ClaRNA

Doublet Group distance statistics: 48326

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Distances from reference structure (by RMSD)

1, 0, 0, 0, 0, 0, 0, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C6 A 0, 0.005, 0.012, 0.020, 0.021 max_d=0.021 avg_d=0.012 std_dev=0.008
C5 A 0, 0.005, 0.019, 0.033, 0.034 max_d=0.034 avg_d=0.019 std_dev=0.014
C2 A 0, 0.010, 0.026, 0.041, 0.040 max_d=0.040 avg_d=0.026 std_dev=0.016
N1 A 0, 0.009, 0.026, 0.044, 0.043 max_d=0.043 avg_d=0.026 std_dev=0.018
C1' A 0, 0.012, 0.030, 0.048, 0.047 max_d=0.047 avg_d=0.030 std_dev=0.018
C4 A 0, 0.007, 0.025, 0.044, 0.052 max_d=0.052 avg_d=0.025 std_dev=0.018
N3 A 0, 0.012, 0.031, 0.050, 0.050 max_d=0.050 avg_d=0.031 std_dev=0.019
N9 A 0, 0.007, 0.026, 0.045, 0.049 max_d=0.049 avg_d=0.026 std_dev=0.019
N7 A 0, 0.010, 0.030, 0.049, 0.054 max_d=0.054 avg_d=0.030 std_dev=0.019
C8 A 0, 0.006, 0.032, 0.058, 0.066 max_d=0.066 avg_d=0.032 std_dev=0.026
N6 A 0, 0.013, 0.047, 0.080, 0.094 max_d=0.094 avg_d=0.047 std_dev=0.033
O2' B 0, 0.200, 0.497, 0.795, 0.755 max_d=0.755 avg_d=0.497 std_dev=0.297
C2' B 0, 0.234, 0.570, 0.906, 0.842 max_d=0.842 avg_d=0.570 std_dev=0.336
C2' A 0, 0.104, 0.744, 1.384, 1.494 max_d=1.494 avg_d=0.744 std_dev=0.640
O4' A 0, 0.008, 0.679, 1.349, 1.534 max_d=1.534 avg_d=0.679 std_dev=0.671
C4' A 0, 0.376, 1.115, 1.853, 1.824 max_d=1.824 avg_d=1.115 std_dev=0.738
C3' A 0, 0.497, 1.243, 1.989, 1.934 max_d=1.934 avg_d=1.243 std_dev=0.746
O2' A 0, 0.524, 1.510, 2.497, 2.494 max_d=2.494 avg_d=1.510 std_dev=0.987
C3' B 0, -0.183, 1.055, 2.292, 3.159 max_d=3.159 avg_d=1.055 std_dev=1.238
C1' B 0, 0.377, 1.683, 2.988, 3.661 max_d=3.661 avg_d=1.683 std_dev=1.305
C5' A 0, 0.437, 1.762, 3.087, 3.343 max_d=3.343 avg_d=1.762 std_dev=1.325
O3' A 0, 0.360, 1.775, 3.189, 3.724 max_d=3.724 avg_d=1.775 std_dev=1.415
O5' A 0, 0.090, 1.796, 3.502, 4.499 max_d=4.499 avg_d=1.796 std_dev=1.706
O3' B 0, 0.133, 1.861, 3.589, 4.681 max_d=4.681 avg_d=1.861 std_dev=1.728
N1 B 0, 0.531, 2.321, 4.111, 5.032 max_d=5.032 avg_d=2.321 std_dev=1.790
