ClaRNA

Doublet Group distance statistics: 12374

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Distances from reference structure (by RMSD)

5, 80, 57, 98, 83, 54, 18, 4, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4 A 0, 0.108, 0.170, 0.232, 0.484 max_d=0.484 avg_d=0.170 std_dev=0.062
N1 B 0, 0.098, 0.179, 0.260, 0.590 max_d=0.590 avg_d=0.179 std_dev=0.081
N3 A 0, 0.089, 0.184, 0.279, 0.793 max_d=0.793 avg_d=0.184 std_dev=0.095
C2 B 0, 0.160, 0.296, 0.433, 0.906 max_d=0.906 avg_d=0.296 std_dev=0.137
C5 B 0, 0.132, 0.288, 0.445, 1.207 max_d=1.207 avg_d=0.288 std_dev=0.157
N9 A 0, 0.066, 0.232, 0.398, 0.921 max_d=0.921 avg_d=0.232 std_dev=0.166
C6 B 0, 0.095, 0.261, 0.428, 0.912 max_d=0.912 avg_d=0.261 std_dev=0.166
C5 A 0, 0.127, 0.313, 0.500, 1.115 max_d=1.115 avg_d=0.313 std_dev=0.186
C2 A 0, 0.104, 0.293, 0.482, 1.094 max_d=1.094 avg_d=0.293 std_dev=0.189
C4 B 0, 0.151, 0.345, 0.540, 1.442 max_d=1.442 avg_d=0.345 std_dev=0.194
N3 B 0, 0.216, 0.418, 0.620, 1.270 max_d=1.270 avg_d=0.418 std_dev=0.202
N1 A 0, 0.202, 0.408, 0.613, 1.272 max_d=1.272 avg_d=0.408 std_dev=0.206
C1' A 0, 0.205, 0.434, 0.663, 1.403 max_d=1.403 avg_d=0.434 std_dev=0.229
O2 B 0, 0.260, 0.494, 0.728, 1.682 max_d=1.682 avg_d=0.494 std_dev=0.234
N7 A 0, 0.208, 0.450, 0.692, 1.899 max_d=1.899 avg_d=0.450 std_dev=0.242
C1' B 0, 0.168, 0.418, 0.668, 1.744 max_d=1.744 avg_d=0.418 std_dev=0.250
C8 A 0, 0.122, 0.383, 0.645, 1.650 max_d=1.650 avg_d=0.383 std_dev=0.262
C6 A 0, 0.153, 0.415, 0.678, 1.519 max_d=1.519 avg_d=0.415 std_dev=0.263
N4 B 0, 0.263, 0.570, 0.877, 2.491 max_d=2.491 avg_d=0.570 std_dev=0.307
N2 A 0, 0.107, 0.452, 0.798, 1.944 max_d=1.944 avg_d=0.452 std_dev=0.345
C2' B 0, 0.315, 0.670, 1.026, 2.280 max_d=2.280 avg_d=0.670 std_dev=0.356
O6 A 0, 0.233, 0.592, 0.950, 2.405 max_d=2.405 avg_d=0.592 std_dev=0.359
O4' B 0, 0.213, 0.611, 1.009, 2.665 max_d=2.665 avg_d=0.611 std_dev=0.398
C4' B 0, 0.369, 0.919, 1.468, 2.869 max_d=2.869 avg_d=0.919 std_dev=0.549
C3' B 0, 0.379, 0.971, 1.563, 2.450 max_d=2.450 avg_d=0.971 std_dev=0.592
C5' B 0, 0.500, 1.223, 1.946, 4.011 max_d=4.011 avg_d=1.223 std_dev=0.723
