ClaRNA

Doublet Group distance statistics: 48768

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Distances from reference structure (by RMSD)

1, 0, 1, 1, 0, 0, 1, 0, 0, 0, 2, 1, 1, 2, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.002, 0.007, 0.012, 0.018 max_d=0.018 avg_d=0.007 std_dev=0.005
N3 A 0, 0.002, 0.008, 0.014, 0.020 max_d=0.020 avg_d=0.008 std_dev=0.006
C6 A 0, 0.010, 0.026, 0.041, 0.053 max_d=0.053 avg_d=0.026 std_dev=0.016
C1' A 0, 0.011, 0.028, 0.044, 0.054 max_d=0.054 avg_d=0.028 std_dev=0.016
N1 A 0, 0.008, 0.024, 0.041, 0.050 max_d=0.050 avg_d=0.024 std_dev=0.016
C4 A 0, 0.011, 0.027, 0.044, 0.054 max_d=0.054 avg_d=0.027 std_dev=0.017
C2 A 0, 0.011, 0.028, 0.045, 0.055 max_d=0.055 avg_d=0.028 std_dev=0.017
O2 A 0, 0.027, 0.061, 0.095, 0.105 max_d=0.105 avg_d=0.061 std_dev=0.034
O4 A 0, 0.050, 0.107, 0.163, 0.185 max_d=0.185 avg_d=0.107 std_dev=0.056
C4' A 0, 0.115, 0.418, 0.721, 0.991 max_d=0.991 avg_d=0.418 std_dev=0.303
O4' A 0, 0.123, 0.434, 0.746, 0.972 max_d=0.972 avg_d=0.434 std_dev=0.311
C3' A 0, 0.210, 0.527, 0.844, 0.987 max_d=0.987 avg_d=0.527 std_dev=0.317
C2' A 0, 0.177, 0.584, 0.990, 1.182 max_d=1.182 avg_d=0.584 std_dev=0.407
P B 0, 0.286, 0.706, 1.125, 1.265 max_d=1.265 avg_d=0.706 std_dev=0.420
O5' A 0, 0.363, 0.785, 1.206, 1.285 max_d=1.285 avg_d=0.785 std_dev=0.422
C5' A 0, 0.288, 0.716, 1.145, 1.450 max_d=1.450 avg_d=0.716 std_dev=0.429
O3' A 0, 0.268, 0.762, 1.256, 1.411 max_d=1.411 avg_d=0.762 std_dev=0.494
OP2 B 0, 0.336, 0.842, 1.349, 1.490 max_d=1.490 avg_d=0.842 std_dev=0.507
P A 0, 0.190, 0.756, 1.323, 1.703 max_d=1.703 avg_d=0.756 std_dev=0.567
OP1 B 0, 0.396, 1.012, 1.628, 1.744 max_d=1.744 avg_d=1.012 std_dev=0.616
O2' A 0, 0.233, 1.093, 1.954, 2.330 max_d=2.330 avg_d=1.093 std_dev=0.860
OP2 A 0, 0.511, 1.414, 2.317, 2.528 max_d=2.528 avg_d=1.414 std_dev=0.903
OP1 A 0, 0.501, 1.415, 2.330, 2.480 max_d=2.480 avg_d=1.415 std_dev=0.915
O5' B 0, 0.441, 1.943, 3.445, 4.183 max_d=4.183 avg_d=1.943 std_dev=1.502
C5' B 0, 0.632, 2.875, 5.117, 5.821 max_d=5.821 avg_d=2.875 std_dev=2.243
C4' B 0, 0.412, 3.736, 7.061, 8.607 max_d=8.607 avg_d=3.736 std_dev=3.324
