ClaRNA

Doublet Group distance statistics: 43857

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Distances from reference structure (by RMSD)

1, 6, 29, 28, 42, 35, 36, 2, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N1 A 0, 0.108, 0.180, 0.251, 0.543 max_d=0.543 avg_d=0.180 std_dev=0.071
C4 B 0, 0.103, 0.186, 0.269, 0.354 max_d=0.354 avg_d=0.186 std_dev=0.083
N3 B 0, 0.213, 0.312, 0.411, 0.707 max_d=0.707 avg_d=0.312 std_dev=0.099
N9 B 0, 0.157, 0.271, 0.384, 0.701 max_d=0.701 avg_d=0.271 std_dev=0.114
C2 B 0, 0.162, 0.285, 0.409, 0.652 max_d=0.652 avg_d=0.285 std_dev=0.123
C6 A 0, 0.331, 0.485, 0.639, 1.075 max_d=1.075 avg_d=0.485 std_dev=0.154
C1' A 0, 0.194, 0.349, 0.504, 0.977 max_d=0.977 avg_d=0.349 std_dev=0.155
C4 A 0, 0.276, 0.459, 0.641, 0.941 max_d=0.941 avg_d=0.459 std_dev=0.183
C8 B 0, 0.285, 0.475, 0.666, 1.369 max_d=1.369 avg_d=0.475 std_dev=0.191
N1 B 0, 0.149, 0.353, 0.557, 0.816 max_d=0.816 avg_d=0.353 std_dev=0.204
C5 A 0, 0.274, 0.483, 0.692, 1.515 max_d=1.515 avg_d=0.483 std_dev=0.209
C5 B 0, 0.163, 0.403, 0.644, 1.071 max_d=1.071 avg_d=0.403 std_dev=0.240
C2 A 0, 0.334, 0.581, 0.828, 1.150 max_d=1.150 avg_d=0.581 std_dev=0.247
C1' B 0, 0.129, 0.436, 0.742, 0.942 max_d=0.942 avg_d=0.436 std_dev=0.306
N7 B 0, 0.300, 0.616, 0.932, 1.787 max_d=1.787 avg_d=0.616 std_dev=0.316
N3 A 0, 0.330, 0.674, 1.017, 1.583 max_d=1.583 avg_d=0.674 std_dev=0.343
C6 B 0, 0.099, 0.464, 0.829, 1.200 max_d=1.200 avg_d=0.464 std_dev=0.365
O4 A 0, 0.008, 0.395, 0.781, 1.524 max_d=1.524 avg_d=0.395 std_dev=0.387
O2' B 0, 0.529, 0.943, 1.358, 2.716 max_d=2.716 avg_d=0.943 std_dev=0.414
O2 A 0, 0.534, 0.960, 1.385, 1.889 max_d=1.889 avg_d=0.960 std_dev=0.426
C2' B 0, 0.423, 0.903, 1.383, 1.642 max_d=1.642 avg_d=0.903 std_dev=0.480
N6 B 0, 0.333, 0.907, 1.481, 1.654 max_d=1.654 avg_d=0.907 std_dev=0.574
O4' B 0, 0.327, 0.938, 1.548, 2.026 max_d=2.026 avg_d=0.938 std_dev=0.611
C2' A 0, 0.480, 1.290, 2.100, 2.304 max_d=2.304 avg_d=1.290 std_dev=0.810
O4' A 0, 0.668, 1.500, 2.331, 2.671 max_d=2.671 avg_d=1.500 std_dev=0.831
