ClaRNA

Doublet Group distance statistics: 18350

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Distances from reference structure (by RMSD)

26, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 1, 0, 0, 0, 10,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C6 A 0, -0.272, 0.486, 1.244, 2.816 max_d=2.816 avg_d=0.486 std_dev=0.758
C1' B 0, -0.288, 0.591, 1.469, 3.350 max_d=3.350 avg_d=0.591 std_dev=0.878
O4' B 0, -0.292, 0.669, 1.630, 3.475 max_d=3.475 avg_d=0.669 std_dev=0.961
N1 A 0, -0.417, 0.561, 1.539, 3.575 max_d=3.575 avg_d=0.561 std_dev=0.978
N9 B 0, -0.389, 0.597, 1.583, 3.803 max_d=3.803 avg_d=0.597 std_dev=0.986
C4 B 0, -0.460, 0.586, 1.632, 4.048 max_d=4.048 avg_d=0.586 std_dev=1.046
N3 B 0, -0.389, 0.690, 1.769, 4.081 max_d=4.081 avg_d=0.690 std_dev=1.079
C5 A 0, -0.396, 0.846, 2.088, 4.061 max_d=4.061 avg_d=0.846 std_dev=1.242
C1' A 0, -0.454, 0.821, 2.096, 3.940 max_d=3.940 avg_d=0.821 std_dev=1.275
C4' B 0, -0.405, 0.881, 2.168, 4.687 max_d=4.687 avg_d=0.881 std_dev=1.287
C2 B 0, -0.539, 0.772, 2.082, 4.987 max_d=4.987 avg_d=0.772 std_dev=1.311
O4' A 0, -0.542, 0.807, 2.156, 4.973 max_d=4.973 avg_d=0.807 std_dev=1.349
C2' B 0, -0.398, 0.980, 2.357, 5.182 max_d=5.182 avg_d=0.980 std_dev=1.377
C8 B 0, -0.445, 0.968, 2.382, 4.437 max_d=4.437 avg_d=0.968 std_dev=1.414
C5 B 0, -0.493, 0.922, 2.337, 4.662 max_d=4.662 avg_d=0.922 std_dev=1.415
N1 B 0, -0.674, 0.841, 2.357, 5.594 max_d=5.594 avg_d=0.841 std_dev=1.515
O2' B 0, -0.493, 1.063, 2.619, 6.506 max_d=6.506 avg_d=1.063 std_dev=1.556
C3' B 0, -0.464, 1.105, 2.674, 5.349 max_d=5.349 avg_d=1.105 std_dev=1.569
C5' B 0, -0.498, 1.122, 2.743, 5.629 max_d=5.629 avg_d=1.122 std_dev=1.620
C6 B 0, -0.584, 1.037, 2.658, 5.349 max_d=5.349 avg_d=1.037 std_dev=1.621
C2 A 0, -0.653, 0.974, 2.601, 5.638 max_d=5.638 avg_d=0.974 std_dev=1.627
N7 B 0, -0.552, 1.174, 2.900, 5.042 max_d=5.042 avg_d=1.174 std_dev=1.726
O5' B 0, -0.568, 1.186, 2.940, 6.280 max_d=6.280 avg_d=1.186 std_dev=1.754
C2' A 0, -0.626, 1.210, 3.046, 5.484 max_d=5.484 avg_d=1.210 std_dev=1.836
C4 A 0, -0.673, 1.183, 3.040, 6.551 max_d=6.551 avg_d=1.183 std_dev=1.856
N3 A 0, -0.755, 1.211, 3.176, 7.104 max_d=7.104 avg_d=1.211 std_dev=1.965
O3' B 0, -0.533, 1.436, 3.406, 6.737 max_d=6.737 avg_d=1.436 std_dev=1.969
N6 B 0, -0.702, 1.407, 3.515, 5.981 max_d=5.981 avg_d=1.407 std_dev=2.108
O2 A 0, -0.789, 1.330, 3.449, 6.604 max_d=6.604 avg_d=1.330 std_dev=2.119
C4' A 0, -0.864, 1.275, 3.414, 7.265 max_d=7.265 avg_d=1.275 std_dev=2.139
C3' A 0, -0.750, 1.399, 3.548, 6.263 max_d=6.263 avg_d=1.399 std_dev=2.149
