ClaRNA

Doublet Group distance statistics: 54698

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Distances from reference structure (by RMSD)

1, 1, 0, 0, 0, 0, 0, 0, 0, 0, 1, 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, 0.003, 0.010, 0.016, 0.016 max_d=0.016 avg_d=0.010 std_dev=0.007
N3 A 0, 0.003, 0.011, 0.019, 0.022 max_d=0.022 avg_d=0.011 std_dev=0.008
C2 A 0, 0.005, 0.016, 0.026, 0.027 max_d=0.027 avg_d=0.016 std_dev=0.011
C6 A 0, 0.004, 0.015, 0.027, 0.028 max_d=0.028 avg_d=0.015 std_dev=0.012
C4 A 0, 0.003, 0.015, 0.028, 0.031 max_d=0.031 avg_d=0.015 std_dev=0.012
N1 A 0, 0.001, 0.014, 0.027, 0.033 max_d=0.033 avg_d=0.014 std_dev=0.013
C1' A 0, 0.004, 0.017, 0.030, 0.035 max_d=0.035 avg_d=0.017 std_dev=0.013
O2 A 0, 0.011, 0.038, 0.066, 0.069 max_d=0.069 avg_d=0.038 std_dev=0.027
N4 A 0, 0.010, 0.041, 0.072, 0.080 max_d=0.080 avg_d=0.041 std_dev=0.031
P B 0, 0.050, 0.280, 0.510, 0.548 max_d=0.548 avg_d=0.280 std_dev=0.230
OP2 B 0, 0.045, 0.365, 0.686, 0.685 max_d=0.685 avg_d=0.365 std_dev=0.320
O4' A 0, 0.013, 0.401, 0.788, 0.802 max_d=0.802 avg_d=0.401 std_dev=0.388
C2' A 0, 0.010, 0.420, 0.829, 0.871 max_d=0.871 avg_d=0.420 std_dev=0.409
C4' A 0, 0.018, 0.744, 1.470, 1.480 max_d=1.480 avg_d=0.744 std_dev=0.726
C5' A 0, 0.017, 0.748, 1.479, 1.506 max_d=1.506 avg_d=0.748 std_dev=0.731
O2' A 0, 0.024, 0.759, 1.495, 1.575 max_d=1.575 avg_d=0.759 std_dev=0.735
C3' A 0, 0.013, 0.897, 1.782, 1.832 max_d=1.832 avg_d=0.897 std_dev=0.885
OP1 B 0, 0.030, 1.045, 2.060, 2.305 max_d=2.305 avg_d=1.045 std_dev=1.015
O5' B 0, -0.002, 1.180, 2.362, 2.824 max_d=2.824 avg_d=1.180 std_dev=1.182
O3' A 0, 0.010, 1.556, 3.101, 3.239 max_d=3.239 avg_d=1.556 std_dev=1.546
O5' A 0, 0.033, 1.583, 3.133, 3.156 max_d=3.156 avg_d=1.583 std_dev=1.550
C5' B 0, 0.070, 1.817, 3.565, 3.629 max_d=3.629 avg_d=1.817 std_dev=1.747
P A 0, 0.033, 1.933, 3.832, 3.877 max_d=3.877 avg_d=1.933 std_dev=1.900
OP2 A 0, 0.030, 2.056, 4.083, 4.132 max_d=4.132 avg_d=2.056 std_dev=2.026
OP1 A 0, 0.040, 2.192, 4.345, 4.444 max_d=4.444 avg_d=2.192 std_dev=2.152
C4' B 0, 0.074, 2.786, 5.498, 5.622 max_d=5.622 avg_d=2.786 std_dev=2.712
O4' B 0, 0.075, 2.947, 5.819, 5.909 max_d=5.909 avg_d=2.947 std_dev=2.872
C6 B 0, 0.058, 3.377, 6.696, 6.856 max_d=6.856 avg_d=3.377 std_dev=3.319
C3' B 0, 0.077, 3.616, 7.155, 7.216 max_d=7.216 avg_d=3.616 std_dev=3.539
