ClaRNA

Doublet Group distance statistics: 53627

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Distances from reference structure (by RMSD)

1, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.000, 0.002, 0.004, 0.004 max_d=0.004 avg_d=0.002 std_dev=0.002
C6 A 0, 0.000, 0.003, 0.007, 0.007 max_d=0.007 avg_d=0.003 std_dev=0.003
C4 A 0, 0.000, 0.006, 0.012, 0.012 max_d=0.012 avg_d=0.006 std_dev=0.006
N3 A 0, 0.000, 0.008, 0.017, 0.017 max_d=0.017 avg_d=0.008 std_dev=0.008
N7 A 0, 0.000, 0.008, 0.017, 0.017 max_d=0.017 avg_d=0.008 std_dev=0.008
N9 A 0, 0.000, 0.009, 0.018, 0.018 max_d=0.018 avg_d=0.009 std_dev=0.009
N1 A 0, 0.000, 0.010, 0.019, 0.019 max_d=0.019 avg_d=0.010 std_dev=0.010
C2 A 0, 0.000, 0.010, 0.020, 0.020 max_d=0.020 avg_d=0.010 std_dev=0.010
O6 A 0, 0.000, 0.010, 0.020, 0.020 max_d=0.020 avg_d=0.010 std_dev=0.010
C1' A 0, 0.000, 0.013, 0.026, 0.026 max_d=0.026 avg_d=0.013 std_dev=0.013
C8 A 0, 0.000, 0.015, 0.029, 0.029 max_d=0.029 avg_d=0.015 std_dev=0.015
N2 A 0, 0.000, 0.016, 0.032, 0.032 max_d=0.032 avg_d=0.016 std_dev=0.016
OP1 B 0, 0.000, 0.352, 0.704, 0.704 max_d=0.704 avg_d=0.352 std_dev=0.352
OP2 B 0, 0.000, 0.404, 0.808, 0.808 max_d=0.808 avg_d=0.404 std_dev=0.404
P B 0, 0.000, 0.553, 1.106, 1.106 max_d=1.106 avg_d=0.553 std_dev=0.553
O5' B 0, 0.000, 1.120, 2.241, 2.241 max_d=2.241 avg_d=1.120 std_dev=1.120
O4' A 0, 0.000, 1.301, 2.602, 2.602 max_d=2.602 avg_d=1.301 std_dev=1.301
C2' A 0, 0.000, 1.336, 2.673, 2.673 max_d=2.673 avg_d=1.336 std_dev=1.336
C4' A 0, 0.000, 1.822, 3.644, 3.644 max_d=3.644 avg_d=1.822 std_dev=1.822
C3' A 0, 0.000, 1.876, 3.752, 3.752 max_d=3.752 avg_d=1.876 std_dev=1.876
O2' A 0, 0.000, 1.945, 3.891, 3.891 max_d=3.891 avg_d=1.945 std_dev=1.945
O3' A 0, 0.000, 2.018, 4.035, 4.035 max_d=4.035 avg_d=2.018 std_dev=2.018
C5' B 0, 0.000, 2.213, 4.427, 4.427 max_d=4.427 avg_d=2.213 std_dev=2.213
C4' B 0, 0.000, 3.118, 6.236, 6.236 max_d=6.236 avg_d=3.118 std_dev=3.118
C5' A 0, 0.000, 3.260, 6.521, 6.521 max_d=6.521 avg_d=3.260 std_dev=3.260
C3' B 0, 0.000, 3.404, 6.809, 6.809 max_d=6.809 avg_d=3.404 std_dev=3.404
O4' B 0, 0.000, 3.737, 7.475, 7.475 max_d=7.475 avg_d=3.737 std_dev=3.737
C8 B 0, 0.000, 3.776, 7.552, 7.552 max_d=7.552 avg_d=3.776 std_dev=3.776
O5' A 0, 0.000, 3.936, 7.872, 7.872 max_d=7.872 avg_d=3.936 std_dev=3.936
O3' B 0, 0.000, 4.027, 8.054, 8.054 max_d=8.054 avg_d=4.027 std_dev=4.027
