ClaRNA

Doublet Group distance statistics: 55058

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Distances from reference structure (by RMSD)

2, 0, 0, 0, 0, 0, 0, 0, 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
C2 A 0, 0.001, 0.003, 0.006, 0.006 max_d=0.006 avg_d=0.003 std_dev=0.002
C6 A 0, 0.001, 0.007, 0.012, 0.013 max_d=0.013 avg_d=0.007 std_dev=0.005
N9 A 0, 0.001, 0.007, 0.013, 0.015 max_d=0.015 avg_d=0.007 std_dev=0.006
N1 A 0, 0.002, 0.009, 0.016, 0.016 max_d=0.016 avg_d=0.009 std_dev=0.007
C4 A 0, 0.003, 0.009, 0.016, 0.016 max_d=0.016 avg_d=0.009 std_dev=0.007
C1' A 0, 0.001, 0.009, 0.016, 0.018 max_d=0.018 avg_d=0.009 std_dev=0.008
C5 A 0, 0.002, 0.010, 0.018, 0.020 max_d=0.020 avg_d=0.010 std_dev=0.008
N3 A 0, 0.003, 0.011, 0.019, 0.019 max_d=0.019 avg_d=0.011 std_dev=0.008
C8 A 0, 0.002, 0.011, 0.021, 0.023 max_d=0.023 avg_d=0.011 std_dev=0.010
N7 A 0, 0.002, 0.016, 0.030, 0.033 max_d=0.033 avg_d=0.016 std_dev=0.014
N6 A 0, 0.003, 0.019, 0.034, 0.037 max_d=0.037 avg_d=0.019 std_dev=0.015
P B 0, -0.086, 0.250, 0.586, 0.725 max_d=0.725 avg_d=0.250 std_dev=0.336
OP1 B 0, -0.162, 0.505, 1.172, 1.448 max_d=1.448 avg_d=0.505 std_dev=0.667
OP2 B 0, -0.230, 0.593, 1.416, 1.757 max_d=1.757 avg_d=0.593 std_dev=0.823
O4' A 0, -0.364, 0.901, 2.166, 2.690 max_d=2.690 avg_d=0.901 std_dev=1.265
C2' A 0, -0.378, 0.939, 2.256, 2.802 max_d=2.802 avg_d=0.939 std_dev=1.317
O3' A 0, -0.482, 1.210, 2.903, 3.604 max_d=3.604 avg_d=1.210 std_dev=1.692
O5' B 0, -0.499, 1.240, 2.979, 3.699 max_d=3.699 avg_d=1.240 std_dev=1.739
C3' A 0, -0.506, 1.242, 2.990, 3.715 max_d=3.715 avg_d=1.242 std_dev=1.748
C4' A 0, -0.529, 1.299, 3.128, 3.885 max_d=3.885 avg_d=1.299 std_dev=1.828
O2' A 0, -0.540, 1.341, 3.223, 4.002 max_d=4.002 avg_d=1.341 std_dev=1.882
C5' B 0, -0.608, 1.517, 3.643, 4.524 max_d=4.524 avg_d=1.517 std_dev=2.126
C5' A 0, -0.894, 2.178, 5.249, 6.521 max_d=6.521 avg_d=2.178 std_dev=3.071
C4' B 0, -0.998, 2.449, 5.896, 7.324 max_d=7.324 avg_d=2.449 std_dev=3.447
O5' A 0, -1.042, 2.563, 6.167, 7.660 max_d=7.660 avg_d=2.563 std_dev=3.605
