ClaRNA

Doublet Group distance statistics: 43583

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Distances from reference structure (by RMSD)

15, 53, 4, 0, 0, 0, 0, 5, 39, 7, 0, 0, 0, 0, 0, 0, 0, 0, 0, 5,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4 A 0, 0.019, 0.322, 0.624, 0.815 max_d=0.815 avg_d=0.322 std_dev=0.302
C4 B 0, 0.005, 0.359, 0.713, 1.045 max_d=1.045 avg_d=0.359 std_dev=0.354
N3 A 0, 0.040, 0.409, 0.779, 1.536 max_d=1.536 avg_d=0.409 std_dev=0.369
C6 B 0, 0.033, 0.475, 0.917, 2.442 max_d=2.442 avg_d=0.475 std_dev=0.442
N9 A 0, -0.087, 0.355, 0.798, 2.569 max_d=2.569 avg_d=0.355 std_dev=0.442
C5 A 0, -0.033, 0.409, 0.852, 2.073 max_d=2.073 avg_d=0.409 std_dev=0.442
N3 B 0, 0.034, 0.493, 0.951, 1.172 max_d=1.172 avg_d=0.493 std_dev=0.459
N6 B 0, 0.093, 0.609, 1.126, 1.525 max_d=1.525 avg_d=0.609 std_dev=0.516
N1 B 0, 0.006, 0.535, 1.064, 3.005 max_d=3.005 avg_d=0.535 std_dev=0.529
C2' A 0, -0.215, 0.326, 0.868, 4.368 max_d=4.368 avg_d=0.326 std_dev=0.541
C5 B 0, 0.015, 0.570, 1.125, 1.649 max_d=1.649 avg_d=0.570 std_dev=0.555
C2 A 0, -0.026, 0.537, 1.100, 2.909 max_d=2.909 avg_d=0.537 std_dev=0.563
C6 A 0, -0.079, 0.498, 1.075, 2.927 max_d=2.927 avg_d=0.498 std_dev=0.577
C1' A 0, -0.198, 0.405, 1.008, 3.649 max_d=3.649 avg_d=0.405 std_dev=0.603
N9 B 0, -0.037, 0.603, 1.244, 2.680 max_d=2.680 avg_d=0.603 std_dev=0.640
C2 B 0, 0.013, 0.662, 1.310, 2.508 max_d=2.508 avg_d=0.662 std_dev=0.648
N7 A 0, -0.183, 0.474, 1.131, 3.624 max_d=3.624 avg_d=0.474 std_dev=0.657
N1 A 0, -0.101, 0.557, 1.215, 3.397 max_d=3.397 avg_d=0.557 std_dev=0.658
C1' B 0, -0.104, 0.556, 1.217, 3.509 max_d=3.509 avg_d=0.556 std_dev=0.661
C8 A 0, -0.239, 0.433, 1.106, 3.744 max_d=3.744 avg_d=0.433 std_dev=0.672
O2' A 0, -0.136, 0.537, 1.209, 5.019 max_d=5.019 avg_d=0.537 std_dev=0.673
O3' A 0, -0.149, 0.558, 1.264, 4.358 max_d=4.358 avg_d=0.558 std_dev=0.706
C3' A 0, -0.311, 0.423, 1.156, 4.138 max_d=4.138 avg_d=0.423 std_dev=0.734
O3' B 0, 0.893, 1.697, 2.501, 3.022 max_d=3.022 avg_d=1.697 std_dev=0.804
C3' B 0, 0.995, 1.900, 2.804, 4.037 max_d=4.037 avg_d=1.900 std_dev=0.905
O4' A 0, -0.378, 0.535, 1.448, 5.160 max_d=5.160 avg_d=0.535 std_dev=0.913
N6 A 0, -0.008, 0.912, 1.832, 4.390 max_d=4.390 avg_d=0.912 std_dev=0.920
