ClaRNA

Doublet Group distance statistics: 34559

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Distances from reference structure (by RMSD)

2, 0, 1, 5, 5, 2, 0, 8, 2, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C2 A 0, 0.160, 0.292, 0.424, 0.480 max_d=0.480 avg_d=0.292 std_dev=0.132
C4 B 0, 0.041, 0.176, 0.310, 0.665 max_d=0.665 avg_d=0.176 std_dev=0.134
N3 B 0, 0.092, 0.233, 0.375, 0.758 max_d=0.758 avg_d=0.233 std_dev=0.141
N3 A 0, 0.059, 0.204, 0.349, 0.626 max_d=0.626 avg_d=0.204 std_dev=0.145
N1 A 0, 0.115, 0.280, 0.446, 0.909 max_d=0.909 avg_d=0.280 std_dev=0.165
C5 B 0, 0.193, 0.367, 0.540, 0.824 max_d=0.824 avg_d=0.367 std_dev=0.173
C6 A 0, 0.012, 0.246, 0.480, 1.355 max_d=1.355 avg_d=0.246 std_dev=0.234
N7 B 0, 0.216, 0.451, 0.686, 1.249 max_d=1.249 avg_d=0.451 std_dev=0.235
C4 A 0, 0.249, 0.485, 0.721, 1.413 max_d=1.413 avg_d=0.485 std_dev=0.236
O2 A 0, 0.327, 0.591, 0.855, 1.212 max_d=1.212 avg_d=0.591 std_dev=0.264
C5 A 0, 0.201, 0.482, 0.762, 1.653 max_d=1.653 avg_d=0.482 std_dev=0.280
O4' A 0, 0.264, 0.550, 0.836, 1.247 max_d=1.247 avg_d=0.550 std_dev=0.286
N9 B 0, 0.197, 0.488, 0.778, 0.866 max_d=0.866 avg_d=0.488 std_dev=0.291
C2 B 0, 0.207, 0.509, 0.812, 0.950 max_d=0.950 avg_d=0.509 std_dev=0.302
C6 B 0, 0.395, 0.710, 1.024, 1.309 max_d=1.309 avg_d=0.710 std_dev=0.315
C8 B 0, 0.233, 0.548, 0.863, 1.101 max_d=1.101 avg_d=0.548 std_dev=0.315
C1' A 0, 0.280, 0.623, 0.966, 1.833 max_d=1.833 avg_d=0.623 std_dev=0.343
O4 A 0, 0.415, 0.784, 1.153, 2.209 max_d=2.209 avg_d=0.784 std_dev=0.369
N1 B 0, 0.366, 0.755, 1.144, 1.267 max_d=1.267 avg_d=0.755 std_dev=0.389
C3' A 0, 0.584, 0.982, 1.380, 2.265 max_d=2.265 avg_d=0.982 std_dev=0.398
O6 B 0, 0.594, 1.013, 1.432, 1.904 max_d=1.904 avg_d=1.013 std_dev=0.419
N2 B 0, 0.295, 0.730, 1.165, 1.435 max_d=1.435 avg_d=0.730 std_dev=0.435
C1' B 0, 0.425, 0.867, 1.310, 1.450 max_d=1.450 avg_d=0.867 std_dev=0.442
C4' A 0, 0.204, 0.678, 1.152, 1.726 max_d=1.726 avg_d=0.678 std_dev=0.474
O3' A 0, 1.044, 1.550, 2.056, 2.172 max_d=2.172 avg_d=1.550 std_dev=0.506
C5' A 0, 0.463, 1.044, 1.624, 2.506 max_d=2.506 avg_d=1.044 std_dev=0.581
