ClaRNA

Doublet Group distance statistics: 49191

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.002, 0.013, 0.023, 0.031 max_d=0.031 avg_d=0.013 std_dev=0.010
C4 A 0, 0.005, 0.017, 0.029, 0.033 max_d=0.033 avg_d=0.017 std_dev=0.012
N3 A 0, 0.001, 0.014, 0.026, 0.034 max_d=0.034 avg_d=0.014 std_dev=0.012
N1 A 0, 0.007, 0.019, 0.032, 0.041 max_d=0.041 avg_d=0.019 std_dev=0.013
C2 A 0, 0.003, 0.018, 0.034, 0.041 max_d=0.041 avg_d=0.018 std_dev=0.015
C6 A 0, 0.003, 0.019, 0.034, 0.051 max_d=0.051 avg_d=0.019 std_dev=0.015
C1' A 0, 0.008, 0.025, 0.041, 0.048 max_d=0.048 avg_d=0.025 std_dev=0.017
O2 A 0, 0.005, 0.043, 0.081, 0.126 max_d=0.126 avg_d=0.043 std_dev=0.038
O4 A 0, 0.006, 0.050, 0.093, 0.125 max_d=0.125 avg_d=0.050 std_dev=0.043
O2' B 0, 0.310, 0.627, 0.943, 1.008 max_d=1.008 avg_d=0.627 std_dev=0.317
C2' B 0, 0.334, 0.885, 1.436, 1.711 max_d=1.711 avg_d=0.885 std_dev=0.551
O4' A 0, -0.055, 0.645, 1.345, 2.347 max_d=2.347 avg_d=0.645 std_dev=0.700
C2' A 0, -0.089, 0.648, 1.385, 2.452 max_d=2.452 avg_d=0.648 std_dev=0.737
C4' A 0, 0.065, 1.013, 1.961, 3.231 max_d=3.231 avg_d=1.013 std_dev=0.948
C3' B 0, 0.338, 1.342, 2.346, 2.884 max_d=2.884 avg_d=1.342 std_dev=1.004
O2' A 0, 0.120, 1.126, 2.131, 3.454 max_d=3.454 avg_d=1.126 std_dev=1.005
C3' A 0, 0.081, 1.149, 2.216, 3.385 max_d=3.385 avg_d=1.149 std_dev=1.067
O3' A 0, 0.264, 1.725, 3.186, 4.093 max_d=4.093 avg_d=1.725 std_dev=1.461
O3' B 0, 0.461, 1.943, 3.424, 3.817 max_d=3.817 avg_d=1.943 std_dev=1.481
C1' B 0, 0.394, 2.144, 3.894, 4.482 max_d=4.482 avg_d=2.144 std_dev=1.750
C5' A 0, -0.383, 1.463, 3.310, 6.033 max_d=6.033 avg_d=1.463 std_dev=1.847
C4' B 0, 0.356, 2.430, 4.503, 5.344 max_d=5.344 avg_d=2.430 std_dev=2.073
O5' A 0, -0.566, 1.625, 3.816, 7.234 max_d=7.234 avg_d=1.625 std_dev=2.191
O4' B 0, 0.312, 2.687, 5.063, 5.953 max_d=5.953 avg_d=2.687 std_dev=2.375
N1 B 0, 0.659, 3.242, 5.825, 6.592 max_d=6.592 avg_d=3.242 std_dev=2.583
C6 B 0, 0.647, 3.651, 6.656, 8.029 max_d=8.029 avg_d=3.651 std_dev=3.004
P A 0, -0.647, 2.395, 5.437, 10.102 max_d=10.102 avg_d=2.395 std_dev=3.042
O5' B 0, 0.885, 3.940, 6.995, 7.907 max_d=7.907 avg_d=3.940 std_dev=3.055
O2 B 0, 0.900, 3.964, 7.028, 8.169 max_d=8.169 avg_d=3.964 std_dev=3.064
C5' B 0, 0.489, 3.676, 6.863, 7.923 max_d=7.923 avg_d=3.676 std_dev=3.187
C2 B 0, 0.920, 4.109, 7.298, 8.263 max_d=8.263 avg_d=4.109 std_dev=3.189