O4' A 0, 0.560, 1.289, 2.017, 3.092 max_d=3.092 avg_d=1.289 std_dev=0.729
O5' B 0, 1.237, 2.002, 2.767, 5.929 max_d=5.929 avg_d=2.002 std_dev=0.765
C2' A 0, 0.553, 1.483, 2.413, 3.503 max_d=3.503 avg_d=1.483 std_dev=0.930
P B 0, 1.593, 2.532, 3.470, 7.518 max_d=7.518 avg_d=2.532 std_dev=0.939
OP1 B 0, 1.141, 2.134, 3.128, 7.575 max_d=7.575 avg_d=2.134 std_dev=0.993
O2' B 0, 0.403, 1.443, 2.482, 4.996 max_d=4.996 avg_d=1.443 std_dev=1.039
C4' A 0, 0.898, 2.005, 3.111, 3.876 max_d=3.876 avg_d=2.005 std_dev=1.107
O3' B 0, 0.432, 1.560, 2.688, 4.410 max_d=4.410 avg_d=1.560 std_dev=1.128
O2' A 0, 0.729, 1.901, 3.073, 4.586 max_d=4.586 avg_d=1.901 std_dev=1.172
C3' A 0, 0.959, 2.243, 3.526, 4.741 max_d=4.741 avg_d=2.243 std_dev=1.284
OP2 B 0, 2.643, 4.195, 5.748, 9.387 max_d=9.387 avg_d=4.195 std_dev=1.552
O3' A 0, 1.407, 3.169, 4.931, 6.546 max_d=6.546 avg_d=3.169 std_dev=1.762
C5' A 0, 1.106, 2.966, 4.825, 6.581 max_d=6.581 avg_d=2.966 std_dev=1.859
O5' A 0, 0.953, 3.160, 5.367, 7.575 max_d=7.575 avg_d=3.160 std_dev=2.207
P A 0, 0.810, 3.850, 6.889, 10.279 max_d=10.279 avg_d=3.850 std_dev=3.039
OP2 A 0, 1.188, 4.345, 7.503, 11.632 max_d=11.632 avg_d=4.345 std_dev=3.157
OP1 A 0, 1.353, 4.983, 8.613, 11.894 max_d=11.894 avg_d=4.983 std_dev=3.630

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 0.04 0.01 0.02 0.02 0.01 0.01 0.07 0.02 0.02 0.03 0.05 0.04 0.02 0.01 0.03 0.29 0.01 0.21 0.02 0.34 0.28 0.19
C2 0.04 0.00 0.46 0.75 0.02 0.60 0.01 0.96 0.02 0.02 0.01 0.01 0.01 0.02 0.02 0.44 0.78 0.44 1.29 0.02 1.35 1.82 1.46
C2' 0.01 0.46 0.00 0.01 0.24 0.02 0.13 0.17 0.22 0.22 0.36 0.56 0.45 0.13 0.05 0.01 0.04 0.02 0.41 0.18 0.63 0.44 0.43
C3' 0.02 0.75 0.01 0.00 0.38 0.01 0.32 0.02 0.40 0.51 0.59 0.94 0.71 0.43 0.21 0.03 0.01 0.03 0.25 0.39 0.38 0.51 0.28
C4 0.02 0.02 0.24 0.38 0.00 0.26 0.01 0.39 0.01 0.01 0.02 0.02 0.01 0.01 0.01 0.29 0.34 0.23 0.58 0.01 0.65 0.84 0.63
C4' 0.01 0.60 0.02 0.01 0.26 0.00 0.16 0.01 0.24 0.40 0.44 0.77 0.57 0.31 0.11 0.26 0.04 0.01 0.02 0.21 0.28 0.32 0.08
C5 0.01 0.01 0.13 0.32 0.01 0.16 0.00 0.30 0.01 0.01 0.01 0.02 0.01 0.01 0.01 0.32 0.21 0.12 0.55 0.02 0.80 0.83 0.59
