ClaRNA

Doublet Group distance statistics: 54751

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.001, 0.006, 0.011, 0.012 max_d=0.012 avg_d=0.006 std_dev=0.005
N3 A 0, 0.003, 0.009, 0.016, 0.014 max_d=0.014 avg_d=0.009 std_dev=0.006
N1 A 0, 0.000, 0.010, 0.020, 0.024 max_d=0.024 avg_d=0.010 std_dev=0.010
C1' A 0, 0.004, 0.023, 0.043, 0.048 max_d=0.048 avg_d=0.023 std_dev=0.020
C6 A 0, -0.003, 0.018, 0.039, 0.047 max_d=0.047 avg_d=0.018 std_dev=0.021
C2 A 0, 0.001, 0.022, 0.043, 0.050 max_d=0.050 avg_d=0.022 std_dev=0.021
C4 A 0, -0.004, 0.019, 0.042, 0.051 max_d=0.051 avg_d=0.019 std_dev=0.023
O2 A 0, 0.001, 0.049, 0.098, 0.116 max_d=0.116 avg_d=0.049 std_dev=0.049
N4 A 0, -0.013, 0.059, 0.132, 0.161 max_d=0.161 avg_d=0.059 std_dev=0.072
O4' A 0, -0.011, 0.068, 0.146, 0.178 max_d=0.178 avg_d=0.068 std_dev=0.079
C2' A 0, -0.020, 0.104, 0.229, 0.279 max_d=0.279 avg_d=0.104 std_dev=0.124
O2' A 0, -0.020, 0.148, 0.315, 0.382 max_d=0.382 avg_d=0.148 std_dev=0.167
C3' A 0, -0.092, 0.249, 0.589, 0.730 max_d=0.730 avg_d=0.249 std_dev=0.340
C4' A 0, -0.089, 0.257, 0.603, 0.746 max_d=0.746 avg_d=0.257 std_dev=0.346
P B 0, -0.106, 0.380, 0.866, 1.066 max_d=1.066 avg_d=0.380 std_dev=0.486
O3' A 0, -0.148, 0.434, 1.016, 1.256 max_d=1.256 avg_d=0.434 std_dev=0.582
C5' A 0, -0.161, 0.438, 1.037, 1.285 max_d=1.285 avg_d=0.438 std_dev=0.599
OP2 B 0, -0.164, 0.532, 1.228, 1.515 max_d=1.515 avg_d=0.532 std_dev=0.696
O5' B 0, -0.249, 0.707, 1.663, 2.058 max_d=2.058 avg_d=0.707 std_dev=0.956
OP1 B 0, -0.236, 0.727, 1.689, 2.087 max_d=2.087 avg_d=0.727 std_dev=0.962
O3' B 0, -0.358, 0.948, 2.254, 2.795 max_d=2.795 avg_d=0.948 std_dev=1.306
C5' B 0, -0.368, 0.980, 2.327, 2.885 max_d=2.885 avg_d=0.980 std_dev=1.347
C3' B 0, -0.492, 1.269, 3.031, 3.761 max_d=3.761 avg_d=1.269 std_dev=1.762
O5' A 0, -0.503, 1.287, 3.077, 3.819 max_d=3.819 avg_d=1.287 std_dev=1.790
C4' B 0, -0.570, 1.469, 3.508, 4.352 max_d=4.352 avg_d=1.469 std_dev=2.039
P A 0, -0.765, 1.924, 4.613, 5.727 max_d=5.727 avg_d=1.924 std_dev=2.689
C2' B 0, -0.772, 1.947, 4.666, 5.792 max_d=5.792 avg_d=1.947 std_dev=2.719
O4' B 0, -0.801, 2.041, 4.884, 6.061 max_d=6.061 avg_d=2.041 std_dev=2.842
O2' B 0, -0.852, 2.176, 5.204, 6.458 max_d=6.458 avg_d=2.176 std_dev=3.028
C1' B 0, -0.923, 2.332, 5.588, 6.936 max_d=6.936 avg_d=2.332 std_dev=3.256
OP1 A 0, -0.972, 2.421, 5.813, 7.218 max_d=7.218 avg_d=2.421 std_dev=3.393
C8 B 0, -0.987, 2.511, 6.009, 7.458 max_d=7.458 avg_d=2.511 std_dev=3.498
OP2 A 0, -1.030, 2.554, 6.139, 7.623 max_d=7.623 avg_d=2.554 std_dev=3.584
