ClaRNA

Doublet Group distance statistics: 49121

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Distances from reference structure (by RMSD)

2, 0, 0, 0, 0, 2, 0, 0, 0, 1, 3, 0, 1, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.014, 0.025, 0.036, 0.036 max_d=0.036 avg_d=0.025 std_dev=0.011
N3 A 0, 0.013, 0.026, 0.039, 0.041 max_d=0.041 avg_d=0.026 std_dev=0.013
C6 A 0, 0.011, 0.025, 0.039, 0.043 max_d=0.043 avg_d=0.025 std_dev=0.014
C4 A 0, 0.015, 0.030, 0.046, 0.052 max_d=0.052 avg_d=0.030 std_dev=0.016
C1' A 0, 0.021, 0.044, 0.067, 0.073 max_d=0.073 avg_d=0.044 std_dev=0.023
N1 A 0, 0.024, 0.050, 0.075, 0.076 max_d=0.076 avg_d=0.050 std_dev=0.025
C2 A 0, 0.027, 0.054, 0.081, 0.087 max_d=0.087 avg_d=0.054 std_dev=0.027
O4 A 0, 0.036, 0.085, 0.134, 0.164 max_d=0.164 avg_d=0.085 std_dev=0.049
O2 A 0, 0.054, 0.109, 0.164, 0.185 max_d=0.185 avg_d=0.109 std_dev=0.055
O2' B 0, 0.149, 0.600, 1.051, 1.618 max_d=1.618 avg_d=0.600 std_dev=0.451
C2' B 0, 0.276, 0.756, 1.237, 1.351 max_d=1.351 avg_d=0.756 std_dev=0.480
C3' B 0, 0.472, 1.262, 2.051, 2.679 max_d=2.679 avg_d=1.262 std_dev=0.789
O4' A 0, 0.065, 1.111, 2.158, 2.556 max_d=2.556 avg_d=1.111 std_dev=1.047
O3' B 0, 0.562, 1.670, 2.779, 2.782 max_d=2.782 avg_d=1.670 std_dev=1.109
C2' A 0, 0.007, 1.173, 2.340, 2.796 max_d=2.796 avg_d=1.173 std_dev=1.167
C1' B 0, 0.645, 1.917, 3.188, 3.417 max_d=3.417 avg_d=1.917 std_dev=1.272
C4' A 0, 0.150, 1.517, 2.884, 3.357 max_d=3.357 avg_d=1.517 std_dev=1.367
C3' A 0, 0.131, 1.566, 3.000, 3.636 max_d=3.636 avg_d=1.566 std_dev=1.434
O3' A 0, 0.337, 1.776, 3.216, 4.018 max_d=4.018 avg_d=1.776 std_dev=1.439
C4' B 0, 0.935, 2.378, 3.821, 3.893 max_d=3.893 avg_d=2.378 std_dev=1.443
O4' B 0, 0.895, 2.558, 4.221, 4.450 max_d=4.450 avg_d=2.558 std_dev=1.663
O2' A 0, -0.149, 1.572, 3.292, 4.049 max_d=4.049 avg_d=1.572 std_dev=1.720
N9 B 0, 0.638, 2.586, 4.533, 4.957 max_d=4.957 avg_d=2.586 std_dev=1.947
C5' B 0, 1.346, 3.606, 5.867, 5.849 max_d=5.849 avg_d=3.606 std_dev=2.261
O5' B 0, 1.350, 3.623, 5.895, 5.875 max_d=5.875 avg_d=3.623 std_dev=2.272
C4 B 0, 0.434, 2.793, 5.153, 5.463 max_d=5.463 avg_d=2.793 std_dev=2.360