C2' B 0, 0.000, 4.058, 8.116, 8.116 max_d=8.116 avg_d=4.058 std_dev=4.058
N7 B 0, 0.000, 4.257, 8.514, 8.514 max_d=8.514 avg_d=4.257 std_dev=4.257
N9 B 0, 0.000, 4.326, 8.652, 8.652 max_d=8.652 avg_d=4.326 std_dev=4.326
C1' B 0, 0.000, 4.379, 8.758, 8.758 max_d=8.758 avg_d=4.379 std_dev=4.379
C5 B 0, 0.000, 4.931, 9.862, 9.862 max_d=9.862 avg_d=4.931 std_dev=4.931
P A 0, 0.000, 5.003, 10.006, 10.006 max_d=10.006 avg_d=5.003 std_dev=5.003
C4 B 0, 0.000, 5.118, 10.237, 10.237 max_d=10.237 avg_d=5.118 std_dev=5.118
OP2 A 0, 0.000, 5.157, 10.315, 10.315 max_d=10.315 avg_d=5.157 std_dev=5.157
O2' B 0, 0.000, 5.235, 10.470, 10.470 max_d=10.470 avg_d=5.235 std_dev=5.235
C6 B 0, 0.000, 5.626, 11.252, 11.252 max_d=11.252 avg_d=5.626 std_dev=5.626
O6 B 0, 0.000, 5.799, 11.598, 11.598 max_d=11.598 avg_d=5.799 std_dev=5.799
N3 B 0, 0.000, 6.064, 12.128, 12.128 max_d=12.128 avg_d=6.064 std_dev=6.064
OP1 A 0, 0.000, 6.067, 12.133, 12.133 max_d=12.133 avg_d=6.067 std_dev=6.067
N1 B 0, 0.000, 6.356, 12.711, 12.711 max_d=12.711 avg_d=6.356 std_dev=6.356
C2 B 0, 0.000, 6.618, 13.236, 13.236 max_d=13.236 avg_d=6.618 std_dev=6.618
N2 B 0, 0.000, 7.626, 15.252, 15.252 max_d=15.252 avg_d=7.626 std_dev=7.626

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.02 0.00 0.00 0.01 0.00 0.01 0.04 0.01 0.00 0.01 0.02 0.01 0.00 0.00 0.01 0.23 0.00 0.05 0.01 0.10 0.50 0.11
C2 0.02 0.00 0.15 0.05 0.00 0.62 0.00 1.13 0.00 0.00 0.00 0.00 0.00 0.00 0.01 0.32 0.03 0.61 1.55 0.00 1.44 0.86 1.21
C2' 0.00 0.15 0.00 0.00 0.07 0.00 0.04 0.13 0.07 0.07 0.12 0.17 0.14 0.03 0.00 0.00 0.02 0.01 0.10 0.06 0.31 0.44 0.04
C3' 0.00 0.05 0.00 0.00 0.11 0.00 0.24 0.03 0.21 0.34 0.08 0.15 0.08 0.35 0.18 0.00 0.00 0.01 0.02 0.27 0.32 0.47 0.04
C4 0.01 0.00 0.07 0.11 0.00 0.23 0.00 0.43 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.03 0.02 0.31 0.65 0.00 0.44 0.19 0.25
C4' 0.00 0.62 0.00 0.00 0.23 0.00 0.03 0.00 0.16 0.40 0.42 0.81 0.60 0.29 0.07 0.20 0.01 0.00 0.00 0.07 0.30 0.25 0.11
C5 0.01 0.00 0.04 0.24 0.00 0.03 0.00 0.12 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.14 0.11 0.13 0.33 0.00 0.01 0.64 0.17
C5' 0.04 1.13 0.13 0.03 0.43 0.00 0.12 0.00 0.36 0.57 0.81 1.50 1.05 0.41 0.04 0.06 0.19 0.00 0.00 0.20 0.21 0.36 0.00
C6 0.01 0.00 0.07 0.21 0.00 0.16 0.00 0.36 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.05 0.15 0.25 0.66 0.00 0.32 0.28 0.15