C6 B 0, 0.397, 2.312, 4.227, 5.305 max_d=5.305 avg_d=2.312 std_dev=1.915
C4' B 0, -0.074, 1.855, 3.784, 5.089 max_d=5.089 avg_d=1.855 std_dev=1.929
OP2 A 0, 0.820, 2.774, 4.728, 5.319 max_d=5.319 avg_d=2.774 std_dev=1.954
O4' B 0, 0.071, 2.043, 4.014, 5.279 max_d=5.279 avg_d=2.043 std_dev=1.972
P A 0, 0.431, 2.414, 4.396, 5.414 max_d=5.414 avg_d=2.414 std_dev=1.983
OP2 B 0, 1.245, 3.300, 5.355, 5.157 max_d=5.157 avg_d=3.300 std_dev=2.055
O5' B 0, 0.178, 2.345, 4.513, 5.761 max_d=5.761 avg_d=2.345 std_dev=2.167
OP1 A 0, 0.765, 3.009, 5.252, 6.326 max_d=6.326 avg_d=3.009 std_dev=2.244
C5' B 0, 0.042, 2.321, 4.600, 6.001 max_d=6.001 avg_d=2.321 std_dev=2.279
C2 B 0, 0.929, 3.317, 5.705, 6.674 max_d=6.674 avg_d=3.317 std_dev=2.388
O2 B 0, 1.150, 3.538, 5.926, 6.449 max_d=6.449 avg_d=3.538 std_dev=2.388
C5 B 0, 0.697, 3.201, 5.705, 7.027 max_d=7.027 avg_d=3.201 std_dev=2.504
P B 0, 0.918, 3.425, 5.933, 6.830 max_d=6.830 avg_d=3.425 std_dev=2.507
OP1 B 0, 1.209, 4.343, 7.476, 8.371 max_d=8.371 avg_d=4.343 std_dev=3.134
N3 B 0, 1.047, 4.185, 7.324, 8.764 max_d=8.764 avg_d=4.185 std_dev=3.138
C4 B 0, 0.923, 4.106, 7.288, 8.919 max_d=8.919 avg_d=4.106 std_dev=3.183
N4 B 0, 1.109, 5.078, 9.048, 11.087 max_d=11.087 avg_d=5.078 std_dev=3.970

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.06 0.01 0.01 0.02 0.01 0.01 0.07 0.02 0.01 0.05 0.06 0.01 0.00 0.00 0.01 0.29 0.01 0.18 0.23 0.65 0.35
C2 0.06 0.00 0.47 0.34 0.01 0.32 0.01 0.44 0.01 0.01 0.00 0.00 0.00 0.01 0.02 0.49 0.42 0.50 0.14 0.26 0.72 0.33
C2' 0.01 0.47 0.00 0.00 0.25 0.01 0.13 0.18 0.23 0.25 0.36 0.47 0.19 0.14 0.03 0.00 0.03 0.03 0.37 0.39 0.72 0.37
C3' 0.01 0.34 0.00 0.00 0.27 0.01 0.33 0.03 0.35 0.41 0.33 0.32 0.40 0.42 0.22 0.01 0.01 0.02 0.37 0.44 0.47 0.26
C4 0.02 0.01 0.25 0.27 0.00 0.10 0.00 0.18 0.00 0.00 0.02 0.00 0.01 0.00 0.01 0.18 0.16 0.25 0.31 0.44 0.77 0.46
C4' 0.01 0.32 0.01 0.01 0.10 0.00 0.07 0.01 0.08 0.30 0.22 0.31 0.07 0.24 0.08 0.24 0.02 0.00 0.01 0.14 0.48 0.13
C5 0.01 0.01 0.13 0.33 0.00 0.07 0.00 0.09 0.01 0.00 0.00 0.01 0.02 0.00 0.00 0.20 0.09 0.11 0.55 0.72 0.92 0.66