O4' B 0, 0.360, 4.004, 7.648, 9.393 max_d=9.393 avg_d=4.004 std_dev=3.644
C8 B 0, 0.626, 4.522, 8.419, 10.006 max_d=10.006 avg_d=4.522 std_dev=3.896
N7 B 0, 0.611, 4.714, 8.817, 10.366 max_d=10.366 avg_d=4.714 std_dev=4.103
C3' B 0, 0.271, 4.418, 8.565, 10.550 max_d=10.550 avg_d=4.418 std_dev=4.147
N9 B 0, 0.391, 4.650, 8.908, 10.792 max_d=10.792 avg_d=4.650 std_dev=4.258
C1' B 0, 0.341, 4.741, 9.142, 11.161 max_d=11.161 avg_d=4.741 std_dev=4.400
C5 B 0, 0.428, 4.913, 9.397, 11.150 max_d=11.150 avg_d=4.913 std_dev=4.485
C2' B 0, 0.408, 5.087, 9.766, 11.762 max_d=11.762 avg_d=5.087 std_dev=4.679
C4 B 0, 0.238, 4.927, 9.617, 11.675 max_d=11.675 avg_d=4.927 std_dev=4.690
O3' B 0, 0.414, 5.161, 9.909, 12.108 max_d=12.108 avg_d=5.161 std_dev=4.748
C6 B 0, 0.424, 5.269, 10.115, 11.843 max_d=11.843 avg_d=5.269 std_dev=4.846
O6 B 0, 0.537, 5.438, 10.339, 11.803 max_d=11.803 avg_d=5.438 std_dev=4.901
O2' B 0, 0.823, 6.049, 11.276, 13.187 max_d=13.187 avg_d=6.049 std_dev=5.227
N1 B 0, 0.273, 5.615, 10.958, 13.043 max_d=13.043 avg_d=5.615 std_dev=5.342
N3 B 0, -0.025, 5.336, 10.698, 13.160 max_d=13.160 avg_d=5.336 std_dev=5.362
C2 B 0, 0.028, 5.678, 11.329, 13.813 max_d=13.813 avg_d=5.678 std_dev=5.651
N2 B 0, -0.130, 6.256, 12.643, 15.548 max_d=15.548 avg_d=6.256 std_dev=6.387

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 0.01 0.00 0.02 0.02 0.01 0.01 0.06 0.01 0.01 0.01 0.02 0.03 0.29 0.02 0.01 0.14 0.29 0.45 0.26
C2 0.01 0.00 0.09 0.10 0.01 0.02 0.01 0.10 0.01 0.00 0.00 0.00 0.15 0.27 0.01 0.05 0.16 0.49 0.64 0.26
C2' 0.00 0.09 0.00 0.01 0.07 0.02 0.14 0.18 0.16 0.04 0.05 0.22 0.00 0.04 0.07 0.02 0.41 0.67 0.22 0.32
C3' 0.02 0.10 0.01 0.00 0.16 0.01 0.18 0.01 0.17 0.10 0.13 0.09 0.02 0.01 0.16 0.04 0.14 0.19 0.28 0.12
C4 0.02 0.01 0.07 0.16 0.00 0.06 0.00 0.16 0.01 0.01 0.00 0.01 0.30 0.19 0.00 0.02 0.21 0.65 0.80 0.25
C4' 0.01 0.02 0.02 0.01 0.06 0.00 0.07 0.00 0.07 0.03 0.03 0.02 0.25 0.02 0.06 0.01 0.01 0.25 0.16 0.17
C5 0.01 0.01 0.14 0.18 0.00 0.07 0.00 0.19 0.00 0.01 0.01 0.01 0.31 0.18 0.01 0.03 0.22 0.63 0.80 0.25
C5' 0.06 0.10 0.18 0.01 0.16 0.00 0.19 0.00 0.17 0.11 0.13 0.06 0.09 0.22 0.17 0.01 0.01 0.32 0.33 0.01
