ClaRNA

Doublet Group distance statistics: 55046

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Distances from reference structure (by RMSD)

1, 0, 1, 1, 0, 0, 2, 0, 1, 0, 2, 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, 0.008, 0.013, 0.018, 0.018 max_d=0.018 avg_d=0.013 std_dev=0.005
C6 A 0, 0.006, 0.013, 0.019, 0.023 max_d=0.023 avg_d=0.013 std_dev=0.007
C2 A 0, 0.004, 0.012, 0.020, 0.025 max_d=0.025 avg_d=0.012 std_dev=0.008
N1 A 0, 0.007, 0.015, 0.024, 0.028 max_d=0.028 avg_d=0.015 std_dev=0.008
N3 A 0, 0.008, 0.018, 0.028, 0.032 max_d=0.032 avg_d=0.018 std_dev=0.010
C1' A 0, 0.008, 0.018, 0.029, 0.037 max_d=0.037 avg_d=0.018 std_dev=0.011
C4 A 0, 0.009, 0.021, 0.034, 0.039 max_d=0.039 avg_d=0.021 std_dev=0.012
N7 A 0, 0.011, 0.024, 0.037, 0.052 max_d=0.052 avg_d=0.024 std_dev=0.013
N9 A 0, 0.013, 0.028, 0.043, 0.045 max_d=0.045 avg_d=0.028 std_dev=0.015
C8 A 0, 0.013, 0.029, 0.044, 0.054 max_d=0.054 avg_d=0.029 std_dev=0.015
N6 A 0, 0.016, 0.049, 0.081, 0.093 max_d=0.093 avg_d=0.049 std_dev=0.032
P B 0, 0.221, 0.488, 0.754, 0.840 max_d=0.840 avg_d=0.488 std_dev=0.267
OP2 B 0, 0.302, 0.623, 0.944, 1.028 max_d=1.028 avg_d=0.623 std_dev=0.321
C2' A 0, 0.047, 0.417, 0.788, 0.902 max_d=0.902 avg_d=0.417 std_dev=0.371
O4' A 0, 0.023, 0.424, 0.825, 1.015 max_d=1.015 avg_d=0.424 std_dev=0.401
C4' A 0, -0.024, 0.693, 1.409, 1.635 max_d=1.635 avg_d=0.693 std_dev=0.716
OP1 B 0, 0.205, 0.935, 1.665, 2.405 max_d=2.405 avg_d=0.935 std_dev=0.730
O2' A 0, 0.020, 0.779, 1.539, 1.740 max_d=1.740 avg_d=0.779 std_dev=0.759
C3' A 0, -0.006, 0.799, 1.605, 1.855 max_d=1.855 avg_d=0.799 std_dev=0.806
C5' A 0, -0.019, 0.996, 2.011, 2.910 max_d=2.910 avg_d=0.996 std_dev=1.015
O3' A 0, -0.058, 1.283, 2.623, 3.061 max_d=3.061 avg_d=1.283 std_dev=1.341
O5' B 0, -0.138, 1.301, 2.740, 3.676 max_d=3.676 avg_d=1.301 std_dev=1.439
O5' A 0, -0.038, 1.692, 3.422, 3.954 max_d=3.954 avg_d=1.692 std_dev=1.730
C5' B 0, -0.405, 1.942, 4.289, 5.633 max_d=5.633 avg_d=1.942 std_dev=2.347
P A 0, -0.172, 2.523, 5.218, 6.559 max_d=6.559 avg_d=2.523 std_dev=2.695
C5 B 0, -0.283, 2.589, 5.461, 7.117 max_d=7.117 avg_d=2.589 std_dev=2.872
OP1 A 0, -0.193, 2.793, 5.779, 7.676 max_d=7.676 avg_d=2.793 std_dev=2.986
C6 B 0, -0.358, 2.665, 5.688, 6.865 max_d=6.865 avg_d=2.665 std_dev=3.023
OP2 A 0, -0.036, 3.255, 6.546, 7.986 max_d=7.986 avg_d=3.255 std_dev=3.291
N4 B 0, -0.436, 2.985, 6.406, 8.553 max_d=8.553 avg_d=2.985 std_dev=3.421
C4 B 0, -0.512, 2.968, 6.447, 8.088 max_d=8.088 avg_d=2.968 std_dev=3.479
C4' B 0, -0.740, 2.810, 6.360, 8.254 max_d=8.254 avg_d=2.810 std_dev=3.550