C4' A 0, -0.471, 0.551, 1.572, 5.860 max_d=5.860 avg_d=0.551 std_dev=1.021
N7 B 0, -0.011, 1.021, 2.053, 3.403 max_d=3.403 avg_d=1.021 std_dev=1.032
C2' B 0, 0.757, 1.806, 2.855, 3.668 max_d=3.668 avg_d=1.806 std_dev=1.049
C8 B 0, -0.051, 1.016, 2.083, 3.846 max_d=3.846 avg_d=1.016 std_dev=1.067
C5' A 0, -0.600, 0.709, 2.019, 7.559 max_d=7.559 avg_d=0.709 std_dev=1.309
C4' B 0, 0.876, 2.256, 3.636, 5.355 max_d=5.355 avg_d=2.256 std_dev=1.380
O4' B 0, 0.458, 1.870, 3.282, 4.569 max_d=4.569 avg_d=1.870 std_dev=1.412
O2' B 0, 1.293, 2.739, 4.186, 4.389 max_d=4.389 avg_d=2.739 std_dev=1.446
O5' A 0, 0.057, 1.704, 3.351, 7.396 max_d=7.396 avg_d=1.704 std_dev=1.647
P A 0, 0.079, 2.462, 4.845, 9.212 max_d=9.212 avg_d=2.462 std_dev=2.383
C5' B 0, 1.092, 3.651, 6.209, 6.924 max_d=6.924 avg_d=3.651 std_dev=2.558
OP1 A 0, 0.212, 2.942, 5.672, 10.263 max_d=10.263 avg_d=2.942 std_dev=2.730
OP2 A 0, 0.092, 3.224, 6.356, 9.172 max_d=9.172 avg_d=3.224 std_dev=3.132
O5' B 0, 0.679, 3.861, 7.043, 7.791 max_d=7.791 avg_d=3.861 std_dev=3.182
P B 0, 0.807, 5.284, 9.762, 10.790 max_d=10.790 avg_d=5.284 std_dev=4.477
OP1 B 0, 0.886, 5.654, 10.422, 11.454 max_d=11.454 avg_d=5.654 std_dev=4.768
OP2 B 0, 1.697, 6.475, 11.254, 12.427 max_d=12.427 avg_d=6.475 std_dev=4.779

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 0.02 0.00 0.01 0.01 0.01 0.01 0.02 0.02 0.01 0.03 0.02 0.02 0.01 0.00 0.02 0.07 0.00 0.29 0.21 0.08 0.21
C2 0.02 0.00 0.11 0.12 0.01 0.05 0.03 0.07 0.07 0.02 0.02 0.01 0.01 0.03 0.01 0.09 0.14 0.06 0.64 0.57 0.93 0.75
C2' 0.00 0.11 0.00 0.00 0.06 0.01 0.05 0.04 0.06 0.06 0.10 0.11 0.08 0.05 0.02 0.00 0.02 0.01 0.35 0.44 0.25 0.22
C3' 0.01 0.12 0.00 0.00 0.08 0.00 0.11 0.01 0.11 0.10 0.14 0.10 0.13 0.11 0.06 0.01 0.01 0.01 0.43 0.67 0.21 0.26
C4 0.01 0.01 0.06 0.08 0.00 0.03 0.00 0.07 0.02 0.01 0.03 0.00 0.01 0.00 0.00 0.05 0.07 0.03 0.68 0.63 0.98 0.80
C4' 0.01 0.05 0.01 0.00 0.03 0.00 0.06 0.00 0.04 0.08 0.07 0.04 0.05 0.08 0.03 0.07 0.02 0.00 0.01 0.18 0.63 0.15
C5 0.01 0.03 0.05 0.11 0.00 0.06 0.00 0.11 0.01 0.00 0.02 0.01 0.01 0.00 0.01 0.07 0.08 0.03 0.88 0.93 1.53 1.15
C5' 0.02 0.07 0.04 0.01 0.07 0.00 0.11 0.00 0.11 0.13 0.12 0.06 0.11 0.14 0.07 0.04 0.05 0.01 0.01 0.44 0.42 0.01
