ClaRNA

Doublet Group distance statistics: 22777

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Distances from reference structure (by RMSD)

4, 1, 2, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 2, 0, 0, 1, 1,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N1 A 0, -0.016, 0.315, 0.646, 0.891 max_d=0.891 avg_d=0.315 std_dev=0.331
C4 B 0, 0.010, 0.361, 0.712, 0.869 max_d=0.869 avg_d=0.361 std_dev=0.351
C5 A 0, 0.032, 0.480, 0.928, 1.370 max_d=1.370 avg_d=0.480 std_dev=0.448
C6 A 0, 0.032, 0.521, 1.010, 1.595 max_d=1.595 avg_d=0.521 std_dev=0.489
C1' B 0, -0.001, 0.655, 1.311, 1.747 max_d=1.747 avg_d=0.655 std_dev=0.656
C6 B 0, -0.008, 0.675, 1.357, 1.813 max_d=1.813 avg_d=0.675 std_dev=0.683
N1 B 0, -0.009, 0.742, 1.492, 1.763 max_d=1.763 avg_d=0.742 std_dev=0.751
N9 B 0, -0.133, 0.662, 1.457, 2.056 max_d=2.056 avg_d=0.662 std_dev=0.795
C1' A 0, -0.063, 0.752, 1.567, 2.186 max_d=2.186 avg_d=0.752 std_dev=0.815
N3 B 0, -0.020, 0.819, 1.659, 2.061 max_d=2.061 avg_d=0.819 std_dev=0.839
C5 B 0, -0.114, 0.732, 1.578, 2.279 max_d=2.279 avg_d=0.732 std_dev=0.846
C2 A 0, -0.099, 0.783, 1.666, 2.409 max_d=2.409 avg_d=0.783 std_dev=0.883
C2' B 0, -0.247, 0.825, 1.898, 3.143 max_d=3.143 avg_d=0.825 std_dev=1.072
O6 B 0, -0.061, 1.075, 2.211, 3.254 max_d=3.254 avg_d=1.075 std_dev=1.136
C2 B 0, -0.073, 1.068, 2.209, 2.754 max_d=2.754 avg_d=1.068 std_dev=1.141
C4 A 0, -0.223, 0.925, 2.074, 3.158 max_d=3.158 avg_d=0.925 std_dev=1.149
O3' B 0, -0.207, 0.945, 2.097, 3.420 max_d=3.420 avg_d=0.945 std_dev=1.152
C3' B 0, -0.147, 1.020, 2.186, 3.284 max_d=3.284 avg_d=1.020 std_dev=1.167
O2 A 0, -0.077, 1.113, 2.303, 3.156 max_d=3.156 avg_d=1.113 std_dev=1.190
O4' B 0, -0.171, 1.056, 2.283, 3.475 max_d=3.475 avg_d=1.056 std_dev=1.227
C4' B 0, -0.095, 1.221, 2.538, 3.288 max_d=3.288 avg_d=1.221 std_dev=1.316
O2' B 0, -0.390, 0.995, 2.380, 4.156 max_d=4.156 avg_d=0.995 std_dev=1.385
N3 A 0, -0.212, 1.194, 2.599, 3.782 max_d=3.782 avg_d=1.194 std_dev=1.406
C2' A 0, -0.126, 1.438, 3.001, 3.938 max_d=3.938 avg_d=1.438 std_dev=1.563
O2' A 0, -0.170, 1.404, 2.978, 4.356 max_d=4.356 avg_d=1.404 std_dev=1.574
