ClaRNA

Doublet Group distance statistics: 49909

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Distances from reference structure (by RMSD)

1, 1, 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
C5 A 0, 0.001, 0.005, 0.009, 0.009 max_d=0.009 avg_d=0.005 std_dev=0.004
C6 A 0, 0.002, 0.009, 0.017, 0.018 max_d=0.018 avg_d=0.009 std_dev=0.007
C4 A 0, 0.003, 0.012, 0.020, 0.019 max_d=0.019 avg_d=0.012 std_dev=0.008
N1 A 0, 0.002, 0.012, 0.022, 0.024 max_d=0.024 avg_d=0.012 std_dev=0.010
N9 A 0, -0.001, 0.010, 0.021, 0.025 max_d=0.025 avg_d=0.010 std_dev=0.011
C2 A 0, 0.000, 0.011, 0.022, 0.026 max_d=0.026 avg_d=0.011 std_dev=0.011
C8 A 0, 0.005, 0.017, 0.030, 0.028 max_d=0.028 avg_d=0.017 std_dev=0.012
N3 A 0, 0.004, 0.016, 0.029, 0.031 max_d=0.031 avg_d=0.016 std_dev=0.013
C1' A 0, 0.001, 0.013, 0.026, 0.031 max_d=0.031 avg_d=0.013 std_dev=0.013
O6 A 0, 0.002, 0.018, 0.034, 0.039 max_d=0.039 avg_d=0.018 std_dev=0.016
N7 A 0, 0.004, 0.021, 0.038, 0.042 max_d=0.042 avg_d=0.021 std_dev=0.017
N2 A 0, 0.009, 0.029, 0.050, 0.046 max_d=0.046 avg_d=0.029 std_dev=0.021
C2' A 0, 0.090, 0.385, 0.680, 0.716 max_d=0.716 avg_d=0.385 std_dev=0.295
O2' A 0, 0.139, 0.508, 0.877, 0.864 max_d=0.864 avg_d=0.508 std_dev=0.369
O4' A 0, 0.081, 0.451, 0.821, 0.905 max_d=0.905 avg_d=0.451 std_dev=0.370
P B 0, -0.097, 0.366, 0.830, 1.021 max_d=1.021 avg_d=0.366 std_dev=0.464
C4' A 0, 0.130, 0.796, 1.462, 1.630 max_d=1.630 avg_d=0.796 std_dev=0.666
OP2 B 0, -0.119, 0.553, 1.226, 1.500 max_d=1.500 avg_d=0.553 std_dev=0.672
O5' A 0, 0.281, 0.961, 1.641, 1.468 max_d=1.468 avg_d=0.961 std_dev=0.680
OP1 B 0, -0.178, 0.536, 1.249, 1.545 max_d=1.545 avg_d=0.536 std_dev=0.714
C5' A 0, 0.320, 1.103, 1.887, 1.741 max_d=1.741 avg_d=1.103 std_dev=0.783
C3' A 0, 0.022, 0.812, 1.603, 1.883 max_d=1.883 avg_d=0.812 std_dev=0.790
O5' B 0, -0.304, 1.004, 2.313, 2.853 max_d=2.853 avg_d=1.004 std_dev=1.309
O3' A 0, 0.025, 1.381, 2.736, 3.223 max_d=3.223 avg_d=1.381 std_dev=1.356
OP2 A 0, 0.072, 1.441, 2.810, 3.281 max_d=3.281 avg_d=1.441 std_dev=1.369
P A 0, -0.260, 1.250, 2.761, 3.375 max_d=3.375 avg_d=1.250 std_dev=1.510