C6 0.02 0.07 0.06 0.11 0.02 0.04 0.01 0.11 0.00 0.01 0.02 0.04 0.00 0.01 0.02 0.08 0.09 0.04 0.91 0.98 1.67 1.22
C8 0.01 0.02 0.06 0.10 0.01 0.08 0.00 0.13 0.01 0.00 0.02 0.01 0.02 0.00 0.00 0.09 0.08 0.05 0.88 0.90 1.38 1.10
N1 0.03 0.02 0.10 0.14 0.03 0.07 0.02 0.12 0.02 0.02 0.00 0.02 0.01 0.02 0.03 0.08 0.14 0.05 0.82 0.82 1.37 1.04
N3 0.02 0.01 0.11 0.10 0.00 0.04 0.01 0.06 0.04 0.01 0.02 0.00 0.01 0.01 0.01 0.08 0.13 0.06 0.55 0.44 0.67 0.59
N6 0.02 0.01 0.08 0.13 0.01 0.05 0.01 0.11 0.00 0.02 0.01 0.01 0.00 0.03 0.02 0.10 0.10 0.05 0.89 1.02 1.79 1.27
N7 0.01 0.03 0.05 0.11 0.00 0.08 0.00 0.14 0.01 0.00 0.02 0.01 0.03 0.00 0.01 0.09 0.09 0.04 1.00 1.10 1.83 1.35
N9 0.00 0.01 0.02 0.06 0.00 0.03 0.01 0.07 0.02 0.00 0.03 0.01 0.02 0.01 0.00 0.05 0.04 0.01 0.63 0.56 0.78 0.70
O2' 0.02 0.09 0.00 0.01 0.05 0.07 0.07 0.04 0.08 0.09 0.08 0.08 0.10 0.09 0.05 0.00 0.04 0.06 0.08 0.22 0.82 0.27
O3' 0.07 0.14 0.02 0.01 0.07 0.02 0.08 0.05 0.09 0.08 0.14 0.13 0.10 0.09 0.04 0.04 0.00 0.05 0.29 0.69 0.66 0.07
O4' 0.00 0.06 0.01 0.01 0.03 0.00 0.03 0.01 0.04 0.05 0.05 0.06 0.05 0.04 0.01 0.06 0.05 0.00 0.07 0.08 0.23 0.05
O5' 0.29 0.64 0.35 0.43 0.68 0.01 0.88 0.01 0.91 0.88 0.82 0.55 0.89 1.00 0.63 0.08 0.29 0.07 0.00 0.01 0.02 0.00
OP1 0.21 0.57 0.44 0.67 0.63 0.18 0.93 0.44 0.98 0.90 0.82 0.44 1.02 1.10 0.56 0.22 0.69 0.08 0.01 0.00 0.01 0.01
OP2 0.08 0.93 0.25 0.21 0.98 0.63 1.53 0.42 1.67 1.38 1.37 0.67 1.79 1.83 0.78 0.82 0.66 0.23 0.02 0.01 0.00 0.01
P 0.21 0.75 0.22 0.26 0.80 0.15 1.15 0.01 1.22 1.10 1.04 0.59 1.27 1.35 0.70 0.27 0.07 0.05 0.00 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.51 0.68 0.37 0.46 0.66 0.99 0.99 1.65 1.06 1.01 0.92 0.43 0.67 1.17 0.71 0.25 0.21 1.12 1.48 1.83 1.97 1.92
C2 0.90 0.44 1.09 1.23 0.79 1.58 0.81 2.53 0.67 0.98 0.49 0.61 0.66 0.93 0.92 0.74 0.72 1.41 2.35 2.60 3.30 3.02
C2' 0.40 0.69 0.31 0.41 0.53 0.97 0.85 1.73 0.91 0.95 0.82 0.41 0.54 1.10 0.60 0.50 0.40 1.14 1.69 2.34 2.27 2.28
C3' 0.43 0.62 0.27 0.37 0.52 0.93 0.88 1.62 0.96 0.97 0.82 0.35 0.64 1.15 0.60 0.56 0.43 1.13 1.55 2.23 2.10 2.11
C4 0.75 0.47 0.83 0.90 0.67 1.35 0.82 2.14 0.84 0.90 0.71 0.44 0.79 0.93 0.78 0.62 0.50 1.30 1.91 2.16 2.66 2.46