N3 B 0, 0.908, 3.340, 5.771, 6.456 max_d=6.456 avg_d=3.340 std_dev=2.432
C5' A 0, 0.229, 2.768, 5.307, 6.229 max_d=6.229 avg_d=2.768 std_dev=2.539
O5' A 0, 0.347, 3.081, 5.814, 6.755 max_d=6.755 avg_d=3.081 std_dev=2.734
C8 B 0, 0.851, 3.692, 6.534, 7.050 max_d=7.050 avg_d=3.692 std_dev=2.842
C5 B 0, 0.496, 3.537, 6.579, 7.140 max_d=7.140 avg_d=3.537 std_dev=3.042
P B 0, 1.647, 4.834, 8.021, 7.846 max_d=7.846 avg_d=4.834 std_dev=3.187
C2 B 0, 1.206, 4.413, 7.620, 8.726 max_d=8.726 avg_d=4.413 std_dev=3.207
N7 B 0, 0.941, 4.189, 7.437, 8.155 max_d=8.155 avg_d=4.189 std_dev=3.248
OP2 B 0, 1.692, 5.020, 8.348, 7.971 max_d=7.971 avg_d=5.020 std_dev=3.328
OP1 B 0, 1.756, 5.290, 8.823, 8.586 max_d=8.586 avg_d=5.290 std_dev=3.533
N1 B 0, 0.990, 4.624, 8.259, 9.709 max_d=9.709 avg_d=4.624 std_dev=3.634
C6 B 0, 0.468, 4.171, 7.873, 8.442 max_d=8.442 avg_d=4.171 std_dev=3.703
N2 B 0, 1.725, 5.641, 9.558, 10.278 max_d=10.278 avg_d=5.641 std_dev=3.916
P A 0, 0.216, 4.135, 8.054, 9.381 max_d=9.381 avg_d=4.135 std_dev=3.919
OP2 A 0, 0.414, 4.786, 9.158, 10.972 max_d=10.972 avg_d=4.786 std_dev=4.372
O6 B 0, 0.411, 4.814, 9.218, 9.790 max_d=9.790 avg_d=4.814 std_dev=4.404
OP1 A 0, 0.347, 4.823, 9.299, 10.649 max_d=10.649 avg_d=4.823 std_dev=4.476

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 0.01 0.03 0.01 0.01 0.02 0.04 0.03 0.01 0.02 0.07 0.01 0.26 0.01 0.01 0.29 0.52 0.40 0.34
C2 0.03 0.00 0.17 0.17 0.01 0.32 0.01 0.56 0.01 0.01 0.00 0.00 0.16 0.22 0.02 0.42 0.90 1.24 1.05 1.09
C2' 0.01 0.17 0.00 0.01 0.06 0.02 0.11 0.11 0.15 0.03 0.13 0.29 0.00 0.04 0.07 0.02 0.47 0.55 0.56 0.51
C3' 0.03 0.17 0.01 0.00 0.32 0.00 0.45 0.03 0.45 0.20 0.21 0.31 0.02 0.01 0.33 0.02 0.30 0.39 0.38 0.26
C4 0.01 0.01 0.06 0.32 0.00 0.14 0.01 0.24 0.01 0.01 0.00 0.02 0.34 0.21 0.01 0.03 0.57 0.78 0.98 0.68
C4' 0.01 0.32 0.02 0.00 0.14 0.00 0.44 0.01 0.50 0.09 0.20 0.71 0.27 0.03 0.14 0.00 0.02 0.27 0.25 0.06
C5 0.02 0.01 0.11 0.45 0.01 0.44 0.00 0.72 0.01 0.01 0.01 0.01 0.60 0.21 0.01 0.30 0.88 0.99 1.28 0.99
C5' 0.04 0.56 0.11 0.03 0.24 0.01 0.72 0.00 0.78 0.14 0.39 1.19 0.16 0.15 0.24 0.02 0.01 0.30 0.31 0.01