C6 0.01 0.01 0.16 0.17 0.01 0.07 0.00 0.17 0.00 0.00 0.01 0.01 0.26 0.17 0.01 0.05 0.21 0.53 0.71 0.26
N1 0.01 0.00 0.04 0.10 0.01 0.03 0.01 0.11 0.00 0.00 0.01 0.01 0.15 0.21 0.02 0.01 0.17 0.44 0.60 0.26
N3 0.01 0.00 0.05 0.13 0.00 0.03 0.01 0.13 0.01 0.01 0.00 0.01 0.23 0.23 0.01 0.04 0.18 0.59 0.73 0.26
O2 0.02 0.00 0.22 0.09 0.01 0.02 0.01 0.06 0.01 0.01 0.01 0.00 0.14 0.35 0.01 0.08 0.14 0.44 0.58 0.26
O2' 0.03 0.15 0.00 0.02 0.30 0.25 0.31 0.09 0.26 0.15 0.23 0.14 0.00 0.04 0.33 0.14 0.32 0.63 0.24 0.26
O3' 0.29 0.27 0.04 0.01 0.19 0.02 0.18 0.22 0.17 0.21 0.23 0.35 0.04 0.00 0.19 0.18 0.26 0.35 0.35 0.24
O4 0.02 0.01 0.07 0.16 0.00 0.06 0.01 0.17 0.01 0.02 0.01 0.01 0.33 0.19 0.00 0.02 0.21 0.70 0.83 0.25
O4' 0.01 0.05 0.02 0.04 0.02 0.01 0.03 0.01 0.05 0.01 0.04 0.08 0.14 0.18 0.02 0.00 0.14 0.31 0.48 0.47
O5' 0.14 0.16 0.41 0.14 0.21 0.01 0.22 0.01 0.21 0.17 0.18 0.14 0.32 0.26 0.21 0.14 0.00 0.02 0.02 0.00
OP1 0.29 0.49 0.67 0.19 0.65 0.25 0.63 0.32 0.53 0.44 0.59 0.44 0.63 0.35 0.70 0.31 0.02 0.00 0.01 0.01
OP2 0.45 0.64 0.22 0.28 0.80 0.16 0.80 0.33 0.71 0.60 0.73 0.58 0.24 0.35 0.83 0.48 0.02 0.01 0.00 0.00
P 0.26 0.26 0.32 0.12 0.25 0.17 0.25 0.01 0.26 0.26 0.26 0.26 0.26 0.24 0.25 0.47 0.00 0.01 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 1.47 1.63 1.42 1.06 0.97 1.11 0.61 0.71 0.41 1.22 1.03 2.27 1.59 1.17 1.04 2.01 1.14 1.28 0.89 0.41 0.38 0.38 0.32
C2 0.96 1.21 0.90 0.78 0.52 0.81 0.28 0.62 0.24 1.01 0.81 1.73 1.09 0.94 0.62 1.34 0.93 0.92 0.82 0.33 0.38 0.36 0.31
C2' 1.30 1.02 1.36 1.06 0.75 0.95 0.89 0.58 0.65 1.50 0.45 1.62 1.10 1.60 1.02 1.99 1.21 1.07 0.84 1.06 0.38 0.32 0.32
C3' 1.42 1.34 1.43 1.08 0.89 1.01 0.84 0.63 0.58 1.45 0.72 1.99 1.37 1.52 1.08 2.07 1.20 1.17 0.88 0.91 0.39 0.32 0.35
C4 0.58 0.97 0.68 0.96 0.40 0.75 0.74 0.98 0.79 1.35 0.93 1.36 0.63 1.31 0.65 0.79 1.08 0.58 0.80 0.96 0.39 0.31 0.31
C4' 1.61 1.86 1.58 1.13 1.18 1.16 0.84 0.73 0.64 1.37 1.19 2.58 1.83 1.37 1.22 2.22 1.20 1.35 0.89 0.68 0.38 0.38 0.32
C5 0.66 0.97 0.75 0.97 0.29 0.76 0.76 0.97 0.75 1.47 0.86 1.49 0.61 1.50 0.69 0.93 1.08 0.60 0.81 1.01 0.39 0.28 0.31