O5' B 0, 0.808, 1.687, 2.566, 4.208 max_d=4.208 avg_d=1.687 std_dev=0.879
C4' B 0, 0.433, 1.335, 2.237, 2.706 max_d=2.706 avg_d=1.335 std_dev=0.902
C5' B 0, 0.827, 1.753, 2.680, 3.428 max_d=3.428 avg_d=1.753 std_dev=0.927
O2' A 0, 0.543, 1.480, 2.418, 2.755 max_d=2.755 avg_d=1.480 std_dev=0.937
C3' B 0, 0.345, 1.294, 2.243, 2.771 max_d=2.771 avg_d=1.294 std_dev=0.949
P B 0, 0.542, 1.561, 2.580, 5.477 max_d=5.477 avg_d=1.561 std_dev=1.019
C3' A 0, 0.826, 2.042, 3.259, 3.366 max_d=3.366 avg_d=2.042 std_dev=1.216
C4' A 0, 0.903, 2.164, 3.424, 3.799 max_d=3.799 avg_d=2.164 std_dev=1.261
OP1 B 0, 0.940, 2.320, 3.700, 5.725 max_d=5.725 avg_d=2.320 std_dev=1.380
O3' A 0, 1.117, 2.574, 4.031, 4.424 max_d=4.424 avg_d=2.574 std_dev=1.457
O3' B 0, 0.223, 1.790, 3.357, 4.239 max_d=4.239 avg_d=1.790 std_dev=1.567
OP2 B 0, 0.587, 2.256, 3.924, 6.681 max_d=6.681 avg_d=2.256 std_dev=1.668
C5' A 0, 1.366, 3.196, 5.027, 5.479 max_d=5.479 avg_d=3.196 std_dev=1.830
O5' A 0, 0.902, 3.328, 5.755, 6.630 max_d=6.630 avg_d=3.328 std_dev=2.427
P A 0, 1.099, 4.308, 7.517, 8.796 max_d=8.796 avg_d=4.308 std_dev=3.209
OP1 A 0, 1.719, 5.302, 8.885, 9.723 max_d=9.723 avg_d=5.302 std_dev=3.583
OP2 A 0, 0.790, 4.464, 8.138, 10.027 max_d=10.027 avg_d=4.464 std_dev=3.674

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 0.03 0.00 0.01 0.04 0.01 0.02 0.10 0.01 0.01 0.03 0.04 0.02 0.35 0.03 0.00 0.37 0.35 0.19 0.34
C2 0.03 0.00 0.30 0.24 0.06 0.18 0.02 0.34 0.01 0.02 0.01 0.02 0.19 0.18 0.02 0.35 0.42 0.24 0.26 0.34
C2' 0.00 0.30 0.00 0.01 0.06 0.01 0.17 0.23 0.24 0.03 0.24 0.47 0.00 0.03 0.05 0.01 0.16 0.14 0.13 0.14
C3' 0.01 0.24 0.01 0.00 0.37 0.00 0.41 0.02 0.37 0.24 0.32 0.18 0.02 0.01 0.11 0.02 0.23 0.29 0.14 0.20
C4 0.04 0.06 0.06 0.37 0.00 0.10 0.01 0.12 0.02 0.04 0.02 0.04 0.31 0.13 0.01 0.07 0.99 0.68 0.98 1.10
C4' 0.01 0.18 0.01 0.00 0.10 0.00 0.31 0.01 0.36 0.07 0.11 0.41 0.31 0.03 0.09 0.00 0.02 0.19 0.50 0.10
C5 0.02 0.02 0.17 0.41 0.01 0.31 0.00 0.33 0.00 0.01 0.03 0.02 0.58 0.21 0.01 0.23 1.36 1.11 1.55 1.59