N9 B 0, -1.026, 2.581, 6.189, 7.683 max_d=7.683 avg_d=2.581 std_dev=3.608
N7 B 0, -1.161, 2.916, 6.992, 8.681 max_d=8.681 avg_d=2.916 std_dev=4.077
C4 B 0, -1.222, 3.052, 7.326, 9.096 max_d=9.096 avg_d=3.052 std_dev=4.274
N3 B 0, -1.312, 3.296, 7.903, 9.811 max_d=9.811 avg_d=3.296 std_dev=4.607
C5 B 0, -1.328, 3.298, 7.925, 9.841 max_d=9.841 avg_d=3.298 std_dev=4.627
C2 B 0, -1.538, 3.857, 9.252, 11.487 max_d=11.487 avg_d=3.857 std_dev=5.395
C6 B 0, -1.585, 3.917, 9.418, 11.697 max_d=11.697 avg_d=3.917 std_dev=5.501
N1 B 0, -1.683, 4.196, 10.074, 12.509 max_d=12.509 avg_d=4.196 std_dev=5.878
N6 B 0, -1.738, 4.270, 10.279, 12.768 max_d=12.768 avg_d=4.270 std_dev=6.009

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 0.00 0.01 0.02 0.00 0.01 0.00 0.00 0.01 0.01 0.02 0.02 0.04 0.00 0.05 0.15 0.27 0.22
C2 0.01 0.00 0.05 0.08 0.01 0.02 0.01 0.08 0.01 0.00 0.00 0.01 0.00 0.06 0.04 0.01 0.20 0.01 0.89 0.54
C2' 0.00 0.05 0.00 0.00 0.08 0.01 0.07 0.01 0.05 0.04 0.07 0.10 0.03 0.00 0.02 0.01 0.28 0.05 0.14 0.25
C3' 0.00 0.08 0.00 0.00 0.16 0.00 0.17 0.02 0.14 0.09 0.12 0.18 0.03 0.01 0.00 0.02 0.43 0.28 0.03 0.29
C4 0.01 0.01 0.08 0.16 0.00 0.08 0.00 0.20 0.00 0.00 0.00 0.00 0.01 0.03 0.15 0.01 0.49 0.58 1.77 1.11
C4' 0.02 0.02 0.01 0.00 0.08 0.00 0.13 0.00 0.13 0.05 0.04 0.09 0.03 0.02 0.04 0.00 0.02 0.11 0.34 0.06
C5 0.00 0.01 0.07 0.17 0.00 0.13 0.00 0.26 0.00 0.00 0.01 0.00 0.01 0.01 0.18 0.01 0.65 0.89 2.02 1.34
C5' 0.01 0.08 0.01 0.02 0.20 0.00 0.26 0.00 0.25 0.12 0.13 0.21 0.01 0.02 0.02 0.00 0.00 0.18 0.34 0.01
C6 0.00 0.01 0.05 0.14 0.00 0.13 0.00 0.25 0.00 0.00 0.01 0.00 0.01 0.01 0.14 0.03 0.60 0.73 1.65 1.16
N1 0.00 0.00 0.04 0.09 0.00 0.05 0.00 0.12 0.00 0.00 0.00 0.00 0.00 0.03 0.06 0.01 0.30 0.21 0.98 0.67
N3 0.01 0.00 0.07 0.12 0.00 0.04 0.01 0.13 0.01 0.00 0.00 0.00 0.01 0.05 0.09 0.01 0.31 0.21 1.29 0.78
N4 0.01 0.01 0.10 0.18 0.00 0.09 0.00 0.21 0.00 0.00 0.00 0.00 0.01 0.02 0.18 0.01 0.53 0.69 1.98 1.22
O2 0.02 0.00 0.03 0.03 0.01 0.03 0.01 0.01 0.01 0.00 0.01 0.01 0.00 0.10 0.04 0.01 0.03 0.32 0.44 0.22
O2' 0.02 0.06 0.00 0.01 0.03 0.02 0.01 0.02 0.01 0.03 0.05 0.02 0.10 0.00 0.04 0.01 0.04 0.36 0.41 0.14
O3' 0.04 0.04 0.02 0.00 0.15 0.04 0.18 0.02 0.14 0.06 0.09 0.18 0.04 0.04 0.00 0.04 0.34 0.14 0.52 0.01
O4' 0.00 0.01 0.01 0.02 0.01 0.00 0.01 0.00 0.03 0.01 0.01 0.01 0.01 0.01 0.04 0.00 0.10 0.17 0.14 0.13
O5' 0.05 0.20 0.28 0.43 0.49 0.02 0.65 0.00 0.60 0.30 0.31 0.53 0.03 0.04 0.34 0.10 0.00 0.01 0.00 0.00
OP1 0.15 0.01 0.05 0.28 0.58 0.11 0.89 0.18 0.73 0.21 0.21 0.69 0.32 0.36 0.14 0.17 0.01 0.00 0.00 0.00
