ClaRNA

Doublet Group distance statistics: 13005

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Distances from reference structure (by RMSD)

1, 1, 5, 9, 1, 0, 0, 0, 1, 0, 2, 2, 1, 2, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4 B 0, 0.069, 0.198, 0.327, 0.441 max_d=0.441 avg_d=0.198 std_dev=0.129
C6 A 0, 0.158, 0.357, 0.556, 0.808 max_d=0.808 avg_d=0.357 std_dev=0.199
N1 A 0, 0.023, 0.274, 0.525, 0.789 max_d=0.789 avg_d=0.274 std_dev=0.251
C5 A 0, 0.151, 0.406, 0.660, 0.979 max_d=0.979 avg_d=0.406 std_dev=0.255
C2 A 0, 0.072, 0.385, 0.699, 1.144 max_d=1.144 avg_d=0.385 std_dev=0.313
N9 B 0, 0.194, 0.509, 0.825, 1.233 max_d=1.233 avg_d=0.509 std_dev=0.316
N3 A 0, 0.132, 0.448, 0.763, 1.086 max_d=1.086 avg_d=0.448 std_dev=0.316
C4 A 0, 0.046, 0.376, 0.706, 1.245 max_d=1.245 avg_d=0.376 std_dev=0.330
C1' B 0, 0.160, 0.538, 0.915, 1.487 max_d=1.487 avg_d=0.538 std_dev=0.378
N1 B 0, 0.219, 0.645, 1.070, 1.796 max_d=1.796 avg_d=0.645 std_dev=0.426
C1' A 0, 0.022, 0.513, 1.004, 1.832 max_d=1.832 avg_d=0.513 std_dev=0.491
O2 A 0, 0.181, 0.678, 1.176, 1.891 max_d=1.891 avg_d=0.678 std_dev=0.498
O4' B 0, 0.390, 0.958, 1.526, 1.927 max_d=1.927 avg_d=0.958 std_dev=0.568
N4 A 0, 0.014, 0.590, 1.166, 2.191 max_d=2.191 avg_d=0.590 std_dev=0.576
O4' A 0, 0.336, 0.986, 1.635, 2.786 max_d=2.786 avg_d=0.986 std_dev=0.649
C2' A 0, 0.044, 0.721, 1.399, 2.627 max_d=2.627 avg_d=0.721 std_dev=0.678
N3 B 0, 0.013, 0.712, 1.412, 2.470 max_d=2.470 avg_d=0.712 std_dev=0.699
C5 B 0, 0.006, 0.728, 1.451, 2.382 max_d=2.382 avg_d=0.728 std_dev=0.723
C6 B 0, -0.033, 0.699, 1.432, 1.968 max_d=1.968 avg_d=0.699 std_dev=0.732
C4' B 0, 0.455, 1.203, 1.951, 2.827 max_d=2.827 avg_d=1.203 std_dev=0.748
C2 B 0, 0.118, 0.872, 1.627, 2.686 max_d=2.686 avg_d=0.872 std_dev=0.754
C3' A 0, 0.278, 1.126, 1.973, 3.433 max_d=3.433 avg_d=1.126 std_dev=0.847
O2' A 0, -0.002, 0.848, 1.698, 3.294 max_d=3.294 avg_d=0.848 std_dev=0.850
O5' A 0, 0.764, 1.629, 2.494, 3.410 max_d=3.410 avg_d=1.629 std_dev=0.865
C4' A 0, 0.390, 1.259, 2.129, 3.657 max_d=3.657 avg_d=1.259 std_dev=0.869