C5' 0.10 0.34 0.23 0.02 0.12 0.01 0.33 0.00 0.37 0.07 0.27 0.59 0.08 0.23 0.16 0.02 0.01 0.19 0.39 0.02
C6 0.01 0.01 0.24 0.37 0.02 0.36 0.00 0.37 0.00 0.01 0.04 0.02 0.61 0.17 0.02 0.33 1.30 1.05 1.29 1.44
N1 0.01 0.02 0.03 0.24 0.04 0.07 0.01 0.07 0.01 0.00 0.03 0.02 0.19 0.12 0.02 0.02 0.72 0.51 0.42 0.71
N3 0.03 0.01 0.24 0.32 0.02 0.11 0.03 0.27 0.04 0.03 0.00 0.01 0.09 0.10 0.02 0.26 0.62 0.32 0.37 0.58
O2 0.04 0.02 0.47 0.18 0.04 0.41 0.02 0.59 0.02 0.02 0.01 0.00 0.54 0.35 0.02 0.62 0.12 0.40 0.79 0.29
O2' 0.02 0.19 0.00 0.02 0.31 0.31 0.58 0.08 0.61 0.19 0.09 0.54 0.00 0.05 0.07 0.22 0.25 0.31 0.08 0.25
O3' 0.35 0.18 0.03 0.01 0.13 0.03 0.21 0.23 0.17 0.12 0.10 0.35 0.05 0.00 0.15 0.27 0.27 0.53 0.22 0.23
O4 0.03 0.02 0.05 0.11 0.01 0.09 0.01 0.16 0.02 0.02 0.02 0.02 0.07 0.15 0.00 0.05 0.24 0.25 0.40 0.26
O4' 0.00 0.35 0.01 0.02 0.07 0.00 0.23 0.02 0.33 0.02 0.26 0.62 0.22 0.27 0.05 0.00 0.32 0.40 0.41 0.26
O5' 0.37 0.42 0.16 0.23 0.99 0.02 1.36 0.01 1.30 0.72 0.62 0.12 0.25 0.27 0.24 0.32 0.00 0.02 0.02 0.01
OP1 0.35 0.24 0.14 0.29 0.68 0.19 1.11 0.19 1.05 0.51 0.32 0.40 0.31 0.53 0.25 0.40 0.02 0.00 0.01 0.01
OP2 0.19 0.26 0.13 0.14 0.98 0.50 1.55 0.39 1.29 0.42 0.37 0.79 0.08 0.22 0.40 0.41 0.02 0.01 0.00 0.01
P 0.34 0.34 0.14 0.20 1.10 0.10 1.59 0.02 1.44 0.71 0.58 0.29 0.25 0.23 0.26 0.26 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' 0.47 0.32 0.56 0.57 0.31 0.75 0.34 0.94 0.42 0.31 0.35 0.34 0.64 0.38 0.35 0.59 0.48 0.71 1.41 1.32 2.13 1.30
C2 0.61 0.35 0.54 0.39 0.36 0.82 0.22 0.93 0.31 0.40 0.33 0.40 0.61 0.24 0.47 0.69 0.52 0.90 1.27 1.59 1.58 1.09
C2' 1.13 0.69 1.25 1.17 0.82 1.43 0.65 1.60 0.50 0.86 0.53 0.84 0.31 0.67 0.95 1.28 1.10 1.35 2.02 1.94 2.47 1.82
C3' 1.09 0.65 1.31 1.31 0.82 1.42 0.71 1.66 0.54 0.95 0.52 0.79 0.32 0.80 0.96 1.31 1.19 1.26 2.19 2.07 2.86 2.09
C4 0.59 0.39 0.42 0.19 0.47 0.58 0.39 0.64 0.28 0.52 0.31 0.46 0.17 0.43 0.54 0.72 0.24 0.78 1.18 1.58 1.54 1.05
C4' 0.64 0.39 0.85 0.92 0.46 1.02 0.48 1.31 0.49 0.60 0.43 0.42 0.56 0.57 0.56 0.80 0.77 0.85 1.84 1.73 2.66 1.82
