00
O2' 0.01 0.32 0.00 0.02 0.33 0.25 0.24 0.08 0.18 0.19 0.36 0.36 0.35 0.00 0.06 0.18 0.26 0.26 0.78 0.38
O3' 0.27 0.25 0.03 0.00 0.13 0.03 0.34 0.14 0.30 0.06 0.13 0.18 0.51 0.06 0.00 0.19 0.13 0.20 0.48 0.17
O4' 0.00 0.11 0.02 0.01 0.02 0.00 0.08 0.01 0.11 0.01 0.08 0.02 0.21 0.18 0.19 0.00 0.10 0.30 0.71 0.36
O5' 0.08 0.29 0.19 0.16 0.26 0.01 0.30 0.01 0.30 0.16 0.30 0.28 0.41 0.26 0.13 0.10 0.00 0.01 0.02 0.01
OP1 0.32 0.86 0.26 0.18 0.81 0.13 0.58 0.15 0.45 0.53 0.97 0.90 1.00 0.26 0.20 0.30 0.01 0.00 0.01 0.01
OP2 0.77 1.22 0.54 0.49 0.90 0.39 0.60 0.24 0.55 0.86 1.18 0.89 1.48 0.78 0.48 0.71 0.02 0.01 0.00 0.00
P 0.36 0.81 0.21 0.17 0.65 0.12 0.44 0.02 0.34 0.50 0.84 0.70 1.00 0.38 0.17 0.36 0.01 0.01 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.81 1.05 0.78 0.73 1.06 0.53 1.01 0.41 0.95 0.93 1.11 1.08 1.12 0.69 0.77 0.70 0.27 0.33 0.23 0.16
C2 0.95 1.38 0.90 0.69 1.35 0.51 1.10 0.29 0.97 1.09 1.49 1.43 1.50 0.88 0.69 0.73 0.22 0.90 0.34 0.21
C2' 0.64 0.73 0.57 0.60 0.80 0.47 0.89 0.45 0.87 0.73 0.77 0.80 0.77 0.50 0.67 0.62 0.34 0.22 0.21 0.34
C3' 0.36 0.46 0.39 0.61 0.80 0.38 0.98 0.59 0.87 0.55 0.58 0.87 0.40 0.25 0.75 0.43 0.55 0.66 0.55 0.86
C4 1.19 1.84 1.12 0.79 1.89 0.57 1.46 0.30 1.19 1.41 2.04 2.10 1.99 1.08 0.69 0.84 0.36 1.30 0.45 0.48
C4' 0.43 0.69 0.59 0.74 0.95 0.39 1.01 0.47 0.84 0.63 0.82 1.06 0.68 0.45 0.90 0.39 0.37 0.43 0.35 0.56
C5 1.24 1.92 1.17 0.87 2.02 0.62 1.68 0.32 1.39 1.53 2.11 2.19 2.03 1.04 0.73 0.90 0.37 1.23 0.44 0.48
C5' 0.41 0.76 0.74 0.85 1.08 0.44 1.07 0.35 0.78 0.61 0.94 1.28 0.77 0.73 1.06 0.24 0.18 0.30 0.61 0.28
C6 1.09 1.64 1.05 0.87 1.74 0.60 1.54 0.34 1.32 1.36 1.80 1.84 1.72 0.89 0.76 0.83 0.30 0.92 0.36 0.28
N1 0.94 1.36 0.91 0.76 1.39 0.54 1.22 0.32 1.08 1.13 1.47 1.46 1.45 0.81 0.74 0.74 0.22 0.74 0.31 0.13
N3 1.05 1.59 1.00 0.71 1.58 0.53 1.21 0.29 1.02 1.21 1.75 1.73 1.75 1.00 0.67 0.76 0.29 1.16 0.41 0.37
N4 1.27 1.99 1.19 0.79 2.03 0.58 1.49 0.34 1.20 1.49 2.22 2.31 2.20 1.19 0.67 0.86 0.42 1.45 0.50 0.59
O2 0.88 1.20 0.82 0.63 1.12 0.49 0.93 0.29 0.86 0.97 1.26 1.16 1.33 0.84 0.67 0.71 0.20 0.76 0.30 0.12
O2' 0.71 0.60 0.51 0.42 0.63 0.50 0.79 0.41 0.83 0.69 0.57 0.59 0.64 0.62 0.50 0.74 0.40 0.36 0.20 0.40
O3' 0.51 0.33 0.53 0.86 0.69 0.76 0.99 1.11 0.96 0.60 0.40 0.70 0.16 0.35 1.01 0.64 1.19 1.50 1.14 1.66
O4' 0.68 1.00 0.75 0.77 1.11 0.45 1.04 0.37 0.90 0.85 1.11 1.19 1.05 0.62 0.87 0.56 0.23 0.17 0.36 0.22