C1' B 0, 0.070, 3.968, 7.865, 7.956 max_d=7.956 avg_d=3.968 std_dev=3.897
C5 B 0, 0.056, 3.997, 7.938, 8.095 max_d=8.095 avg_d=3.997 std_dev=3.941
N1 B 0, 0.065, 4.053, 8.042, 8.180 max_d=8.180 avg_d=4.053 std_dev=3.989
C2' B 0, 0.072, 4.181, 8.290, 8.360 max_d=8.360 avg_d=4.181 std_dev=4.109
O3' B 0, 0.080, 4.279, 8.478, 8.497 max_d=8.497 avg_d=4.279 std_dev=4.199
O2' B 0, 0.067, 4.976, 9.884, 9.896 max_d=9.896 avg_d=4.976 std_dev=4.909
C4 B 0, 0.061, 5.100, 10.139, 10.269 max_d=10.269 avg_d=5.100 std_dev=5.039
C2 B 0, 0.068, 5.145, 10.222, 10.342 max_d=10.342 avg_d=5.145 std_dev=5.077
N3 B 0, 0.063, 5.565, 11.067, 11.190 max_d=11.190 avg_d=5.565 std_dev=5.502
O2 B 0, 0.078, 5.863, 11.647, 11.736 max_d=11.736 avg_d=5.863 std_dev=5.785
N4 B 0, 0.066, 5.875, 11.685, 11.796 max_d=11.796 avg_d=5.875 std_dev=5.810

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 0.08 0.01 0.01 0.01 0.01 0.01 0.03 0.32 0.00 0.32 0.30 0.20 0.29
C2 0.01 0.00 0.16 0.24 0.01 0.04 0.01 0.02 0.00 0.00 0.01 0.01 0.00 0.17 0.13 0.07 0.67 0.64 0.71 0.69
C2' 0.00 0.16 0.00 0.00 0.05 0.01 0.05 0.21 0.09 0.03 0.14 0.06 0.25 0.00 0.03 0.01 0.02 0.04 0.18 0.08
C3' 0.01 0.24 0.00 0.00 0.38 0.00 0.38 0.00 0.32 0.23 0.32 0.42 0.15 0.02 0.01 0.02 0.02 0.05 0.03 0.03
C4 0.01 0.01 0.05 0.38 0.00 0.11 0.00 0.05 0.00 0.01 0.00 0.00 0.01 0.30 0.14 0.04 0.98 1.03 1.14 1.07
C4' 0.00 0.04 0.01 0.00 0.11 0.00 0.14 0.00 0.14 0.07 0.07 0.12 0.01 0.31 0.02 0.00 0.01 0.16 0.12 0.00
C5 0.01 0.01 0.05 0.38 0.00 0.14 0.00 0.07 0.00 0.00 0.00 0.01 0.01 0.31 0.22 0.01 1.04 1.10 1.14 1.13
C5' 0.08 0.02 0.21 0.00 0.05 0.00 0.07 0.00 0.05 0.01 0.01 0.06 0.05 0.09 0.21 0.01 0.01 0.35 0.29 0.01
C6 0.01 0.00 0.09 0.32 0.00 0.14 0.00 0.05 0.00 0.00 0.00 0.01 0.01 0.26 0.15 0.04 0.92 0.90 0.84 0.92
N1 0.01 0.00 0.03 0.23 0.01 0.07 0.00 0.01 0.00 0.00 0.01 0.01 0.01 0.18 0.07 0.01 0.67 0.64 0.60 0.66
N3 0.01 0.01 0.14 0.32 0.00 0.07 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.24 0.01 0.08 0.82 0.84 0.96 0.89
N4 0.01 0.01 0.06 0.42 0.00 0.12 0.01 0.06 0.01 0.01 0.01 0.00 0.01 0.32 0.20 0.05 1.05 1.16 1.30 1.19
O2 0.01 0.00 0.25 0.15 0.01 0.01 0.01 0.05 0.01 0.01 0.01 0.01 0.00 0.07 0.31 0.10 0.49 0.46 0.55 0.51
O2' 0.03 0.17 0.00 0.02 0.30 0.31 0.31 0.09 0.26 0.18 0.24 0.32 0.07 0.00 0.04 0.23 0.05 0.03 0.19 0.00
O3' 0.32 0.13 0.03 0.01 0.14 0.02 0.22 0.21 0.15 0.07 0.01 0.20 0.31 0.04 0.00 0.22 0.10 0.26 0.24 0.18