OP1 A 0, 0.032, 2.175, 4.318, 5.091 max_d=5.091 avg_d=2.175 std_dev=2.143
C5' B 0, -0.595, 1.748, 4.092, 5.062 max_d=5.062 avg_d=1.748 std_dev=2.344
O4' B 0, -0.518, 1.874, 4.266, 5.250 max_d=5.250 avg_d=1.874 std_dev=2.392
C4' B 0, -0.762, 2.282, 5.325, 6.583 max_d=6.583 avg_d=2.282 std_dev=3.043
C6 B 0, -0.776, 2.362, 5.501, 6.798 max_d=6.798 avg_d=2.362 std_dev=3.139
C1' B 0, -0.844, 2.601, 6.045, 7.468 max_d=7.468 avg_d=2.601 std_dev=3.445
N1 B 0, -0.884, 2.623, 6.131, 7.581 max_d=7.581 avg_d=2.623 std_dev=3.508
C5 B 0, -0.990, 2.876, 6.743, 8.342 max_d=8.342 avg_d=2.876 std_dev=3.867
C3' B 0, -1.120, 3.061, 7.242, 8.973 max_d=8.973 avg_d=3.061 std_dev=4.181
C2 B 0, -1.130, 3.201, 7.533, 9.324 max_d=9.324 avg_d=3.201 std_dev=4.331
C2' B 0, -1.176, 3.323, 7.821, 9.683 max_d=9.683 avg_d=3.323 std_dev=4.499
O2 B 0, -1.252, 3.506, 8.263, 10.232 max_d=10.232 avg_d=3.506 std_dev=4.758
C4 B 0, -1.244, 3.520, 8.284, 10.255 max_d=10.255 avg_d=3.520 std_dev=4.764
N3 B 0, -1.284, 3.593, 8.470, 10.487 max_d=10.487 avg_d=3.593 std_dev=4.877
O3' B 0, -1.317, 3.735, 8.787, 10.877 max_d=10.877 avg_d=3.735 std_dev=5.052
O2' B 0, -1.358, 4.007, 9.372, 11.590 max_d=11.590 avg_d=4.007 std_dev=5.365
N4 B 0, -1.482, 4.199, 9.880, 12.230 max_d=12.230 avg_d=4.199 std_dev=5.681

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 0.02 0.00 0.03 0.01 0.04 0.01 0.06 0.02 0.00 0.02 0.02 0.02 0.01 0.00 0.01 0.04 0.01 0.16 0.02 0.20 0.22 0.08
C2 0.02 0.00 0.08 0.13 0.01 0.15 0.01 0.15 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.22 0.04 0.18 0.45 0.01 0.78 0.53 0.70
C2' 0.00 0.08 0.00 0.01 0.06 0.03 0.05 0.10 0.06 0.02 0.07 0.08 0.07 0.03 0.03 0.00 0.03 0.02 0.22 0.06 0.54 0.76 0.44
C3' 0.03 0.13 0.01 0.00 0.26 0.00 0.40 0.02 0.38 0.52 0.26 0.04 0.10 0.53 0.30 0.01 0.02 0.02 0.43 0.44 0.71 0.69 0.57
C4 0.01 0.01 0.06 0.26 0.00 0.05 0.01 0.24 0.01 0.00 0.01 0.01 0.00 0.01 0.00 0.19 0.22 0.09 0.48 0.01 0.63 0.44 0.60
C4' 0.04 0.15 0.03 0.00 0.05 0.00 0.19 0.01 0.14 0.40 0.06 0.25 0.16 0.37 0.15 0.20 0.00 0.01 0.02 0.20 0.23 0.17 0.11
C5 0.01 0.01 0.05 0.40 0.01 0.19 0.00 0.45 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.24 0.44 0.05 0.64 0.01 0.78 0.68 0.77