C3' B 0, 0.727, 1.600, 2.473, 3.243 max_d=3.243 avg_d=1.600 std_dev=0.873
P A 0, 0.797, 1.680, 2.562, 3.667 max_d=3.667 avg_d=1.680 std_dev=0.882
C2' B 0, 0.230, 1.116, 2.002, 2.737 max_d=2.737 avg_d=1.116 std_dev=0.886
OP1 A 0, 1.019, 1.993, 2.967, 4.149 max_d=4.149 avg_d=1.993 std_dev=0.974
C5' A 0, 0.805, 1.785, 2.765, 4.216 max_d=4.216 avg_d=1.785 std_dev=0.980
C8 B 0, 0.143, 1.209, 2.275, 3.900 max_d=3.900 avg_d=1.209 std_dev=1.066
O3' A 0, 0.399, 1.491, 2.583, 4.452 max_d=4.452 avg_d=1.491 std_dev=1.092
OP2 A 0, 0.440, 1.597, 2.754, 5.824 max_d=5.824 avg_d=1.597 std_dev=1.157
C5' B 0, 0.930, 2.116, 3.302, 3.749 max_d=3.749 avg_d=2.116 std_dev=1.186
O2' B 0, 0.489, 1.772, 3.056, 4.590 max_d=4.590 avg_d=1.772 std_dev=1.284
N6 B 0, -0.065, 1.247, 2.558, 3.977 max_d=3.977 avg_d=1.247 std_dev=1.312
O3' B 0, 1.110, 2.442, 3.774, 5.298 max_d=5.298 avg_d=2.442 std_dev=1.332
N7 B 0, 0.044, 1.388, 2.732, 4.708 max_d=4.708 avg_d=1.388 std_dev=1.344
O5' B 0, 1.203, 2.710, 4.217, 5.101 max_d=5.101 avg_d=2.710 std_dev=1.507
P B 0, 1.400, 3.723, 6.047, 7.683 max_d=7.683 avg_d=3.723 std_dev=2.323
OP2 B 0, 1.595, 4.144, 6.694, 9.298 max_d=9.298 avg_d=4.144 std_dev=2.549
OP1 B 0, 2.065, 4.654, 7.242, 8.138 max_d=8.138 avg_d=4.654 std_dev=2.588

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.03 0.00 0.02 0.02 0.01 0.01 0.08 0.01 0.01 0.03 0.03 0.05 0.02 0.04 0.01 0.21 0.24 0.35 0.10
C2 0.03 0.00 0.12 0.16 0.01 0.06 0.01 0.16 0.01 0.01 0.01 0.02 0.01 0.13 0.18 0.03 0.39 0.15 0.48 0.29
C2' 0.00 0.12 0.00 0.01 0.06 0.02 0.07 0.08 0.09 0.03 0.11 0.07 0.21 0.01 0.05 0.01 0.23 0.28 0.23 0.10
C3' 0.02 0.16 0.01 0.00 0.14 0.01 0.18 0.03 0.19 0.09 0.16 0.16 0.23 0.03 0.01 0.02 0.30 0.30 0.24 0.20
C4 0.02 0.01 0.06 0.14 0.00 0.07 0.01 0.24 0.01 0.02 0.01 0.01 0.02 0.09 0.16 0.03 0.51 0.24 0.75 0.49
C4' 0.01 0.06 0.02 0.01 0.07 0.00 0.11 0.01 0.11 0.04 0.06 0.08 0.09 0.14 0.04 0.01 0.02 0.27 0.36 0.13
C5 0.01 0.01 0.07 0.18 0.01 0.11 0.00 0.27 0.00 0.01 0.01 0.01 0.02 0.06 0.18 0.04 0.53 0.27 0.78 0.51