O4' 0.00 0.07 0.01 0.02 0.04 0.00 0.01 0.01 0.04 0.01 0.08 0.05 0.10 0.23 0.22 0.00 0.35 0.40 0.16 0.31
O5' 0.32 0.67 0.02 0.02 0.98 0.01 1.04 0.01 0.92 0.67 0.82 1.05 0.49 0.05 0.10 0.35 0.00 0.03 0.03 0.00
OP1 0.30 0.64 0.04 0.05 1.03 0.16 1.10 0.35 0.90 0.64 0.84 1.16 0.46 0.03 0.26 0.40 0.03 0.00 0.01 0.00
OP2 0.20 0.71 0.18 0.03 1.14 0.12 1.14 0.29 0.84 0.60 0.96 1.30 0.55 0.19 0.24 0.16 0.03 0.01 0.00 0.01
P 0.29 0.69 0.08 0.03 1.07 0.00 1.13 0.01 0.92 0.66 0.89 1.19 0.51 0.00 0.18 0.31 0.00 0.00 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 2.38 2.92 2.80 2.64 1.83 1.85 1.13 1.18 1.40 2.26 2.70 1.52 3.52 3.02 2.98 1.71 0.58 0.52 0.06 0.14
C2 2.19 3.15 2.35 2.19 2.78 1.52 1.95 0.99 1.84 2.42 3.34 2.82 3.47 2.43 2.32 1.55 0.52 0.65 0.16 0.16
C2' 1.80 2.16 2.27 2.26 1.08 1.49 0.47 0.89 0.78 1.59 1.90 0.78 2.77 2.51 2.72 1.25 0.30 0.57 0.22 0.31
C3' 2.03 2.02 2.67 2.81 0.74 1.98 0.31 1.37 0.80 1.63 1.58 0.26 2.67 2.97 3.44 1.56 0.75 0.06 0.43 0.24
C4 1.64 2.57 1.66 1.61 2.66 1.10 2.03 0.75 1.73 2.02 2.86 2.81 2.66 1.65 1.64 1.15 0.39 0.69 0.20 0.16
C4' 2.20 2.12 2.94 2.94 0.64 2.04 0.18 1.33 0.76 1.71 1.57 0.09 2.86 3.36 3.58 1.64 0.69 0.23 0.27 0.07
C5 1.58 2.24 1.72 1.80 2.01 1.23 1.51 0.85 1.43 1.80 2.32 1.96 2.37 1.72 1.90 1.14 0.41 0.59 0.15 0.15
C5' 1.82 1.38 2.67 2.84 0.19 1.95 0.49 1.26 0.22 1.16 0.71 0.81 2.09 3.16 3.66 1.40 0.61 0.16 0.29 0.04
C6 1.91 2.43 2.21 2.25 1.79 1.55 1.22 1.03 1.35 1.96 2.34 1.58 2.73 2.26 2.46 1.39 0.50 0.51 0.09 0.14
N1 2.20 2.91 2.49 2.39 2.20 1.66 1.48 1.08 1.57 2.27 2.88 2.02 3.31 2.60 2.61 1.58 0.55 0.56 0.10 0.15
N3 1.94 2.98 1.99 1.84 2.98 1.27 2.19 0.84 1.90 2.31 3.32 3.19 3.15 2.01 1.89 1.35 0.45 0.70 0.20 0.16
N4 1.32 2.32 1.23 1.16 2.70 0.76 2.15 0.55 1.69 1.81 2.72 3.01 2.31 1.19 1.11 0.89 0.28 0.73 0.25 0.16
O2 2.35 3.36 2.52 2.29 2.91 1.60 2.01 1.02 1.91 2.56 3.56 2.98 3.77 2.64 2.43 1.66 0.55 0.66 0.16 0.17
O2' 1.95 2.37 2.35 2.23 1.25 1.51 0.59 0.84 0.89 1.74 2.13 0.97 3.07 2.66 2.68 1.36 0.23 0.76 0.47 0.47
O3' 2.10 2.04 2.78 2.92 0.72 2.07 0.29 1.41 0.80 1.65 1.58 0.23 2.73 3.18 3.65 1.62 0.80 0.07 0.51 0.28
O4' 2.54 2.79 3.14 2.96 1.41 2.08 0.81 1.33 1.26 2.23 2.35 0.95 3.50 3.46 3.38 1.85 0.71 0.43 0.11 0.09
O5' 2.10 1.43 2.93 3.42 0.08 2.56 0.15 2.05 0.64 1.41 0.72 0.80 1.99 3.19 4.24 1.86 1.45 0.93 1.32 1.02