OP1 A 0, -1.209, 2.120, 5.448, 10.833 max_d=10.833 avg_d=2.120 std_dev=3.328
OP2 A 0, 0.266, 3.658, 7.050, 11.159 max_d=11.159 avg_d=3.658 std_dev=3.392
C5 B 0, 0.916, 4.727, 8.538, 10.149 max_d=10.149 avg_d=4.727 std_dev=3.811
N3 B 0, 1.203, 5.250, 9.298, 10.233 max_d=10.233 avg_d=5.250 std_dev=4.047
P B 0, 1.022, 5.092, 9.162, 10.541 max_d=10.541 avg_d=5.092 std_dev=4.070
OP2 B 0, 1.292, 5.393, 9.494, 10.684 max_d=10.684 avg_d=5.393 std_dev=4.101
C4 B 0, 1.209, 5.518, 9.827, 11.041 max_d=11.041 avg_d=5.518 std_dev=4.309
OP1 B 0, 1.036, 5.539, 10.041, 11.803 max_d=11.803 avg_d=5.539 std_dev=4.503
N4 B 0, 1.492, 6.670, 11.848, 13.293 max_d=13.293 avg_d=6.670 std_dev=5.178

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 0.04 0.01 0.01 0.02 0.01 0.02 0.10 0.02 0.01 0.03 0.07 0.01 0.26 0.03 0.01 0.22 0.36 0.19 0.17
C2 0.04 0.00 0.23 0.25 0.01 0.33 0.01 0.52 0.01 0.01 0.01 0.00 0.43 0.21 0.02 0.35 0.52 0.66 0.42 0.42
C2' 0.01 0.23 0.00 0.01 0.09 0.03 0.16 0.20 0.20 0.05 0.18 0.40 0.01 0.07 0.10 0.03 0.50 0.55 0.52 0.50
C3' 0.01 0.25 0.01 0.00 0.39 0.01 0.41 0.03 0.36 0.23 0.32 0.23 0.02 0.02 0.42 0.02 0.34 0.41 0.34 0.28
C4 0.02 0.01 0.09 0.39 0.00 0.17 0.01 0.21 0.01 0.02 0.00 0.01 0.35 0.34 0.01 0.06 0.33 0.53 1.02 0.45
C4' 0.01 0.33 0.03 0.01 0.17 0.00 0.24 0.01 0.27 0.10 0.28 0.53 0.28 0.03 0.19 0.00 0.02 0.29 0.33 0.12
C5 0.02 0.01 0.16 0.41 0.01 0.24 0.00 0.33 0.01 0.01 0.01 0.01 0.32 0.38 0.02 0.20 0.71 0.93 1.39 0.95
C5' 0.10 0.52 0.20 0.03 0.21 0.01 0.33 0.00 0.40 0.12 0.46 0.86 0.09 0.18 0.25 0.01 0.01 0.37 0.41 0.02
C6 0.02 0.01 0.20 0.36 0.01 0.27 0.01 0.40 0.00 0.01 0.01 0.02 0.30 0.31 0.02 0.28 0.75 0.85 1.13 0.89
N1 0.01 0.01 0.05 0.23 0.02 0.10 0.01 0.12 0.01 0.00 0.02 0.03 0.21 0.18 0.02 0.03 0.23 0.39 0.45 0.23
N3 0.03 0.01 0.18 0.32 0.00 0.28 0.01 0.46 0.01 0.02 0.00 0.01 0.43 0.24 0.01 0.25 0.43 0.52 0.59 0.27
O2 0.07 0.00 0.40 0.23 0.01 0.53 0.01 0.86 0.02 0.03 0.01 0.00 0.65 0.30 0.02 0.60 1.04 1.23 0.80 1.02
O2' 0.01 0.43 0.01 0.02 0.35 0.28 0.32 0.09 0.30 0.21 0.43 0.65 0.00 0.06 0.38 0.18 0.38 0.61 0.56 0.41
O3' 0.26 0.21 0.07 0.02 0.34 0.03 0.38 0.18 0.31 0.18 0.24 0.30 0.06 0.00 0.38 0.16 0.33 0.63 0.45 0.32
O4 0.03 0.02 0.10 0.42 0.01 0.19 0.02 0.25 0.02 0.02 0.01 0.02 0.38 0.38 0.00 0.07 0.35 0.56 1.17 0.49