C5' 0.07 0.96 0.17 0.02 0.39 0.01 0.30 0.00 0.42 0.64 0.72 1.28 0.87 0.54 0.20 0.10 0.19 0.02 0.01 0.39 0.33 0.43 0.02
C6 0.02 0.02 0.22 0.40 0.01 0.24 0.01 0.42 0.00 0.01 0.01 0.02 0.02 0.02 0.01 0.37 0.33 0.20 0.68 0.01 0.92 1.10 0.77
C8 0.02 0.02 0.22 0.51 0.01 0.40 0.01 0.64 0.01 0.00 0.02 0.02 0.01 0.01 0.01 0.31 0.42 0.24 0.92 0.03 1.13 1.05 0.94
N1 0.03 0.01 0.36 0.59 0.02 0.44 0.01 0.72 0.01 0.02 0.00 0.01 0.01 0.02 0.02 0.41 0.59 0.34 1.02 0.01 1.14 1.57 1.18
N2 0.05 0.01 0.56 0.94 0.02 0.77 0.02 1.28 0.02 0.02 0.01 0.00 0.01 0.02 0.02 0.51 1.03 0.52 1.67 0.02 1.84 2.37 1.93
N3 0.04 0.01 0.45 0.71 0.01 0.57 0.01 0.87 0.02 0.01 0.01 0.01 0.00 0.01 0.02 0.39 0.72 0.43 1.13 0.02 1.11 1.45 1.22
N7 0.02 0.02 0.13 0.43 0.01 0.31 0.01 0.54 0.02 0.01 0.02 0.02 0.01 0.00 0.01 0.34 0.34 0.13 0.83 0.03 1.17 1.05 0.90
N9 0.01 0.02 0.05 0.21 0.01 0.11 0.01 0.20 0.01 0.01 0.02 0.02 0.02 0.01 0.00 0.20 0.15 0.03 0.40 0.02 0.55 0.51 0.37
O2' 0.03 0.44 0.01 0.03 0.29 0.26 0.32 0.10 0.37 0.31 0.41 0.51 0.39 0.34 0.20 0.00 0.07 0.19 0.29 0.39 0.61 0.44 0.35
O3' 0.29 0.78 0.04 0.01 0.34 0.04 0.21 0.19 0.33 0.42 0.59 1.03 0.72 0.34 0.15 0.07 0.00 0.19 0.28 0.29 0.60 0.75 0.38
O4' 0.01 0.44 0.02 0.03 0.23 0.01 0.12 0.02 0.20 0.24 0.34 0.52 0.43 0.13 0.03 0.19 0.19 0.00 0.13 0.16 0.23 0.23 0.19
O5' 0.21 1.29 0.41 0.25 0.58 0.02 0.55 0.01 0.68 0.92 1.02 1.67 1.13 0.83 0.40 0.29 0.28 0.13 0.00 0.67 0.03 0.02 0.01
O6 0.02 0.02 0.18 0.39 0.01 0.21 0.02 0.39 0.01 0.03 0.01 0.02 0.02 0.03 0.02 0.39 0.29 0.16 0.67 0.00 1.02 1.09 0.76
OP1 0.34 1.35 0.63 0.38 0.65 0.28 0.80 0.33 0.92 1.13 1.14 1.84 1.11 1.17 0.55 0.61 0.60 0.23 0.03 1.02 0.00 0.02 0.01
OP2 0.28 1.82 0.44 0.51 0.84 0.32 0.83 0.43 1.10 1.05 1.57 2.37 1.45 1.05 0.51 0.44 0.75 0.23 0.02 1.09 0.02 0.00 0.01
P 0.19 1.46 0.43 0.28 0.63 0.08 0.59 0.02 0.77 0.94 1.18 1.93 1.22 0.90 0.37 0.35 0.38 0.19 0.01 0.76 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.34 0.21 0.44 0.42 0.31 0.41 0.31 0.44 0.25 0.24 0.21 0.45 0.29 0.87 0.82 0.40 0.43 0.54 0.86 0.44
C2 0.34 0.22 0.39 0.32 0.29 0.35 0.24 0.38 0.19 0.23 0.19 0.45 0.38 0.81 0.66 0.38 0.40 0.50 0.91 0.42