C5 0.47 0.33 0.38 0.41 0.36 0.50 0.29 0.60 0.23 0.38 0.27 0.38 0.19 0.31 0.41 0.61 0.29 0.64 1.30 1.51 1.94 1.22
C5' 0.68 0.36 0.90 0.97 0.45 1.07 0.47 1.38 0.44 0.67 0.40 0.39 0.49 0.60 0.60 0.85 0.80 0.89 1.98 2.01 2.81 2.00
C6 0.45 0.29 0.45 0.51 0.32 0.58 0.26 0.72 0.23 0.34 0.24 0.34 0.30 0.30 0.37 0.58 0.36 0.64 1.39 1.45 2.12 1.32
N1 0.49 0.30 0.49 0.44 0.31 0.68 0.24 0.82 0.31 0.29 0.29 0.35 0.51 0.24 0.37 0.60 0.38 0.73 1.34 1.43 1.95 1.21
N3 0.69 0.37 0.55 0.31 0.48 0.79 0.35 0.87 0.23 0.60 0.30 0.46 0.40 0.46 0.60 0.78 0.48 0.94 1.22 1.67 1.39 1.05
O2 0.70 0.41 0.66 0.58 0.38 1.03 0.25 1.16 0.43 0.47 0.45 0.44 0.79 0.30 0.52 0.75 0.79 1.05 1.30 1.70 1.45 1.10
O2' 0.94 0.63 1.07 1.09 0.67 1.28 0.59 1.47 0.59 0.66 0.55 0.72 0.62 0.61 0.76 1.07 0.98 1.18 1.82 1.50 2.44 1.64
O3' 1.19 0.82 1.44 1.58 0.96 1.54 0.91 1.81 0.80 1.11 0.76 0.91 0.60 1.01 1.09 1.38 1.41 1.30 2.39 2.03 3.30 2.38
O4 0.24 0.40 0.23 0.22 0.24 0.26 0.20 0.32 0.25 0.24 0.38 0.33 0.21 0.24 0.22 0.32 0.23 0.27 0.77 0.85 1.09 0.72
O4' 0.34 0.42 0.47 0.59 0.35 0.64 0.48 0.89 0.60 0.40 0.54 0.34 0.84 0.52 0.33 0.41 0.41 0.54 1.44 1.32 2.30 1.42
O5' 1.08 0.70 1.30 1.20 0.88 1.37 0.83 1.62 0.67 1.06 0.62 0.82 0.67 0.96 1.01 1.34 1.15 1.24 2.16 2.37 2.77 2.12
OP1 0.99 0.50 1.24 1.19 0.72 1.37 0.68 1.70 0.47 1.03 0.43 0.63 0.44 0.91 0.91 1.29 1.12 1.20 2.31 2.74 3.02 2.41
OP2 0.87 0.57 1.11 1.09 0.74 1.14 0.78 1.40 0.64 0.98 0.55 0.64 0.67 0.95 0.86 1.13 0.97 0.98 2.11 2.40 2.80 2.14
P 0.90 0.62 1.12 1.02 0.75 1.20 0.73 1.47 0.62 0.95 0.58 0.69 0.65 0.87 0.86 1.19 1.00 1.07 2.03 2.38 2.69 2.06

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.04 0.00 0.02 0.02 0.01 0.01 0.08 0.02 0.02 0.05 0.04 0.02 0.02 0.01 0.02 0.32 0.01 0.44 0.58 0.61 0.42
C2 0.04 0.00 0.35 0.34 0.01 0.09 0.03 0.13 0.07 0.02 0.02 0.01 0.01 0.03 0.01 0.42 0.26 0.21 0.65 0.93 1.03 0.66
C2' 0.00 0.35 0.00 0.01 0.17 0.02 0.08 0.20 0.14 0.20 0.27 0.35 0.10 0.12 0.02 0.00 0.04 0.01 0.63 0.99 0.46 0.73
C3' 0.02 0.34 0.01 0.00 0.31 0.01 0.37 0.02 0.40 0.30 0.38 0.30 0.46 0.36 0.24 0.02 0.01 0.02 0.36 0.51 0.18 0.46