O4' B 0, -1.128, 2.761, 6.649, 8.260 max_d=8.260 avg_d=2.761 std_dev=3.889
C3' B 0, -1.132, 2.781, 6.694, 8.315 max_d=8.315 avg_d=2.781 std_dev=3.913
O3' B 0, -1.172, 2.893, 6.959, 8.643 max_d=8.643 avg_d=2.893 std_dev=4.065
C6 B 0, -1.185, 2.906, 6.998, 8.692 max_d=8.692 avg_d=2.906 std_dev=4.091
C5 B 0, -1.339, 3.267, 7.873, 9.780 max_d=9.780 avg_d=3.267 std_dev=4.606
P A 0, -1.377, 3.378, 8.133, 10.102 max_d=10.102 avg_d=3.378 std_dev=4.755
C1' B 0, -1.409, 3.473, 8.354, 10.376 max_d=10.376 avg_d=3.473 std_dev=4.882
N1 B 0, -1.412, 3.491, 8.394, 10.425 max_d=10.425 avg_d=3.491 std_dev=4.903
OP1 A 0, -1.459, 3.614, 8.686, 10.788 max_d=10.788 avg_d=3.614 std_dev=5.073
C2' B 0, -1.478, 3.643, 8.765, 10.887 max_d=10.887 avg_d=3.643 std_dev=5.122
OP2 A 0, -1.641, 3.983, 9.606, 11.936 max_d=11.936 avg_d=3.983 std_dev=5.623
C4 B 0, -1.680, 4.114, 9.908, 12.308 max_d=12.308 avg_d=4.114 std_dev=5.794
O2' B 0, -1.712, 4.221, 10.154, 12.611 max_d=12.611 avg_d=4.221 std_dev=5.933
C2 B 0, -1.725, 4.288, 10.300, 12.791 max_d=12.791 avg_d=4.288 std_dev=6.013
N3 B 0, -1.841, 4.548, 10.937, 13.583 max_d=13.583 avg_d=4.548 std_dev=6.389
N4 B 0, -1.887, 4.612, 11.110, 13.802 max_d=13.802 avg_d=4.612 std_dev=6.499
O2 B 0, -1.923, 4.825, 11.572, 14.367 max_d=14.367 avg_d=4.825 std_dev=6.747

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 0.01 0.00 0.00 0.01 0.01 0.01 0.10 0.01 0.01 0.01 0.01 0.02 0.01 0.00 0.01 0.32 0.00 0.13 0.09 0.22 0.30
C2 0.01 0.00 0.30 0.43 0.00 0.77 0.01 1.40 0.00 0.00 0.00 0.01 0.01 0.01 0.00 0.15 0.46 0.49 1.05 1.72 0.86 0.95
C2' 0.00 0.30 0.00 0.00 0.14 0.01 0.05 0.26 0.12 0.17 0.23 0.30 0.08 0.10 0.02 0.00 0.01 0.01 0.27 0.51 0.02 0.13
C3' 0.00 0.43 0.00 0.00 0.04 0.00 0.23 0.00 0.08 0.69 0.20 0.45 0.22 0.59 0.25 0.02 0.01 0.00 0.29 0.41 0.01 0.14
C4 0.01 0.00 0.14 0.04 0.00 0.29 0.00 0.57 0.00 0.00 0.00 0.00 0.01 0.00 0.01 0.21 0.21 0.26 0.21 0.61 0.11 0.04
C4' 0.01 0.77 0.01 0.00 0.29 0.00 0.03 0.01 0.22 0.54 0.54 0.76 0.09 0.39 0.10 0.27 0.01 0.00 0.03 0.27 0.10 0.03