C5' 1.49 1.60 1.48 1.11 1.04 1.03 0.94 0.75 0.66 1.57 0.95 2.35 1.58 1.64 1.20 2.06 1.17 1.19 0.85 0.94 0.44 0.43 0.38
C6 0.85 1.09 0.86 0.89 0.22 0.77 0.51 0.84 0.37 1.34 0.71 1.73 0.86 1.37 0.64 1.24 1.01 0.75 0.81 0.73 0.38 0.27 0.30
N1 1.09 1.28 1.04 0.89 0.55 0.88 0.36 0.72 0.09 1.17 0.79 1.89 1.16 1.15 0.73 1.52 1.01 0.98 0.84 0.41 0.37 0.32 0.31
N3 0.55 1.01 0.55 0.72 0.25 0.59 0.40 0.73 0.50 1.04 0.81 1.44 0.77 0.97 0.41 0.85 0.91 0.55 0.75 0.62 0.38 0.29 0.31
O2 1.20 1.38 1.13 0.89 0.81 1.00 0.46 0.57 0.41 0.94 0.94 1.86 1.33 0.84 0.83 1.62 1.02 1.15 0.86 0.28 0.40 0.46 0.32
O2' 1.30 1.02 1.42 1.08 0.84 0.85 1.02 0.46 0.82 1.56 0.55 1.57 1.12 1.67 1.08 2.09 1.25 1.00 0.69 1.18 0.39 0.55 0.24
O3' 1.40 1.37 1.46 1.09 0.94 0.89 0.93 0.56 0.68 1.54 0.78 2.03 1.39 1.60 1.13 2.14 1.23 1.08 0.76 0.97 0.57 0.64 0.42
O4 0.87 1.05 0.93 1.19 0.78 1.03 1.01 1.20 1.08 1.51 1.14 1.27 0.76 1.40 0.97 0.90 1.26 0.93 0.93 1.19 0.41 0.44 0.34
O4' 1.63 1.97 1.55 1.12 1.22 1.18 0.76 0.78 0.64 1.27 1.35 2.68 1.90 1.19 1.21 2.13 1.17 1.38 0.88 0.43 0.40 0.40 0.34
O5' 1.21 0.96 1.25 1.08 0.67 0.80 1.01 0.74 0.71 1.74 0.31 1.72 0.94 1.87 1.07 1.76 1.15 0.90 0.76 1.23 0.51 0.44 0.40
OP1 1.14 0.25 1.34 1.42 0.98 0.81 1.72 1.08 1.55 2.29 0.65 1.05 0.19 2.58 1.41 1.59 1.40 0.70 0.89 2.16 0.62 0.69 0.68
OP2 0.87 1.67 0.77 0.63 0.57 0.96 0.31 1.01 0.61 0.76 1.22 2.42 1.41 0.98 0.35 1.27 0.77 0.95 0.91 0.93 0.89 0.66 0.60
P 0.87 1.16 0.83 0.69 0.28 0.62 0.67 0.67 0.53 1.34 0.60 1.99 0.99 1.55 0.63 1.38 0.76 0.71 0.59 1.13 0.54 0.31 0.20

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.04 0.00 0.01 0.02 0.01 0.01 0.17 0.02 0.01 0.03 0.05 0.04 0.01 0.01 0.01 0.30 0.01 0.25 0.01 0.67 0.77 0.46
C2 0.04 0.00 0.46 0.25 0.01 0.55 0.01 0.97 0.01 0.01 0.00 0.00 0.00 0.01 0.01 0.56 0.33 0.67 0.72 0.01 1.45 1.51 1.15
C2' 0.00 0.46 0.00 0.00 0.25 0.02 0.13 0.28 0.23 0.21 0.37 0.54 0.44 0.09 0.02 0.00 0.01 0.00 0.38 0.18 1.16 0.60 0.68
C3' 0.01 0.25 0.00 0.00 0.23 0.01 0.32 0.02 0.33 0.34 0.30 0.26 0.21 0.37 0.20 0.01 0.00 0.01 0.36 0.37 0.79 0.35 0.46
C4 0.02 0.01 0.25 0.23 0.00 0.25 0.00 0.59 0.01 0.00 0.01 0.01 0.01 0.01 0.01 0.16 0.19 0.35 0.50 0.01 1.28 1.15 0.92