C5' 0.08 0.16 0.08 0.03 0.24 0.01 0.27 0.00 0.24 0.16 0.20 0.26 0.14 0.10 0.07 0.04 0.01 0.13 0.30 0.03
C6 0.01 0.01 0.09 0.19 0.01 0.11 0.00 0.24 0.00 0.00 0.01 0.01 0.02 0.06 0.19 0.04 0.47 0.19 0.62 0.40
N1 0.01 0.01 0.03 0.09 0.02 0.04 0.01 0.16 0.00 0.00 0.01 0.02 0.02 0.05 0.09 0.01 0.37 0.15 0.46 0.26
N3 0.03 0.01 0.11 0.16 0.01 0.06 0.01 0.20 0.01 0.01 0.00 0.02 0.02 0.13 0.19 0.03 0.46 0.18 0.62 0.40
N4 0.03 0.02 0.07 0.16 0.01 0.08 0.01 0.26 0.01 0.02 0.02 0.00 0.02 0.10 0.18 0.04 0.54 0.30 0.85 0.56
O2 0.05 0.01 0.21 0.23 0.02 0.09 0.02 0.14 0.02 0.02 0.02 0.02 0.00 0.21 0.28 0.06 0.33 0.19 0.39 0.22
O2' 0.02 0.13 0.01 0.03 0.09 0.14 0.06 0.10 0.06 0.05 0.13 0.10 0.21 0.00 0.10 0.08 0.14 0.35 0.39 0.17
O3' 0.04 0.18 0.05 0.01 0.16 0.04 0.18 0.07 0.19 0.09 0.19 0.18 0.28 0.10 0.00 0.03 0.26 0.40 0.38 0.28
O4' 0.01 0.03 0.01 0.02 0.03 0.01 0.04 0.04 0.04 0.01 0.03 0.04 0.06 0.08 0.03 0.00 0.17 0.28 0.43 0.17
O5' 0.21 0.39 0.23 0.30 0.51 0.02 0.53 0.01 0.47 0.37 0.46 0.54 0.33 0.14 0.26 0.17 0.00 0.02 0.03 0.01
OP1 0.24 0.15 0.28 0.30 0.24 0.27 0.27 0.13 0.19 0.15 0.18 0.30 0.19 0.35 0.40 0.28 0.02 0.00 0.02 0.01
OP2 0.35 0.48 0.23 0.24 0.75 0.36 0.78 0.30 0.62 0.46 0.62 0.85 0.39 0.39 0.38 0.43 0.03 0.02 0.00 0.01
P 0.10 0.29 0.10 0.20 0.49 0.13 0.51 0.03 0.40 0.26 0.40 0.56 0.22 0.17 0.28 0.17 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' 0.60 0.88 0.78 0.71 0.52 0.50 0.35 0.45 0.35 0.36 0.58 0.82 0.61 0.42 0.46 1.04 0.87 0.47 0.62 0.98 0.95 0.63
C2 0.56 0.94 0.78 0.64 0.38 0.47 0.33 0.52 0.41 0.43 0.48 0.88 1.02 0.69 0.32 1.26 0.99 0.44 0.43 0.81 0.93 0.56
C2' 0.72 0.93 0.92 0.89 0.63 0.67 0.46 0.60 0.52 0.41 0.70 0.90 0.71 0.43 0.57 1.15 1.03 0.60 0.53 0.93 0.75 0.38
C3' 0.77 0.91 1.02 1.00 0.67 0.75 0.53 0.70 0.59 0.49 0.73 0.90 0.72 0.49 0.63 1.21 1.14 0.64 0.61 0.95 0.81 0.40
C4 0.54 0.87 0.85 0.78 0.34 0.56 0.45 0.66 0.54 0.59 0.55 0.82 1.08 0.84 0.32 1.38 1.19 0.47 0.52 0.87 1.11 0.72
C4' 0.70 0.86 0.94 0.93 0.62 0.65 0.47 0.59 0.50 0.44 0.70 0.83 0.54 0.41 0.58 1.10 1.05 0.56 0.75 1.11 0.99 0.67