C5 0.01 0.01 0.05 0.23 0.00 0.03 0.00 0.18 0.00 0.01 0.00 0.00 0.01 0.00 0.01 0.31 0.02 0.11 0.17 0.24 0.68 0.51
C5' 0.10 1.40 0.26 0.00 0.57 0.01 0.18 0.00 0.50 0.70 1.03 1.33 0.27 0.50 0.02 0.00 0.21 0.03 0.02 0.45 0.18 0.04
C6 0.01 0.00 0.12 0.08 0.00 0.22 0.00 0.50 0.00 0.01 0.00 0.00 0.00 0.00 0.01 0.31 0.06 0.21 0.14 0.64 0.36 0.17
C8 0.01 0.00 0.17 0.69 0.00 0.54 0.01 0.70 0.01 0.00 0.00 0.00 0.02 0.00 0.00 0.32 0.31 0.24 0.93 0.62 1.45 1.29
N1 0.01 0.00 0.23 0.20 0.00 0.54 0.00 1.03 0.00 0.00 0.00 0.01 0.01 0.00 0.01 0.24 0.27 0.37 0.68 1.32 0.35 0.50
N3 0.01 0.01 0.30 0.45 0.00 0.76 0.00 1.33 0.00 0.00 0.01 0.00 0.00 0.01 0.01 0.10 0.49 0.51 0.94 1.45 0.75 0.80
N6 0.02 0.01 0.08 0.22 0.01 0.09 0.01 0.27 0.00 0.02 0.01 0.00 0.00 0.01 0.02 0.36 0.06 0.15 0.08 0.39 0.71 0.45
N7 0.01 0.01 0.10 0.59 0.00 0.39 0.00 0.50 0.00 0.00 0.00 0.01 0.01 0.00 0.00 0.36 0.29 0.13 0.79 0.47 1.46 1.21
N9 0.00 0.00 0.02 0.25 0.01 0.10 0.01 0.02 0.01 0.00 0.01 0.01 0.02 0.00 0.00 0.20 0.05 0.00 0.31 0.02 0.61 0.57
O2' 0.01 0.15 0.00 0.02 0.21 0.27 0.31 0.00 0.31 0.32 0.24 0.10 0.36 0.36 0.20 0.00 0.02 0.22 0.00 0.21 0.13 0.08
O3' 0.32 0.46 0.01 0.01 0.21 0.01 0.02 0.21 0.06 0.31 0.27 0.49 0.06 0.29 0.05 0.02 0.00 0.25 0.15 0.25 0.02 0.09
O4' 0.00 0.49 0.01 0.00 0.26 0.00 0.11 0.03 0.21 0.24 0.37 0.51 0.15 0.13 0.00 0.22 0.25 0.00 0.31 0.04 0.16 0.38
O5' 0.13 1.05 0.27 0.29 0.21 0.03 0.17 0.02 0.14 0.93 0.68 0.94 0.08 0.79 0.31 0.00 0.15 0.31 0.00 0.02 0.01 0.01
OP1 0.09 1.72 0.51 0.41 0.61 0.27 0.24 0.45 0.64 0.62 1.32 1.45 0.39 0.47 0.02 0.21 0.25 0.04 0.02 0.00 0.02 0.00
OP2 0.22 0.86 0.02 0.01 0.11 0.10 0.68 0.18 0.36 1.45 0.35 0.75 0.71 1.46 0.61 0.13 0.02 0.16 0.01 0.02 0.00 0.01
P 0.30 0.95 0.13 0.14 0.04 0.03 0.51 0.04 0.17 1.29 0.50 0.80 0.45 1.21 0.57 0.08 0.09 0.38 0.01 0.00 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 2.66 2.00 2.98 2.60 0.87 2.66 0.70 1.80 1.25 1.95 1.47 0.43 2.51 3.82 3.06 2.53 1.36 0.55 0.15 0.20
C2 2.10 1.58 2.27 2.13 0.85 2.36 0.74 1.74 1.14 1.60 1.23 0.56 1.86 2.72 2.37 2.13 1.32 0.57 0.21 0.19
