ClaRNA

Doublet Group distance statistics: 54065

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Distances from reference structure (by RMSD)

1, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 1, 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, 0.006, 0.010, 0.011 max_d=0.011 avg_d=0.006 std_dev=0.004
C2 A 0, 0.003, 0.011, 0.019, 0.019 max_d=0.019 avg_d=0.011 std_dev=0.008
N3 A 0, 0.004, 0.013, 0.023, 0.023 max_d=0.023 avg_d=0.013 std_dev=0.010
C6 A 0, 0.001, 0.013, 0.026, 0.030 max_d=0.030 avg_d=0.013 std_dev=0.012
C4 A 0, 0.000, 0.014, 0.028, 0.033 max_d=0.033 avg_d=0.014 std_dev=0.014
C1' A 0, 0.001, 0.016, 0.031, 0.036 max_d=0.036 avg_d=0.016 std_dev=0.015
N1 A 0, -0.001, 0.015, 0.032, 0.038 max_d=0.038 avg_d=0.015 std_dev=0.016
O2 A 0, 0.006, 0.030, 0.053, 0.057 max_d=0.057 avg_d=0.030 std_dev=0.023
N4 A 0, 0.006, 0.032, 0.057, 0.062 max_d=0.062 avg_d=0.032 std_dev=0.025
O2' B 0, 0.235, 0.816, 1.397, 1.312 max_d=1.312 avg_d=0.816 std_dev=0.581
C2' B 0, 0.150, 0.739, 1.327, 1.439 max_d=1.439 avg_d=0.739 std_dev=0.588
C1' B 0, 0.252, 0.871, 1.491, 1.382 max_d=1.382 avg_d=0.871 std_dev=0.619
C3' B 0, 0.266, 0.910, 1.555, 1.396 max_d=1.396 avg_d=0.910 std_dev=0.644
OP2 B 0, 0.333, 1.284, 2.235, 2.274 max_d=2.274 avg_d=1.284 std_dev=0.951
C4' B 0, 0.394, 1.350, 2.305, 2.078 max_d=2.078 avg_d=1.350 std_dev=0.955
O4' B 0, 0.405, 1.425, 2.445, 2.330 max_d=2.330 avg_d=1.425 std_dev=1.020
O5' B 0, 0.289, 1.349, 2.409, 2.590 max_d=2.590 avg_d=1.349 std_dev=1.060
O4' A 0, 0.490, 1.677, 2.864, 2.579 max_d=2.579 avg_d=1.677 std_dev=1.187
C2' A 0, 0.494, 1.701, 2.909, 2.674 max_d=2.674 avg_d=1.701 std_dev=1.207
N1 B 0, 0.137, 1.348, 2.559, 2.936 max_d=2.936 avg_d=1.348 std_dev=1.211
C5' B 0, 0.489, 1.707, 2.925, 2.760 max_d=2.760 avg_d=1.707 std_dev=1.218
O2 B 0, 0.507, 1.740, 2.972, 2.698 max_d=2.698 avg_d=1.740 std_dev=1.232
O2' A 0, 0.520, 1.819, 3.117, 2.949 max_d=2.949 avg_d=1.819 std_dev=1.299
C2 B 0, 0.086, 1.414, 2.741, 3.191 max_d=3.191 avg_d=1.414 std_dev=1.328
O3' B 0, 0.477, 1.976, 3.474, 3.628 max_d=3.628 avg_d=1.976 std_dev=1.499
P B 0, 0.135, 1.762, 3.389, 3.924 max_d=3.924 avg_d=1.762 std_dev=1.627
C4' A 0, 0.700, 2.395, 4.091, 3.695 max_d=3.695 avg_d=2.395 std_dev=1.696
C3' A 0, 0.777, 2.667, 4.557, 4.153 max_d=4.153 avg_d=2.667 std_dev=1.890
C6 B 0, 0.543, 2.510, 4.477, 4.803 max_d=4.803 avg_d=2.510 std_dev=1.967