C8 B 0, -0.383, 1.285, 2.952, 4.323 max_d=4.323 avg_d=1.285 std_dev=1.668
N7 B 0, -0.357, 1.381, 3.118, 4.617 max_d=4.617 avg_d=1.381 std_dev=1.737
N4 A 0, -0.342, 1.408, 3.159, 4.769 max_d=4.769 avg_d=1.408 std_dev=1.750
O4' A 0, -0.147, 1.618, 3.382, 3.921 max_d=3.921 avg_d=1.618 std_dev=1.764
N2 B 0, -0.211, 1.821, 3.852, 5.191 max_d=5.191 avg_d=1.821 std_dev=2.031
C5' B 0, -0.201, 1.966, 4.133, 5.542 max_d=5.542 avg_d=1.966 std_dev=2.167
C3' A 0, -0.175, 2.231, 4.636, 5.573 max_d=5.573 avg_d=2.231 std_dev=2.406
O5' B 0, -0.291, 2.167, 4.626, 6.438 max_d=6.438 avg_d=2.167 std_dev=2.458
C4' A 0, -0.213, 2.332, 4.877, 5.710 max_d=5.710 avg_d=2.332 std_dev=2.545
O3' A 0, -0.252, 2.839, 5.930, 7.576 max_d=7.576 avg_d=2.839 std_dev=3.091
O5' A 0, 0.361, 3.477, 6.593, 8.240 max_d=8.240 avg_d=3.477 std_dev=3.116
C5' A 0, -0.205, 3.039, 6.283, 7.237 max_d=7.237 avg_d=3.039 std_dev=3.244
P B 0, -0.521, 2.898, 6.316, 9.307 max_d=9.307 avg_d=2.898 std_dev=3.418
OP1 B 0, -0.396, 3.305, 7.005, 9.893 max_d=9.893 avg_d=3.305 std_dev=3.701
OP2 B 0, -0.405, 3.543, 7.491, 10.327 max_d=10.327 avg_d=3.543 std_dev=3.948
P A 0, -0.188, 4.147, 8.482, 10.221 max_d=10.221 avg_d=4.147 std_dev=4.335
OP1 A 0, 0.143, 4.563, 8.984, 11.258 max_d=11.258 avg_d=4.563 std_dev=4.421
OP2 A 0, 0.086, 4.990, 9.895, 11.243 max_d=11.243 avg_d=4.990 std_dev=4.905

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 0.01 0.00 0.01 0.01 0.00 0.01 0.10 0.01 0.01 0.01 0.01 0.02 0.01 0.21 0.00 0.56 0.66 1.01 0.62
C2 0.01 0.00 0.19 0.31 0.01 0.09 0.01 0.10 0.01 0.00 0.00 0.01 0.00 0.20 0.13 0.08 0.64 1.14 1.28 0.86
C2' 0.00 0.19 0.00 0.00 0.07 0.03 0.11 0.19 0.15 0.04 0.16 0.08 0.32 0.00 0.02 0.02 0.67 0.80 0.87 0.70
C3' 0.01 0.31 0.00 0.00 0.42 0.01 0.39 0.03 0.31 0.25 0.39 0.46 0.26 0.02 0.01 0.02 0.34 0.36 0.38 0.25
C4 0.01 0.01 0.07 0.42 0.00 0.20 0.00 0.21 0.01 0.01 0.00 0.00 0.01 0.34 0.31 0.05 0.73 1.57 1.54 1.09
C4' 0.00 0.09 0.03 0.01 0.20 0.00 0.24 0.01 0.21 0.12 0.14 0.22 0.04 0.28 0.03 0.00 0.02 0.35 0.37 0.08
C5 0.01 0.01 0.11 0.39 0.00 0.24 0.00 0.24 0.00 0.01 0.01 0.01 0.01 0.34 0.32 0.12 0.77 1.61 1.61 1.14
C5' 0.10 0.10 0.19 0.03 0.21 0.01 0.24 0.00 0.20 0.10 0.15 0.24 0.08 0.10 0.20 0.02 0.01 0.33 0.43 0.03