C6 0.03 0.01 0.15 0.45 0.01 0.50 0.01 0.78 0.00 0.00 0.01 0.02 0.62 0.16 0.01 0.40 0.89 1.00 1.12 0.96
N1 0.01 0.01 0.03 0.20 0.01 0.09 0.01 0.14 0.00 0.00 0.01 0.02 0.21 0.10 0.01 0.01 0.41 0.64 0.60 0.47
N3 0.02 0.00 0.13 0.21 0.00 0.20 0.01 0.39 0.01 0.01 0.00 0.01 0.12 0.22 0.02 0.28 0.79 1.18 1.05 1.01
O2 0.07 0.00 0.29 0.31 0.02 0.71 0.01 1.19 0.02 0.02 0.01 0.00 0.51 0.31 0.02 0.77 1.53 1.99 1.65 1.81
O2' 0.01 0.16 0.00 0.02 0.34 0.27 0.60 0.16 0.62 0.21 0.12 0.51 0.00 0.10 0.35 0.18 0.27 0.36 0.40 0.30
O3' 0.26 0.22 0.04 0.01 0.21 0.03 0.21 0.15 0.16 0.10 0.22 0.31 0.10 0.00 0.26 0.16 0.37 0.42 0.46 0.33
O4 0.01 0.02 0.07 0.33 0.01 0.14 0.01 0.24 0.01 0.01 0.02 0.02 0.35 0.26 0.00 0.03 0.60 0.81 1.08 0.73
O4' 0.01 0.42 0.02 0.02 0.03 0.00 0.30 0.02 0.40 0.01 0.28 0.77 0.18 0.16 0.03 0.00 0.30 0.49 0.36 0.30
O5' 0.29 0.90 0.47 0.30 0.57 0.02 0.88 0.01 0.89 0.41 0.79 1.53 0.27 0.37 0.60 0.30 0.00 0.03 0.02 0.01
OP1 0.52 1.24 0.55 0.39 0.78 0.27 0.99 0.30 1.00 0.64 1.18 1.99 0.36 0.42 0.81 0.49 0.03 0.00 0.01 0.01
OP2 0.40 1.05 0.56 0.38 0.98 0.25 1.28 0.31 1.12 0.60 1.05 1.65 0.40 0.46 1.08 0.36 0.02 0.01 0.00 0.01
P 0.34 1.09 0.51 0.26 0.68 0.06 0.99 0.01 0.96 0.47 1.01 1.81 0.30 0.33 0.73 0.30 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' 0.51 1.63 0.35 0.58 0.95 0.72 1.05 0.70 1.34 0.83 1.54 2.06 1.36 1.03 0.61 0.33 1.01 0.76 0.51 1.46 0.50 0.81 0.62
C2 0.36 1.55 0.28 0.42 0.67 0.60 0.94 0.57 1.15 1.20 1.35 2.22 1.23 1.31 0.51 0.30 0.80 0.65 0.48 1.36 0.46 0.82 0.55
C2' 0.77 1.77 0.40 0.57 1.16 0.79 1.18 0.74 1.43 0.91 1.66 2.17 1.54 1.09 0.85 0.31 1.03 0.99 0.58 1.51 0.59 0.80 0.69
C3' 0.09 1.27 0.66 1.11 0.68 0.73 0.81 0.72 1.07 0.59 1.24 1.63 1.00 0.78 0.33 0.82 1.74 0.39 0.40 1.19 0.46 0.87 0.36
C4 0.47 1.43 0.26 0.31 0.50 0.59 0.86 0.63 0.91 1.44 1.11 2.16 1.12 1.45 0.64 0.28 0.60 0.75 0.65 1.09 0.61 0.98 0.72
C4' 0.46 1.31 0.85 1.37 0.79 1.01 0.94 1.06 1.18 0.79 1.32 1.63 1.03 0.93 0.57 0.86 1.93 0.54 0.86 1.30 0.85 1.22 0.82
C5 0.31 1.33 0.29 0.37 0.59 0.57 0.76 0.53 0.88 1.02 1.09 1.85 1.13 1.05 0.45 0.32 0.69 0.60 0.46 0.97 0.44 0.81 0.52
