ClaRNA

Doublet Group distance statistics: 52491

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Distances from reference structure (by RMSD)

1, 1, 0, 0, 2, 3, 1, 2, 2, 0, 0, 0, 0, 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, 0.004, 0.008, 0.013 max_d=0.013 avg_d=0.004 std_dev=0.003
N1 A 0, 0.001, 0.007, 0.012, 0.022 max_d=0.022 avg_d=0.007 std_dev=0.005
N3 A 0, 0.006, 0.013, 0.019, 0.020 max_d=0.020 avg_d=0.013 std_dev=0.006
C6 A 0, 0.002, 0.010, 0.018, 0.033 max_d=0.033 avg_d=0.010 std_dev=0.008
C4 A 0, 0.004, 0.013, 0.021, 0.035 max_d=0.035 avg_d=0.013 std_dev=0.008
C1' A 0, 0.011, 0.022, 0.034, 0.043 max_d=0.043 avg_d=0.022 std_dev=0.011
C2 A 0, 0.008, 0.020, 0.031, 0.045 max_d=0.045 avg_d=0.020 std_dev=0.011
O2 A 0, 0.016, 0.041, 0.067, 0.104 max_d=0.104 avg_d=0.041 std_dev=0.026
N4 A 0, 0.016, 0.045, 0.075, 0.123 max_d=0.123 avg_d=0.045 std_dev=0.029
C2' A 0, 0.066, 0.236, 0.406, 0.499 max_d=0.499 avg_d=0.236 std_dev=0.170
O4' A 0, 0.065, 0.238, 0.412, 0.457 max_d=0.457 avg_d=0.238 std_dev=0.173
P B 0, 0.260, 0.456, 0.653, 0.676 max_d=0.676 avg_d=0.456 std_dev=0.197
O5' B 0, 0.154, 0.435, 0.715, 1.067 max_d=1.067 avg_d=0.435 std_dev=0.280
OP2 B 0, 0.337, 0.618, 0.900, 0.932 max_d=0.932 avg_d=0.618 std_dev=0.282
OP1 B 0, 0.293, 0.587, 0.881, 1.086 max_d=1.086 avg_d=0.587 std_dev=0.294
C4' A 0, 0.198, 0.668, 1.138, 1.434 max_d=1.434 avg_d=0.668 std_dev=0.470
O3' B 0, 0.362, 0.870, 1.378, 2.009 max_d=2.009 avg_d=0.870 std_dev=0.508
C5' A 0, 0.221, 0.731, 1.241, 1.777 max_d=1.777 avg_d=0.731 std_dev=0.510
C4' B 0, 0.593, 1.169, 1.746, 1.823 max_d=1.823 avg_d=1.169 std_dev=0.577
O5' A 0, 0.429, 1.030, 1.631, 2.075 max_d=2.075 avg_d=1.030 std_dev=0.601
C3' B 0, 0.498, 1.135, 1.772, 2.050 max_d=2.050 avg_d=1.135 std_dev=0.637
O2' A 0, 0.330, 0.972, 1.614, 1.677 max_d=1.677 avg_d=0.972 std_dev=0.642
O4' B 0, 0.461, 1.165, 1.868, 2.725 max_d=2.725 avg_d=1.165 std_dev=0.703
C3' A 0, 0.300, 1.024, 1.749, 1.840 max_d=1.840 avg_d=1.024 std_dev=0.725
C5' B 0, 0.867, 1.649, 2.431, 2.421 max_d=2.421 avg_d=1.649 std_dev=0.782
P A 0, 0.562, 1.439, 2.316, 3.002 max_d=3.002 avg_d=1.439 std_dev=0.877
C1' B 0, 0.441, 1.364, 2.287, 3.711 max_d=3.711 avg_d=1.364 std_dev=0.923
C2' B 0, 0.506, 1.503, 2.500, 3.139 max_d=3.139 avg_d=1.503 std_dev=0.997
N1 B 0, 0.626, 1.860, 3.094, 5.138 max_d=5.138 avg_d=1.860 std_dev=1.234