C5' 0.07 0.44 0.18 0.03 0.18 0.01 0.09 0.00 0.15 0.30 0.33 0.41 0.11 0.24 0.04 0.06 0.24 0.02 0.01 0.22 0.37 0.00
C6 0.02 0.01 0.23 0.35 0.00 0.08 0.01 0.15 0.00 0.01 0.00 0.01 0.00 0.02 0.01 0.19 0.12 0.22 0.49 0.69 0.92 0.62
C8 0.01 0.01 0.25 0.41 0.00 0.30 0.00 0.30 0.01 0.00 0.00 0.01 0.04 0.00 0.00 0.53 0.31 0.24 0.81 0.90 0.96 0.85
N1 0.05 0.00 0.36 0.33 0.02 0.22 0.00 0.33 0.00 0.00 0.00 0.01 0.00 0.01 0.02 0.33 0.27 0.39 0.27 0.45 0.80 0.44
N3 0.06 0.00 0.47 0.32 0.00 0.31 0.01 0.41 0.01 0.01 0.01 0.00 0.01 0.00 0.02 0.49 0.43 0.49 0.12 0.21 0.70 0.32
N6 0.01 0.00 0.19 0.40 0.01 0.07 0.02 0.11 0.00 0.04 0.00 0.01 0.00 0.05 0.02 0.20 0.17 0.13 0.64 0.89 1.05 0.78
N7 0.00 0.01 0.14 0.42 0.00 0.24 0.00 0.24 0.02 0.00 0.01 0.00 0.05 0.00 0.00 0.45 0.29 0.12 0.82 0.99 1.05 0.90
N9 0.00 0.02 0.03 0.22 0.01 0.08 0.00 0.04 0.01 0.00 0.02 0.02 0.02 0.00 0.00 0.19 0.08 0.01 0.43 0.51 0.76 0.52
O2' 0.01 0.49 0.00 0.01 0.18 0.24 0.20 0.06 0.19 0.53 0.33 0.49 0.20 0.45 0.19 0.00 0.06 0.15 0.25 0.39 0.81 0.35
O3' 0.29 0.42 0.03 0.01 0.16 0.02 0.09 0.24 0.12 0.31 0.27 0.43 0.17 0.29 0.08 0.06 0.00 0.18 0.35 0.67 0.33 0.32
O4' 0.01 0.50 0.03 0.02 0.25 0.00 0.11 0.02 0.22 0.24 0.39 0.49 0.13 0.12 0.01 0.15 0.18 0.00 0.31 0.43 0.74 0.53
O5' 0.18 0.14 0.37 0.37 0.31 0.01 0.55 0.01 0.49 0.81 0.27 0.12 0.64 0.82 0.43 0.25 0.35 0.31 0.00 0.01 0.01 0.00
OP1 0.23 0.26 0.39 0.44 0.44 0.14 0.72 0.22 0.69 0.90 0.45 0.21 0.89 0.99 0.51 0.39 0.67 0.43 0.01 0.00 0.01 0.01
OP2 0.65 0.72 0.72 0.47 0.77 0.48 0.92 0.37 0.92 0.96 0.80 0.70 1.05 1.05 0.76 0.81 0.33 0.74 0.01 0.01 0.00 0.00
P 0.35 0.33 0.37 0.26 0.46 0.13 0.66 0.00 0.62 0.85 0.44 0.32 0.78 0.90 0.52 0.35 0.32 0.53 0.00 0.01 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.16 1.60 0.15 0.81 2.57 1.24 2.03 1.39 1.27 0.98 2.36 3.24 1.50 0.19 1.16 0.63 1.33 2.29 1.65 1.66
C2 0.35 1.36 0.20 0.97 2.11 1.42 1.78 1.50 1.11 0.81 1.89 2.54 1.45 0.22 1.38 0.80 1.26 2.01 1.53 1.48
C2' 0.40 1.21 0.51 1.23 2.09 1.77 1.54 2.04 0.83 0.52 1.95 2.77 1.23 0.48 1.48 1.15 2.02 3.09 2.04 2.38