C3' B 0, -0.766, 3.003, 6.773, 8.819 max_d=8.819 avg_d=3.003 std_dev=3.769
O4' B 0, -0.875, 3.083, 7.040, 9.096 max_d=9.096 avg_d=3.083 std_dev=3.957
N1 B 0, -0.847, 3.202, 7.251, 9.202 max_d=9.202 avg_d=3.202 std_dev=4.049
N3 B 0, -0.712, 3.640, 7.991, 9.900 max_d=9.900 avg_d=3.640 std_dev=4.351
O3' B 0, -0.794, 3.571, 7.936, 10.170 max_d=10.170 avg_d=3.571 std_dev=4.365
C1' B 0, -1.043, 3.527, 8.097, 10.390 max_d=10.390 avg_d=3.527 std_dev=4.570
C2 B 0, -0.849, 3.866, 8.582, 10.848 max_d=10.848 avg_d=3.866 std_dev=4.715
C2' B 0, -1.108, 3.621, 8.350, 10.794 max_d=10.794 avg_d=3.621 std_dev=4.729
O2 B 0, -0.887, 4.804, 10.496, 13.210 max_d=13.210 avg_d=4.804 std_dev=5.692
O2' B 0, -1.304, 4.528, 10.360, 13.241 max_d=13.241 avg_d=4.528 std_dev=5.832

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.01 0.03 0.01 0.01 0.01 0.05 0.02 0.03 0.02 0.02 0.02 0.02 0.01 0.01 0.36 0.00 0.34 0.30 0.51 0.10
C2 0.02 0.00 0.32 0.26 0.01 0.14 0.01 0.20 0.01 0.01 0.00 0.00 0.01 0.01 0.01 0.32 0.42 0.24 0.67 0.35 0.95 0.43
C2' 0.01 0.32 0.00 0.01 0.18 0.02 0.10 0.21 0.16 0.14 0.26 0.32 0.12 0.07 0.02 0.00 0.03 0.04 0.26 0.53 0.62 0.24
C3' 0.03 0.26 0.01 0.00 0.27 0.00 0.37 0.01 0.38 0.35 0.33 0.21 0.43 0.41 0.23 0.02 0.01 0.01 0.35 0.61 0.54 0.23
C4 0.01 0.01 0.18 0.27 0.00 0.10 0.00 0.13 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.27 0.27 0.12 0.71 0.44 1.06 0.57
C4' 0.01 0.14 0.02 0.00 0.10 0.00 0.17 0.01 0.16 0.27 0.13 0.14 0.20 0.26 0.12 0.27 0.02 0.01 0.02 0.59 0.23 0.34
C5 0.01 0.01 0.10 0.37 0.00 0.17 0.00 0.24 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.34 0.18 0.05 0.91 0.86 1.47 0.95
C5' 0.05 0.20 0.21 0.01 0.13 0.01 0.24 0.00 0.23 0.37 0.19 0.19 0.30 0.38 0.15 0.09 0.20 0.02 0.00 0.24 0.32 0.01
C6 0.02 0.01 0.16 0.38 0.01 0.16 0.01 0.23 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.36 0.23 0.09 0.92 0.90 1.53 0.97
C8 0.03 0.01 0.14 0.35 0.01 0.27 0.01 0.37 0.01 0.00 0.01 0.01 0.02 0.00 0.00 0.35 0.13 0.17 0.96 0.94 1.46 1.04
N1 0.02 0.00 0.26 0.33 0.01 0.13 0.01 0.19 0.00 0.01 0.00 0.01 0.01 0.01 0.02 0.34 0.32 0.18 0.81 0.62 1.26 0.71
N3 0.02 0.00 0.32 0.21 0.00 0.14 0.01 0.19 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.29 0.44 0.24 0.59 0.29 0.79 0.31
N6 0.02 0.01 0.12 0.43 0.01 0.20 0.01 0.30 0.00 0.02 0.01 0.01 0.00 0.02 0.02 0.39 0.22 0.06 1.04 1.19 1.80 1.22
N7 0.02 0.01 0.07 0.41 0.01 0.26 0.00 0.38 0.01 0.00 0.01 0.01 0.02 0.00 0.01 0.39 0.17 0.11 1.06 1.20 1.74 1.25
N9 0.01 0.01 0.02 0.23 0.01 0.12 0.01 0.15 0.01 0.00 0.02 0.01 0.02 0.01 0.00 0.23 0.17 0.02 0.67 0.40 0.99 0.54