C5' 0.06 0.15 0.10 0.02 0.24 0.01 0.45 0.00 0.41 0.64 0.24 0.20 0.13 0.67 0.31 0.15 0.09 0.04 0.01 0.50 0.10 0.28 0.01
C6 0.02 0.01 0.06 0.38 0.01 0.14 0.01 0.41 0.00 0.01 0.00 0.01 0.01 0.00 0.01 0.26 0.41 0.08 0.67 0.00 0.92 0.82 0.88
C8 0.00 0.01 0.02 0.52 0.00 0.40 0.00 0.64 0.01 0.00 0.01 0.01 0.01 0.00 0.00 0.19 0.60 0.09 0.60 0.01 0.49 0.43 0.52
N1 0.02 0.01 0.07 0.26 0.01 0.06 0.01 0.24 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.26 0.23 0.14 0.58 0.01 0.91 0.73 0.84
N2 0.02 0.00 0.08 0.04 0.01 0.25 0.01 0.20 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.21 0.10 0.21 0.38 0.02 0.79 0.49 0.67
N3 0.02 0.01 0.07 0.10 0.00 0.16 0.01 0.13 0.01 0.01 0.01 0.01 0.00 0.01 0.00 0.18 0.01 0.17 0.37 0.02 0.62 0.36 0.55
N7 0.01 0.01 0.03 0.53 0.01 0.37 0.00 0.67 0.00 0.00 0.01 0.01 0.01 0.00 0.01 0.23 0.65 0.05 0.70 0.01 0.71 0.71 0.74
N9 0.00 0.01 0.03 0.30 0.00 0.15 0.01 0.31 0.01 0.00 0.01 0.01 0.00 0.01 0.00 0.15 0.28 0.01 0.43 0.01 0.43 0.25 0.41
O2' 0.01 0.22 0.00 0.01 0.19 0.20 0.24 0.15 0.26 0.19 0.26 0.21 0.18 0.23 0.15 0.00 0.08 0.20 0.05 0.28 0.48 0.70 0.29
O3' 0.04 0.04 0.03 0.02 0.22 0.00 0.44 0.09 0.41 0.60 0.23 0.10 0.01 0.65 0.28 0.08 0.00 0.04 0.59 0.53 0.99 0.74 0.71
O4' 0.01 0.18 0.02 0.02 0.09 0.01 0.05 0.04 0.08 0.09 0.14 0.21 0.17 0.05 0.01 0.20 0.04 0.00 0.32 0.07 0.25 0.01 0.25
O5' 0.16 0.45 0.22 0.43 0.48 0.02 0.64 0.01 0.67 0.60 0.58 0.38 0.37 0.70 0.43 0.05 0.59 0.32 0.00 0.74 0.02 0.03 0.01
O6 0.02 0.01 0.06 0.44 0.01 0.20 0.01 0.50 0.00 0.01 0.01 0.02 0.02 0.01 0.01 0.28 0.53 0.07 0.74 0.00 1.01 0.96 0.97
OP1 0.20 0.78 0.54 0.71 0.63 0.23 0.78 0.10 0.92 0.49 0.91 0.79 0.62 0.71 0.43 0.48 0.99 0.25 0.02 1.01 0.00 0.01 0.01
OP2 0.22 0.53 0.76 0.69 0.44 0.17 0.68 0.28 0.82 0.43 0.73 0.49 0.36 0.71 0.25 0.70 0.74 0.01 0.03 0.96 0.01 0.00 0.01
P 0.08 0.70 0.44 0.57 0.60 0.11 0.77 0.01 0.88 0.52 0.84 0.67 0.55 0.74 0.41 0.29 0.71 0.25 0.01 0.97 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.94 1.87 1.06 0.84 2.58 0.04 2.39 0.29 1.83 1.58 2.32 2.93 1.64 1.04 0.74 0.31 0.09 0.14 0.15 0.29
C2 2.08 3.38 2.39 1.81 4.03 0.81 3.37 0.35 2.77 2.78 4.00 4.50 3.25 2.46 1.53 1.10 0.27 0.04 0.11 0.12