OP2 A 0, 0.577, 1.940, 3.303, 4.577 max_d=4.577 avg_d=1.940 std_dev=1.363
O3' A 0, 0.600, 1.981, 3.362, 3.309 max_d=3.309 avg_d=1.981 std_dev=1.381
C6 B 0, 1.162, 2.549, 3.935, 4.884 max_d=4.884 avg_d=2.549 std_dev=1.387
OP1 A 0, 0.734, 2.134, 3.533, 4.653 max_d=4.653 avg_d=2.134 std_dev=1.399
O2' B 0, 0.369, 1.811, 3.252, 4.449 max_d=4.449 avg_d=1.811 std_dev=1.441
C5 B 0, 1.431, 3.072, 4.713, 6.196 max_d=6.196 avg_d=3.072 std_dev=1.641
C2 B 0, 0.172, 1.869, 3.565, 6.772 max_d=6.772 avg_d=1.869 std_dev=1.697
O2 B 0, 0.282, 1.985, 3.687, 7.039 max_d=7.039 avg_d=1.985 std_dev=1.703
C4 B 0, 1.028, 2.955, 4.881, 7.945 max_d=7.945 avg_d=2.955 std_dev=1.926
N3 B 0, 0.254, 2.345, 4.435, 8.099 max_d=8.099 avg_d=2.345 std_dev=2.091
O4 B 0, 1.165, 3.441, 5.717, 9.292 max_d=9.292 avg_d=3.441 std_dev=2.276

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 0.01 0.01 0.01 0.09 0.00 0.01 0.01 0.01 0.03 0.03 0.28 0.00 0.31 0.30 0.36 0.20
C2 0.02 0.00 0.09 0.26 0.00 0.12 0.00 0.22 0.01 0.01 0.00 0.00 0.00 0.34 0.18 0.03 0.36 0.27 0.86 0.35
C2' 0.00 0.09 0.00 0.00 0.03 0.02 0.04 0.19 0.06 0.02 0.07 0.03 0.15 0.00 0.02 0.02 0.42 0.55 0.52 0.42
C3' 0.01 0.26 0.00 0.00 0.40 0.00 0.41 0.03 0.34 0.25 0.34 0.43 0.18 0.01 0.01 0.01 0.36 0.71 0.38 0.40
C4 0.01 0.00 0.03 0.40 0.00 0.21 0.00 0.35 0.00 0.00 0.00 0.00 0.00 0.35 0.23 0.01 0.44 0.29 1.20 0.48
C4' 0.01 0.12 0.02 0.00 0.21 0.00 0.23 0.00 0.20 0.13 0.16 0.22 0.07 0.27 0.02 0.00 0.01 0.31 0.28 0.03
C5 0.01 0.00 0.04 0.41 0.00 0.23 0.00 0.37 0.00 0.00 0.00 0.01 0.01 0.26 0.27 0.04 0.44 0.24 1.09 0.43
C5' 0.09 0.22 0.19 0.03 0.35 0.00 0.37 0.00 0.31 0.21 0.29 0.38 0.17 0.07 0.22 0.03 0.01 0.41 0.38 0.01
C6 0.00 0.01 0.06 0.34 0.00 0.20 0.00 0.31 0.00 0.00 0.00 0.01 0.01 0.18 0.19 0.05 0.41 0.20 0.80 0.30
N1 0.01 0.01 0.02 0.25 0.00 0.13 0.00 0.21 0.00 0.00 0.01 0.01 0.01 0.21 0.11 0.01 0.36 0.22 0.68 0.27
N3 0.01 0.00 0.07 0.34 0.00 0.16 0.00 0.29 0.00 0.01 0.00 0.00 0.00 0.39 0.17 0.02 0.41 0.30 1.09 0.45
N4 0.01 0.00 0.03 0.43 0.00 0.22 0.01 0.38 0.01 0.01 0.00 0.00 0.01 0.38 0.27 0.01 0.46 0.36 1.34 0.56
O2 0.03 0.00 0.15 0.18 0.00 0.07 0.01 0.17 0.01 0.01 0.00 0.01 0.00 0.36 0.32 0.06 0.33 0.32 0.78 0.34
O2' 0.03 0.34 0.00 0.01 0.35 0.27 0.26 0.07 0.18 0.21 0.39 0.38 0.36 0.00 0.04 0.22 0.39 0.63 0.61 0.44
O3' 0.28 0.18 0.02 0.01 0.23 0.02 0.27 0.22 0.19 0.11 0.17 0.27 0.32 0.04 0.00 0.20 0.50 0.99 0.52 0.62