C2' A 0, 0.447, 1.047, 1.647, 3.360 max_d=3.360 avg_d=1.047 std_dev=0.600
O4' B 0, 1.124, 1.771, 2.418, 2.741 max_d=2.741 avg_d=1.771 std_dev=0.647
C2' B 0, 1.784, 2.540, 3.295, 3.282 max_d=3.282 avg_d=2.540 std_dev=0.756
C3' B 0, 1.534, 2.445, 3.357, 3.575 max_d=3.575 avg_d=2.445 std_dev=0.911
O3' B 0, 1.297, 2.218, 3.139, 3.370 max_d=3.370 avg_d=2.218 std_dev=0.921
O5' A 0, 0.423, 1.361, 2.298, 5.033 max_d=5.033 avg_d=1.361 std_dev=0.937
C4' B 0, 1.300, 2.265, 3.231, 3.913 max_d=3.913 avg_d=2.265 std_dev=0.966
O2' A 0, 0.741, 1.717, 2.694, 4.913 max_d=4.913 avg_d=1.717 std_dev=0.976
O2' B 0, 2.458, 3.669, 4.880, 5.420 max_d=5.420 avg_d=3.669 std_dev=1.211
P A 0, 0.451, 1.673, 2.896, 6.321 max_d=6.321 avg_d=1.673 std_dev=1.223
OP2 A 0, 1.253, 2.478, 3.702, 6.746 max_d=6.746 avg_d=2.478 std_dev=1.225
C5' B 0, 2.678, 4.039, 5.401, 5.772 max_d=5.772 avg_d=4.039 std_dev=1.362
OP1 A 0, 1.130, 2.497, 3.865, 7.683 max_d=7.683 avg_d=2.497 std_dev=1.368
O5' B 0, 2.829, 4.511, 6.192, 6.609 max_d=6.609 avg_d=4.511 std_dev=1.682
OP1 B 0, 3.597, 5.865, 8.133, 9.674 max_d=9.674 avg_d=5.865 std_dev=2.268
P B 0, 3.322, 5.595, 7.869, 8.793 max_d=8.793 avg_d=5.595 std_dev=2.273
OP2 B 0, 2.990, 5.684, 8.378, 9.712 max_d=9.712 avg_d=5.684 std_dev=2.694

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 0.02 0.01 0.02 0.10 0.02 0.01 0.02 0.07 0.02 0.27 0.02 0.01 0.35 0.76 0.65 0.49
C2 0.03 0.00 0.21 0.29 0.01 0.07 0.02 0.17 0.01 0.01 0.00 0.00 0.15 0.22 0.01 0.12 0.47 1.15 0.81 0.69
C2' 0.00 0.21 0.00 0.01 0.10 0.03 0.15 0.21 0.17 0.05 0.17 0.35 0.01 0.04 0.11 0.02 0.63 0.91 0.68 0.69
C3' 0.01 0.29 0.01 0.00 0.39 0.01 0.35 0.03 0.28 0.23 0.37 0.24 0.03 0.02 0.42 0.03 0.39 0.45 0.34 0.36
C4 0.02 0.01 0.10 0.39 0.00 0.18 0.01 0.31 0.01 0.01 0.01 0.01 0.35 0.28 0.00 0.05 0.62 1.53 0.95 0.89
C4' 0.01 0.07 0.03 0.01 0.18 0.00 0.24 0.01 0.22 0.11 0.12 0.09 0.30 0.03 0.19 0.01 0.03 0.22 0.43 0.10
C5 0.02 0.02 0.15 0.35 0.01 0.24 0.00 0.35 0.01 0.02 0.01 0.02 0.40 0.27 0.01 0.13 0.67 1.58 0.94 0.94
C5' 0.10 0.17 0.21 0.03 0.31 0.01 0.35 0.00 0.30 0.18 0.23 0.16 0.13 0.21 0.33 0.02 0.01 0.35 0.43 0.02