C5' 1.18 1.19 1.58 2.19 1.02 1.83 1.12 1.96 1.19 1.26 1.23 1.40 1.03 1.23 1.10 1.55 2.75 1.27 1.80 1.28 1.89 2.05 1.75
C6 0.39 1.42 0.32 0.47 0.79 0.61 0.88 0.56 1.08 0.82 1.27 1.84 1.22 0.95 0.49 0.33 0.88 0.62 0.40 1.16 0.37 0.76 0.47
N1 0.39 1.54 0.31 0.49 0.80 0.63 0.95 0.58 1.19 0.93 1.39 2.05 1.27 1.08 0.50 0.32 0.90 0.64 0.42 1.33 0.40 0.76 0.50
N3 0.42 1.51 0.26 0.35 0.55 0.58 0.93 0.60 1.04 1.43 1.22 2.28 1.16 1.50 0.61 0.28 0.69 0.71 0.61 1.28 0.57 0.95 0.68
O2 0.37 1.61 0.28 0.43 0.68 0.61 0.99 0.58 1.22 1.24 1.42 2.32 1.26 1.37 0.53 0.30 0.82 0.66 0.49 1.47 0.47 0.82 0.56
O2' 1.72 2.39 1.20 1.10 1.98 1.60 1.95 1.63 2.12 1.71 2.31 2.67 2.24 1.82 1.77 0.96 0.95 1.97 1.63 2.15 1.65 1.74 1.79
O3' 0.43 1.33 0.45 0.87 0.86 0.68 0.94 0.71 1.17 0.65 1.31 1.61 1.11 0.86 0.57 0.59 1.48 0.75 0.41 1.26 0.57 0.93 0.59
O4 0.66 1.48 0.25 0.27 0.53 0.64 0.97 0.78 0.90 1.78 1.10 2.31 1.11 1.73 0.87 0.25 0.50 0.93 0.86 1.11 0.81 1.17 0.95
O4' 0.43 1.47 0.59 1.07 0.90 0.86 1.08 0.92 1.34 0.93 1.48 1.84 1.17 1.10 0.64 0.53 1.58 0.58 0.76 1.48 0.73 1.15 0.80
O5' 1.51 1.48 1.86 2.51 1.35 2.15 1.43 2.32 1.48 1.58 1.52 1.67 1.33 1.54 1.44 1.80 3.08 1.60 2.17 1.55 2.37 2.47 2.20
OP1 2.23 1.56 2.41 3.16 1.75 3.02 1.74 3.24 1.62 2.14 1.57 1.63 1.60 1.95 2.03 2.20 3.69 2.50 3.16 1.62 3.44 3.40 3.22
OP2 2.46 1.63 2.88 3.67 1.94 3.33 1.98 3.62 1.86 2.41 1.73 1.59 1.68 2.23 2.27 2.79 4.16 2.63 3.49 1.90 3.79 3.71 3.51
P 2.16 1.52 2.47 3.26 1.69 3.00 1.71 3.22 1.61 2.07 1.57 1.59 1.53 1.90 1.96 2.32 3.82 2.38 3.06 1.64 3.36 3.30 3.11

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.07 0.01 0.03 0.04 0.01 0.02 0.07 0.04 0.03 0.05 0.10 0.08 0.02 0.01 0.03 0.28 0.01 0.11 0.04 0.24 0.70 0.35
C2 0.07 0.00 0.38 0.60 0.02 0.46 0.01 0.78 0.02 0.03 0.01 0.01 0.01 0.01 0.03 0.56 0.41 0.34 1.20 0.04 1.31 1.82 1.40
C2' 0.01 0.38 0.00 0.01 0.20 0.05 0.12 0.19 0.19 0.19 0.31 0.45 0.37 0.12 0.04 0.00 0.03 0.03 0.24 0.17 0.46 0.92 0.49
C3' 0.03 0.60 0.01 0.00 0.33 0.01 0.33 0.02 0.37 0.45 0.49 0.74 0.58 0.42 0.22 0.05 0.01 0.03 0.24 0.38 0.39 0.54 0.26
C4 0.04 0.02 0.20 0.33 0.00 0.22 0.01 0.34 0.02 0.01 0.02 0.02 0.00 0.01 0.01 0.33 0.12 0.19 0.61 0.03 0.57 1.16 0.79