P B 0, -0.765, 1.422, 3.608, 7.813 max_d=7.813 avg_d=1.422 std_dev=2.186
OP1 B 0, -0.769, 1.471, 3.711, 8.487 max_d=8.487 avg_d=1.471 std_dev=2.240
O4 A 0, -0.864, 1.620, 4.104, 8.246 max_d=8.246 avg_d=1.620 std_dev=2.484
O2' A 0, -0.834, 1.720, 4.275, 7.985 max_d=7.985 avg_d=1.720 std_dev=2.555
OP2 B 0, -0.860, 1.713, 4.286, 8.945 max_d=8.945 avg_d=1.713 std_dev=2.573
C5' A 0, -1.009, 1.625, 4.259, 9.132 max_d=9.132 avg_d=1.625 std_dev=2.634
O3' A 0, -1.013, 2.021, 5.056, 8.681 max_d=8.681 avg_d=2.021 std_dev=3.034
O5' A 0, -1.044, 2.008, 5.060, 10.582 max_d=10.582 avg_d=2.008 std_dev=3.052
P A 0, -1.373, 2.617, 6.607, 13.693 max_d=13.693 avg_d=2.617 std_dev=3.990
OP2 A 0, -1.492, 2.758, 7.008, 14.947 max_d=14.947 avg_d=2.758 std_dev=4.250
OP1 A 0, -1.550, 3.173, 7.896, 14.902 max_d=14.902 avg_d=3.173 std_dev=4.723

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.02 0.01 0.05 0.02 0.03 0.02 0.06 0.02 0.01 0.02 0.04 0.03 0.11 0.03 0.01 0.26 0.36 0.35 0.31
C2 0.02 0.00 0.11 0.21 0.01 0.15 0.02 0.37 0.02 0.01 0.01 0.01 0.33 0.16 0.02 0.13 0.70 0.78 1.09 0.85
C2' 0.01 0.11 0.00 0.01 0.05 0.03 0.10 0.10 0.13 0.04 0.09 0.20 0.00 0.03 0.05 0.01 0.27 0.51 0.26 0.32
C3' 0.05 0.21 0.01 0.00 0.42 0.01 0.50 0.03 0.47 0.27 0.30 0.12 0.02 0.02 0.44 0.04 0.30 0.54 0.34 0.30
C4 0.02 0.01 0.05 0.42 0.00 0.26 0.01 0.54 0.01 0.02 0.01 0.02 0.25 0.46 0.00 0.03 1.04 1.42 1.70 1.35
C4' 0.03 0.15 0.03 0.01 0.26 0.00 0.30 0.01 0.27 0.14 0.20 0.15 0.19 0.04 0.28 0.01 0.02 0.24 0.28 0.12
C5 0.02 0.02 0.10 0.50 0.01 0.30 0.00 0.53 0.00 0.01 0.01 0.02 0.15 0.62 0.01 0.08 1.03 1.49 1.56 1.30
C5' 0.06 0.37 0.10 0.03 0.54 0.01 0.53 0.00 0.43 0.29 0.48 0.33 0.15 0.12 0.59 0.02 0.01 0.30 0.43 0.02
C6 0.02 0.02 0.13 0.47 0.01 0.27 0.00 0.43 0.00 0.01 0.01 0.02 0.12 0.55 0.01 0.12 0.86 1.20 1.13 1.02
N1 0.01 0.01 0.04 0.27 0.02 0.14 0.01 0.29 0.01 0.00 0.01 0.01 0.15 0.23 0.02 0.02 0.63 0.79 0.87 0.75
N3 0.02 0.01 0.09 0.30 0.01 0.20 0.01 0.48 0.01 0.01 0.00 0.02 0.34 0.26 0.01 0.10 0.90 1.10 1.47 1.14
O2 0.04 0.01 0.20 0.12 0.02 0.15 0.02 0.33 0.02 0.01 0.02 0.00 0.45 0.27 0.02 0.21 0.56 0.51 0.91 0.66
O2' 0.03 0.33 0.00 0.02 0.25 0.19 0.15 0.15 0.12 0.15 0.34 0.45 0.00 0.13 0.28 0.19 0.28 0.57 0.23 0.39
O3' 0.11 0.16 0.03 0.02 0.46 0.04 0.62 0.12 0.55 0.23 0.26 0.27 0.13 0.00 0.50 0.08 0.31 0.61 0.54 0.38
O4 0.03 0.02 0.05 0.44 0.00 0.28 0.01 0.59 0.01 0.02 0.01 0.02 0.28 0.50 0.00 0.04 1.12 1.59 1.92 1.49
O4' 0.01 0.13 0.01 0.04 0.03 0.01 0.08 0.02 0.12 0.02 0.10 0.21 0.19 0.08 0.04 0.00 0.20 0.26 0.26 0.20
O5' 0.26 0.70 0.27 0.30 1.04 0.02 1.03 0.01 0.86 0.63 0.90 0.56 0.28 0.31 1.12 0.20 0.00 0.02 0.02 0.01