N3 B 0, -0.366, 1.841, 4.048, 4.944 max_d=4.944 avg_d=1.841 std_dev=2.207
OP1 B 0, 0.863, 3.442, 6.021, 6.208 max_d=6.208 avg_d=3.442 std_dev=2.579
C5 B 0, 0.587, 3.197, 5.807, 6.393 max_d=6.393 avg_d=3.197 std_dev=2.610
C4 B 0, 0.000, 2.677, 5.354, 6.333 max_d=6.333 avg_d=2.677 std_dev=2.677
O3' A 0, 1.103, 3.782, 6.461, 5.872 max_d=5.872 avg_d=3.782 std_dev=2.679
C5' A 0, 1.232, 4.221, 7.210, 6.522 max_d=6.522 avg_d=4.221 std_dev=2.989
N4 B 0, 0.030, 3.419, 6.807, 8.036 max_d=8.036 avg_d=3.419 std_dev=3.389
O5' A 0, 1.462, 5.037, 8.612, 7.932 max_d=7.932 avg_d=5.037 std_dev=3.575
P A 0, 1.827, 6.261, 10.696, 9.705 max_d=9.705 avg_d=6.261 std_dev=4.435
OP1 A 0, 1.840, 6.283, 10.726, 9.507 max_d=9.507 avg_d=6.283 std_dev=4.443
OP2 A 0, 2.111, 7.390, 12.669, 12.006 max_d=12.006 avg_d=7.390 std_dev=5.279

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.01 0.03 0.01 0.01 0.01 0.00 0.01 0.03 0.03 0.03 0.00 0.01 0.00 0.17 0.36 0.78 0.17
C2 0.02 0.00 0.25 0.17 0.01 0.13 0.00 0.23 0.01 0.00 0.01 0.01 0.00 0.21 0.23 0.23 0.11 0.30 0.83 0.18
C2' 0.00 0.25 0.00 0.00 0.06 0.01 0.13 0.01 0.19 0.02 0.20 0.07 0.42 0.00 0.02 0.01 0.23 0.45 0.39 0.10
C3' 0.01 0.17 0.00 0.00 0.10 0.01 0.09 0.02 0.11 0.06 0.17 0.11 0.25 0.01 0.01 0.01 0.42 0.31 0.26 0.26
C4 0.03 0.01 0.06 0.10 0.00 0.04 0.00 0.04 0.01 0.02 0.00 0.00 0.00 0.06 0.14 0.01 0.45 0.51 1.39 0.75
C4' 0.01 0.13 0.01 0.01 0.04 0.00 0.15 0.01 0.18 0.02 0.09 0.04 0.27 0.07 0.00 0.01 0.01 0.39 0.34 0.13
C5 0.01 0.00 0.13 0.09 0.00 0.15 0.00 0.26 0.00 0.01 0.00 0.00 0.00 0.18 0.10 0.17 0.66 0.72 1.67 1.03
C5' 0.01 0.23 0.01 0.02 0.04 0.01 0.26 0.00 0.29 0.01 0.18 0.04 0.46 0.07 0.05 0.01 0.00 0.07 0.23 0.01
C6 0.00 0.01 0.19 0.11 0.01 0.18 0.00 0.29 0.00 0.00 0.01 0.01 0.00 0.21 0.12 0.24 0.63 0.55 1.53 0.89
N1 0.01 0.00 0.02 0.06 0.02 0.02 0.01 0.01 0.00 0.00 0.01 0.02 0.00 0.02 0.06 0.00 0.30 0.23 1.06 0.42
N3 0.03 0.01 0.20 0.17 0.00 0.09 0.00 0.18 0.01 0.01 0.00 0.00 0.00 0.17 0.24 0.17 0.22 0.29 1.03 0.38
N4 0.03 0.01 0.07 0.11 0.00 0.04 0.00 0.04 0.01 0.02 0.00 0.00 0.00 0.07 0.16 0.01 0.49 0.63 1.48 0.85
O2 0.03 0.00 0.42 0.25 0.00 0.27 0.00 0.46 0.00 0.00 0.00 0.00 0.00 0.41 0.36 0.43 0.20 0.60 0.52 0.23
O2' 0.00 0.21 0.00 0.01 0.06 0.07 0.18 0.07 0.21 0.02 0.17 0.07 0.41 0.00 0.06 0.04 0.12 0.73 0.27 0.24
O3' 0.01 0.23 0.02 0.01 0.14 0.00 0.10 0.05 0.12 0.06 0.24 0.16 0.36 0.06 0.00 0.01 0.62 0.53 0.37 0.49