O4' 0.01 0.35 0.03 0.02 0.06 0.00 0.20 0.01 0.28 0.03 0.25 0.60 0.18 0.16 0.07 0.00 0.12 0.33 0.21 0.17
O5' 0.22 0.52 0.50 0.34 0.33 0.02 0.71 0.01 0.75 0.23 0.43 1.04 0.38 0.33 0.35 0.12 0.00 0.02 0.01 0.01
OP1 0.36 0.66 0.55 0.41 0.53 0.29 0.93 0.37 0.85 0.39 0.52 1.23 0.61 0.63 0.56 0.33 0.02 0.00 0.04 0.01
OP2 0.19 0.42 0.52 0.34 1.02 0.33 1.39 0.41 1.13 0.45 0.59 0.80 0.56 0.45 1.17 0.21 0.01 0.04 0.00 0.00
P 0.17 0.42 0.50 0.28 0.45 0.12 0.95 0.02 0.89 0.23 0.27 1.02 0.41 0.32 0.49 0.17 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' 0.77 1.49 0.23 0.32 1.40 0.63 1.04 0.84 0.86 1.04 1.62 1.52 1.76 0.27 0.62 0.85 1.15 1.08 1.59 1.27
C2 0.59 1.44 0.22 0.33 1.34 0.40 0.91 0.52 0.70 0.90 1.60 1.49 1.76 0.27 0.74 0.43 0.71 0.68 1.02 0.71
C2' 0.58 1.03 0.40 0.66 0.92 0.92 0.78 1.20 0.71 0.71 1.10 1.01 1.33 0.44 0.83 0.83 1.63 1.60 2.17 1.79
C3' 0.41 0.74 0.50 0.31 0.86 0.46 0.93 0.83 0.85 0.60 0.85 0.94 0.92 0.77 0.61 0.48 1.29 1.36 1.99 1.53
C4 0.58 1.38 0.25 0.57 1.28 0.79 0.90 1.02 0.72 0.88 1.52 1.41 1.71 0.27 0.95 0.57 0.95 1.09 0.98 0.96
C4' 0.90 1.38 0.61 0.35 1.42 0.76 1.27 1.12 1.13 1.13 1.49 1.51 1.51 0.74 0.38 1.08 1.17 1.39 1.71 1.48
C5 0.69 1.45 0.24 0.35 1.26 0.46 0.89 0.56 0.73 0.96 1.52 1.35 1.78 0.27 0.78 0.56 0.63 0.68 0.75 0.63
C5' 1.24 1.49 1.08 0.92 1.58 1.22 1.54 1.55 1.44 1.39 1.57 1.63 1.53 1.11 0.84 1.43 1.26 1.65 1.57 1.58
C6 0.78 1.49 0.24 0.25 1.32 0.49 0.95 0.59 0.79 1.03 1.56 1.40 1.79 0.26 0.63 0.75 0.79 0.75 1.06 0.84
N1 0.70 1.48 0.22 0.25 1.35 0.41 0.95 0.53 0.77 0.98 1.60 1.47 1.78 0.26 0.65 0.64 0.82 0.74 1.18 0.87
N3 0.55 1.40 0.24 0.50 1.31 0.68 0.90 0.89 0.69 0.86 1.57 1.47 1.72 0.27 0.87 0.49 0.87 0.99 1.01 0.88
O2 0.57 1.43 0.22 0.33 1.36 0.39 0.92 0.51 0.70 0.89 1.62 1.53 1.75 0.26 0.72 0.40 0.73 0.69 1.11 0.74
O2' 0.80 1.24 0.67 0.99 1.09 1.22 0.90 1.56 0.83 0.88 1.31 1.18 1.59 0.66 1.16 1.06 2.01 1.94 2.55 2.18
O3' 0.43 0.59 0.65 0.47 0.88 0.55 1.11 0.98 1.03 0.62 0.73 0.96 0.75 0.91 0.71 0.46 1.56 1.67 2.43 1.88
O4 0.60 1.32 0.28 0.81 1.28 1.21 0.95 1.58 0.78 0.87 1.49 1.42 1.59 0.26 1.15 0.84 1.42 1.63 1.39 1.47
O4' 1.06 1.72 0.54 0.33 1.70 0.74 1.41 0.98 1.23 1.35 1.85 1.82 1.88 0.56 0.44 1.18 1.01 1.11 1.43 1.24
O5' 1.63 1.73 1.64 1.49 1.87 1.58 1.92 1.77 1.86 1.75 1.79 1.91 1.65 1.65 1.42 1.70 1.26 1.66 1.11 1.45
OP1 2.37 2.39 2.34 2.44 2.69 2.77 2.80 3.18 2.71 2.50 2.50 2.75 2.19 2.15 2.32 2.68 2.59 3.16 2.29 2.82