C6 0.01 0.01 0.15 0.31 0.01 0.21 0.00 0.20 0.00 0.00 0.01 0.01 0.01 0.28 0.22 0.14 0.78 1.34 1.51 1.05
N1 0.01 0.00 0.04 0.25 0.01 0.12 0.01 0.10 0.00 0.00 0.00 0.01 0.01 0.20 0.09 0.04 0.68 1.06 1.30 0.86
N3 0.01 0.00 0.16 0.39 0.00 0.14 0.01 0.15 0.01 0.00 0.00 0.00 0.01 0.28 0.23 0.06 0.68 1.38 1.41 0.98
N4 0.01 0.01 0.08 0.46 0.00 0.22 0.01 0.24 0.01 0.01 0.00 0.00 0.01 0.36 0.38 0.06 0.72 1.69 1.59 1.14
O2 0.02 0.00 0.32 0.26 0.01 0.04 0.01 0.08 0.01 0.01 0.01 0.01 0.00 0.11 0.19 0.16 0.57 0.97 1.13 0.74
O2' 0.01 0.20 0.00 0.02 0.34 0.28 0.34 0.10 0.28 0.20 0.28 0.36 0.11 0.00 0.09 0.19 0.29 0.49 0.53 0.31
O3' 0.21 0.13 0.02 0.01 0.31 0.03 0.32 0.20 0.22 0.09 0.23 0.38 0.19 0.09 0.00 0.15 0.50 0.44 0.53 0.43
O4' 0.00 0.08 0.02 0.02 0.05 0.00 0.12 0.02 0.14 0.04 0.06 0.06 0.16 0.19 0.15 0.00 0.39 0.37 0.84 0.37
O5' 0.56 0.64 0.67 0.34 0.73 0.02 0.77 0.01 0.78 0.68 0.68 0.72 0.57 0.29 0.50 0.39 0.00 0.04 0.10 0.01
OP1 0.66 1.14 0.80 0.36 1.57 0.35 1.61 0.33 1.34 1.06 1.38 1.69 0.97 0.49 0.44 0.37 0.04 0.00 0.02 0.01
OP2 1.01 1.28 0.87 0.38 1.54 0.37 1.61 0.43 1.51 1.30 1.41 1.59 1.13 0.53 0.53 0.84 0.10 0.02 0.00 0.01
P 0.62 0.86 0.70 0.25 1.09 0.08 1.14 0.03 1.05 0.86 0.98 1.14 0.74 0.31 0.43 0.37 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' 0.44 1.01 0.40 0.45 0.63 0.65 0.64 0.63 0.76 0.53 0.89 1.30 0.91 0.66 0.45 0.73 0.61 0.75 0.59 0.83 0.94 1.23 0.80
C2 0.61 1.59 0.21 0.20 1.05 0.55 0.96 0.44 1.18 0.53 1.46 1.91 1.41 0.70 0.71 0.73 0.27 0.84 0.31 1.15 0.68 0.87 0.47
C2' 0.34 1.12 0.57 0.49 0.77 0.54 0.91 0.67 1.08 0.75 1.14 1.36 0.93 0.93 0.57 0.76 0.60 0.53 0.62 1.21 1.07 1.09 0.78
C3' 0.73 1.15 0.60 0.72 0.85 1.18 0.95 1.35 1.09 0.82 1.14 1.38 1.02 0.97 0.72 0.64 0.84 1.15 1.06 1.24 1.51 1.23 1.22
C4 0.73 1.59 0.22 0.13 1.16 0.54 1.06 0.41 1.23 0.63 1.47 1.80 1.47 0.78 0.84 0.79 0.25 0.93 0.27 1.18 0.51 0.68 0.36
C4' 0.79 0.98 0.65 0.73 0.82 1.08 0.94 1.17 1.01 0.93 0.96 1.17 0.94 1.07 0.77 0.71 0.89 1.17 1.05 1.18 1.45 1.49 1.26
C5 0.51 1.05 0.26 0.35 0.72 0.61 0.60 0.55 0.71 0.35 0.91 1.24 0.99 0.43 0.50 0.78 0.48 0.78 0.46 0.67 0.71 0.89 0.61