C4' 0.49 0.71 0.23 0.37 0.68 0.84 1.06 1.39 1.15 1.11 0.98 0.46 0.67 1.31 0.73 0.42 0.36 1.08 1.26 1.73 1.63 1.66
C5 0.96 0.57 1.06 1.14 0.74 1.52 0.81 2.26 0.83 0.96 0.76 0.57 0.83 0.92 0.89 0.92 0.80 1.42 1.99 2.19 2.81 2.54
C5' 0.52 0.70 0.22 0.33 0.69 0.81 1.09 1.31 1.21 1.10 1.01 0.45 0.75 1.32 0.73 0.45 0.28 1.05 1.12 1.53 1.46 1.47
C6 1.20 0.67 1.34 1.46 0.92 1.77 0.91 2.56 0.80 1.16 0.74 0.76 0.81 1.04 1.11 1.15 1.10 1.62 2.31 2.49 3.24 2.90
C8 0.71 0.58 0.72 0.75 0.63 1.21 0.85 1.85 1.00 0.86 0.89 0.42 0.85 0.94 0.70 0.68 0.47 1.20 1.55 1.76 2.20 2.01
N1 1.17 0.62 1.34 1.48 0.97 1.76 0.94 2.64 0.77 1.18 0.64 0.79 0.70 1.07 1.14 1.06 1.04 1.58 2.43 2.64 3.44 3.09
N3 0.72 0.36 0.83 0.94 0.67 1.41 0.78 2.29 0.71 0.91 0.51 0.42 0.68 0.91 0.78 0.48 0.46 1.33 2.12 2.40 2.91 2.73
N6 1.59 0.64 1.73 1.74 0.99 1.87 0.90 2.31 0.66 1.42 0.67 0.78 0.62 1.15 1.36 1.58 1.29 1.77 2.19 1.79 2.71 2.41
N7 0.91 0.59 0.98 1.04 0.69 1.43 0.81 2.10 0.90 0.91 0.85 0.52 0.87 0.89 0.82 0.92 0.76 1.36 1.78 1.95 2.53 2.27
N9 0.62 0.54 0.60 0.65 0.63 1.15 0.89 1.85 0.98 0.90 0.83 0.38 0.80 1.01 0.69 0.47 0.28 1.18 1.61 1.89 2.25 2.10
O2' 0.40 0.87 0.44 0.54 0.58 0.92 0.87 1.63 0.91 1.02 0.92 0.58 0.32 1.15 0.64 0.72 0.68 1.15 1.69 2.42 2.15 2.24
O3' 0.36 0.60 0.31 0.38 0.40 0.87 0.78 1.57 0.83 0.94 0.71 0.33 0.56 1.10 0.52 0.79 0.63 1.12 1.59 2.48 2.14 2.21
O4' 0.55 0.74 0.35 0.42 0.75 0.88 1.11 1.41 1.22 1.10 1.04 0.51 0.75 1.30 0.77 0.36 0.26 1.06 1.20 1.48 1.57 1.54
O5' 0.79 0.64 0.45 0.46 0.81 1.06 1.28 1.47 1.32 1.44 0.99 0.41 1.19 1.66 0.97 0.56 0.27 1.29 1.24 1.56 1.51 1.52
OP1 1.41 0.73 0.91 0.87 1.33 1.56 1.83 1.86 1.72 2.18 1.16 0.75 1.70 2.38 1.61 1.00 0.72 1.88 1.60 1.85 1.71 1.76
OP2 1.31 0.56 0.92 1.01 1.06 1.75 1.50 2.19 1.34 1.98 0.91 0.47 1.29 2.08 1.42 0.90 0.85 1.94 2.07 2.49 2.34 2.38
P 1.04 0.62 0.65 0.67 0.94 1.33 1.40 1.71 1.36 1.71 0.98 0.45 1.23 1.88 1.19 0.73 0.50 1.57 1.49 1.81 1.71 1.74

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.03 0.00 0.01 0.02 0.01 0.02 0.07 0.03 0.01 0.03 0.03 0.02 0.01 0.00 0.03 0.35 0.00 0.26 0.68 0.18 0.32
C2 0.03 0.00 0.37 0.32 0.01 0.36 0.01 0.85 0.03 0.01 0.01 0.00 0.01 0.01 0.01 0.36 0.12 0.27 0.36 0.46 0.82 0.57
C2' 0.00 0.37 0.00 0.00 0.18 0.01 0.08 0.22 0.15 0.20 0.27 0.38 0.10 0.13 0.03 0.00 0.02 0.03 0.43 0.70 0.26 0.43