C2' 0.32 1.15 0.34 0.21 1.91 0.47 1.85 0.66 1.30 0.94 1.59 2.24 0.89 0.31 0.10 0.18 0.39 0.20 0.32 0.34
C3' 0.34 0.36 0.29 0.27 0.98 0.94 0.87 1.17 0.40 0.15 0.73 1.31 0.18 0.28 0.19 0.76 0.94 0.80 0.33 1.01
C4 1.87 2.86 2.18 1.81 3.38 0.81 3.01 0.36 2.54 2.47 3.28 3.61 2.69 2.20 1.62 1.01 0.31 0.04 0.12 0.13
C4' 0.07 0.82 0.11 0.07 1.40 0.69 1.18 1.04 0.69 0.53 1.22 1.76 0.68 0.10 0.17 0.49 0.75 0.87 0.35 0.99
C5 2.31 3.11 2.78 2.40 3.22 1.31 2.86 0.77 2.63 2.76 3.33 3.22 3.05 2.83 2.26 1.39 0.57 0.15 0.26 0.03
C5' 0.28 0.61 0.30 0.34 0.92 0.62 0.69 0.96 0.40 0.38 0.86 1.17 0.57 0.32 0.55 0.58 0.74 0.95 0.60 1.08
C6 2.63 3.57 3.15 2.61 3.51 1.50 2.98 0.91 2.77 3.05 3.79 3.52 3.60 3.28 2.46 1.60 0.62 0.18 0.30 0.01
C8 1.71 2.18 2.10 2.04 2.30 1.05 2.19 0.61 2.06 2.03 2.30 2.29 2.10 2.11 2.02 1.04 0.54 0.13 0.21 0.06
N1 2.45 3.65 2.88 2.27 3.93 1.21 3.26 0.67 2.85 3.03 4.11 4.18 3.63 3.00 2.03 1.42 0.47 0.12 0.21 0.04
N2 2.00 3.43 2.27 1.62 4.20 0.65 3.46 0.22 2.78 2.77 4.14 4.83 3.29 2.34 1.28 1.02 0.19 0.01 0.06 0.14
N3 1.77 2.99 2.02 1.53 3.76 0.57 3.24 0.15 2.59 2.49 3.59 4.22 2.79 2.04 1.27 0.87 0.16 0.02 0.04 0.17
N7 2.26 2.66 2.80 2.63 2.51 1.52 2.33 0.98 2.34 2.50 2.67 2.38 2.65 2.82 2.59 1.46 0.74 0.22 0.34 0.04
N9 1.49 2.30 1.76 1.54 2.80 0.60 2.61 0.20 2.18 2.04 2.65 2.99 2.13 1.75 1.43 0.77 0.24 0.01 0.04 0.16
O2' 0.32 1.35 0.12 0.17 2.34 0.67 2.25 0.84 1.54 1.09 1.91 2.79 1.02 0.06 0.40 0.15 0.42 0.29 0.59 0.26
O3' 1.22 0.48 1.30 1.24 0.23 1.77 0.12 2.02 0.45 0.72 0.09 0.62 0.67 1.30 1.12 1.54 1.69 1.57 0.69 1.69
O4' 0.79 1.66 0.95 0.80 2.24 0.06 1.98 0.43 1.49 1.34 2.06 2.57 1.51 0.95 0.84 0.18 0.21 0.35 0.08 0.50
O5' 0.36 0.84 0.51 0.65 1.13 0.08 0.97 0.33 0.71 0.65 1.06 1.33 0.79 0.55 0.95 0.08 0.11 0.14 0.10 0.35
O6 2.92 3.68 3.57 2.98 3.24 1.84 2.73 1.18 2.70 3.16 3.70 3.12 3.90 3.80 2.89 1.85 0.77 0.25 0.38 0.07
OP1 0.87 1.11 1.10 1.37 1.17 0.69 1.07 0.49 0.99 1.00 1.19 1.23 1.12 1.20 1.81 0.57 0.60 0.74 0.61 0.44
OP2 1.00 1.05 1.26 1.64 0.96 0.98 0.94 0.82 0.97 1.02 1.02 0.91 1.08 1.36 2.06 0.75 0.86 0.94 0.66 0.63
P 0.84 1.09 1.11 1.37 1.15 0.64 1.06 0.41 0.97 0.98 1.17 1.21 1.08 1.20 1.77 0.49 0.51 0.61 0.43 0.27