C3' 0.47 1.14 0.53 1.21 2.21 1.76 1.69 1.98 0.94 0.52 1.97 2.98 1.08 0.55 1.41 1.21 2.03 3.04 2.12 2.40
C4 0.15 1.50 0.15 0.76 2.39 1.18 1.93 1.26 1.24 0.94 2.19 2.91 1.37 0.21 1.07 0.62 1.15 1.91 1.46 1.39
C4' 0.17 1.73 0.26 0.76 2.92 1.17 2.38 1.35 1.53 1.13 2.61 3.75 1.52 0.20 1.05 0.60 1.48 2.46 2.03 1.91
C5 0.14 1.50 0.14 0.58 2.28 0.95 1.86 0.96 1.26 1.00 2.15 2.69 1.29 0.20 0.78 0.47 0.88 1.45 1.26 1.05
C5' 0.38 1.90 0.39 0.70 3.17 1.05 2.60 1.21 1.74 1.32 2.84 4.04 1.60 0.26 0.90 0.59 1.44 2.32 2.11 1.88
C6 0.14 1.37 0.13 0.54 2.05 0.89 1.74 0.84 1.23 0.96 1.90 2.32 1.11 0.20 0.73 0.45 0.73 1.17 1.20 0.88
C8 0.16 1.61 0.13 0.55 2.45 0.93 1.94 0.99 1.28 1.04 2.33 2.98 1.42 0.19 0.75 0.45 0.96 1.63 1.29 1.17
N1 0.24 1.21 0.17 0.80 1.93 1.19 1.70 1.15 1.15 0.81 1.71 2.22 1.15 0.23 1.11 0.66 0.94 1.46 1.33 1.10
N3 0.29 1.45 0.18 0.94 2.31 1.39 1.88 1.52 1.15 0.86 2.09 2.86 1.47 0.22 1.34 0.77 1.35 2.22 1.60 1.61
N6 0.32 1.38 0.17 0.25 1.81 0.53 1.57 0.44 1.22 1.05 1.74 1.96 1.11 0.16 0.30 0.24 0.37 0.62 1.06 0.53
N7 0.21 1.59 0.13 0.44 2.33 0.80 1.86 0.81 1.27 1.06 2.25 2.75 1.40 0.19 0.58 0.37 0.77 1.31 1.17 0.94
N9 0.13 1.57 0.14 0.72 2.49 1.13 1.98 1.23 1.27 0.98 2.32 3.09 1.43 0.20 1.01 0.57 1.17 1.97 1.47 1.42
O2' 0.32 1.31 0.45 1.24 2.02 1.78 1.46 2.16 0.82 0.60 1.97 2.63 1.40 0.38 1.55 1.11 2.12 3.35 2.21 2.56
O3' 0.43 1.24 0.44 1.14 2.33 1.74 1.89 2.05 1.18 0.71 2.05 3.09 1.15 0.34 1.34 1.21 2.21 3.32 2.51 2.70
O4' 0.40 1.96 0.33 0.56 3.12 0.87 2.59 1.01 1.75 1.38 2.82 3.90 1.72 0.20 0.91 0.30 1.11 2.02 1.87 1.53
O5' 0.30 1.64 0.29 0.70 2.85 1.11 2.24 1.10 1.35 1.00 2.55 3.73 1.43 0.55 0.93 0.62 1.04 1.83 1.44 1.29
OP1 0.45 1.26 0.65 1.05 2.58 1.39 2.02 1.35 1.16 0.72 2.22 3.47 0.90 0.92 1.24 0.91 1.35 1.97 1.54 1.51
OP2 0.77 1.11 0.96 1.35 2.28 1.72 1.71 1.72 0.98 0.65 2.02 3.08 0.78 1.15 1.46 1.26 1.70 2.27 1.48 1.75
P 0.37 1.37 0.59 1.01 2.65 1.36 2.06 1.34 1.20 0.79 2.33 3.52 1.03 0.83 1.21 0.86 1.33 1.98 1.51 1.48