C2' 0.67 0.63 0.73 0.71 0.78 0.68 0.80 0.64 0.74 0.67 0.68 0.86 0.58 1.15 1.05 0.68 0.82 0.78 0.75 0.60
C3' 0.79 0.82 0.83 0.85 1.13 0.81 1.15 0.79 1.03 0.88 0.95 1.27 0.66 1.10 1.04 0.82 1.10 1.01 1.04 0.96
C4 0.36 0.20 0.43 0.41 0.31 0.42 0.27 0.43 0.22 0.24 0.22 0.45 0.29 0.85 0.82 0.41 0.40 0.52 0.81 0.39
C4' 0.46 0.54 0.56 0.56 0.90 0.49 0.88 0.52 0.72 0.57 0.72 1.10 0.40 0.75 0.72 0.49 0.81 0.78 1.08 0.82
C5 0.39 0.20 0.44 0.46 0.33 0.46 0.27 0.46 0.24 0.25 0.27 0.47 0.26 0.82 0.90 0.45 0.40 0.53 0.75 0.37
C5' 0.80 0.97 0.85 0.87 1.47 0.82 1.44 0.89 1.21 0.99 1.23 1.74 0.74 0.76 0.78 0.84 1.25 1.22 1.55 1.32
C6 0.41 0.22 0.43 0.44 0.36 0.47 0.28 0.46 0.24 0.26 0.32 0.49 0.27 0.79 0.87 0.47 0.40 0.53 0.75 0.37
C8 0.39 0.20 0.46 0.50 0.32 0.49 0.29 0.49 0.25 0.26 0.25 0.46 0.26 0.85 0.95 0.46 0.42 0.56 0.74 0.38
N1 0.37 0.19 0.39 0.35 0.34 0.39 0.26 0.40 0.20 0.23 0.27 0.48 0.32 0.79 0.73 0.41 0.38 0.49 0.82 0.37
N2 0.35 0.31 0.39 0.31 0.27 0.33 0.25 0.38 0.21 0.27 0.22 0.43 0.46 0.79 0.55 0.37 0.46 0.53 1.04 0.51
N3 0.34 0.22 0.41 0.35 0.29 0.37 0.27 0.40 0.22 0.24 0.20 0.44 0.34 0.84 0.71 0.38 0.42 0.52 0.90 0.44
N7 0.41 0.22 0.47 0.52 0.34 0.51 0.29 0.51 0.26 0.27 0.28 0.47 0.26 0.82 0.99 0.48 0.43 0.57 0.72 0.39
N9 0.36 0.20 0.44 0.44 0.31 0.44 0.29 0.45 0.24 0.24 0.22 0.45 0.28 0.86 0.87 0.42 0.41 0.53 0.80 0.39
O2' 0.76 0.68 0.90 0.84 0.70 0.77 0.71 0.82 0.70 0.70 0.66 0.75 0.71 1.39 1.22 0.73 0.78 0.85 0.99 0.69
O3' 0.95 0.94 0.99 1.00 1.24 0.96 1.30 1.03 1.19 1.02 1.05 1.38 0.78 1.33 1.22 0.98 1.23 1.17 1.20 1.14
O4' 0.35 0.37 0.45 0.41 0.64 0.40 0.60 0.47 0.48 0.38 0.51 0.82 0.33 0.65 0.62 0.42 0.59 0.65 1.07 0.71
O5' 1.09 1.33 1.15 1.16 1.93 1.07 1.88 1.16 1.61 1.35 1.65 2.24 1.04 0.96 0.98 1.09 1.57 1.53 1.87 1.65
O6 0.46 0.29 0.47 0.52 0.40 0.54 0.33 0.52 0.30 0.31 0.39 0.51 0.29 0.76 0.96 0.53 0.45 0.58 0.74 0.43
OP1 1.53 1.67 1.55 1.54 2.35 1.55 2.34 1.69 2.03 1.73 1.98 2.73 1.42 1.38 1.29 1.58 2.02 2.00 2.47 2.18
OP2 1.81 2.11 1.94 2.04 2.91 1.87 2.88 2.02 2.53 2.16 2.52 3.29 1.67 1.70 1.93 1.79 2.51 2.51 2.75 2.56
P 1.33 1.62 1.42 1.44 2.36 1.34 2.31 1.47 1.98 1.65 2.00 2.73 1.25 1.14 1.20 1.32 1.93 1.91 2.26 2.02