O2' 0.01 0.32 0.00 0.02 0.27 0.27 0.34 0.09 0.36 0.35 0.34 0.29 0.39 0.39 0.23 0.00 0.07 0.18 0.35 0.53 0.63 0.20
O3' 0.36 0.42 0.03 0.01 0.27 0.02 0.18 0.20 0.23 0.13 0.32 0.44 0.22 0.17 0.17 0.07 0.00 0.23 0.31 0.74 0.47 0.30
O4' 0.00 0.24 0.04 0.01 0.12 0.01 0.05 0.02 0.09 0.17 0.18 0.24 0.06 0.11 0.02 0.18 0.23 0.00 0.21 0.23 0.29 0.12
O5' 0.34 0.67 0.26 0.35 0.71 0.02 0.91 0.00 0.92 0.96 0.81 0.59 1.04 1.06 0.67 0.35 0.31 0.21 0.00 0.02 0.01 0.01
OP1 0.30 0.35 0.53 0.61 0.44 0.59 0.86 0.24 0.90 0.94 0.62 0.29 1.19 1.20 0.40 0.53 0.74 0.23 0.02 0.00 0.01 0.01
OP2 0.51 0.95 0.62 0.54 1.06 0.23 1.47 0.32 1.53 1.46 1.26 0.79 1.80 1.74 0.99 0.63 0.47 0.29 0.01 0.01 0.00 0.00
P 0.10 0.43 0.24 0.23 0.57 0.34 0.95 0.01 0.97 1.04 0.71 0.31 1.22 1.25 0.54 0.20 0.30 0.12 0.01 0.01 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.81 1.35 0.41 0.37 1.13 0.42 0.84 0.33 0.78 0.93 1.43 1.22 1.69 0.47 0.82 0.91 0.31 0.42 0.16 0.22
C2 1.37 1.81 0.77 0.46 1.49 0.89 1.21 0.72 1.22 1.43 1.81 1.51 2.16 0.86 0.68 1.53 0.53 0.57 0.12 0.29
C2' 1.09 1.57 0.68 0.48 1.24 0.71 0.88 0.54 0.85 1.15 1.59 1.29 1.91 0.75 0.61 1.17 0.41 0.36 0.11 0.16
C3' 1.00 1.47 0.71 0.63 1.13 0.69 0.76 0.53 0.73 1.05 1.48 1.17 1.83 0.74 0.82 1.03 0.47 0.69 0.38 0.34
C4 0.76 1.32 0.37 0.37 1.06 0.39 0.82 0.32 0.77 0.88 1.37 1.13 1.70 0.41 0.83 0.89 0.31 0.45 0.16 0.23
C4' 0.72 1.26 0.48 0.52 1.00 0.44 0.70 0.32 0.63 0.82 1.32 1.09 1.61 0.50 0.91 0.78 0.31 0.55 0.16 0.15
C5 0.36 1.03 0.34 0.50 0.73 0.19 0.60 0.15 0.54 0.51 1.08 0.83 1.49 0.38 0.97 0.47 0.22 0.40 0.19 0.20
C5' 0.62 1.14 0.61 0.71 0.83 0.55 0.52 0.45 0.45 0.67 1.18 0.92 1.53 0.62 1.06 0.65 0.40 0.57 0.20 0.23
C6 0.43 1.08 0.30 0.46 0.77 0.19 0.67 0.17 0.63 0.57 1.11 0.85 1.56 0.32 0.93 0.56 0.23 0.46 0.18 0.22
C8 0.22 0.91 0.45 0.60 0.60 0.28 0.47 0.20 0.40 0.34 0.96 0.72 1.37 0.53 1.03 0.27 0.23 0.31 0.20 0.17
N1 1.00 1.51 0.50 0.34 1.20 0.61 1.00 0.54 0.99 1.10 1.53 1.23 1.92 0.53 0.74 1.18 0.43 0.58 0.14 0.27
N3 1.24 1.71 0.69 0.42 1.42 0.77 1.13 0.62 1.12 1.32 1.73 1.46 2.04 0.77 0.72 1.38 0.46 0.52 0.13 0.27
N6 0.18 0.81 0.55 0.71 0.40 0.42 0.56 0.32 0.54 0.16 0.81 0.51 1.38 0.62 1.10 0.13 0.23 0.39 0.23 0.18
N7 0.24 0.83 0.58 0.70 0.44 0.42 0.43 0.31 0.40 0.21 0.85 0.56 1.34 0.68 1.11 0.19 0.25 0.29 0.22 0.15
N9 0.58 1.18 0.33 0.41 0.93 0.26 0.70 0.21 0.63 0.72 1.25 1.03 1.57 0.36 0.89 0.69 0.26 0.40 0.17 0.20
O2' 1.66 1.94 1.20 0.86 1.64 1.28 1.37 1.08 1.41 1.64 1.93 1.66 2.23 1.39 0.71 1.74 0.82 0.34 0.44 0.63
O3' 1.47 1.80 1.05 0.73 1.49 1.00 1.21 0.72 1.22 1.47 1.78 1.50 2.10 1.21 0.66 1.47 0.49 0.39 0.23 0.25