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.03 0.01 0.00 0.01 0.00 0.02 0.05 0.03 0.00 0.02 0.01 0.05 0.01 0.28 0.00 0.05 0.06 0.59 0.25
C2 0.03 0.00 0.26 0.32 0.00 0.06 0.01 0.07 0.01 0.01 0.00 0.01 0.01 0.07 0.12 0.11 0.12 0.11 0.63 0.27
C2' 0.01 0.26 0.00 0.00 0.03 0.01 0.17 0.17 0.24 0.02 0.20 0.03 0.45 0.00 0.02 0.02 0.48 0.41 0.93 0.63
C3' 0.00 0.32 0.00 0.00 0.35 0.00 0.28 0.01 0.21 0.22 0.37 0.38 0.32 0.01 0.00 0.02 0.36 0.25 0.40 0.34
C4 0.01 0.00 0.03 0.35 0.00 0.13 0.00 0.13 0.00 0.00 0.00 0.00 0.02 0.32 0.17 0.01 0.24 0.26 0.64 0.30
C4' 0.00 0.06 0.01 0.00 0.13 0.00 0.16 0.00 0.16 0.09 0.09 0.14 0.04 0.24 0.03 0.00 0.02 0.28 0.18 0.03
C5 0.02 0.01 0.17 0.28 0.00 0.16 0.00 0.16 0.00 0.00 0.00 0.01 0.02 0.47 0.15 0.08 0.26 0.28 0.64 0.29
C5' 0.05 0.07 0.17 0.01 0.13 0.00 0.16 0.00 0.14 0.07 0.10 0.14 0.08 0.06 0.20 0.02 0.00 0.28 0.16 0.01
C6 0.03 0.01 0.24 0.21 0.00 0.16 0.00 0.14 0.00 0.00 0.01 0.01 0.02 0.45 0.08 0.12 0.21 0.19 0.63 0.25
N1 0.00 0.01 0.02 0.22 0.00 0.09 0.00 0.07 0.00 0.00 0.01 0.01 0.02 0.19 0.05 0.01 0.11 0.09 0.61 0.24
N3 0.02 0.00 0.20 0.37 0.00 0.09 0.00 0.10 0.01 0.01 0.00 0.02 0.02 0.14 0.16 0.08 0.18 0.18 0.64 0.29
N4 0.01 0.01 0.03 0.38 0.00 0.14 0.01 0.14 0.01 0.01 0.02 0.00 0.00 0.35 0.23 0.01 0.25 0.33 0.64 0.33
O2 0.05 0.01 0.45 0.32 0.02 0.04 0.02 0.08 0.02 0.02 0.02 0.00 0.00 0.30 0.19 0.18 0.07 0.05 0.61 0.25
O2' 0.01 0.07 0.00 0.01 0.32 0.24 0.47 0.06 0.45 0.19 0.14 0.35 0.30 0.00 0.05 0.16 0.35 0.25 0.93 0.51
O3' 0.28 0.12 0.02 0.00 0.17 0.03 0.15 0.20 0.08 0.05 0.16 0.23 0.19 0.05 0.00 0.19 0.36 0.58 0.36 0.38
O4' 0.00 0.11 0.02 0.02 0.01 0.00 0.08 0.02 0.12 0.01 0.08 0.01 0.18 0.16 0.19 0.00 0.26 0.30 0.35 0.18
O5' 0.05 0.12 0.48 0.36 0.24 0.02 0.26 0.00 0.21 0.11 0.18 0.25 0.07 0.35 0.36 0.26 0.00 0.01 0.01 0.00
OP1 0.06 0.11 0.41 0.25 0.26 0.28 0.28 0.28 0.19 0.09 0.18 0.33 0.05 0.25 0.58 0.30 0.01 0.00 0.01 0.00
OP2 0.59 0.63 0.93 0.40 0.64 0.18 0.64 0.16 0.63 0.61 0.64 0.64 0.61 0.93 0.36 0.35 0.01 0.01 0.00 0.00
P 0.25 0.27 0.63 0.34 0.30 0.03 0.29 0.01 0.25 0.24 0.29 0.33 0.25 0.51 0.38 0.18 0.00 0.00 0.00 0.00