OP1 1.76 0.51 2.63 3.40 1.10 2.76 0.83 2.37 0.15 0.80 0.41 2.05 1.05 3.03 4.59 1.81 1.78 1.56 1.75 1.45
OP2 0.92 0.08 1.64 2.59 1.38 2.02 1.16 1.88 0.31 0.19 0.81 2.13 0.30 1.75 3.47 1.06 1.44 1.47 1.77 1.35
P 1.73 0.67 2.59 3.38 0.84 2.64 0.69 2.25 0.23 0.89 0.16 1.69 1.17 2.85 4.44 1.73 1.70 1.39 1.69 1.36

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.00 0.00 0.02 0.03 0.00 0.03 0.14 0.03 0.01 0.01 0.03 0.02 0.01 0.03 0.00 0.33 0.31 0.16 0.18
C2 0.00 0.00 0.14 0.28 0.01 0.17 0.00 0.46 0.01 0.00 0.00 0.01 0.00 0.23 0.24 0.01 0.30 0.16 0.33 0.19
C2' 0.00 0.14 0.00 0.00 0.09 0.03 0.07 0.09 0.07 0.07 0.14 0.10 0.19 0.00 0.08 0.01 0.39 0.30 0.14 0.15
C3' 0.02 0.28 0.00 0.00 0.38 0.00 0.35 0.02 0.28 0.23 0.35 0.41 0.21 0.02 0.01 0.02 0.14 0.12 0.59 0.20
C4 0.03 0.01 0.09 0.38 0.00 0.26 0.00 0.63 0.01 0.02 0.00 0.01 0.00 0.24 0.38 0.03 0.34 0.26 0.29 0.27
C4' 0.00 0.17 0.03 0.00 0.26 0.00 0.28 0.01 0.24 0.17 0.22 0.27 0.11 0.25 0.04 0.00 0.01 0.16 0.41 0.09
C5 0.03 0.00 0.07 0.35 0.00 0.28 0.00 0.65 0.00 0.01 0.01 0.02 0.00 0.19 0.36 0.02 0.34 0.23 0.17 0.21
C5' 0.14 0.46 0.09 0.02 0.63 0.01 0.65 0.00 0.58 0.43 0.56 0.66 0.35 0.16 0.13 0.06 0.01 0.30 0.28 0.05
C6 0.03 0.01 0.07 0.28 0.01 0.24 0.00 0.58 0.00 0.00 0.01 0.02 0.01 0.14 0.27 0.02 0.33 0.17 0.13 0.16
N1 0.01 0.00 0.07 0.23 0.02 0.17 0.01 0.43 0.00 0.00 0.01 0.03 0.01 0.15 0.20 0.00 0.31 0.17 0.22 0.15
N3 0.01 0.00 0.14 0.35 0.00 0.22 0.01 0.56 0.01 0.01 0.00 0.00 0.00 0.26 0.33 0.02 0.32 0.21 0.36 0.25
N4 0.03 0.01 0.10 0.41 0.01 0.27 0.02 0.66 0.02 0.03 0.00 0.00 0.00 0.26 0.43 0.04 0.35 0.34 0.30 0.31
O2 0.02 0.00 0.19 0.21 0.00 0.11 0.00 0.35 0.01 0.01 0.00 0.00 0.00 0.22 0.16 0.01 0.30 0.15 0.37 0.18
O2' 0.01 0.23 0.00 0.02 0.24 0.25 0.19 0.16 0.14 0.15 0.26 0.26 0.22 0.00 0.12 0.19 0.26 0.20 0.22 0.07
O3' 0.03 0.24 0.08 0.01 0.38 0.04 0.36 0.13 0.27 0.20 0.33 0.43 0.16 0.12 0.00 0.04 0.05 0.13 0.85 0.37
O4' 0.00 0.01 0.01 0.02 0.03 0.00 0.02 0.06 0.02 0.00 0.02 0.04 0.01 0.19 0.04 0.00 0.28 0.35 0.16 0.20
O5' 0.33 0.30 0.39 0.14 0.34 0.01 0.34 0.01 0.33 0.31 0.32 0.35 0.30 0.26 0.05 0.28 0.00 0.04 0.01 0.01
OP1 0.31 0.16 0.30 0.12 0.26 0.16 0.23 0.30 0.17 0.17 0.21 0.34 0.15 0.20 0.13 0.35 0.04 0.00 0.01 0.01
OP2 0.16 0.33 0.14 0.59 0.29 0.41 0.17 0.28 0.13 0.22 0.36 0.30 0.37 0.22 0.85 0.16 0.01 0.01 0.00 0.01
P 0.18 0.19 0.15 0.20 0.27 0.09 0.21 0.05 0.16 0.15 0.25 0.31 0.18 0.07 0.37 0.20 0.01 0.01 0.01 0.00