C6 0.02 0.01 0.17 0.28 0.01 0.22 0.01 0.30 0.00 0.01 0.02 0.02 0.35 0.18 0.01 0.16 0.62 1.39 0.85 0.85
N1 0.01 0.01 0.05 0.23 0.01 0.11 0.02 0.18 0.01 0.00 0.01 0.03 0.20 0.16 0.01 0.03 0.49 1.12 0.78 0.68
N3 0.02 0.00 0.17 0.37 0.01 0.12 0.01 0.23 0.02 0.01 0.00 0.01 0.23 0.25 0.01 0.08 0.53 1.35 0.89 0.79
O2 0.07 0.00 0.35 0.24 0.01 0.09 0.02 0.16 0.02 0.03 0.01 0.00 0.19 0.28 0.03 0.22 0.41 1.00 0.78 0.61
O2' 0.02 0.15 0.01 0.03 0.35 0.30 0.40 0.13 0.35 0.20 0.23 0.19 0.00 0.07 0.37 0.20 0.40 0.67 0.56 0.45
O3' 0.27 0.22 0.04 0.02 0.28 0.03 0.27 0.21 0.18 0.16 0.25 0.28 0.07 0.00 0.32 0.19 0.24 0.42 0.32 0.24
O4 0.02 0.01 0.11 0.42 0.00 0.19 0.01 0.33 0.01 0.01 0.01 0.03 0.37 0.32 0.00 0.05 0.64 1.62 1.00 0.94
O4' 0.01 0.12 0.02 0.03 0.05 0.01 0.13 0.02 0.16 0.03 0.08 0.22 0.20 0.19 0.05 0.00 0.17 0.39 0.61 0.26
O5' 0.35 0.47 0.63 0.39 0.62 0.03 0.67 0.01 0.62 0.49 0.53 0.41 0.40 0.24 0.64 0.17 0.00 0.03 0.03 0.01
OP1 0.76 1.15 0.91 0.45 1.53 0.22 1.58 0.35 1.39 1.12 1.35 1.00 0.67 0.42 1.62 0.39 0.03 0.00 0.02 0.01
OP2 0.65 0.81 0.68 0.34 0.95 0.43 0.94 0.43 0.85 0.78 0.89 0.78 0.56 0.32 1.00 0.61 0.03 0.02 0.00 0.01
P 0.49 0.69 0.69 0.36 0.89 0.10 0.94 0.02 0.85 0.68 0.79 0.61 0.45 0.24 0.94 0.26 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' 0.52 0.38 0.57 0.49 0.44 0.46 0.53 0.66 0.47 0.68 0.38 0.55 0.36 0.70 0.54 1.07 0.62 0.51 0.71 0.58 0.97 1.38 0.80
C2 0.31 0.27 0.43 0.38 0.25 0.30 0.35 0.71 0.35 0.44 0.25 0.50 0.22 0.48 0.32 0.92 0.47 0.29 0.79 0.49 1.12 1.34 0.83
C2' 0.62 0.59 0.62 0.64 0.60 0.66 0.66 0.85 0.63 0.73 0.57 0.69 0.58 0.76 0.64 0.91 0.56 0.68 1.06 0.71 1.16 1.79 1.20
C3' 0.59 0.48 0.51 0.48 0.52 0.54 0.57 0.61 0.51 0.68 0.42 0.60 0.50 0.70 0.58 0.90 0.55 0.62 0.93 0.58 0.97 1.69 1.08
C4 0.18 0.27 0.38 0.46 0.19 0.38 0.30 0.79 0.35 0.31 0.25 0.48 0.21 0.39 0.21 0.66 0.31 0.31 0.95 0.50 1.17 1.45 0.97
C4' 0.60 0.38 0.63 0.53 0.50 0.55 0.60 0.66 0.51 0.77 0.37 0.50 0.39 0.79 0.61 1.10 0.67 0.60 0.74 0.61 0.96 1.45 0.85
C5 0.28 0.37 0.35 0.42 0.27 0.37 0.34 0.64 0.34 0.40 0.30 0.56 0.30 0.45 0.31 0.67 0.34 0.36 0.81 0.48 0.91 1.45 0.84
C5' 0.70 0.50 0.71 0.62 0.62 0.69 0.72 0.80 0.64 0.88 0.51 0.55 0.52 0.90 0.73 1.13 0.72 0.74 0.84 0.74 1.05 1.56 0.96