C5 0.48 0.76 0.76 0.69 0.31 0.48 0.41 0.58 0.48 0.52 0.45 0.72 0.97 0.74 0.30 1.22 1.05 0.41 0.47 0.80 1.04 0.62
C5' 0.67 0.82 0.93 0.92 0.60 0.63 0.46 0.60 0.48 0.43 0.65 0.80 0.52 0.42 0.56 1.10 1.05 0.54 0.75 1.07 1.02 0.65
C6 0.49 0.75 0.73 0.65 0.37 0.45 0.38 0.50 0.41 0.45 0.44 0.71 0.84 0.63 0.34 1.11 0.93 0.40 0.49 0.81 0.98 0.56
N1 0.53 0.84 0.73 0.63 0.39 0.44 0.31 0.47 0.34 0.39 0.45 0.78 0.83 0.57 0.34 1.11 0.89 0.41 0.47 0.83 0.92 0.53
N3 0.60 0.96 0.87 0.77 0.39 0.57 0.44 0.65 0.55 0.57 0.60 0.91 1.11 0.84 0.35 1.42 1.18 0.50 0.51 0.87 1.08 0.71
N4 0.60 0.93 0.95 0.91 0.38 0.66 0.53 0.78 0.62 0.68 0.64 0.87 1.14 0.94 0.37 1.51 1.37 0.55 0.65 1.01 1.25 0.89
O2 0.63 1.08 0.79 0.62 0.47 0.48 0.32 0.49 0.42 0.40 0.54 1.01 1.07 0.66 0.38 1.28 0.95 0.49 0.43 0.84 0.88 0.54
O2' 0.79 1.02 0.98 0.97 0.71 0.72 0.51 0.58 0.66 0.40 0.90 0.98 0.77 0.36 0.63 1.15 1.08 0.66 0.71 1.12 0.82 0.60
O3' 0.92 1.03 1.19 1.18 0.82 0.92 0.72 0.86 0.81 0.66 0.91 1.03 0.97 0.69 0.78 1.36 1.34 0.80 0.72 1.11 0.82 0.51
O4' 0.65 0.85 0.83 0.78 0.59 0.56 0.46 0.52 0.46 0.46 0.65 0.81 0.53 0.48 0.55 1.04 0.91 0.54 0.79 1.12 1.11 0.80
O5' 0.69 0.77 0.94 0.89 0.57 0.64 0.42 0.64 0.41 0.43 0.55 0.78 0.49 0.42 0.55 1.20 1.06 0.56 0.70 0.96 0.95 0.53
OP1 0.76 0.85 0.97 0.93 0.67 0.73 0.58 0.69 0.60 0.55 0.70 0.84 0.66 0.56 0.65 1.22 1.13 0.68 0.81 1.05 1.13 0.72
OP2 0.62 0.64 0.87 0.87 0.51 0.65 0.53 0.72 0.54 0.59 0.47 0.66 0.81 0.69 0.53 1.13 1.07 0.55 0.68 0.95 1.15 0.68
P 0.63 0.72 0.88 0.84 0.52 0.60 0.42 0.61 0.43 0.43 0.52 0.72 0.56 0.47 0.51 1.16 1.04 0.51 0.66 0.92 1.05 0.58

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.04 0.01 0.02 0.02 0.02 0.02 0.12 0.03 0.02 0.04 0.04 0.05 0.02 0.01 0.03 0.33 0.01 0.39 0.62 0.49 0.35
C2 0.04 0.00 0.29 0.31 0.01 0.13 0.01 0.19 0.01 0.01 0.01 0.01 0.02 0.01 0.02 0.42 0.42 0.17 0.55 0.97 0.66 0.55
C2' 0.01 0.29 0.00 0.01 0.15 0.03 0.08 0.25 0.14 0.16 0.23 0.29 0.11 0.10 0.03 0.01 0.07 0.02 0.53 0.65 0.75 0.56
C3' 0.02 0.31 0.01 0.00 0.27 0.01 0.35 0.02 0.36 0.36 0.34 0.26 0.39 0.39 0.23 0.02 0.01 0.02 0.35 0.54 0.55 0.39