OP1 0.36 0.78 0.51 0.54 1.42 0.24 1.49 0.30 1.20 0.79 1.10 0.51 0.57 0.61 1.59 0.26 0.02 0.00 0.03 0.01
OP2 0.35 1.09 0.26 0.34 1.70 0.28 1.56 0.43 1.13 0.87 1.47 0.91 0.23 0.54 1.92 0.26 0.02 0.03 0.00 0.01
P 0.31 0.85 0.32 0.30 1.35 0.12 1.30 0.02 1.02 0.75 1.14 0.66 0.39 0.38 1.49 0.20 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.98 1.96 0.98 0.74 1.67 0.61 2.00 0.67 2.24 1.54 2.17 1.71 2.51 2.03 1.34 0.86 0.67 0.82 0.47 0.85 0.53 0.39
C2 1.69 2.84 1.87 1.52 2.53 0.91 2.81 0.57 3.05 2.19 3.04 2.56 3.16 2.62 2.13 1.69 1.43 1.16 0.65 0.60 0.65 0.16
C2' 1.03 1.84 0.85 0.62 1.61 0.84 1.95 0.93 2.15 1.56 2.05 1.63 2.43 2.05 1.32 0.82 0.56 1.03 0.77 1.02 0.55 0.69
C3' 0.95 1.42 0.86 0.82 1.20 1.11 1.40 1.22 1.59 1.09 1.54 1.29 1.86 1.46 0.99 0.95 0.89 1.11 1.03 1.17 0.58 1.01
C4 2.06 2.73 2.50 2.22 2.54 1.41 2.59 0.90 2.72 2.24 2.79 2.59 2.71 2.40 2.32 2.31 2.26 1.46 1.00 0.59 0.79 0.43
C4' 0.89 1.28 0.86 0.86 1.04 1.11 1.23 1.22 1.44 0.91 1.39 1.14 1.73 1.26 0.85 0.96 0.96 1.08 0.87 1.27 0.46 0.94
C5 1.62 2.13 1.98 1.87 2.03 1.13 2.14 0.77 2.23 1.96 2.23 2.00 2.28 2.09 1.88 1.75 1.90 1.17 0.89 0.62 0.79 0.41
C5' 1.26 1.24 1.20 1.19 1.10 1.42 1.07 1.40 1.17 0.96 1.20 1.24 1.31 1.06 1.06 1.35 1.28 1.42 0.95 1.31 0.44 0.94
C6 1.25 1.87 1.45 1.32 1.74 0.75 1.92 0.55 2.03 1.73 2.00 1.71 2.11 1.93 1.56 1.23 1.28 0.91 0.61 0.61 0.70 0.20
N1 1.30 2.20 1.43 1.19 1.98 0.69 2.25 0.52 2.42 1.85 2.37 1.98 2.56 2.23 1.69 1.24 1.10 0.92 0.52 0.65 0.63 0.14
N3 2.05 3.07 2.36 1.98 2.78 1.24 2.90 0.76 3.10 2.34 3.18 2.85 3.10 2.63 2.41 2.19 1.95 1.41 0.86 0.54 0.72 0.28
O2 1.70 3.15 1.81 1.39 2.70 0.86 3.06 0.56 3.46 2.22 3.44 2.77 3.69 2.77 2.18 1.66 1.29 1.17 0.60 0.68 0.62 0.20
O2' 1.19 2.24 0.91 0.69 1.92 1.01 2.36 1.12 2.67 1.75 2.53 1.94 3.07 2.39 1.53 0.91 0.71 1.18 0.95 1.39 0.64 0.97
O3' 1.43 1.62 1.44 1.52 1.42 1.77 1.52 1.90 1.72 1.22 1.69 1.55 2.00 1.51 1.29 1.57 1.65 1.62 1.76 1.86 1.13 1.81
O4 2.35 2.96 2.92 2.59 2.73 1.71 2.70 1.12 2.85 2.33 2.97 2.85 2.84 2.45 2.50 2.80 2.72 1.68 1.16 0.66 0.83 0.55
O4' 0.69 1.48 0.81 0.73 1.19 0.62 1.47 0.74 1.70 1.10 1.65 1.26 1.96 1.51 0.91 0.76 0.78 0.67 0.38 0.87 0.59 0.42
O5' 1.77 1.51 1.71 1.71 1.44 1.94 1.25 1.88 1.25 1.24 1.36 1.60 1.26 1.15 1.48 1.88 1.80 1.95 1.41 1.63 0.66 1.30
OP1 2.42 1.79 2.41 2.42 1.80 2.71 1.41 2.61 1.28 1.57 1.46 2.01 1.13 1.28 1.95 2.71 2.64 2.65 2.12 2.31 1.43 1.99
OP2 2.22 2.20 2.23 2.07 2.05 2.15 1.86 1.82 1.90 1.67 2.05 2.25 1.83 1.67 1.98 2.40 2.18 2.21 1.37 1.13 0.64 0.94
P 2.22 1.90 2.17 2.11 1.83 2.31 1.55 2.12 1.51 1.55 1.68 2.03 1.39 1.40 1.88 2.39 2.26 2.34 1.61 1.66 0.78 1.38