C6 0.42 0.41 0.44 0.44 0.39 0.42 0.46 0.63 0.42 0.55 0.38 0.57 0.37 0.58 0.44 0.84 0.46 0.45 0.75 0.52 0.89 1.44 0.80
N1 0.40 0.34 0.45 0.40 0.34 0.37 0.44 0.64 0.40 0.55 0.32 0.53 0.30 0.58 0.42 0.93 0.50 0.40 0.73 0.53 0.96 1.37 0.78
N3 0.25 0.28 0.43 0.44 0.22 0.36 0.32 0.81 0.34 0.35 0.26 0.49 0.23 0.41 0.26 0.82 0.41 0.29 0.92 0.48 1.25 1.40 0.97
O2 0.36 0.28 0.49 0.41 0.26 0.29 0.36 0.73 0.35 0.45 0.25 0.51 0.24 0.49 0.34 1.02 0.56 0.26 0.78 0.49 1.20 1.31 0.85
O2' 0.90 0.89 0.93 0.94 0.88 0.96 0.90 1.15 0.87 0.97 0.86 0.98 0.88 0.98 0.92 1.14 0.81 0.97 1.28 0.89 1.42 1.94 1.41
O3' 0.59 0.52 0.49 0.48 0.51 0.55 0.54 0.64 0.49 0.65 0.43 0.65 0.53 0.67 0.57 0.86 0.50 0.63 0.99 0.56 0.98 1.74 1.12
O4 0.26 0.33 0.53 0.62 0.30 0.54 0.39 0.97 0.45 0.36 0.38 0.45 0.29 0.42 0.29 0.61 0.37 0.43 1.13 0.56 1.37 1.55 1.17
O4' 0.62 0.30 0.69 0.56 0.47 0.54 0.58 0.67 0.46 0.80 0.30 0.48 0.32 0.80 0.62 1.22 0.74 0.58 0.61 0.56 0.94 1.26 0.68
O5' 0.87 0.91 0.80 0.77 0.85 0.89 0.89 0.98 0.89 0.98 0.91 1.02 0.86 0.99 0.88 1.09 0.73 0.96 1.19 0.93 1.23 1.79 1.23
OP1 1.96 1.97 1.87 1.81 1.98 1.91 2.01 1.89 2.00 2.01 1.98 1.96 1.97 2.03 1.98 2.01 1.77 1.99 2.05 2.02 1.83 2.30 1.84
OP2 1.35 1.27 1.29 1.23 1.32 1.36 1.35 1.41 1.31 1.42 1.27 1.27 1.28 1.43 1.36 1.50 1.22 1.42 1.65 1.33 1.59 2.12 1.62
P 1.23 1.23 1.13 1.08 1.23 1.22 1.27 1.27 1.27 1.33 1.26 1.27 1.21 1.34 1.25 1.36 1.03 1.30 1.49 1.32 1.44 1.98 1.44

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.05 0.00 0.02 0.02 0.01 0.01 0.07 0.02 0.02 0.03 0.06 0.05 0.02 0.00 0.02 0.30 0.01 0.32 0.02 0.30 0.64 0.31
C2 0.05 0.00 0.49 0.56 0.01 0.45 0.01 0.85 0.01 0.01 0.00 0.01 0.01 0.01 0.01 0.44 0.31 0.36 0.93 0.02 1.13 1.23 0.96
C2' 0.00 0.49 0.00 0.00 0.24 0.02 0.12 0.19 0.20 0.27 0.36 0.60 0.49 0.18 0.05 0.00 0.04 0.03 0.42 0.15 0.54 0.69 0.46
C3' 0.02 0.56 0.00 0.00 0.31 0.01 0.31 0.03 0.36 0.43 0.45 0.70 0.53 0.40 0.21 0.03 0.01 0.03 0.36 0.36 0.47 0.56 0.34
C4 0.02 0.01 0.24 0.31 0.00 0.18 0.00 0.35 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.28 0.16 0.18 0.66 0.01 0.52 1.13 0.66