C5' 0.96 0.99 0.84 0.89 1.02 1.24 1.22 1.40 1.27 1.24 1.09 1.03 0.97 1.39 1.02 0.77 1.06 1.35 1.33 1.47 1.73 1.72 1.54
C6 0.45 0.91 0.37 0.45 0.59 0.66 0.53 0.64 0.62 0.41 0.77 1.14 0.85 0.50 0.42 0.76 0.63 0.75 0.59 0.63 0.87 1.10 0.76
N1 0.48 1.17 0.31 0.36 0.74 0.61 0.67 0.55 0.81 0.43 1.02 1.45 1.05 0.55 0.49 0.74 0.49 0.76 0.49 0.81 0.83 1.06 0.67
N3 0.75 1.83 0.21 0.11 1.28 0.54 1.20 0.41 1.43 0.70 1.71 2.12 1.64 0.88 0.91 0.76 0.21 0.95 0.24 1.38 0.54 0.70 0.33
N4 0.94 1.86 0.37 0.20 1.47 0.56 1.39 0.43 1.57 0.93 1.77 2.00 1.74 1.10 1.13 0.83 0.46 1.12 0.30 1.52 0.35 0.54 0.26
O2 0.63 1.75 0.20 0.18 1.14 0.55 1.07 0.42 1.32 0.59 1.62 2.11 1.52 0.78 0.76 0.72 0.24 0.86 0.29 1.30 0.69 0.88 0.45
O2' 0.29 1.00 0.64 0.51 0.69 0.31 0.85 0.39 1.00 0.73 1.04 1.23 0.81 0.89 0.53 0.89 0.65 0.35 0.45 1.14 0.88 1.02 0.55
O3' 0.75 1.21 0.55 0.69 0.84 1.26 0.92 1.51 1.10 0.79 1.18 1.48 1.05 0.92 0.71 0.56 0.78 1.24 1.15 1.23 1.70 1.16 1.33
O4' 0.70 1.02 0.50 0.59 0.72 0.88 0.70 0.86 0.77 0.67 0.86 1.29 0.98 0.77 0.61 0.74 0.80 1.01 0.83 0.85 1.19 1.45 1.07
O5' 0.84 1.01 1.23 1.14 1.18 0.75 1.51 1.01 1.57 1.51 1.30 0.82 0.91 1.70 1.18 1.20 1.38 0.84 1.28 1.79 1.59 1.86 1.47
OP1 1.89 1.84 2.41 2.24 2.12 1.58 2.37 1.73 2.35 2.47 2.09 1.59 1.81 2.56 2.19 2.35 2.36 1.57 2.20 2.49 2.30 2.65 2.23
OP2 1.53 1.64 2.07 1.74 1.95 1.05 2.39 1.31 2.41 2.47 2.03 1.32 1.54 2.69 1.99 1.95 1.82 1.18 1.95 2.67 2.24 2.58 2.07
P 1.35 1.49 1.81 1.56 1.75 0.98 2.10 1.25 2.13 2.13 1.83 1.22 1.40 2.32 1.76 1.75 1.70 1.13 1.72 2.35 1.95 2.26 1.83

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.05 0.01 0.01 0.02 0.01 0.01 0.10 0.02 0.01 0.04 0.07 0.05 0.01 0.01 0.02 0.23 0.00 0.25 0.02 0.28 0.31 0.25
C2 0.05 0.00 0.47 0.36 0.01 0.15 0.01 0.35 0.01 0.01 0.00 0.01 0.00 0.01 0.01 0.33 0.40 0.35 0.58 0.01 0.82 0.81 0.80
C2' 0.01 0.47 0.00 0.01 0.25 0.04 0.15 0.18 0.24 0.19 0.38 0.56 0.44 0.09 0.03 0.01 0.08 0.02 0.42 0.19 0.52 0.56 0.55
C3' 0.01 0.36 0.01 0.00 0.32 0.01 0.40 0.04 0.44 0.34 0.42 0.36 0.30 0.40 0.25 0.03 0.01 0.02 0.08 0.47 0.22 0.36 0.26
C4 0.02 0.01 0.25 0.32 0.00 0.10 0.00 0.25 0.00 0.00 0.01 0.01 0.00 0.01 0.01 0.17 0.28 0.20 0.48 0.01 0.57 0.78 0.63