O4' 0.00 0.23 0.01 0.01 0.01 0.01 0.17 0.01 0.24 0.00 0.17 0.01 0.43 0.04 0.01 0.00 0.31 0.32 0.84 0.28
O5' 0.17 0.11 0.23 0.42 0.45 0.01 0.66 0.00 0.63 0.30 0.22 0.49 0.20 0.12 0.62 0.31 0.00 0.01 0.00 0.00
OP1 0.36 0.30 0.45 0.31 0.51 0.39 0.72 0.07 0.55 0.23 0.29 0.63 0.60 0.73 0.53 0.32 0.01 0.00 0.01 0.00
OP2 0.78 0.83 0.39 0.26 1.39 0.34 1.67 0.23 1.53 1.06 1.03 1.48 0.52 0.27 0.37 0.84 0.00 0.01 0.00 0.00
P 0.17 0.18 0.10 0.26 0.75 0.13 1.03 0.01 0.89 0.42 0.38 0.85 0.23 0.24 0.49 0.28 0.00 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.58 1.12 0.13 0.41 1.35 0.18 1.41 0.26 1.21 0.95 1.27 1.47 1.21 0.18 0.85 0.62 1.01 1.30 1.36 1.28
C2 0.41 1.03 0.06 0.50 1.26 0.39 1.31 0.45 1.10 0.82 1.20 1.39 1.18 0.17 1.00 0.29 0.94 1.10 1.22 1.13
C2' 0.79 1.16 0.48 0.55 1.60 0.47 1.78 0.81 1.62 1.19 1.37 1.71 1.04 0.40 0.66 0.93 1.43 1.83 1.72 1.77
C3' 0.47 0.89 0.32 0.58 1.56 0.23 1.82 0.65 1.54 0.98 1.17 1.72 0.66 0.28 0.87 0.63 1.45 1.86 1.85 1.88
C4 0.24 0.66 0.14 0.57 0.84 0.60 0.91 0.62 0.80 0.54 0.78 0.91 0.85 0.18 1.04 0.20 0.81 0.80 0.99 0.88
C4' 0.35 0.65 0.48 0.80 1.17 0.54 1.33 0.30 0.99 0.57 0.86 1.38 0.71 0.60 1.21 0.52 1.10 1.47 1.60 1.48
C5 0.26 0.63 0.13 0.58 0.76 0.62 0.85 0.63 0.78 0.55 0.71 0.81 0.81 0.18 1.03 0.24 0.77 0.74 0.92 0.83
C5' 0.51 0.23 0.96 1.27 0.99 0.95 1.14 0.67 0.68 0.15 0.55 1.30 0.47 1.14 1.69 0.56 1.08 1.31 1.50 1.37
C6 0.39 0.86 0.05 0.53 0.99 0.47 1.07 0.53 0.98 0.74 0.94 1.05 1.01 0.17 1.01 0.28 0.86 0.90 1.02 0.95
N1 0.48 1.04 0.07 0.48 1.24 0.33 1.30 0.42 1.13 0.87 1.17 1.34 1.18 0.18 0.96 0.40 0.95 1.09 1.20 1.12
N3 0.30 0.86 0.08 0.54 1.08 0.51 1.13 0.55 0.96 0.68 1.02 1.19 1.04 0.17 1.04 0.14 0.89 0.96 1.12 1.02
N4 0.22 0.42 0.20 0.59 0.61 0.67 0.70 0.68 0.63 0.38 0.54 0.67 0.59 0.19 1.02 0.33 0.75 0.69 0.91 0.79
O2 0.46 1.12 0.08 0.46 1.41 0.31 1.43 0.36 1.18 0.89 1.32 1.57 1.25 0.17 0.96 0.38 0.97 1.22 1.30 1.21
O2' 0.84 1.25 0.50 0.51 1.62 0.55 1.72 0.87 1.55 1.21 1.46 1.75 1.16 0.49 0.52 1.02 1.38 2.01 1.75 1.81
O3' 0.60 0.96 0.53 0.69 1.70 0.46 1.95 0.95 1.65 1.09 1.27 1.88 0.61 0.49 0.76 0.77 1.71 2.30 2.21 2.31
O4' 0.62 0.90 0.63 0.90 1.06 0.77 1.12 0.55 0.85 0.70 0.97 1.22 1.08 0.66 1.31 0.72 1.08 1.22 1.40 1.25
O5' 1.03 0.55 1.30 1.48 0.80 1.36 0.94 0.85 0.60 0.58 0.47 1.10 0.84 1.54 2.01 1.15 0.25 0.53 0.51 0.44