C8 0.00 0.00 0.07 0.34 0.00 0.40 0.00 0.57 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.43 0.06 0.31 0.54 0.00 0.85 1.55 1.03
N1 0.01 0.00 0.12 0.08 0.00 0.42 0.00 0.81 0.00 0.00 0.00 0.01 0.00 0.00 0.01 0.15 0.11 0.46 1.20 0.00 0.99 0.43 0.79
N2 0.02 0.00 0.17 0.15 0.01 0.81 0.01 1.50 0.01 0.01 0.01 0.00 0.00 0.00 0.01 0.47 0.01 0.73 2.01 0.01 2.07 1.51 1.79
N3 0.01 0.00 0.14 0.08 0.00 0.60 0.00 1.05 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.32 0.04 0.61 1.36 0.00 1.24 0.62 1.02
N7 0.00 0.00 0.03 0.35 0.00 0.29 0.00 0.41 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.37 0.13 0.17 0.32 0.00 0.75 1.43 0.90
N9 0.00 0.01 0.00 0.18 0.00 0.07 0.00 0.04 0.00 0.00 0.01 0.01 0.00 0.00 0.00 0.16 0.03 0.00 0.05 0.00 0.10 0.75 0.29
O2' 0.01 0.32 0.00 0.00 0.03 0.20 0.14 0.06 0.05 0.43 0.15 0.47 0.32 0.37 0.16 0.00 0.03 0.14 0.14 0.12 0.14 0.52 0.12
O3' 0.23 0.03 0.02 0.00 0.02 0.01 0.11 0.19 0.15 0.06 0.11 0.01 0.04 0.13 0.03 0.03 0.00 0.17 0.12 0.20 0.29 0.34 0.11
O4' 0.00 0.61 0.01 0.01 0.31 0.00 0.13 0.00 0.25 0.31 0.46 0.73 0.61 0.17 0.00 0.14 0.17 0.00 0.02 0.17 0.07 0.37 0.08
O5' 0.05 1.55 0.10 0.02 0.65 0.00 0.33 0.00 0.66 0.54 1.20 2.01 1.36 0.32 0.05 0.14 0.12 0.02 0.00 0.49 0.01 0.00 0.00
O6 0.01 0.00 0.06 0.27 0.00 0.07 0.00 0.20 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.12 0.20 0.17 0.49 0.00 0.06 0.51 0.07
OP1 0.10 1.44 0.31 0.32 0.44 0.30 0.01 0.21 0.32 0.85 0.99 2.07 1.24 0.75 0.10 0.14 0.29 0.07 0.01 0.06 0.00 0.00 0.00
OP2 0.50 0.86 0.44 0.47 0.19 0.25 0.64 0.36 0.28 1.55 0.43 1.51 0.62 1.43 0.75 0.52 0.34 0.37 0.00 0.51 0.00 0.00 0.00
P 0.11 1.21 0.04 0.04 0.25 0.11 0.17 0.00 0.15 1.03 0.79 1.79 1.02 0.90 0.29 0.12 0.11 0.08 0.00 0.07 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 1.82 2.07 1.68 1.47 1.82 1.55 1.62 1.44 1.68 1.40 1.91 2.23 2.05 1.35 1.69 2.10 1.48 1.74 0.62 1.54 0.03 0.25 0.33
C2 1.21 1.22 1.21 1.18 1.13 1.20 1.00 1.30 1.02 0.93 1.13 1.28 1.24 0.87 1.10 1.53 1.23 1.19 0.50 0.93 0.03 0.24 0.32
C2' 2.40 2.76 2.18 1.88 2.47 1.99 2.28 1.81 2.37 2.01 2.61 2.93 2.72 1.99 2.31 2.61 1.81 2.28 0.97 2.25 0.10 0.44 0.56
C3' 2.23 2.64 2.00 1.65 2.29 1.76 2.04 1.47 2.14 1.72 2.44 2.87 2.60 1.70 2.10 2.51 1.65 2.07 0.61 1.98 0.30 0.08 0.10
C4 1.42 1.49 1.41 1.32 1.33 1.35 1.15 1.37 1.17 1.02 1.35 1.61 1.51 0.95 1.27 1.81 1.38 1.37 0.53 1.05 0.03 0.25 0.33
C4' 1.33 1.72 1.11 0.80 1.36 0.91 1.11 0.63 1.20 0.81 1.50 1.95 1.68 0.77 1.18 1.62 0.84 1.20 0.20 1.04 0.98 0.80 0.65