C4' 0.01 0.15 0.04 0.01 0.10 0.00 0.13 0.01 0.13 0.20 0.13 0.19 0.15 0.19 0.09 0.31 0.06 0.00 0.04 0.15 0.22 0.34 0.08
C5 0.01 0.01 0.15 0.40 0.00 0.13 0.00 0.24 0.00 0.01 0.01 0.01 0.01 0.00 0.00 0.24 0.34 0.12 0.49 0.01 0.54 1.05 0.71
C5' 0.10 0.35 0.18 0.04 0.25 0.01 0.24 0.00 0.29 0.19 0.33 0.39 0.32 0.21 0.16 0.13 0.18 0.03 0.01 0.29 0.30 0.41 0.03
C6 0.02 0.01 0.24 0.44 0.00 0.13 0.00 0.29 0.00 0.01 0.00 0.01 0.01 0.01 0.00 0.23 0.40 0.18 0.54 0.00 0.67 1.14 0.82
C8 0.01 0.01 0.19 0.34 0.00 0.20 0.01 0.19 0.01 0.00 0.01 0.01 0.01 0.00 0.00 0.38 0.28 0.17 0.34 0.01 0.21 0.93 0.47
N1 0.04 0.00 0.38 0.42 0.01 0.13 0.01 0.33 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.25 0.41 0.28 0.58 0.00 0.80 1.01 0.86
N2 0.07 0.01 0.56 0.36 0.01 0.19 0.01 0.39 0.01 0.01 0.01 0.00 0.01 0.01 0.02 0.46 0.45 0.40 0.60 0.02 0.91 0.76 0.83
N3 0.05 0.00 0.44 0.30 0.00 0.15 0.01 0.32 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.31 0.35 0.34 0.53 0.01 0.71 0.68 0.69
N7 0.01 0.01 0.09 0.40 0.01 0.19 0.00 0.21 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.37 0.36 0.09 0.42 0.01 0.31 1.17 0.62
N9 0.01 0.01 0.03 0.25 0.01 0.09 0.00 0.16 0.00 0.00 0.01 0.02 0.01 0.01 0.00 0.18 0.18 0.04 0.36 0.01 0.35 0.64 0.42
O2' 0.02 0.33 0.01 0.03 0.17 0.31 0.24 0.13 0.23 0.38 0.25 0.46 0.31 0.37 0.18 0.00 0.09 0.20 0.27 0.27 0.37 0.54 0.46
O3' 0.23 0.40 0.08 0.01 0.28 0.06 0.34 0.18 0.40 0.28 0.41 0.45 0.35 0.36 0.18 0.09 0.00 0.16 0.15 0.45 0.39 0.36 0.14
O4' 0.00 0.35 0.02 0.02 0.20 0.00 0.12 0.03 0.18 0.17 0.28 0.40 0.34 0.09 0.04 0.20 0.16 0.00 0.19 0.15 0.30 0.16 0.22
O5' 0.25 0.58 0.42 0.08 0.48 0.04 0.49 0.01 0.54 0.34 0.58 0.60 0.53 0.42 0.36 0.27 0.15 0.19 0.00 0.54 0.05 0.04 0.00
O6 0.02 0.01 0.19 0.47 0.01 0.15 0.01 0.29 0.00 0.01 0.00 0.02 0.01 0.01 0.01 0.27 0.45 0.15 0.54 0.00 0.66 1.30 0.87
OP1 0.28 0.82 0.52 0.22 0.57 0.22 0.54 0.30 0.67 0.21 0.80 0.91 0.71 0.31 0.35 0.37 0.39 0.30 0.05 0.66 0.00 0.03 0.01
OP2 0.31 0.81 0.56 0.36 0.78 0.34 1.05 0.41 1.14 0.93 1.01 0.76 0.68 1.17 0.64 0.54 0.36 0.16 0.04 1.30 0.03 0.00 0.01
P 0.25 0.80 0.55 0.26 0.63 0.08 0.71 0.03 0.82 0.47 0.86 0.83 0.69 0.62 0.42 0.46 0.14 0.22 0.00 0.87 0.01 0.01 0.00