O4' 0.00 0.03 0.02 0.01 0.01 0.00 0.04 0.03 0.05 0.01 0.02 0.01 0.06 0.22 0.20 0.00 0.28 0.34 0.14 0.16
O5' 0.31 0.36 0.42 0.36 0.44 0.01 0.44 0.01 0.41 0.36 0.41 0.46 0.33 0.39 0.50 0.28 0.00 0.02 0.03 0.00
OP1 0.30 0.27 0.55 0.71 0.29 0.31 0.24 0.41 0.20 0.22 0.30 0.36 0.32 0.63 0.99 0.34 0.02 0.00 0.01 0.01
OP2 0.36 0.86 0.52 0.38 1.20 0.28 1.09 0.38 0.80 0.68 1.09 1.34 0.78 0.61 0.52 0.14 0.03 0.01 0.00 0.01
P 0.20 0.35 0.42 0.40 0.48 0.03 0.43 0.01 0.30 0.27 0.45 0.56 0.34 0.44 0.62 0.16 0.00 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.55 0.41 0.64 0.39 0.68 0.53 0.89 0.72 0.88 0.58 0.51 0.44 0.79 0.26 0.72 0.56 0.26 0.13 0.27 0.14
C2 0.62 0.55 0.72 0.46 0.81 0.56 1.07 0.74 1.06 0.68 0.65 0.69 0.78 0.25 0.85 0.69 0.32 0.14 0.18 0.14
C2' 0.65 0.51 0.59 0.47 0.70 0.72 0.87 0.86 0.86 0.65 0.56 0.46 0.65 0.37 0.72 0.76 0.26 0.23 0.34 0.20
C3' 0.55 0.28 0.53 0.43 0.48 0.34 0.65 0.35 0.68 0.50 0.31 0.12 0.64 0.19 0.47 0.44 0.54 0.44 0.36 0.38
C4 0.59 0.65 0.74 0.47 0.87 0.49 1.15 0.67 1.12 0.69 0.75 0.91 0.73 0.30 0.92 0.66 0.33 0.14 0.14 0.14
C4' 0.55 0.46 0.61 0.39 0.61 0.23 0.73 0.41 0.73 0.56 0.52 0.42 0.81 0.09 0.64 0.32 0.37 0.24 0.25 0.22
C5 0.56 0.60 0.74 0.46 0.79 0.47 1.06 0.69 1.05 0.64 0.69 0.87 0.75 0.32 0.84 0.59 0.31 0.14 0.22 0.14
C5' 0.57 0.48 0.60 0.43 0.58 0.23 0.68 0.36 0.69 0.57 0.51 0.46 0.73 0.11 0.59 0.35 0.46 0.36 0.33 0.35
C6 0.56 0.51 0.73 0.44 0.73 0.51 0.97 0.72 0.97 0.61 0.60 0.70 0.80 0.29 0.76 0.57 0.28 0.13 0.27 0.13
N1 0.58 0.48 0.70 0.43 0.74 0.54 0.98 0.74 0.97 0.62 0.58 0.61 0.79 0.26 0.77 0.62 0.29 0.13 0.24 0.13
N3 0.62 0.63 0.73 0.47 0.87 0.54 1.15 0.70 1.12 0.71 0.73 0.83 0.75 0.27 0.93 0.71 0.33 0.14 0.14 0.14
N4 0.58 0.73 0.72 0.47 0.94 0.44 1.22 0.58 1.17 0.72 0.84 1.03 0.68 0.32 1.01 0.65 0.33 0.15 0.16 0.15
O2 0.63 0.53 0.70 0.46 0.82 0.58 1.07 0.75 1.05 0.69 0.63 0.63 0.78 0.24 0.86 0.71 0.32 0.14 0.17 0.14
O2' 0.69 0.49 0.63 0.48 0.76 0.73 0.96 0.92 0.95 0.70 0.56 0.32 0.72 0.25 0.78 0.78 0.33 0.42 0.55 0.38
O3' 0.72 0.48 0.64 0.57 0.55 0.42 0.69 0.28 0.74 0.63 0.46 0.43 0.78 0.46 0.53 0.57 0.65 0.54 0.37 0.44
O4' 0.53 0.51 0.69 0.37 0.71 0.31 0.84 0.57 0.82 0.58 0.60 0.56 0.94 0.22 0.75 0.32 0.24 0.13 0.30 0.15
O5' 0.34 0.24 0.25 0.25 0.25 0.29 0.28 0.39 0.33 0.21 0.31 0.38 0.42 0.01 0.30 0.29 0.50 0.45 0.41 0.38