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.03 0.01 0.02 0.02 0.01 0.02 0.15 0.02 0.01 0.02 0.02 0.06 0.02 0.30 0.01 0.24 0.38 0.62 0.26
C2 0.03 0.00 0.14 0.23 0.01 0.06 0.01 0.27 0.01 0.01 0.01 0.02 0.01 0.27 0.20 0.09 0.35 0.44 0.91 0.41
C2' 0.01 0.14 0.00 0.01 0.10 0.03 0.18 0.24 0.20 0.05 0.11 0.11 0.29 0.01 0.04 0.03 0.46 0.61 0.81 0.53
C3' 0.02 0.23 0.01 0.00 0.34 0.01 0.37 0.03 0.32 0.22 0.29 0.37 0.21 0.03 0.01 0.02 0.38 0.49 0.59 0.35
C4 0.02 0.01 0.10 0.34 0.00 0.18 0.01 0.44 0.01 0.01 0.01 0.01 0.02 0.40 0.22 0.04 0.51 0.60 1.26 0.65
C4' 0.01 0.06 0.03 0.01 0.18 0.00 0.24 0.01 0.23 0.10 0.10 0.19 0.11 0.30 0.04 0.01 0.02 0.28 0.41 0.11
C5 0.02 0.01 0.18 0.37 0.01 0.24 0.00 0.51 0.01 0.01 0.01 0.02 0.02 0.40 0.29 0.10 0.56 0.65 1.30 0.71
C5' 0.15 0.27 0.24 0.03 0.44 0.01 0.51 0.00 0.46 0.29 0.34 0.48 0.22 0.15 0.23 0.03 0.01 0.32 0.37 0.02
C6 0.02 0.01 0.20 0.32 0.01 0.23 0.01 0.46 0.00 0.01 0.01 0.02 0.02 0.34 0.24 0.12 0.50 0.56 1.09 0.58
N1 0.01 0.01 0.05 0.22 0.01 0.10 0.01 0.29 0.01 0.00 0.01 0.02 0.02 0.22 0.15 0.02 0.36 0.44 0.86 0.40
N3 0.02 0.01 0.11 0.29 0.01 0.10 0.01 0.34 0.01 0.01 0.00 0.01 0.01 0.35 0.18 0.07 0.43 0.51 1.09 0.52
N4 0.02 0.02 0.11 0.37 0.01 0.19 0.02 0.48 0.02 0.02 0.01 0.00 0.02 0.45 0.26 0.05 0.54 0.65 1.38 0.72
O2 0.06 0.01 0.29 0.21 0.02 0.11 0.02 0.22 0.02 0.02 0.01 0.02 0.00 0.30 0.35 0.17 0.31 0.43 0.79 0.34
O2' 0.02 0.27 0.01 0.03 0.40 0.30 0.40 0.15 0.34 0.22 0.35 0.45 0.30 0.00 0.08 0.21 0.34 0.55 0.90 0.47
O3' 0.30 0.20 0.04 0.01 0.22 0.04 0.29 0.23 0.24 0.15 0.18 0.26 0.35 0.08 0.00 0.24 0.33 0.59 0.53 0.33
O4' 0.01 0.09 0.03 0.02 0.04 0.01 0.10 0.03 0.12 0.02 0.07 0.05 0.17 0.21 0.24 0.00 0.31 0.43 0.63 0.38
O5' 0.24 0.35 0.46 0.38 0.51 0.02 0.56 0.01 0.50 0.36 0.43 0.54 0.31 0.34 0.33 0.31 0.00 0.03 0.03 0.01
OP1 0.38 0.44 0.61 0.49 0.60 0.28 0.65 0.32 0.56 0.44 0.51 0.65 0.43 0.55 0.59 0.43 0.03 0.00 0.02 0.01
OP2 0.62 0.91 0.81 0.59 1.26 0.41 1.30 0.37 1.09 0.86 1.09 1.38 0.79 0.90 0.53 0.63 0.03 0.02 0.00 0.01
P 0.26 0.41 0.53 0.35 0.65 0.11 0.71 0.02 0.58 0.40 0.52 0.72 0.34 0.47 0.33 0.38 0.01 0.01 0.01 0.00