O5' 0.73 1.05 1.07 1.17 1.30 0.73 1.23 0.60 0.98 0.90 1.21 1.48 1.06 1.02 1.42 0.52 0.33 0.34 0.67 0.23
OP1 1.01 1.25 1.41 1.36 1.58 1.00 1.44 0.76 1.13 1.09 1.45 1.85 1.22 1.52 1.61 0.75 0.71 0.51 1.10 0.58
OP2 1.46 1.96 1.62 1.54 2.36 1.09 2.21 0.87 1.87 1.77 2.24 2.62 1.87 1.55 1.73 1.14 0.53 0.57 0.58 0.43
P 1.06 1.40 1.39 1.42 1.74 0.96 1.62 0.75 1.32 1.24 1.62 1.98 1.36 1.38 1.69 0.79 0.47 0.43 0.75 0.29

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 0.01 0.01 0.01 0.02 0.02 0.03 0.02 0.01 0.00 0.13 0.23 0.44 0.22
C2 0.02 0.00 0.05 0.09 0.01 0.15 0.01 0.22 0.01 0.01 0.01 0.02 0.01 0.09 0.08 0.15 0.50 0.48 1.00 0.64
C2' 0.00 0.05 0.00 0.00 0.03 0.02 0.04 0.02 0.04 0.02 0.04 0.04 0.08 0.00 0.01 0.01 0.15 0.24 0.40 0.18
C3' 0.01 0.09 0.00 0.00 0.09 0.01 0.19 0.02 0.21 0.06 0.07 0.10 0.21 0.01 0.01 0.01 0.19 0.22 0.41 0.17
C4 0.02 0.01 0.03 0.09 0.00 0.05 0.00 0.10 0.01 0.01 0.01 0.01 0.02 0.04 0.11 0.02 0.43 0.49 1.25 0.66
C4' 0.01 0.15 0.02 0.01 0.05 0.00 0.18 0.01 0.21 0.03 0.11 0.05 0.31 0.07 0.02 0.00 0.02 0.10 0.19 0.04
C5 0.01 0.01 0.04 0.19 0.00 0.18 0.00 0.30 0.00 0.01 0.01 0.02 0.02 0.09 0.19 0.12 0.44 0.62 1.25 0.68
C5' 0.01 0.22 0.02 0.02 0.10 0.01 0.30 0.00 0.34 0.06 0.18 0.10 0.48 0.07 0.05 0.01 0.01 0.14 0.25 0.02
C6 0.01 0.01 0.04 0.21 0.01 0.21 0.00 0.34 0.00 0.00 0.01 0.02 0.01 0.10 0.19 0.16 0.41 0.58 1.03 0.59
N1 0.01 0.01 0.02 0.06 0.01 0.03 0.01 0.06 0.00 0.00 0.01 0.01 0.01 0.02 0.06 0.01 0.28 0.35 0.79 0.42
N3 0.02 0.01 0.04 0.07 0.01 0.11 0.01 0.18 0.01 0.01 0.00 0.02 0.02 0.07 0.08 0.11 0.52 0.51 1.20 0.72
N4 0.02 0.02 0.04 0.10 0.01 0.05 0.02 0.10 0.02 0.01 0.02 0.00 0.04 0.04 0.12 0.03 0.47 0.52 1.39 0.74
O2 0.03 0.01 0.08 0.21 0.02 0.31 0.02 0.48 0.01 0.01 0.02 0.04 0.00 0.18 0.18 0.27 0.74 0.71 1.09 0.85
O2' 0.02 0.09 0.00 0.01 0.04 0.07 0.09 0.07 0.10 0.02 0.07 0.04 0.18 0.00 0.04 0.06 0.09 0.15 0.15 0.11
O3' 0.01 0.08 0.01 0.01 0.11 0.02 0.19 0.05 0.19 0.06 0.08 0.12 0.18 0.04 0.00 0.01 0.13 0.23 0.24 0.15
O4' 0.00 0.15 0.01 0.01 0.02 0.00 0.12 0.01 0.16 0.01 0.11 0.03 0.27 0.06 0.01 0.00 0.08 0.17 0.32 0.15
O5' 0.13 0.50 0.15 0.19 0.43 0.02 0.44 0.01 0.41 0.28 0.52 0.47 0.74 0.09 0.13 0.08 0.00 0.02 0.02 0.01
OP1 0.23 0.48 0.24 0.22 0.49 0.10 0.62 0.14 0.58 0.35 0.51 0.52 0.71 0.15 0.23 0.17 0.02 0.00 0.01 0.01
OP2 0.44 1.00 0.40 0.41 1.25 0.19 1.25 0.25 1.03 0.79 1.20 1.39 1.09 0.15 0.24 0.32 0.02 0.01 0.00 0.01
P 0.22 0.64 0.18 0.17 0.66 0.04 0.68 0.02 0.59 0.42 0.72 0.74 0.85 0.11 0.15 0.15 0.01 0.01 0.01 0.00