C2' 2.27 1.72 2.64 2.29 0.67 2.25 0.48 1.41 0.97 1.63 1.24 0.28 2.21 3.42 2.79 2.10 1.02 0.96 0.36 0.11
C3' 2.19 1.63 2.45 2.03 0.60 2.08 0.42 1.25 0.90 1.55 1.16 0.21 2.12 3.25 2.42 2.04 0.96 1.04 0.27 0.12
C4 2.19 1.50 2.42 2.19 0.54 2.40 0.42 1.69 0.95 1.53 1.03 0.14 1.90 3.11 2.57 2.21 1.32 0.51 0.14 0.21
C4' 2.05 1.48 2.25 1.73 0.40 1.84 0.20 0.95 0.69 1.38 0.99 0.01 2.01 3.12 2.05 1.90 0.65 1.32 0.63 0.44
C5 1.74 0.98 1.91 1.74 0.04 2.05 0.02 1.48 0.53 1.06 0.50 0.38 1.35 2.57 2.10 1.84 1.22 0.43 0.08 0.21
C5' 1.35 0.83 1.44 0.88 0.16 1.05 0.36 0.17 0.08 0.73 0.39 0.51 1.33 2.29 1.10 1.22 0.01 1.98 1.06 1.03
C6 1.37 0.68 1.49 1.38 0.12 1.75 0.15 1.32 0.34 0.78 0.27 0.47 0.97 2.03 1.67 1.53 1.14 0.39 0.08 0.20
C8 2.02 1.20 2.26 2.01 0.09 2.25 0.02 1.56 0.63 1.26 0.64 0.40 1.66 3.06 2.45 2.06 1.25 0.44 0.06 0.21
N1 1.54 0.99 1.63 1.53 0.32 1.88 0.25 1.47 0.66 1.05 0.65 0.03 1.23 2.06 1.73 1.67 1.23 0.49 0.18 0.20
N3 2.42 1.84 2.66 2.44 0.96 2.56 0.81 1.80 1.27 1.83 1.42 0.61 2.21 3.27 2.80 2.37 1.35 0.56 0.18 0.20
N6 0.82 0.10 0.92 0.87 0.66 1.27 0.66 0.99 0.16 0.23 0.31 1.01 0.37 1.44 1.16 1.04 0.89 0.25 0.02 0.19
N7 1.66 0.82 1.86 1.68 0.22 1.99 0.26 1.42 0.36 0.92 0.28 0.70 1.23 2.60 2.09 1.78 1.17 0.38 0.03 0.21
N9 2.33 1.60 2.59 2.30 0.52 2.47 0.40 1.70 0.97 1.61 1.07 0.07 2.06 3.38 2.74 2.30 1.32 0.51 0.12 0.20
O2' 2.53 2.02 3.02 2.66 0.90 2.46 0.66 1.57 1.16 1.88 1.53 0.49 2.57 3.82 3.24 2.26 1.08 0.88 0.42 0.10
O3' 2.17 1.58 2.46 2.05 0.49 2.08 0.31 1.26 0.83 1.50 1.08 0.07 2.11 3.29 2.49 2.01 0.92 1.04 0.35 0.15
O4' 2.40 1.75 2.62 2.12 0.61 2.25 0.41 1.35 0.96 1.68 1.22 0.17 2.29 3.52 2.47 2.27 0.97 0.94 0.47 0.17
O5' 1.81 1.37 1.82 1.16 0.40 1.34 0.16 0.41 0.57 1.23 0.95 0.07 1.88 2.67 1.27 1.63 0.30 1.69 0.71 0.73
OP1 1.01 0.68 0.83 0.04 0.20 0.32 0.46 0.62 0.12 0.50 0.32 0.46 1.17 1.65 0.06 0.82 0.60 2.45 1.38 1.52
OP2 1.50 1.01 1.27 0.64 0.17 1.07 0.03 0.30 0.42 0.95 0.62 0.14 1.43 2.04 0.57 1.48 0.36 1.43 0.32 0.46
P 1.68 1.27 1.52 0.83 0.40 1.14 0.20 0.26 0.56 1.15 0.89 0.11 1.72 2.31 0.78 1.56 0.29 1.61 0.51 0.64