C4' 0.01 0.45 0.02 0.01 0.18 0.00 0.11 0.01 0.17 0.34 0.32 0.58 0.43 0.26 0.08 0.30 0.03 0.01 0.03 0.14 0.33 0.30 0.09
C5 0.01 0.01 0.12 0.31 0.00 0.11 0.00 0.19 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.35 0.16 0.09 0.75 0.01 0.54 1.46 0.84
C5' 0.07 0.85 0.19 0.03 0.35 0.01 0.19 0.00 0.33 0.53 0.63 1.11 0.77 0.41 0.12 0.13 0.22 0.03 0.02 0.26 0.29 0.37 0.03
C6 0.02 0.01 0.20 0.36 0.01 0.17 0.01 0.33 0.00 0.01 0.01 0.02 0.01 0.01 0.01 0.37 0.16 0.16 0.81 0.01 0.63 1.52 0.88
C8 0.02 0.01 0.27 0.43 0.01 0.34 0.01 0.53 0.01 0.00 0.02 0.02 0.01 0.00 0.00 0.42 0.27 0.22 0.91 0.02 0.90 1.61 1.09
N1 0.03 0.00 0.36 0.45 0.01 0.32 0.01 0.63 0.01 0.02 0.00 0.01 0.01 0.01 0.01 0.39 0.21 0.28 0.88 0.02 0.90 1.38 0.90
N2 0.06 0.01 0.60 0.70 0.01 0.58 0.01 1.11 0.02 0.02 0.01 0.00 0.01 0.02 0.02 0.55 0.42 0.43 1.10 0.03 1.53 1.31 1.19
N3 0.05 0.01 0.49 0.53 0.00 0.43 0.01 0.77 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.41 0.31 0.35 0.83 0.02 0.97 1.05 0.82
N7 0.02 0.01 0.18 0.40 0.01 0.26 0.00 0.41 0.01 0.00 0.01 0.02 0.01 0.00 0.01 0.44 0.27 0.13 0.91 0.02 0.88 1.77 1.13
N9 0.00 0.01 0.05 0.21 0.01 0.08 0.01 0.12 0.01 0.00 0.01 0.02 0.01 0.01 0.00 0.22 0.16 0.03 0.57 0.02 0.40 1.08 0.62
O2' 0.02 0.44 0.00 0.03 0.28 0.30 0.35 0.13 0.37 0.42 0.39 0.55 0.41 0.44 0.22 0.00 0.10 0.19 0.37 0.41 0.47 0.69 0.41
O3' 0.30 0.31 0.04 0.01 0.16 0.03 0.16 0.22 0.16 0.27 0.21 0.42 0.31 0.27 0.16 0.10 0.00 0.19 0.28 0.19 0.53 0.43 0.19
O4' 0.01 0.36 0.03 0.03 0.18 0.01 0.09 0.03 0.16 0.22 0.28 0.43 0.35 0.13 0.03 0.19 0.19 0.00 0.37 0.12 0.31 0.58 0.38
O5' 0.32 0.93 0.42 0.36 0.66 0.03 0.75 0.02 0.81 0.91 0.88 1.10 0.83 0.91 0.57 0.37 0.28 0.37 0.00 0.85 0.02 0.03 0.01
O6 0.02 0.02 0.15 0.36 0.01 0.14 0.01 0.26 0.01 0.02 0.02 0.03 0.02 0.02 0.02 0.41 0.19 0.12 0.85 0.00 0.67 1.71 0.99
OP1 0.30 1.13 0.54 0.47 0.52 0.33 0.54 0.29 0.63 0.90 0.90 1.53 0.97 0.88 0.40 0.47 0.53 0.31 0.02 0.67 0.00 0.01 0.00
OP2 0.64 1.23 0.69 0.56 1.13 0.30 1.46 0.37 1.52 1.61 1.38 1.31 1.05 1.77 1.08 0.69 0.43 0.58 0.03 1.71 0.01 0.00 0.01
P 0.31 0.96 0.46 0.34 0.66 0.09 0.84 0.03 0.88 1.09 0.90 1.19 0.82 1.13 0.62 0.41 0.19 0.38 0.01 0.99 0.00 0.01 0.00