OP2 2.55 2.64 2.93 2.55 2.88 2.13 2.96 2.14 2.90 2.73 2.73 2.91 2.41 2.93 2.52 2.11 1.49 1.97 0.77 1.48
P 2.18 2.22 2.31 2.19 2.45 2.22 2.54 2.43 2.47 2.31 2.30 2.49 2.04 2.25 2.12 2.20 1.78 2.29 1.32 1.91

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.05 0.00 0.01 0.04 0.00 0.01 0.04 0.01 0.02 0.05 0.04 0.09 0.01 0.01 0.01 0.22 0.52 0.20 0.11
C2 0.05 0.00 0.17 0.37 0.03 0.39 0.03 0.63 0.01 0.01 0.01 0.04 0.01 0.27 0.35 0.30 0.89 0.85 1.16 0.93
C2' 0.00 0.17 0.00 0.00 0.06 0.01 0.14 0.01 0.18 0.02 0.14 0.07 0.30 0.00 0.02 0.01 0.21 0.38 0.28 0.14
C3' 0.01 0.37 0.00 0.00 0.08 0.01 0.37 0.02 0.45 0.05 0.27 0.09 0.72 0.02 0.01 0.01 0.32 0.31 0.39 0.28
C4 0.04 0.03 0.06 0.08 0.00 0.09 0.01 0.23 0.02 0.02 0.01 0.01 0.05 0.08 0.08 0.03 0.51 0.91 0.79 0.35
C4' 0.00 0.39 0.01 0.01 0.09 0.00 0.37 0.00 0.46 0.06 0.30 0.10 0.76 0.04 0.01 0.00 0.01 0.20 0.10 0.04
C5 0.01 0.03 0.14 0.37 0.01 0.37 0.00 0.59 0.01 0.00 0.01 0.04 0.03 0.12 0.37 0.25 0.87 1.45 1.09 0.89
C5' 0.04 0.63 0.01 0.02 0.23 0.00 0.59 0.00 0.68 0.14 0.54 0.25 1.22 0.04 0.05 0.01 0.01 0.12 0.23 0.01
C6 0.01 0.01 0.18 0.45 0.02 0.46 0.01 0.68 0.00 0.00 0.02 0.04 0.01 0.17 0.43 0.35 0.94 1.43 1.02 0.94
N1 0.02 0.01 0.02 0.05 0.02 0.06 0.00 0.14 0.00 0.00 0.03 0.03 0.02 0.03 0.04 0.02 0.37 0.70 0.41 0.17
N3 0.05 0.01 0.14 0.27 0.01 0.30 0.01 0.54 0.02 0.03 0.00 0.04 0.05 0.24 0.28 0.22 0.82 0.88 1.23 0.88
N4 0.04 0.04 0.07 0.09 0.01 0.10 0.04 0.25 0.04 0.03 0.04 0.00 0.08 0.10 0.09 0.03 0.54 0.96 0.92 0.41
O2 0.09 0.01 0.30 0.72 0.05 0.76 0.03 1.22 0.01 0.02 0.05 0.08 0.00 0.50 0.70 0.54 1.62 1.51 1.97 1.77
O2' 0.01 0.27 0.00 0.02 0.08 0.04 0.12 0.04 0.17 0.03 0.24 0.10 0.50 0.00 0.04 0.05 0.10 0.28 0.14 0.11
O3' 0.01 0.35 0.02 0.01 0.08 0.01 0.37 0.05 0.43 0.04 0.28 0.09 0.70 0.04 0.00 0.01 0.41 0.38 0.47 0.42
O4' 0.01 0.30 0.01 0.01 0.03 0.00 0.25 0.01 0.35 0.02 0.22 0.03 0.54 0.05 0.01 0.00 0.27 0.51 0.22 0.25
O5' 0.22 0.89 0.21 0.32 0.51 0.01 0.87 0.01 0.94 0.37 0.82 0.54 1.62 0.10 0.41 0.27 0.00 0.01 0.01 0.00
OP1 0.52 0.85 0.38 0.31 0.91 0.20 1.45 0.12 1.43 0.70 0.88 0.96 1.51 0.28 0.38 0.51 0.01 0.00 0.02 0.00
OP2 0.20 1.16 0.28 0.39 0.79 0.10 1.09 0.23 1.02 0.41 1.23 0.92 1.97 0.14 0.47 0.22 0.01 0.02 0.00 0.01
P 0.11 0.93 0.14 0.28 0.35 0.04 0.89 0.01 0.94 0.17 0.88 0.41 1.77 0.11 0.42 0.25 0.00 0.00 0.01 0.00