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.05 0.01 0.02 0.03 0.02 0.02 0.07 0.03 0.02 0.04 0.05 0.03 0.01 0.01 0.03 0.11 0.00 0.23 0.35 0.33 0.23
C2 0.05 0.00 0.25 0.33 0.01 0.26 0.01 0.42 0.01 0.02 0.00 0.00 0.01 0.02 0.01 0.27 0.37 0.22 0.64 0.76 0.94 0.76
C2' 0.01 0.25 0.00 0.00 0.14 0.01 0.08 0.09 0.13 0.14 0.20 0.25 0.10 0.10 0.05 0.01 0.03 0.02 0.24 0.25 0.36 0.23
C3' 0.02 0.33 0.00 0.00 0.19 0.01 0.19 0.03 0.21 0.27 0.27 0.32 0.22 0.25 0.13 0.02 0.01 0.02 0.25 0.23 0.33 0.23
C4 0.03 0.01 0.14 0.19 0.00 0.13 0.00 0.25 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.14 0.17 0.11 0.46 0.51 0.70 0.51
C4' 0.02 0.26 0.01 0.01 0.13 0.00 0.12 0.01 0.14 0.24 0.20 0.25 0.14 0.20 0.09 0.15 0.05 0.01 0.02 0.17 0.23 0.10
C5 0.02 0.01 0.08 0.19 0.00 0.12 0.00 0.28 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.16 0.15 0.04 0.51 0.52 0.89 0.59
C5' 0.07 0.42 0.09 0.03 0.25 0.01 0.28 0.00 0.31 0.38 0.37 0.38 0.33 0.37 0.19 0.07 0.12 0.01 0.01 0.14 0.21 0.02
C6 0.03 0.01 0.13 0.21 0.01 0.14 0.01 0.31 0.00 0.02 0.00 0.01 0.01 0.02 0.01 0.17 0.19 0.09 0.54 0.60 0.99 0.67
C8 0.02 0.02 0.14 0.27 0.01 0.24 0.01 0.38 0.02 0.00 0.02 0.01 0.02 0.01 0.01 0.26 0.24 0.15 0.62 0.53 0.92 0.63
N1 0.04 0.00 0.20 0.27 0.01 0.20 0.01 0.37 0.00 0.02 0.00 0.01 0.01 0.02 0.01 0.21 0.29 0.16 0.60 0.71 1.00 0.74
N3 0.05 0.00 0.25 0.32 0.00 0.25 0.01 0.38 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.26 0.34 0.22 0.58 0.68 0.78 0.66
N6 0.03 0.01 0.10 0.22 0.01 0.14 0.01 0.33 0.01 0.02 0.01 0.01 0.00 0.02 0.01 0.18 0.18 0.06 0.56 0.62 1.11 0.72
N7 0.01 0.02 0.10 0.25 0.01 0.20 0.01 0.37 0.02 0.01 0.02 0.01 0.02 0.00 0.01 0.24 0.22 0.09 0.62 0.57 1.06 0.69
N9 0.01 0.01 0.05 0.13 0.01 0.09 0.01 0.19 0.01 0.01 0.01 0.01 0.01 0.01 0.00 0.11 0.10 0.02 0.40 0.39 0.58 0.38
O2' 0.03 0.27 0.01 0.02 0.14 0.15 0.16 0.07 0.17 0.26 0.21 0.26 0.18 0.24 0.11 0.00 0.06 0.12 0.19 0.31 0.41 0.23
O3' 0.11 0.37 0.03 0.01 0.17 0.05 0.15 0.12 0.19 0.24 0.29 0.34 0.18 0.22 0.10 0.06 0.00 0.07 0.30 0.38 0.47 0.31
O4' 0.00 0.22 0.02 0.02 0.11 0.01 0.04 0.01 0.09 0.15 0.16 0.22 0.06 0.09 0.02 0.12 0.07 0.00 0.21 0.37 0.27 0.23
O5' 0.23 0.64 0.24 0.25 0.46 0.02 0.51 0.01 0.54 0.62 0.60 0.58 0.56 0.62 0.40 0.19 0.30 0.21 0.00 0.02 0.02 0.01
OP1 0.35 0.76 0.25 0.23 0.51 0.17 0.52 0.14 0.60 0.53 0.71 0.68 0.62 0.57 0.39 0.31 0.38 0.37 0.02 0.00 0.03 0.01
OP2 0.33 0.94 0.36 0.33 0.70 0.23 0.89 0.21 0.99 0.92 1.00 0.78 1.11 1.06 0.58 0.41 0.47 0.27 0.02 0.03 0.00 0.01
P 0.23 0.76 0.23 0.23 0.51 0.10 0.59 0.02 0.67 0.63 0.74 0.66 0.72 0.69 0.38 0.23 0.31 0.23 0.01 0.01 0.01 0.00