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.01 0.00 0.00 0.01 0.00 0.00 0.08 0.00 0.00 0.01 0.01 0.03 0.04 0.27 0.00 0.01 0.52 0.04 0.11
C2 0.01 0.00 0.11 0.18 0.01 0.03 0.01 0.06 0.01 0.01 0.00 0.01 0.01 0.13 0.15 0.05 0.08 0.68 0.04 0.10
C2' 0.00 0.11 0.00 0.00 0.02 0.01 0.06 0.20 0.09 0.01 0.09 0.03 0.19 0.00 0.01 0.01 0.08 0.52 0.09 0.11
C3' 0.00 0.18 0.00 0.00 0.30 0.01 0.31 0.02 0.27 0.18 0.24 0.32 0.10 0.01 0.00 0.02 0.37 0.06 0.45 0.27
C4 0.01 0.01 0.02 0.30 0.00 0.07 0.00 0.04 0.00 0.01 0.01 0.00 0.01 0.25 0.08 0.02 0.16 0.83 0.16 0.07
C4' 0.00 0.03 0.01 0.01 0.07 0.00 0.08 0.00 0.08 0.04 0.04 0.07 0.00 0.27 0.01 0.00 0.01 0.11 0.03 0.02
C5 0.00 0.01 0.06 0.31 0.00 0.08 0.00 0.04 0.00 0.00 0.01 0.01 0.02 0.27 0.17 0.01 0.21 0.85 0.23 0.05
C5' 0.08 0.06 0.20 0.02 0.04 0.00 0.04 0.00 0.04 0.06 0.05 0.04 0.06 0.07 0.21 0.01 0.01 0.08 0.02 0.01
C6 0.00 0.01 0.09 0.27 0.00 0.08 0.00 0.04 0.00 0.00 0.01 0.01 0.02 0.22 0.12 0.03 0.19 0.77 0.17 0.05
N1 0.00 0.01 0.01 0.18 0.01 0.04 0.00 0.06 0.00 0.00 0.01 0.01 0.01 0.15 0.08 0.02 0.09 0.67 0.05 0.09
N3 0.01 0.00 0.09 0.24 0.01 0.04 0.01 0.05 0.01 0.01 0.00 0.01 0.01 0.20 0.05 0.04 0.11 0.76 0.08 0.09
N4 0.01 0.01 0.03 0.32 0.00 0.07 0.01 0.04 0.01 0.01 0.01 0.00 0.02 0.27 0.12 0.02 0.18 0.85 0.19 0.07
O2 0.03 0.01 0.19 0.10 0.01 0.00 0.02 0.06 0.02 0.01 0.01 0.02 0.00 0.03 0.31 0.06 0.03 0.60 0.03 0.11
O2' 0.04 0.13 0.00 0.01 0.25 0.27 0.27 0.07 0.22 0.15 0.20 0.27 0.03 0.00 0.03 0.20 0.22 0.33 0.16 0.04
O3' 0.27 0.15 0.01 0.00 0.08 0.01 0.17 0.21 0.12 0.08 0.05 0.12 0.31 0.03 0.00 0.19 0.46 0.55 0.58 0.50
O4' 0.00 0.05 0.01 0.02 0.02 0.00 0.01 0.01 0.03 0.02 0.04 0.02 0.06 0.20 0.19 0.00 0.12 0.40 0.20 0.15
O5' 0.01 0.08 0.08 0.37 0.16 0.01 0.21 0.01 0.19 0.09 0.11 0.18 0.03 0.22 0.46 0.12 0.00 0.01 0.01 0.00
OP1 0.52 0.68 0.52 0.06 0.83 0.11 0.85 0.08 0.77 0.67 0.76 0.85 0.60 0.33 0.55 0.40 0.01 0.00 0.01 0.01
OP2 0.04 0.04 0.09 0.45 0.16 0.03 0.23 0.02 0.17 0.05 0.08 0.19 0.03 0.16 0.58 0.20 0.01 0.01 0.00 0.00
P 0.11 0.10 0.11 0.27 0.07 0.02 0.05 0.01 0.05 0.09 0.09 0.07 0.11 0.04 0.50 0.15 0.00 0.01 0.00 0.00