C4' 0.01 0.46 0.05 0.01 0.22 0.00 0.13 0.01 0.20 0.31 0.35 0.57 0.44 0.22 0.08 0.35 0.02 0.00 0.02 0.16 0.32 0.41 0.12
C5 0.02 0.01 0.12 0.33 0.01 0.13 0.00 0.18 0.01 0.02 0.02 0.01 0.01 0.00 0.02 0.33 0.12 0.10 0.51 0.03 0.53 1.20 0.79
C5' 0.07 0.78 0.19 0.02 0.34 0.01 0.18 0.00 0.34 0.45 0.61 1.00 0.71 0.32 0.09 0.22 0.21 0.01 0.01 0.26 0.16 0.25 0.02
C6 0.04 0.02 0.19 0.37 0.02 0.20 0.01 0.34 0.00 0.03 0.01 0.03 0.03 0.02 0.03 0.40 0.09 0.17 0.69 0.01 0.75 1.45 0.98
C8 0.03 0.03 0.19 0.45 0.01 0.31 0.02 0.45 0.03 0.00 0.04 0.03 0.01 0.01 0.01 0.34 0.38 0.19 0.71 0.05 0.82 1.18 0.94
N1 0.05 0.01 0.31 0.49 0.02 0.35 0.02 0.61 0.01 0.04 0.00 0.02 0.01 0.02 0.03 0.49 0.24 0.27 1.01 0.03 1.12 1.74 1.27
N2 0.10 0.01 0.45 0.74 0.02 0.57 0.01 1.00 0.03 0.03 0.02 0.00 0.02 0.01 0.04 0.67 0.60 0.39 1.48 0.05 1.71 2.13 1.70
N3 0.08 0.01 0.37 0.58 0.00 0.44 0.01 0.71 0.03 0.01 0.01 0.02 0.00 0.01 0.02 0.52 0.41 0.33 1.06 0.05 1.07 1.52 1.18
N7 0.02 0.01 0.12 0.42 0.01 0.22 0.00 0.32 0.02 0.01 0.02 0.01 0.01 0.00 0.01 0.35 0.35 0.09 0.62 0.04 0.76 1.24 0.91
N9 0.01 0.03 0.04 0.22 0.01 0.08 0.02 0.09 0.03 0.01 0.03 0.04 0.02 0.01 0.00 0.19 0.15 0.02 0.30 0.04 0.32 0.88 0.54
O2' 0.03 0.56 0.00 0.05 0.33 0.35 0.33 0.22 0.40 0.34 0.49 0.67 0.52 0.35 0.19 0.00 0.08 0.24 0.25 0.41 0.38 0.97 0.43
O3' 0.28 0.41 0.03 0.01 0.12 0.02 0.12 0.21 0.09 0.38 0.24 0.60 0.41 0.35 0.15 0.08 0.00 0.18 0.31 0.15 0.52 0.46 0.25
O4' 0.01 0.34 0.03 0.03 0.19 0.00 0.10 0.01 0.17 0.19 0.27 0.39 0.33 0.09 0.02 0.24 0.18 0.00 0.24 0.14 0.12 0.59 0.34
O5' 0.11 1.20 0.24 0.24 0.61 0.02 0.51 0.01 0.69 0.71 1.01 1.48 1.06 0.62 0.30 0.25 0.31 0.24 0.00 0.65 0.02 0.03 0.01
O6 0.04 0.04 0.17 0.38 0.03 0.16 0.03 0.26 0.01 0.05 0.03 0.05 0.05 0.04 0.04 0.41 0.15 0.14 0.65 0.00 0.75 1.48 0.99
OP1 0.24 1.31 0.46 0.39 0.57 0.32 0.53 0.16 0.75 0.82 1.12 1.71 1.07 0.76 0.32 0.38 0.52 0.12 0.02 0.75 0.00 0.02 0.01
OP2 0.70 1.82 0.92 0.54 1.16 0.41 1.20 0.25 1.45 1.18 1.74 2.13 1.52 1.24 0.88 0.97 0.46 0.59 0.03 1.48 0.02 0.00 0.01
P 0.35 1.40 0.49 0.26 0.79 0.12 0.79 0.02 0.98 0.94 1.27 1.70 1.18 0.91 0.54 0.43 0.25 0.34 0.01 0.99 0.01 0.01 0.00