C5 1.15 1.16 1.26 1.23 1.01 1.20 0.82 1.29 0.83 0.72 1.01 1.27 1.19 0.64 0.97 1.68 1.35 1.09 0.43 0.71 0.07 0.23 0.30
C5' 0.60 0.99 0.38 0.06 0.62 0.17 0.35 0.13 0.45 0.05 0.77 1.25 0.95 0.01 0.43 0.94 0.14 0.45 0.99 0.29 1.78 1.71 1.50
C6 0.85 0.80 1.05 1.09 0.70 1.01 0.53 1.17 0.53 0.47 0.67 0.89 0.84 0.39 0.68 1.44 1.24 0.80 0.33 0.42 0.10 0.20 0.26
C8 1.44 1.54 1.48 1.38 1.33 1.38 1.11 1.38 1.14 0.96 1.36 1.70 1.56 0.88 1.25 1.94 1.47 1.36 0.51 0.99 0.04 0.25 0.32
N1 0.88 0.83 1.02 1.06 0.76 1.00 0.62 1.18 0.63 0.57 0.73 0.90 0.86 0.50 0.74 1.36 1.19 0.84 0.36 0.54 0.08 0.21 0.27
N2 1.19 1.21 1.14 1.11 1.16 1.14 1.08 1.27 1.09 1.02 1.16 1.24 1.22 0.98 1.14 1.39 1.11 1.19 0.54 1.03 0.01 0.25 0.34
N3 1.48 1.56 1.41 1.31 1.43 1.36 1.28 1.38 1.30 1.15 1.45 1.65 1.57 1.10 1.37 1.76 1.32 1.45 0.57 1.20 0.00 0.26 0.34
N7 1.19 1.22 1.32 1.28 1.05 1.24 0.83 1.30 0.84 0.72 1.04 1.36 1.25 0.62 0.99 1.77 1.41 1.12 0.43 0.70 0.07 0.23 0.30
N9 1.58 1.73 1.54 1.40 1.52 1.45 1.31 1.41 1.35 1.15 1.56 1.87 1.73 1.08 1.43 1.97 1.45 1.52 0.56 1.22 0.01 0.25 0.33
O2' 2.83 3.31 2.56 2.22 3.01 2.33 2.87 2.16 2.98 2.55 3.20 3.47 3.24 2.58 2.82 2.94 2.07 2.70 1.38 2.88 0.46 0.94 1.01
O3' 2.71 3.25 2.45 2.04 2.81 2.13 2.53 1.74 2.66 2.14 3.02 3.53 3.19 2.12 2.57 3.00 2.02 2.49 0.89 2.48 0.11 0.18 0.33
O4' 1.14 1.42 0.98 0.76 1.12 0.85 0.89 0.66 0.95 0.64 1.22 1.62 1.40 0.59 0.98 1.46 0.82 1.05 0.16 0.80 0.78 0.57 0.48
O5' 0.19 0.15 0.40 0.68 0.22 0.57 0.49 0.87 0.41 0.78 0.09 0.42 0.13 0.84 0.39 0.16 0.55 0.32 1.70 0.58 2.35 2.32 2.14
O6 0.57 0.47 0.87 0.96 0.38 0.82 0.22 1.03 0.21 0.19 0.34 0.55 0.51 0.10 0.38 1.26 1.17 0.51 0.23 0.10 0.13 0.18 0.22
OP1 0.73 0.47 0.99 1.25 0.82 1.09 1.14 1.44 1.07 1.38 0.74 0.18 0.47 1.47 0.97 0.40 1.05 0.82 2.21 1.27 2.76 3.08 2.74
OP2 0.51 0.43 0.65 0.79 0.75 0.69 1.12 1.04 1.10 1.30 0.75 0.16 0.38 1.45 0.84 0.05 0.48 0.58 1.81 1.34 2.14 2.45 2.22
P 0.43 0.23 0.63 0.84 0.56 0.72 0.89 1.05 0.84 1.11 0.51 0.04 0.21 1.22 0.69 0.05 0.62 0.52 1.83 1.05 2.31 2.52 2.28

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.00 0.00 0.01 0.00 0.01 0.00 0.08 0.01 0.00 0.00 0.01 0.00 0.00 0.00 0.00 0.13 0.00 0.17 0.01 0.12 0.04 0.18
C2 0.00 0.00 0.13 0.08 0.00 0.03 0.00 0.19 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.41 0.24 0.02 0.24 0.00 0.21 0.27 0.29
C2' 0.00 0.13 0.00 0.00 0.08 0.01 0.05 0.15 0.07 0.02 0.11 0.15 0.12 0.01 0.02 0.00 0.01 0.00 0.17 0.06 0.12 0.24 0.04
