ClaRNA

Doublet Group distance statistics: 48719

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N3 A 0, 0.003, 0.006, 0.009, 0.009 max_d=0.009 avg_d=0.006 std_dev=0.003
C5 A 0, 0.004, 0.009, 0.014, 0.015 max_d=0.015 avg_d=0.009 std_dev=0.005
N1 A 0, 0.003, 0.013, 0.023, 0.026 max_d=0.026 avg_d=0.013 std_dev=0.010
C1' A 0, 0.007, 0.019, 0.031, 0.035 max_d=0.035 avg_d=0.019 std_dev=0.012
C4 A 0, 0.005, 0.017, 0.030, 0.034 max_d=0.034 avg_d=0.017 std_dev=0.012
C6 A 0, 0.002, 0.015, 0.028, 0.033 max_d=0.033 avg_d=0.015 std_dev=0.013
C2 A 0, 0.003, 0.017, 0.031, 0.035 max_d=0.035 avg_d=0.017 std_dev=0.014
O2 A 0, 0.010, 0.035, 0.059, 0.071 max_d=0.071 avg_d=0.035 std_dev=0.024
O4 A 0, 0.056, 0.141, 0.227, 0.243 max_d=0.243 avg_d=0.141 std_dev=0.085
P B 0, 0.395, 0.744, 1.094, 1.085 max_d=1.085 avg_d=0.744 std_dev=0.349
O4' A 0, 0.265, 0.824, 1.384, 1.905 max_d=1.905 avg_d=0.824 std_dev=0.559
OP2 B 0, 0.585, 1.145, 1.706, 1.657 max_d=1.657 avg_d=1.145 std_dev=0.561
C2' A 0, 0.165, 0.780, 1.396, 2.015 max_d=2.015 avg_d=0.780 std_dev=0.615
OP1 B 0, 0.725, 1.377, 2.028, 1.933 max_d=1.933 avg_d=1.377 std_dev=0.652
O2' A 0, 0.339, 1.081, 1.822, 2.441 max_d=2.441 avg_d=1.081 std_dev=0.742
C4' A 0, 0.373, 1.191, 2.009, 2.774 max_d=2.774 avg_d=1.191 std_dev=0.818
C3' A 0, 0.536, 1.438, 2.341, 3.107 max_d=3.107 avg_d=1.438 std_dev=0.902
O5' B 0, 0.177, 1.220, 2.263, 3.191 max_d=3.191 avg_d=1.220 std_dev=1.043
O3' A 0, 1.098, 2.475, 3.853, 4.759 max_d=4.759 avg_d=2.475 std_dev=1.378
C5' A 0, 0.106, 1.589, 3.071, 4.734 max_d=4.734 avg_d=1.589 std_dev=1.483
C5' B 0, 0.578, 2.103, 3.628, 4.756 max_d=4.756 avg_d=2.103 std_dev=1.525
O5' A 0, 0.077, 2.295, 4.514, 7.053 max_d=7.053 avg_d=2.295 std_dev=2.218
C4' B 0, 0.637, 2.893, 5.149, 7.292 max_d=7.292 avg_d=2.893 std_dev=2.256
O4' B 0, 1.344, 3.635, 5.925, 7.571 max_d=7.571 avg_d=3.635 std_dev=2.290
C6 B 0, 1.789, 4.241, 6.692, 8.208 max_d=8.208 avg_d=4.241 std_dev=2.451
C5 B 0, 2.551, 5.362, 8.173, 9.367 max_d=9.367 avg_d=5.362 std_dev=2.811
C3' B 0, -0.668, 2.224, 5.116, 8.541 max_d=8.541 avg_d=2.224 std_dev=2.892
N1 B 0, 1.777, 4.697, 7.616, 9.926 max_d=9.926 avg_d=4.697 std_dev=2.920
C1' B 0, 1.129, 4.072, 7.015, 9.814 max_d=9.814 avg_d=4.072 std_dev=2.943
P A 0, -0.745, 2.207, 5.159, 8.691 max_d=8.691 avg_d=2.207 std_dev=2.952