OP2 0.27 0.89 0.14 0.03 1.77 0.34 2.02 0.34 1.65 0.98 1.29 1.98 0.44 0.41 0.52 0.14 0.00 0.00 0.00 0.00
P 0.22 0.54 0.25 0.29 1.11 0.06 1.34 0.01 1.16 0.67 0.78 1.22 0.22 0.14 0.01 0.13 0.00 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 1.91 3.26 1.87 1.31 2.58 1.14 2.49 0.72 2.79 1.81 3.14 2.99 2.67 2.02 2.12 1.78 0.91 1.57 0.59 0.21 0.66 0.03
C2 2.22 4.00 2.03 1.39 3.22 1.23 3.31 0.75 3.77 2.38 4.11 3.54 3.73 2.75 2.62 1.86 0.86 1.81 0.75 0.22 0.60 0.15
C2' 1.58 2.98 1.54 1.11 2.29 0.90 2.28 0.59 2.63 1.59 2.96 2.65 2.60 1.84 1.82 1.40 0.73 1.27 0.54 0.16 0.59 0.04
C3' 1.23 2.21 1.22 0.96 1.72 0.80 1.68 0.60 1.92 1.18 2.17 2.00 1.89 1.36 1.38 1.09 0.70 1.04 0.51 0.23 0.46 0.07
C4 2.01 3.35 1.76 1.22 2.91 1.11 3.10 0.68 3.44 2.31 3.54 3.02 3.47 2.70 2.44 1.54 0.68 1.70 0.79 0.15 0.52 0.20
C4' 1.45 2.06 1.48 1.19 1.69 1.08 1.54 0.81 1.67 1.19 1.90 1.98 1.57 1.26 1.45 1.50 1.02 1.28 0.55 0.34 0.47 0.09
C5 1.78 2.75 1.59 1.16 2.46 1.04 2.51 0.66 2.71 1.92 2.82 2.56 2.67 2.17 2.10 1.36 0.64 1.53 0.75 0.12 0.60 0.13
C5' 1.12 1.16 1.15 1.10 1.05 1.09 0.91 0.94 0.91 0.80 1.02 1.21 0.82 0.77 1.00 1.22 1.13 1.13 0.58 0.51 0.25 0.20
C6 1.80 2.79 1.70 1.26 2.42 1.09 2.37 0.70 2.57 1.79 2.76 2.62 2.48 1.98 2.04 1.47 0.76 1.52 0.68 0.16 0.64 0.07
N1 2.02 3.42 1.91 1.35 2.81 1.17 2.77 0.74 3.09 2.03 3.39 3.13 2.99 2.29 2.31 1.73 0.86 1.66 0.68 0.20 0.64 0.09
N3 2.21 3.92 1.96 1.33 3.26 1.20 3.46 0.73 3.95 2.50 4.16 3.46 3.99 2.94 2.67 1.77 0.78 1.82 0.80 0.20 0.54 0.20
N4 1.92 3.18 1.63 1.10 2.80 1.03 3.08 0.61 3.42 2.32 3.44 2.85 3.56 2.76 2.36 1.43 0.58 1.63 0.79 0.11 0.41 0.25
O2 2.32 4.34 2.12 1.43 3.37 1.28 3.46 0.78 4.02 2.47 4.47 3.76 4.01 2.86 2.72 2.00 0.91 1.87 0.75 0.24 0.61 0.16
O2' 1.72 3.26 1.68 1.19 2.45 1.00 2.43 0.64 2.83 1.70 3.23 2.87 2.80 1.97 1.96 1.60 0.84 1.38 0.55 0.17 0.63 0.02
O3' 1.08 2.03 1.08 0.89 1.54 0.74 1.53 0.61 1.77 1.06 2.01 1.81 1.77 1.24 1.23 0.95 0.68 0.93 0.51 0.27 0.38 0.11
O4' 1.79 2.58 1.81 1.33 2.14 1.19 1.94 0.78 2.10 1.50 2.38 2.51 1.95 1.58 1.83 1.81 1.02 1.51 0.52 0.26 0.65 0.01
O5' 1.08 0.65 1.07 1.31 0.77 1.40 0.63 1.40 0.52 0.74 0.53 0.79 0.44 0.61 0.87 1.07 1.47 1.28 1.00 0.88 0.31 0.62
OP1 1.52 0.01 1.43 1.98 0.61 2.41 0.40 2.59 0.02 0.99 0.17 0.42 0.12 0.63 1.05 1.54 2.35 2.04 1.92 1.96 1.38 1.58
OP2 2.10 1.09 1.84 2.44 1.66 2.78 1.68 3.16 1.41 2.10 1.13 1.34 1.42 1.93 1.98 1.48 2.24 2.60 2.92 2.86 2.42 2.65
P 1.68 0.55 1.57 2.11 1.05 2.37 0.93 2.54 0.66 1.36 0.47 0.86 0.58 1.12 1.38 1.47 2.31 2.11 2.06 2.03 1.46 1.73