C4 0.02 0.01 0.17 0.31 0.00 0.08 0.00 0.10 0.01 0.01 0.04 0.01 0.01 0.01 0.01 0.28 0.15 0.11 0.69 0.93 1.06 0.67
C4' 0.01 0.09 0.02 0.01 0.08 0.00 0.11 0.01 0.11 0.14 0.09 0.08 0.12 0.14 0.08 0.32 0.03 0.00 0.02 0.23 0.24 0.06
C5 0.01 0.03 0.08 0.37 0.00 0.11 0.00 0.12 0.01 0.01 0.02 0.02 0.01 0.00 0.01 0.34 0.16 0.05 0.81 1.10 1.31 0.80
C5' 0.08 0.13 0.20 0.02 0.10 0.01 0.12 0.00 0.13 0.13 0.13 0.12 0.14 0.14 0.08 0.13 0.25 0.02 0.01 0.34 0.41 0.01
C6 0.02 0.07 0.14 0.40 0.01 0.11 0.01 0.13 0.00 0.01 0.02 0.04 0.01 0.01 0.01 0.36 0.20 0.10 0.82 1.15 1.37 0.83
C8 0.02 0.02 0.20 0.30 0.01 0.14 0.01 0.13 0.01 0.00 0.03 0.01 0.02 0.00 0.01 0.36 0.14 0.13 0.83 1.04 1.26 0.78
N1 0.05 0.02 0.27 0.38 0.04 0.09 0.02 0.13 0.02 0.03 0.00 0.02 0.01 0.02 0.04 0.41 0.22 0.17 0.73 1.07 1.21 0.75
N3 0.04 0.01 0.35 0.30 0.01 0.08 0.02 0.12 0.04 0.01 0.02 0.00 0.01 0.01 0.01 0.38 0.27 0.20 0.59 0.83 0.91 0.59
N6 0.02 0.01 0.10 0.46 0.01 0.12 0.01 0.14 0.01 0.02 0.01 0.01 0.00 0.02 0.02 0.36 0.28 0.08 0.71 1.29 0.87 0.59
N7 0.02 0.03 0.12 0.36 0.01 0.14 0.00 0.14 0.01 0.00 0.02 0.01 0.02 0.00 0.01 0.38 0.20 0.07 0.88 1.18 1.44 0.86
N9 0.01 0.01 0.02 0.24 0.01 0.08 0.01 0.08 0.01 0.01 0.04 0.01 0.02 0.01 0.00 0.21 0.10 0.01 0.67 0.85 0.98 0.63
O2' 0.02 0.42 0.00 0.02 0.28 0.32 0.34 0.13 0.36 0.36 0.41 0.38 0.36 0.38 0.21 0.00 0.07 0.21 0.41 0.89 0.39 0.59
O3' 0.32 0.26 0.04 0.01 0.15 0.03 0.16 0.25 0.20 0.14 0.22 0.27 0.28 0.20 0.10 0.07 0.00 0.23 0.15 0.22 0.22 0.21
O4' 0.01 0.21 0.01 0.02 0.11 0.00 0.05 0.02 0.10 0.13 0.17 0.20 0.08 0.07 0.01 0.21 0.23 0.00 0.36 0.22 0.63 0.30
O5' 0.44 0.65 0.63 0.36 0.69 0.02 0.81 0.01 0.82 0.83 0.73 0.59 0.71 0.88 0.67 0.41 0.15 0.36 0.00 0.02 0.02 0.00
OP1 0.58 0.93 0.99 0.51 0.93 0.23 1.10 0.34 1.15 1.04 1.07 0.83 1.29 1.18 0.85 0.89 0.22 0.22 0.02 0.00 0.01 0.01
OP2 0.61 1.03 0.46 0.18 1.06 0.24 1.31 0.41 1.37 1.26 1.21 0.91 0.87 1.44 0.98 0.39 0.22 0.63 0.02 0.01 0.00 0.01
P 0.42 0.66 0.73 0.46 0.67 0.06 0.80 0.01 0.83 0.78 0.75 0.59 0.59 0.86 0.63 0.59 0.21 0.30 0.00 0.01 0.01 0.00