OP2 A 0, -0.309, 2.863, 6.035, 9.731 max_d=9.731 avg_d=2.863 std_dev=3.172
O3' B 0, -0.345, 2.846, 6.037, 9.798 max_d=9.798 avg_d=2.846 std_dev=3.191
OP1 A 0, -1.313, 1.897, 5.107, 9.034 max_d=9.034 avg_d=1.897 std_dev=3.210
C2' B 0, -0.280, 3.164, 6.608, 10.622 max_d=10.622 avg_d=3.164 std_dev=3.444
C4 B 0, 3.400, 6.980, 10.560, 12.016 max_d=12.016 avg_d=6.980 std_dev=3.580
C2 B 0, 2.536, 6.143, 9.750, 12.403 max_d=12.403 avg_d=6.143 std_dev=3.607
N3 B 0, 3.324, 7.171, 11.018, 13.140 max_d=13.140 avg_d=7.171 std_dev=3.847
O2' B 0, -0.270, 3.828, 7.926, 12.702 max_d=12.702 avg_d=3.828 std_dev=4.098
O4 B 0, 4.171, 8.275, 12.378, 13.594 max_d=13.594 avg_d=8.275 std_dev=4.103
O2 B 0, 2.533, 6.640, 10.747, 14.140 max_d=14.140 avg_d=6.640 std_dev=4.107

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.00 0.01 0.00 0.01 0.07 0.01 0.01 0.01 0.03 0.03 0.21 0.01 0.00 0.33 0.27 0.31 0.32
C2 0.02 0.00 0.14 0.12 0.00 0.18 0.01 0.29 0.00 0.00 0.00 0.00 0.40 0.17 0.01 0.19 0.16 0.04 0.20 0.09
C2' 0.00 0.14 0.00 0.00 0.02 0.03 0.10 0.14 0.15 0.01 0.11 0.24 0.00 0.04 0.03 0.02 0.56 0.49 0.53 0.54
C3' 0.00 0.12 0.00 0.00 0.31 0.00 0.37 0.02 0.34 0.18 0.21 0.06 0.02 0.01 0.33 0.02 0.29 0.27 0.11 0.24
C4 0.01 0.00 0.02 0.31 0.00 0.14 0.00 0.19 0.00 0.01 0.00 0.01 0.28 0.24 0.00 0.03 0.37 0.43 0.53 0.47
C4' 0.00 0.18 0.03 0.00 0.14 0.00 0.05 0.00 0.02 0.08 0.19 0.22 0.20 0.03 0.17 0.00 0.01 0.07 0.19 0.03
C5 0.01 0.01 0.10 0.37 0.00 0.05 0.00 0.09 0.00 0.01 0.01 0.01 0.14 0.39 0.01 0.11 0.72 0.81 0.93 0.90
C5' 0.07 0.29 0.14 0.02 0.19 0.00 0.09 0.00 0.16 0.09 0.31 0.40 0.06 0.17 0.24 0.01 0.01 0.13 0.33 0.02
C6 0.01 0.00 0.15 0.34 0.00 0.02 0.00 0.16 0.00 0.01 0.00 0.01 0.11 0.34 0.01 0.17 0.80 0.81 0.90 0.92
N1 0.01 0.00 0.01 0.18 0.01 0.08 0.01 0.09 0.01 0.00 0.00 0.01 0.17 0.11 0.01 0.01 0.39 0.35 0.43 0.42
N3 0.01 0.00 0.11 0.21 0.00 0.19 0.01 0.31 0.00 0.00 0.00 0.00 0.40 0.11 0.01 0.14 0.17 0.09 0.26 0.14
O2 0.03 0.00 0.24 0.06 0.01 0.22 0.01 0.40 0.01 0.01 0.00 0.00 0.55 0.39 0.01 0.31 0.36 0.34 0.32 0.35
O2' 0.03 0.40 0.00 0.02 0.28 0.20 0.14 0.06 0.11 0.17 0.40 0.55 0.00 0.11 0.31 0.14 0.30 0.21 0.44 0.32
O3' 0.21 0.17 0.04 0.01 0.24 0.03 0.39 0.17 0.34 0.11 0.11 0.39 0.11 0.00 0.28 0.16 0.19 0.23 0.36 0.20
O4 0.01 0.01 0.03 0.33 0.00 0.17 0.01 0.24 0.01 0.01 0.01 0.01 0.31 0.28 0.00 0.05 0.33 0.40 0.50 0.43