C3' 0.01 0.32 0.00 0.00 0.22 0.01 0.35 0.03 0.32 0.50 0.28 0.31 0.39 0.50 0.26 0.02 0.01 0.02 0.39 0.48 0.15 0.29
C4 0.02 0.01 0.18 0.22 0.00 0.13 0.01 0.33 0.01 0.01 0.01 0.00 0.01 0.00 0.00 0.31 0.08 0.14 0.22 0.72 0.16 0.20
C4' 0.01 0.36 0.01 0.01 0.13 0.00 0.09 0.01 0.10 0.36 0.24 0.35 0.10 0.29 0.11 0.34 0.03 0.00 0.01 0.23 0.08 0.03
C5 0.02 0.01 0.08 0.35 0.01 0.09 0.00 0.13 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.36 0.09 0.05 0.53 1.08 0.44 0.58
C5' 0.07 0.85 0.22 0.03 0.33 0.01 0.13 0.00 0.28 0.59 0.62 0.80 0.17 0.46 0.10 0.11 0.21 0.01 0.01 0.23 0.11 0.02
C6 0.03 0.03 0.15 0.32 0.01 0.10 0.01 0.28 0.00 0.01 0.01 0.02 0.00 0.01 0.01 0.40 0.11 0.12 0.36 0.88 0.23 0.33
C8 0.01 0.01 0.20 0.50 0.01 0.36 0.00 0.59 0.01 0.00 0.01 0.01 0.01 0.00 0.00 0.29 0.10 0.19 1.09 1.69 1.16 1.29
N1 0.03 0.01 0.27 0.28 0.01 0.24 0.01 0.62 0.01 0.01 0.00 0.01 0.00 0.01 0.01 0.39 0.07 0.21 0.19 0.53 0.48 0.26
N3 0.03 0.00 0.38 0.31 0.00 0.35 0.01 0.80 0.02 0.01 0.01 0.00 0.01 0.01 0.01 0.32 0.18 0.27 0.32 0.44 0.73 0.50
N6 0.02 0.01 0.10 0.39 0.01 0.10 0.01 0.17 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.42 0.17 0.07 0.54 1.11 0.42 0.58
N7 0.01 0.01 0.13 0.50 0.00 0.29 0.00 0.46 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.35 0.15 0.10 1.01 1.67 1.10 1.23
N9 0.00 0.01 0.03 0.26 0.00 0.11 0.01 0.10 0.01 0.00 0.01 0.01 0.01 0.01 0.00 0.22 0.10 0.01 0.51 1.00 0.42 0.57
O2' 0.03 0.36 0.00 0.02 0.31 0.34 0.36 0.11 0.40 0.29 0.39 0.32 0.42 0.35 0.22 0.00 0.05 0.23 0.48 0.76 0.20 0.45
O3' 0.35 0.12 0.02 0.01 0.08 0.03 0.09 0.21 0.11 0.10 0.07 0.18 0.17 0.15 0.10 0.05 0.00 0.23 0.37 0.40 0.47 0.40
O4' 0.00 0.27 0.03 0.02 0.14 0.00 0.05 0.01 0.12 0.19 0.21 0.27 0.07 0.10 0.01 0.23 0.23 0.00 0.08 0.45 0.11 0.13
O5' 0.26 0.36 0.43 0.39 0.22 0.01 0.53 0.01 0.36 1.09 0.19 0.32 0.54 1.01 0.51 0.48 0.37 0.08 0.00 0.02 0.01 0.00
OP1 0.68 0.46 0.70 0.48 0.72 0.23 1.08 0.23 0.88 1.69 0.53 0.44 1.11 1.67 1.00 0.76 0.40 0.45 0.02 0.00 0.01 0.01
OP2 0.18 0.82 0.26 0.15 0.16 0.08 0.44 0.11 0.23 1.16 0.48 0.73 0.42 1.10 0.42 0.20 0.47 0.11 0.01 0.01 0.00 0.01
P 0.32 0.57 0.43 0.29 0.20 0.03 0.58 0.02 0.33 1.29 0.26 0.50 0.58 1.23 0.57 0.45 0.40 0.13 0.00 0.01 0.01 0.00