O4' 0.55 1.15 0.37 0.49 0.97 0.25 0.75 0.17 0.65 0.70 1.24 1.09 1.50 0.46 1.01 0.65 0.24 0.49 0.28 0.24
O5' 1.11 1.44 1.39 1.56 0.94 1.33 0.52 1.29 0.59 1.01 1.39 0.94 1.87 1.38 1.92 1.07 1.21 1.39 0.94 1.01
OP1 1.03 1.48 1.20 1.41 1.04 1.24 0.59 1.30 0.58 1.00 1.47 1.08 1.90 1.12 1.70 1.05 1.28 1.58 1.16 1.23
OP2 1.98 1.91 2.35 2.54 1.42 2.32 1.34 2.28 1.51 1.75 1.75 1.28 2.24 2.40 2.91 1.94 2.12 2.28 1.78 1.90
P 1.26 1.46 1.58 1.78 0.94 1.56 0.63 1.54 0.74 1.10 1.37 0.91 1.88 1.59 2.16 1.23 1.42 1.64 1.13 1.24

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.04 0.01 0.02 0.03 0.01 0.02 0.02 0.02 0.02 0.04 0.04 0.07 0.02 0.03 0.00 0.04 0.05 0.32 0.08
C2 0.04 0.00 0.17 0.20 0.01 0.28 0.01 0.47 0.02 0.01 0.00 0.01 0.01 0.22 0.20 0.27 0.60 0.61 0.60 0.63
C2' 0.01 0.17 0.00 0.01 0.06 0.02 0.10 0.02 0.13 0.03 0.14 0.07 0.31 0.00 0.04 0.01 0.07 0.08 0.53 0.16
C3' 0.02 0.20 0.01 0.00 0.15 0.01 0.29 0.02 0.32 0.09 0.16 0.16 0.40 0.03 0.02 0.02 0.06 0.09 0.61 0.20
C4 0.03 0.01 0.06 0.15 0.00 0.09 0.01 0.13 0.01 0.02 0.00 0.01 0.01 0.04 0.18 0.05 0.16 0.15 0.24 0.14
C4' 0.01 0.28 0.02 0.01 0.09 0.00 0.31 0.01 0.37 0.06 0.20 0.10 0.57 0.09 0.03 0.00 0.02 0.07 0.41 0.09
C5 0.02 0.01 0.10 0.29 0.01 0.31 0.00 0.49 0.01 0.02 0.01 0.02 0.02 0.18 0.29 0.24 0.60 0.68 0.84 0.72
C5' 0.02 0.47 0.02 0.02 0.13 0.01 0.49 0.00 0.55 0.07 0.37 0.14 0.95 0.09 0.04 0.01 0.01 0.08 0.22 0.03
C6 0.02 0.02 0.13 0.32 0.01 0.37 0.01 0.55 0.00 0.01 0.02 0.02 0.02 0.22 0.29 0.31 0.65 0.67 0.75 0.72
N1 0.02 0.01 0.03 0.09 0.02 0.06 0.02 0.07 0.01 0.00 0.01 0.02 0.02 0.02 0.10 0.04 0.08 0.06 0.19 0.08
N3 0.04 0.00 0.14 0.16 0.00 0.20 0.01 0.37 0.02 0.01 0.00 0.01 0.02 0.17 0.18 0.20 0.48 0.51 0.45 0.53
N4 0.04 0.01 0.07 0.16 0.01 0.10 0.02 0.14 0.02 0.02 0.01 0.00 0.02 0.05 0.20 0.06 0.18 0.18 0.34 0.18
O2 0.07 0.01 0.31 0.40 0.01 0.57 0.02 0.95 0.02 0.02 0.02 0.02 0.00 0.45 0.39 0.51 1.19 1.22 1.19 1.26
O2' 0.02 0.22 0.00 0.03 0.04 0.09 0.18 0.09 0.22 0.02 0.17 0.05 0.45 0.00 0.05 0.06 0.05 0.04 0.56 0.15
O3' 0.03 0.20 0.04 0.02 0.18 0.03 0.29 0.04 0.29 0.10 0.18 0.20 0.39 0.05 0.00 0.03 0.08 0.11 0.74 0.24
O4' 0.00 0.27 0.01 0.02 0.05 0.00 0.24 0.01 0.31 0.04 0.20 0.06 0.51 0.06 0.03 0.00 0.04 0.06 0.26 0.08
O5' 0.04 0.60 0.07 0.06 0.16 0.02 0.60 0.01 0.65 0.08 0.48 0.18 1.19 0.05 0.08 0.04 0.00 0.01 0.03 0.01
OP1 0.05 0.61 0.08 0.09 0.15 0.07 0.68 0.08 0.67 0.06 0.51 0.18 1.22 0.04 0.11 0.06 0.01 0.00 0.01 0.01
OP2 0.32 0.60 0.53 0.61 0.24 0.41 0.84 0.22 0.75 0.19 0.45 0.34 1.19 0.56 0.74 0.26 0.03 0.01 0.00 0.00
P 0.08 0.63 0.16 0.20 0.14 0.09 0.72 0.03 0.72 0.08 0.53 0.18 1.26 0.15 0.24 0.08 0.01 0.01 0.00 0.00