C4' 0.01 0.55 0.02 0.01 0.25 0.00 0.12 0.00 0.22 0.30 0.41 0.69 0.51 0.19 0.03 0.29 0.03 0.01 0.01 0.16 0.28 0.36 0.09
C5 0.01 0.01 0.13 0.32 0.00 0.12 0.00 0.43 0.00 0.00 0.01 0.01 0.01 0.00 0.01 0.08 0.19 0.16 0.55 0.01 1.45 1.10 0.95
C5' 0.17 0.97 0.28 0.02 0.59 0.00 0.43 0.00 0.60 0.21 0.84 1.13 0.88 0.17 0.25 0.05 0.21 0.02 0.00 0.52 0.30 0.25 0.01
C6 0.02 0.01 0.23 0.33 0.01 0.22 0.00 0.60 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.09 0.25 0.29 0.59 0.00 1.60 1.27 1.08
C8 0.01 0.01 0.21 0.34 0.00 0.30 0.00 0.21 0.01 0.00 0.01 0.01 0.01 0.00 0.00 0.53 0.15 0.32 0.71 0.02 1.10 0.77 0.72
N1 0.03 0.00 0.37 0.30 0.01 0.41 0.01 0.84 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.36 0.29 0.51 0.67 0.01 1.59 1.47 1.17
N2 0.05 0.00 0.54 0.26 0.01 0.69 0.01 1.13 0.01 0.01 0.01 0.00 0.00 0.01 0.02 0.77 0.41 0.80 0.86 0.02 1.45 1.67 1.24
N3 0.04 0.00 0.44 0.21 0.01 0.51 0.01 0.88 0.01 0.01 0.00 0.00 0.00 0.01 0.02 0.54 0.32 0.67 0.63 0.01 1.29 1.36 1.03
N7 0.01 0.01 0.09 0.37 0.01 0.19 0.00 0.17 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.42 0.21 0.16 0.67 0.02 1.37 0.86 0.84
N9 0.01 0.01 0.02 0.20 0.01 0.03 0.01 0.25 0.01 0.00 0.01 0.02 0.02 0.01 0.00 0.14 0.08 0.01 0.45 0.01 1.03 0.90 0.71
O2' 0.01 0.56 0.00 0.01 0.16 0.29 0.08 0.05 0.09 0.53 0.36 0.77 0.54 0.42 0.14 0.00 0.04 0.19 0.09 0.06 0.99 0.40 0.40
O3' 0.30 0.33 0.01 0.00 0.19 0.03 0.19 0.21 0.25 0.15 0.29 0.41 0.32 0.21 0.08 0.04 0.00 0.30 0.15 0.29 0.54 0.33 0.17
O4' 0.01 0.67 0.00 0.01 0.35 0.01 0.16 0.02 0.29 0.32 0.51 0.80 0.67 0.16 0.01 0.19 0.30 0.00 0.39 0.21 0.31 0.86 0.51
O5' 0.25 0.72 0.38 0.36 0.50 0.01 0.55 0.00 0.59 0.71 0.67 0.86 0.63 0.67 0.45 0.09 0.15 0.39 0.00 0.60 0.02 0.01 0.00
O6 0.01 0.01 0.18 0.37 0.01 0.16 0.01 0.52 0.00 0.02 0.01 0.02 0.01 0.02 0.01 0.06 0.29 0.21 0.60 0.00 1.69 1.23 1.08
OP1 0.67 1.45 1.16 0.79 1.28 0.28 1.45 0.30 1.60 1.10 1.59 1.45 1.29 1.37 1.03 0.99 0.54 0.31 0.02 1.69 0.00 0.01 0.00
OP2 0.77 1.51 0.60 0.35 1.15 0.36 1.10 0.25 1.27 0.77 1.47 1.67 1.36 0.86 0.90 0.40 0.33 0.86 0.01 1.23 0.01 0.00 0.00
P 0.46 1.15 0.68 0.46 0.92 0.09 0.95 0.01 1.08 0.72 1.17 1.24 1.03 0.84 0.71 0.40 0.17 0.51 0.00 1.08 0.00 0.00 0.00