C4 0.02 0.01 0.15 0.27 0.00 0.08 0.01 0.20 0.02 0.01 0.01 0.00 0.03 0.01 0.01 0.29 0.26 0.09 0.61 0.94 0.67 0.54
C4' 0.02 0.13 0.03 0.01 0.08 0.00 0.12 0.01 0.12 0.20 0.11 0.12 0.14 0.20 0.09 0.31 0.06 0.01 0.02 0.31 0.34 0.14
C5 0.02 0.01 0.08 0.35 0.01 0.12 0.00 0.28 0.01 0.01 0.01 0.01 0.03 0.00 0.02 0.33 0.24 0.05 0.74 1.12 0.82 0.67
C5' 0.12 0.19 0.25 0.02 0.20 0.01 0.28 0.00 0.28 0.34 0.23 0.16 0.33 0.36 0.20 0.12 0.22 0.02 0.01 0.37 0.38 0.02
C6 0.03 0.01 0.14 0.36 0.02 0.12 0.01 0.28 0.00 0.02 0.01 0.01 0.01 0.02 0.02 0.37 0.29 0.09 0.73 1.15 0.84 0.68
C8 0.02 0.01 0.16 0.36 0.01 0.20 0.01 0.34 0.02 0.00 0.01 0.01 0.05 0.01 0.01 0.30 0.25 0.11 0.83 1.12 0.82 0.70
N1 0.04 0.01 0.23 0.34 0.01 0.11 0.01 0.23 0.01 0.01 0.00 0.01 0.02 0.01 0.02 0.40 0.36 0.14 0.64 1.07 0.76 0.62
N3 0.04 0.01 0.29 0.26 0.00 0.12 0.01 0.16 0.01 0.01 0.01 0.00 0.02 0.01 0.01 0.39 0.42 0.17 0.50 0.88 0.60 0.50
N6 0.05 0.02 0.11 0.39 0.03 0.14 0.03 0.33 0.01 0.05 0.02 0.02 0.00 0.05 0.04 0.39 0.31 0.08 0.79 1.25 0.93 0.75
N7 0.02 0.01 0.10 0.39 0.01 0.20 0.00 0.36 0.02 0.01 0.01 0.01 0.05 0.00 0.01 0.33 0.28 0.07 0.86 1.25 0.94 0.78
N9 0.01 0.02 0.03 0.23 0.01 0.09 0.02 0.20 0.02 0.01 0.02 0.01 0.04 0.01 0.00 0.20 0.18 0.02 0.62 0.87 0.63 0.51
O2' 0.03 0.42 0.01 0.02 0.29 0.31 0.33 0.12 0.37 0.30 0.40 0.39 0.39 0.33 0.20 0.00 0.10 0.22 0.35 0.53 0.84 0.51
O3' 0.33 0.42 0.07 0.01 0.26 0.06 0.24 0.22 0.29 0.25 0.36 0.42 0.31 0.28 0.18 0.10 0.00 0.26 0.26 0.52 0.60 0.41
O4' 0.01 0.17 0.02 0.02 0.09 0.01 0.05 0.02 0.09 0.11 0.14 0.17 0.08 0.07 0.02 0.22 0.26 0.00 0.32 0.61 0.48 0.40
O5' 0.39 0.55 0.53 0.35 0.61 0.02 0.74 0.01 0.73 0.83 0.64 0.50 0.79 0.86 0.62 0.35 0.26 0.32 0.00 0.02 0.03 0.01
OP1 0.62 0.97 0.65 0.54 0.94 0.31 1.12 0.37 1.15 1.12 1.07 0.88 1.25 1.25 0.87 0.53 0.52 0.61 0.02 0.00 0.01 0.01
OP2 0.49 0.66 0.75 0.55 0.67 0.34 0.82 0.38 0.84 0.82 0.76 0.60 0.93 0.94 0.63 0.84 0.60 0.48 0.03 0.01 0.00 0.01
P 0.35 0.55 0.56 0.39 0.54 0.14 0.67 0.02 0.68 0.70 0.62 0.50 0.75 0.78 0.51 0.51 0.41 0.40 0.01 0.01 0.01 0.00