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.02 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.01 0.02 0.00 0.00 0.32 0.05 0.19
C2 0.00 0.00 0.16 0.18 0.01 0.09 0.00 0.06 0.00 0.00 0.00 0.00 0.01 0.00 0.01 0.14 0.22 0.02 0.05 0.10 0.14 0.13
C2' 0.00 0.16 0.00 0.00 0.08 0.00 0.05 0.02 0.08 0.05 0.12 0.16 0.07 0.01 0.01 0.00 0.02 0.00 0.09 0.16 0.20 0.02
C3' 0.01 0.18 0.00 0.00 0.05 0.00 0.00 0.02 0.05 0.16 0.13 0.16 0.03 0.11 0.05 0.00 0.00 0.01 0.15 0.02 0.33 0.15
C4 0.00 0.01 0.08 0.05 0.00 0.02 0.00 0.04 0.00 0.00 0.00 0.00 0.01 0.01 0.00 0.08 0.06 0.01 0.03 0.10 0.11 0.12
C4' 0.00 0.09 0.00 0.00 0.02 0.00 0.02 0.00 0.01 0.13 0.06 0.09 0.02 0.10 0.04 0.00 0.01 0.00 0.01 0.24 0.10 0.08
C5 0.00 0.00 0.05 0.00 0.00 0.02 0.00 0.10 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.07 0.01 0.00 0.07 0.01 0.16 0.09
C5' 0.02 0.06 0.02 0.02 0.04 0.00 0.10 0.00 0.06 0.24 0.01 0.06 0.10 0.21 0.10 0.00 0.00 0.01 0.00 0.09 0.09 0.01
C6 0.01 0.00 0.08 0.05 0.00 0.01 0.00 0.06 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.09 0.07 0.00 0.04 0.04 0.20 0.10
C8 0.00 0.00 0.05 0.16 0.00 0.13 0.00 0.24 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.16 0.02 0.18 0.04 0.09 0.08
N1 0.01 0.00 0.12 0.13 0.00 0.06 0.00 0.01 0.00 0.00 0.00 0.01 0.00 0.00 0.01 0.12 0.16 0.01 0.02 0.02 0.18 0.11
N3 0.00 0.00 0.16 0.16 0.00 0.09 0.00 0.06 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.13 0.19 0.02 0.04 0.15 0.10 0.14
N6 0.01 0.01 0.07 0.03 0.01 0.02 0.00 0.10 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.08 0.04 0.00 0.05 0.11 0.24 0.08
N7 0.00 0.00 0.01 0.11 0.01 0.10 0.00 0.21 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.03 0.12 0.02 0.16 0.07 0.15 0.06
N9 0.00 0.01 0.01 0.05 0.00 0.04 0.00 0.10 0.00 0.00 0.01 0.00 0.00 0.00 0.00 0.03 0.05 0.01 0.07 0.16 0.08 0.13
O2' 0.01 0.14 0.00 0.00 0.08 0.00 0.07 0.00 0.09 0.00 0.12 0.13 0.08 0.03 0.03 0.00 0.02 0.02 0.09 0.24 0.25 0.00
O3' 0.02 0.22 0.02 0.00 0.06 0.01 0.01 0.00 0.07 0.16 0.16 0.19 0.04 0.12 0.05 0.02 0.00 0.01 0.18 0.03 0.53 0.26
O4' 0.00 0.02 0.00 0.01 0.01 0.00 0.00 0.01 0.00 0.02 0.01 0.02 0.00 0.02 0.01 0.02 0.01 0.00 0.12 0.45 0.19 0.34
O5' 0.00 0.05 0.09 0.15 0.03 0.01 0.07 0.00 0.04 0.18 0.02 0.04 0.05 0.16 0.07 0.09 0.18 0.12 0.00 0.01 0.01 0.00
OP1 0.32 0.10 0.16 0.02 0.10 0.24 0.01 0.09 0.04 0.04 0.02 0.15 0.11 0.07 0.16 0.24 0.03 0.45 0.01 0.00 0.01 0.00
OP2 0.05 0.14 0.20 0.33 0.11 0.10 0.16 0.09 0.20 0.09 0.18 0.10 0.24 0.15 0.08 0.25 0.53 0.19 0.01 0.01 0.00 0.00
P 0.19 0.13 0.02 0.15 0.12 0.08 0.09 0.01 0.10 0.08 0.11 0.14 0.08 0.06 0.13 0.00 0.26 0.34 0.00 0.00 0.00 0.00