O4' 0.00 0.19 0.02 0.02 0.03 0.00 0.11 0.01 0.17 0.01 0.14 0.31 0.14 0.16 0.05 0.00 0.07 0.07 0.13 0.10
O5' 0.33 0.16 0.56 0.29 0.37 0.01 0.72 0.01 0.80 0.39 0.17 0.36 0.30 0.19 0.33 0.07 0.00 0.02 0.01 0.01
OP1 0.27 0.04 0.49 0.27 0.43 0.07 0.81 0.13 0.81 0.35 0.09 0.34 0.21 0.23 0.40 0.07 0.02 0.00 0.01 0.00
OP2 0.31 0.20 0.53 0.11 0.53 0.19 0.93 0.33 0.90 0.43 0.26 0.32 0.44 0.36 0.50 0.13 0.01 0.01 0.00 0.00
P 0.32 0.09 0.54 0.24 0.47 0.03 0.90 0.02 0.92 0.42 0.14 0.35 0.32 0.20 0.43 0.10 0.01 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 2.76 3.44 3.01 2.29 2.73 1.76 2.14 0.97 2.21 2.84 3.34 3.87 3.11 2.15 2.63 2.07 0.86 0.30 0.51 0.29
C2 2.29 3.09 2.26 1.63 2.82 1.34 2.23 0.75 2.13 2.54 3.22 3.29 2.24 1.32 2.82 1.76 0.70 0.28 0.41 0.30
C2' 2.38 3.00 2.76 2.14 2.32 1.50 1.73 0.71 1.79 2.42 2.91 3.46 2.91 2.16 2.26 1.69 0.64 0.43 0.62 0.31
C3' 2.18 2.78 2.61 1.93 2.03 1.26 1.43 0.42 1.50 2.17 2.65 3.31 2.85 2.01 1.97 1.45 0.31 0.72 0.73 0.48
C4 1.56 2.11 1.44 1.04 2.13 0.91 1.76 0.55 1.62 1.80 2.26 2.14 1.37 0.75 2.14 1.26 0.56 0.29 0.33 0.30
C4' 2.85 3.36 3.23 2.45 2.51 1.85 1.97 0.96 2.09 2.79 3.15 3.91 3.49 2.42 2.40 2.12 0.81 0.27 0.60 0.26
C5 1.79 2.20 1.85 1.49 1.93 1.18 1.63 0.70 1.64 1.94 2.19 2.30 1.77 1.27 1.84 1.41 0.70 0.33 0.41 0.29
C5' 2.74 3.05 3.14 2.48 2.26 1.90 1.83 1.05 1.98 2.61 2.81 3.52 3.42 2.53 2.13 2.11 0.89 0.18 0.74 0.36
C6 2.26 2.71 2.46 1.99 2.19 1.52 1.78 0.87 1.87 2.35 2.61 2.93 2.41 1.81 2.05 1.74 0.82 0.32 0.48 0.28
N1 2.47 3.14 2.61 2.00 2.60 1.55 2.08 0.87 2.10 2.62 3.10 3.42 2.61 1.77 2.52 1.88 0.80 0.30 0.47 0.29
N3 1.87 2.59 1.73 1.21 2.58 1.06 2.08 0.62 1.91 2.16 2.80 2.68 1.67 0.88 2.64 1.48 0.60 0.27 0.34 0.30
O2 2.39 3.30 2.33 1.63 3.06 1.36 2.39 0.75 2.25 2.67 3.49 3.55 2.35 1.31 3.13 1.84 0.69 0.27 0.40 0.31
O2' 2.46 3.19 2.81 2.17 2.59 1.53 1.94 0.75 1.94 2.55 3.17 3.65 2.95 2.16 2.59 1.75 0.72 0.32 0.63 0.34
O3' 2.02 2.78 2.45 1.70 2.07 0.99 1.39 0.24 1.39 2.07 2.71 3.35 2.71 1.79 2.08 1.22 0.19 0.91 0.99 0.78
O4 1.06 1.55 0.84 0.52 1.79 0.57 1.51 0.41 1.27 1.31 1.76 1.52 0.76 0.27 1.90 0.91 0.43 0.25 0.24 0.29
O4' 3.15 3.74 3.42 2.60 2.88 2.09 2.34 1.23 2.47 3.16 3.53 4.25 3.57 2.41 2.74 2.44 1.07 0.20 0.70 0.46
O5' 3.03 3.28 3.35 2.89 2.65 2.35 2.31 1.64 2.45 2.95 3.09 3.61 3.45 2.89 2.53 2.52 1.55 0.76 1.39 1.09
OP1 2.99 3.06 3.25 2.96 2.50 2.57 2.26 1.98 2.41 2.83 2.87 3.35 3.44 3.16 2.38 2.63 1.83 1.11 1.95 1.50