OP1 1.18 0.83 1.75 1.70 0.42 1.11 0.47 0.56 0.37 0.74 0.56 0.56 1.19 2.14 2.16 0.83 0.47 1.09 0.89 0.87
OP2 2.00 1.50 2.17 2.04 0.72 1.80 0.73 1.15 0.98 1.47 1.07 0.60 1.92 2.53 2.56 1.82 0.68 0.60 0.23 0.36
P 1.50 0.97 1.90 1.95 0.14 1.56 0.26 0.93 0.39 0.93 0.54 0.34 1.39 2.24 2.55 1.32 0.42 0.47 0.37 0.28

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.04 0.01 0.04 0.02 0.02 0.01 0.05 0.03 0.00 0.03 0.02 0.08 0.01 0.22 0.00 0.55 0.56 0.47 0.48
C2 0.04 0.00 0.21 0.27 0.01 0.05 0.00 0.22 0.01 0.00 0.00 0.02 0.00 0.23 0.34 0.11 0.94 1.19 0.99 0.97
C2' 0.01 0.21 0.00 0.01 0.03 0.02 0.15 0.10 0.20 0.01 0.16 0.04 0.38 0.00 0.03 0.03 0.49 0.54 0.34 0.47
C3' 0.04 0.27 0.01 0.00 0.27 0.00 0.24 0.01 0.20 0.16 0.29 0.29 0.35 0.01 0.01 0.01 0.15 0.16 0.11 0.15
C4 0.02 0.01 0.03 0.27 0.00 0.16 0.01 0.38 0.01 0.01 0.00 0.00 0.01 0.26 0.21 0.03 1.38 1.86 1.60 1.54
C4' 0.02 0.05 0.02 0.00 0.16 0.00 0.20 0.00 0.17 0.08 0.11 0.18 0.05 0.16 0.02 0.00 0.00 0.16 0.18 0.02
C5 0.01 0.00 0.15 0.24 0.01 0.20 0.00 0.38 0.00 0.01 0.01 0.02 0.00 0.30 0.09 0.08 1.46 1.89 1.64 1.60
C5' 0.05 0.22 0.10 0.01 0.38 0.00 0.38 0.00 0.29 0.19 0.31 0.43 0.12 0.05 0.10 0.02 0.00 0.26 0.37 0.01
C6 0.03 0.01 0.20 0.20 0.01 0.17 0.00 0.29 0.00 0.00 0.02 0.02 0.01 0.29 0.04 0.11 1.29 1.47 1.30 1.31
N1 0.00 0.00 0.01 0.16 0.01 0.08 0.01 0.19 0.00 0.00 0.01 0.01 0.01 0.15 0.15 0.01 0.97 1.09 0.94 0.94
N3 0.03 0.00 0.16 0.29 0.00 0.11 0.01 0.31 0.02 0.01 0.00 0.01 0.00 0.24 0.33 0.09 1.17 1.56 1.32 1.27
N4 0.02 0.02 0.04 0.29 0.00 0.18 0.02 0.43 0.02 0.01 0.01 0.00 0.01 0.27 0.24 0.03 1.48 2.09 1.81 1.71
O2 0.08 0.00 0.38 0.35 0.01 0.05 0.00 0.12 0.01 0.01 0.00 0.01 0.00 0.37 0.52 0.17 0.66 0.90 0.68 0.68
O2' 0.01 0.23 0.00 0.01 0.26 0.16 0.30 0.05 0.29 0.15 0.24 0.27 0.37 0.00 0.02 0.12 0.43 0.54 0.23 0.41
O3' 0.22 0.34 0.03 0.01 0.21 0.02 0.09 0.10 0.04 0.15 0.33 0.24 0.52 0.02 0.00 0.12 0.09 0.20 0.11 0.05
O4' 0.00 0.11 0.03 0.01 0.03 0.00 0.08 0.02 0.11 0.01 0.09 0.03 0.17 0.12 0.12 0.00 0.36 0.27 0.40 0.29
O5' 0.55 0.94 0.49 0.15 1.38 0.00 1.46 0.00 1.29 0.97 1.17 1.48 0.66 0.43 0.09 0.36 0.00 0.00 0.00 0.00
OP1 0.56 1.19 0.54 0.16 1.86 0.16 1.89 0.26 1.47 1.09 1.56 2.09 0.90 0.54 0.20 0.27 0.00 0.00 0.01 0.00
OP2 0.47 0.99 0.34 0.11 1.60 0.18 1.64 0.37 1.30 0.94 1.32 1.81 0.68 0.23 0.11 0.40 0.00 0.01 0.00 0.00
P 0.48 0.97 0.47 0.15 1.54 0.02 1.60 0.01 1.31 0.94 1.27 1.71 0.68 0.41 0.05 0.29 0.00 0.00 0.00 0.00