C3' 0.01 0.08 0.00 0.00 0.03 0.00 0.11 0.02 0.08 0.23 0.01 0.16 0.09 0.21 0.10 0.00 0.00 0.03 0.26 0.12 0.17 0.32 0.06
C4 0.00 0.00 0.08 0.03 0.00 0.01 0.00 0.17 0.01 0.00 0.00 0.01 0.00 0.00 0.00 0.28 0.09 0.01 0.28 0.01 0.27 0.39 0.35
C4' 0.01 0.03 0.01 0.00 0.01 0.00 0.01 0.00 0.01 0.02 0.02 0.05 0.03 0.01 0.00 0.19 0.02 0.00 0.00 0.00 0.00 0.38 0.07
C5 0.00 0.00 0.05 0.11 0.00 0.01 0.00 0.19 0.01 0.00 0.01 0.00 0.00 0.00 0.00 0.26 0.03 0.00 0.34 0.01 0.38 0.64 0.47
C5' 0.08 0.19 0.15 0.02 0.17 0.00 0.19 0.00 0.21 0.14 0.21 0.20 0.17 0.18 0.14 0.05 0.16 0.01 0.00 0.21 0.24 0.36 0.00
C6 0.01 0.00 0.07 0.08 0.01 0.01 0.01 0.21 0.00 0.01 0.00 0.00 0.00 0.01 0.01 0.32 0.00 0.01 0.34 0.00 0.39 0.67 0.48
C8 0.00 0.00 0.02 0.23 0.00 0.02 0.00 0.14 0.01 0.00 0.01 0.01 0.00 0.00 0.00 0.09 0.17 0.02 0.37 0.01 0.40 0.72 0.52
N1 0.00 0.00 0.11 0.01 0.00 0.02 0.01 0.21 0.00 0.01 0.00 0.00 0.00 0.01 0.00 0.39 0.13 0.02 0.29 0.00 0.31 0.47 0.39
N2 0.01 0.01 0.15 0.16 0.01 0.05 0.00 0.20 0.00 0.01 0.00 0.00 0.01 0.00 0.01 0.44 0.35 0.02 0.19 0.00 0.14 0.13 0.22
N3 0.00 0.00 0.12 0.09 0.00 0.03 0.00 0.17 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.38 0.25 0.02 0.22 0.01 0.18 0.19 0.25
N7 0.00 0.00 0.01 0.21 0.00 0.01 0.00 0.18 0.01 0.00 0.01 0.00 0.00 0.00 0.00 0.16 0.17 0.01 0.39 0.01 0.46 0.86 0.57
N9 0.00 0.00 0.02 0.10 0.00 0.00 0.00 0.14 0.01 0.00 0.00 0.01 0.00 0.00 0.00 0.13 0.01 0.00 0.28 0.01 0.26 0.37 0.35
O2' 0.00 0.41 0.00 0.00 0.28 0.19 0.26 0.05 0.32 0.09 0.39 0.44 0.38 0.16 0.13 0.00 0.01 0.11 0.25 0.31 0.21 0.28 0.10
O3' 0.13 0.24 0.01 0.00 0.09 0.02 0.03 0.16 0.00 0.17 0.13 0.35 0.25 0.17 0.01 0.01 0.00 0.09 0.27 0.06 0.20 0.40 0.05
O4' 0.00 0.02 0.00 0.03 0.01 0.00 0.00 0.01 0.01 0.02 0.02 0.02 0.02 0.01 0.00 0.11 0.09 0.00 0.09 0.01 0.08 0.03 0.16
O5' 0.17 0.24 0.17 0.26 0.28 0.00 0.34 0.00 0.34 0.37 0.29 0.19 0.22 0.39 0.28 0.25 0.27 0.09 0.00 0.38 0.01 0.01 0.00
O6 0.01 0.00 0.06 0.12 0.01 0.00 0.01 0.21 0.00 0.01 0.00 0.00 0.01 0.01 0.01 0.31 0.06 0.01 0.38 0.00 0.46 0.82 0.55
OP1 0.12 0.21 0.12 0.17 0.27 0.00 0.38 0.24 0.39 0.40 0.31 0.14 0.18 0.46 0.26 0.21 0.20 0.08 0.01 0.46 0.00 0.00 0.00
OP2 0.04 0.27 0.24 0.32 0.39 0.38 0.64 0.36 0.67 0.72 0.47 0.13 0.19 0.86 0.37 0.28 0.40 0.03 0.01 0.82 0.00 0.00 0.00
P 0.18 0.29 0.04 0.06 0.35 0.07 0.47 0.00 0.48 0.52 0.39 0.22 0.25 0.57 0.35 0.10 0.05 0.16 0.00 0.55 0.00 0.00 0.00