OP1 0.34 0.83 0.60 0.38 0.90 0.23 0.69 0.45 0.52 0.57 0.97 0.89 0.77 0.03 1.00 0.23 0.33 0.40 0.39 0.35
OP2 0.49 0.58 0.47 0.22 0.50 0.64 0.36 0.68 0.35 0.44 0.60 0.68 0.85 0.02 0.53 0.62 1.24 1.38 1.19 1.22
P 0.19 0.38 0.26 0.02 0.36 0.25 0.18 0.21 0.11 0.16 0.45 0.49 0.44 0.01 0.43 0.26 0.56 0.61 0.46 0.47

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.02 0.01 0.01 0.01 0.11 0.01 0.00 0.02 0.03 0.02 0.34 0.02 0.00 0.38 0.41 0.51 0.37
C2 0.02 0.00 0.13 0.44 0.01 0.41 0.01 0.60 0.01 0.01 0.00 0.00 0.39 0.26 0.01 0.27 0.86 0.92 0.95 0.90
C2' 0.00 0.13 0.00 0.01 0.04 0.02 0.15 0.24 0.17 0.02 0.08 0.26 0.00 0.05 0.04 0.02 0.42 0.45 0.48 0.46
C3' 0.02 0.44 0.01 0.00 0.23 0.00 0.12 0.02 0.15 0.14 0.40 0.67 0.02 0.01 0.26 0.01 0.30 0.33 0.31 0.27
C4 0.01 0.01 0.04 0.23 0.00 0.09 0.00 0.28 0.01 0.01 0.00 0.01 0.29 0.18 0.00 0.04 0.76 1.08 0.95 0.89
C4' 0.01 0.41 0.02 0.00 0.09 0.00 0.24 0.01 0.31 0.05 0.32 0.73 0.22 0.02 0.11 0.00 0.02 0.16 0.29 0.04
C5 0.01 0.01 0.15 0.12 0.00 0.24 0.00 0.54 0.00 0.01 0.01 0.01 0.23 0.21 0.01 0.22 0.84 1.28 1.11 1.07
C5' 0.11 0.60 0.24 0.02 0.28 0.01 0.54 0.00 0.61 0.19 0.51 1.11 0.08 0.24 0.30 0.02 0.01 0.31 0.39 0.01
C6 0.01 0.01 0.17 0.15 0.01 0.31 0.00 0.61 0.00 0.00 0.01 0.01 0.21 0.26 0.01 0.28 0.84 1.14 1.04 1.00
N1 0.00 0.01 0.02 0.14 0.01 0.05 0.01 0.19 0.00 0.00 0.01 0.01 0.17 0.23 0.01 0.02 0.58 0.70 0.71 0.61
N3 0.02 0.00 0.08 0.40 0.00 0.32 0.01 0.51 0.01 0.01 0.00 0.01 0.38 0.24 0.01 0.18 0.86 1.03 0.99 0.94
O2 0.03 0.00 0.26 0.67 0.01 0.73 0.01 1.11 0.01 0.01 0.01 0.00 0.58 0.38 0.01 0.49 1.21 1.23 1.34 1.31
O2' 0.02 0.39 0.00 0.02 0.29 0.22 0.23 0.08 0.21 0.17 0.38 0.58 0.00 0.05 0.32 0.14 0.28 0.27 0.41 0.35
O3' 0.34 0.26 0.05 0.01 0.18 0.02 0.21 0.24 0.26 0.23 0.24 0.38 0.05 0.00 0.18 0.25 0.24 0.30 0.49 0.30
O4 0.02 0.01 0.04 0.26 0.00 0.11 0.01 0.30 0.01 0.01 0.01 0.01 0.32 0.18 0.00 0.04 0.79 1.16 1.02 0.95
O4' 0.00 0.27 0.02 0.01 0.04 0.00 0.22 0.02 0.28 0.02 0.18 0.49 0.14 0.25 0.04 0.00 0.42 0.32 0.61 0.39
O5' 0.38 0.86 0.42 0.30 0.76 0.02 0.84 0.01 0.84 0.58 0.86 1.21 0.28 0.24 0.79 0.42 0.00 0.02 0.01 0.00
OP1 0.41 0.92 0.45 0.33 1.08 0.16 1.28 0.31 1.14 0.70 1.03 1.23 0.27 0.30 1.16 0.32 0.02 0.00 0.01 0.01
OP2 0.51 0.95 0.48 0.31 0.95 0.29 1.11 0.39 1.04 0.71 0.99 1.34 0.41 0.49 1.02 0.61 0.01 0.01 0.00 0.01
P 0.37 0.90 0.46 0.27 0.89 0.04 1.07 0.01 1.00 0.61 0.94 1.31 0.35 0.30 0.95 0.39 0.00 0.01 0.01 0.00