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.05 0.00 0.01 0.03 0.00 0.01 0.06 0.00 0.01 0.04 0.03 0.07 0.00 0.00 0.00 0.14 0.43 0.20 0.03
C2 0.05 0.00 0.05 0.01 0.00 0.02 0.01 0.17 0.01 0.00 0.00 0.00 0.01 0.10 0.02 0.03 0.27 0.72 0.51 0.07
C2' 0.00 0.05 0.00 0.00 0.08 0.00 0.07 0.04 0.06 0.04 0.06 0.08 0.04 0.00 0.00 0.01 0.24 0.13 0.36 0.15
C3' 0.01 0.01 0.00 0.00 0.01 0.00 0.02 0.03 0.04 0.01 0.01 0.01 0.01 0.00 0.01 0.02 0.32 0.11 0.45 0.24
C4 0.03 0.00 0.08 0.01 0.00 0.08 0.01 0.28 0.01 0.01 0.00 0.00 0.01 0.10 0.06 0.01 0.31 0.99 0.73 0.06
C4' 0.00 0.02 0.00 0.00 0.08 0.00 0.10 0.00 0.08 0.04 0.05 0.10 0.04 0.02 0.02 0.00 0.00 0.06 0.01 0.01
C5 0.01 0.01 0.07 0.02 0.01 0.10 0.00 0.30 0.00 0.01 0.01 0.01 0.01 0.06 0.06 0.03 0.31 1.01 0.73 0.06
C5' 0.06 0.17 0.04 0.03 0.28 0.00 0.30 0.00 0.24 0.16 0.24 0.32 0.09 0.02 0.01 0.01 0.01 0.06 0.01 0.01
C6 0.00 0.01 0.06 0.04 0.01 0.08 0.00 0.24 0.00 0.00 0.02 0.01 0.01 0.03 0.06 0.03 0.30 0.82 0.58 0.07
N1 0.01 0.00 0.04 0.01 0.01 0.04 0.01 0.16 0.00 0.00 0.01 0.01 0.00 0.04 0.02 0.01 0.26 0.66 0.45 0.07
N3 0.04 0.00 0.06 0.01 0.00 0.05 0.01 0.24 0.02 0.01 0.00 0.01 0.02 0.11 0.03 0.01 0.29 0.88 0.63 0.06
N4 0.03 0.00 0.08 0.01 0.00 0.10 0.01 0.32 0.01 0.01 0.01 0.00 0.01 0.11 0.06 0.02 0.31 1.09 0.80 0.05
O2 0.07 0.01 0.04 0.01 0.01 0.04 0.01 0.09 0.01 0.00 0.02 0.01 0.00 0.14 0.01 0.07 0.25 0.60 0.44 0.08
O2' 0.00 0.10 0.00 0.00 0.10 0.02 0.06 0.02 0.03 0.04 0.11 0.11 0.14 0.00 0.03 0.04 0.06 0.07 0.09 0.04
O3' 0.00 0.02 0.00 0.01 0.06 0.02 0.06 0.01 0.06 0.02 0.03 0.06 0.01 0.03 0.00 0.02 0.25 0.39 0.41 0.26
O4' 0.00 0.03 0.01 0.02 0.01 0.00 0.03 0.01 0.03 0.01 0.01 0.02 0.07 0.04 0.02 0.00 0.00 0.39 0.02 0.05
O5' 0.14 0.27 0.24 0.32 0.31 0.00 0.31 0.01 0.30 0.26 0.29 0.31 0.25 0.06 0.25 0.00 0.00 0.02 0.00 0.00
OP1 0.43 0.72 0.13 0.11 0.99 0.06 1.01 0.06 0.82 0.66 0.88 1.09 0.60 0.07 0.39 0.39 0.02 0.00 0.01 0.00
OP2 0.20 0.51 0.36 0.45 0.73 0.01 0.73 0.01 0.58 0.45 0.63 0.80 0.44 0.09 0.41 0.02 0.00 0.01 0.00 0.00
P 0.03 0.07 0.15 0.24 0.06 0.01 0.06 0.01 0.07 0.07 0.06 0.05 0.08 0.04 0.26 0.05 0.00 0.00 0.00 0.00