OP2 2.25 2.40 2.39 2.28 2.11 1.92 1.93 1.54 2.00 2.24 2.32 2.53 2.31 2.23 2.04 1.99 1.60 1.12 1.83 1.46
P 2.96 3.03 3.20 2.97 2.53 2.54 2.30 1.97 2.45 2.84 2.86 3.27 3.26 3.08 2.40 2.62 1.87 1.14 1.90 1.53

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.01 0.00 0.01 0.01 0.00 0.01 0.03 0.01 0.00 0.01 0.01 0.01 0.02 0.01 0.00 0.11 0.24 0.41 0.18
C2 0.01 0.00 0.05 0.06 0.00 0.02 0.00 0.08 0.00 0.01 0.00 0.00 0.08 0.07 0.00 0.03 0.19 0.56 0.64 0.32
C2' 0.00 0.05 0.00 0.00 0.04 0.01 0.06 0.02 0.07 0.02 0.04 0.11 0.00 0.02 0.04 0.01 0.07 0.23 0.21 0.04
C3' 0.01 0.06 0.00 0.00 0.13 0.00 0.16 0.02 0.15 0.07 0.08 0.09 0.01 0.01 0.13 0.01 0.03 0.14 0.26 0.05
C4 0.01 0.00 0.04 0.13 0.00 0.09 0.00 0.19 0.00 0.01 0.00 0.00 0.04 0.14 0.00 0.02 0.32 0.86 0.98 0.57
C4' 0.00 0.02 0.01 0.00 0.09 0.00 0.12 0.00 0.11 0.05 0.05 0.03 0.04 0.03 0.09 0.00 0.02 0.04 0.08 0.02
C5 0.01 0.00 0.06 0.16 0.00 0.12 0.00 0.22 0.00 0.01 0.00 0.01 0.03 0.19 0.00 0.03 0.37 0.84 1.08 0.65
C5' 0.03 0.08 0.02 0.02 0.19 0.00 0.22 0.00 0.20 0.11 0.13 0.04 0.04 0.02 0.20 0.01 0.01 0.17 0.08 0.01
C6 0.01 0.00 0.07 0.15 0.00 0.11 0.00 0.20 0.00 0.00 0.00 0.01 0.04 0.17 0.00 0.03 0.33 0.64 0.93 0.55
N1 0.00 0.01 0.02 0.07 0.01 0.05 0.01 0.11 0.00 0.00 0.01 0.01 0.02 0.07 0.00 0.01 0.21 0.49 0.66 0.35
N3 0.01 0.00 0.04 0.08 0.00 0.05 0.00 0.13 0.00 0.01 0.00 0.00 0.07 0.10 0.01 0.02 0.25 0.72 0.80 0.43
O2 0.01 0.00 0.11 0.09 0.00 0.03 0.01 0.04 0.01 0.01 0.00 0.00 0.13 0.13 0.01 0.04 0.13 0.47 0.50 0.21
O2' 0.01 0.08 0.00 0.01 0.04 0.04 0.03 0.04 0.04 0.02 0.07 0.13 0.00 0.04 0.04 0.04 0.06 0.16 0.21 0.02
O3' 0.02 0.07 0.02 0.01 0.14 0.03 0.19 0.02 0.17 0.07 0.10 0.13 0.04 0.00 0.16 0.02 0.02 0.10 0.54 0.17
O4 0.01 0.00 0.04 0.13 0.00 0.09 0.00 0.20 0.00 0.00 0.01 0.01 0.04 0.16 0.00 0.02 0.34 0.94 1.04 0.62
O4' 0.00 0.03 0.01 0.01 0.02 0.00 0.03 0.01 0.03 0.01 0.02 0.04 0.04 0.02 0.02 0.00 0.07 0.08 0.41 0.16
O5' 0.11 0.19 0.07 0.03 0.32 0.02 0.37 0.01 0.33 0.21 0.25 0.13 0.06 0.02 0.34 0.07 0.00 0.01 0.01 0.00
OP1 0.24 0.56 0.23 0.14 0.86 0.04 0.84 0.17 0.64 0.49 0.72 0.47 0.16 0.10 0.94 0.08 0.01 0.00 0.00 0.01
OP2 0.41 0.64 0.21 0.26 0.98 0.08 1.08 0.08 0.93 0.66 0.80 0.50 0.21 0.54 1.04 0.41 0.01 0.00 0.00 0.01
P 0.18 0.32 0.04 0.05 0.57 0.02 0.65 0.01 0.55 0.35 0.43 0.21 0.02 0.17 0.62 0.16 0.00 0.01 0.01 0.00