ClaRNA

Doublet Group distance statistics: 52794

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Distances from reference structure (by RMSD)

2, 0, 0, 0, 0, 0, 0, 2, 0, 0, 1, 0, 1, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C6 A 0, 0.001, 0.008, 0.014, 0.018 max_d=0.018 avg_d=0.008 std_dev=0.007
N3 A 0, 0.000, 0.008, 0.015, 0.023 max_d=0.023 avg_d=0.008 std_dev=0.007
C5 A 0, -0.004, 0.008, 0.020, 0.034 max_d=0.034 avg_d=0.008 std_dev=0.012
C4 A 0, -0.002, 0.012, 0.025, 0.039 max_d=0.039 avg_d=0.012 std_dev=0.013
C1' A 0, 0.000, 0.014, 0.028, 0.041 max_d=0.041 avg_d=0.014 std_dev=0.014
N1 A 0, -0.001, 0.017, 0.035, 0.053 max_d=0.053 avg_d=0.017 std_dev=0.018
C2 A 0, -0.009, 0.016, 0.040, 0.068 max_d=0.068 avg_d=0.016 std_dev=0.024
O2 A 0, -0.010, 0.026, 0.061, 0.099 max_d=0.099 avg_d=0.026 std_dev=0.036
N4 A 0, -0.007, 0.031, 0.068, 0.100 max_d=0.100 avg_d=0.031 std_dev=0.038
C4' A 0, 0.140, 0.509, 0.878, 0.871 max_d=0.871 avg_d=0.509 std_dev=0.369
C2' A 0, 0.127, 0.542, 0.957, 1.012 max_d=1.012 avg_d=0.542 std_dev=0.415
O4' A 0, 0.128, 0.546, 0.963, 1.005 max_d=1.005 avg_d=0.546 std_dev=0.418
O2' B 0, 0.117, 0.581, 1.044, 1.311 max_d=1.311 avg_d=0.581 std_dev=0.464
C2' B 0, 0.079, 0.663, 1.248, 1.741 max_d=1.741 avg_d=0.663 std_dev=0.585
O4' B 0, 0.248, 0.902, 1.556, 1.685 max_d=1.685 avg_d=0.902 std_dev=0.654
C3' A 0, 0.195, 0.849, 1.503, 1.490 max_d=1.490 avg_d=0.849 std_dev=0.654
C1' B 0, 0.177, 0.854, 1.531, 1.920 max_d=1.920 avg_d=0.854 std_dev=0.677
O2' A 0, 0.245, 0.927, 1.610, 1.584 max_d=1.584 avg_d=0.927 std_dev=0.682
C5' A 0, 0.181, 1.159, 2.137, 2.309 max_d=2.309 avg_d=1.159 std_dev=0.978
C4' B 0, -0.052, 1.029, 2.110, 3.203 max_d=3.203 avg_d=1.029 std_dev=1.081
O3' A 0, 0.356, 1.442, 2.528, 2.498 max_d=2.498 avg_d=1.442 std_dev=1.086
N1 B 0, 0.270, 1.515, 2.760, 3.559 max_d=3.559 avg_d=1.515 std_dev=1.245
C3' B 0, -0.367, 0.965, 2.296, 3.857 max_d=3.857 avg_d=0.965 std_dev=1.332
O5' A 0, -0.012, 1.347, 2.705, 4.073 max_d=4.073 avg_d=1.347 std_dev=1.358
C5' B 0, -0.110, 1.284, 2.678, 4.084 max_d=4.084 avg_d=1.284 std_dev=1.394
C2 B 0, 0.410, 2.023, 3.637, 4.453 max_d=4.453 avg_d=2.023 std_dev=1.613
O5' B 0, 0.417, 2.173, 3.929, 4.679 max_d=4.679 avg_d=2.173 std_dev=1.756
OP1 A 0, -0.131, 1.669, 3.468, 5.375 max_d=5.375 avg_d=1.669 std_dev=1.799
O2 B 0, 0.763, 2.654, 4.544, 4.490 max_d=4.490 avg_d=2.654 std_dev=1.891
C6 B 0, 0.714, 2.621, 4.528, 4.927 max_d=4.927 avg_d=2.621 std_dev=1.907
O3' B 0, -0.541, 1.367, 3.276, 5.471 max_d=5.471 avg_d=1.367 std_dev=1.909
P A 0, -0.438, 1.490, 3.418, 5.612 max_d=5.612 avg_d=1.490 std_dev=1.928
OP2 A 0, -0.176, 1.946, 4.067, 6.340 max_d=6.340 avg_d=1.946 std_dev=2.122
P B 0, 0.477, 2.637, 4.797, 6.075 max_d=6.075 avg_d=2.637 std_dev=2.160
N3 B 0, 0.347, 2.594, 4.841, 6.072 max_d=6.072 avg_d=2.594 std_dev=2.247
C5 B 0, 0.848, 3.365, 5.882, 6.762 max_d=6.762 avg_d=3.365 std_dev=2.517
OP1 B 0, -0.121, 2.466, 5.053, 7.748 max_d=7.748 avg_d=2.466 std_dev=2.587
C4 B 0, 0.427, 3.076, 5.726, 7.255 max_d=7.255 avg_d=3.076 std_dev=2.649
OP2 B 0, 0.872, 3.787, 6.702, 7.185 max_d=7.185 avg_d=3.787 std_dev=2.915
O4 B 0, 0.463, 3.767, 7.072, 8.934 max_d=8.934 avg_d=3.767 std_dev=3.305

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 0.04 0.01 0.02 0.01 0.05 0.01 0.01 0.01 0.01 0.04 0.01 0.30 0.00 0.36 0.26 0.46 0.18
C2 0.02 0.00 0.18 0.12 0.02 0.10 0.03 0.20 0.02 0.01 0.01 0.03 0.01 0.49 0.40 0.18 0.66 0.29 0.50 0.24
C2' 0.00 0.18 0.00 0.01 0.03 0.03 0.18 0.15 0.24 0.02 0.13 0.03 0.34 0.01 0.01 0.03 0.58 0.43 0.96 0.62
C3' 0.04 0.12 0.01 0.00 0.24 0.01 0.38 0.03 0.39 0.17 0.13 0.26 0.26 0.01 0.02 0.03 0.42 0.33 0.80 0.43
C4 0.01 0.02 0.03 0.24 0.00 0.09 0.00 0.20 0.01 0.01 0.01 0.01 0.03 0.29 0.16 0.03 0.70 0.59 0.36 0.32
C4' 0.02 0.10 0.03 0.01 0.09 0.00 0.06 0.01 0.05 0.07 0.11 0.10 0.12 0.25 0.04 0.00 0.03 0.14 0.28 0.11
C5 0.01 0.03 0.18 0.38 0.00 0.06 0.00 0.16 0.00 0.00 0.01 0.00 0.04 0.20 0.26 0.13 0.67 0.82 0.36 0.55
C5' 0.05 0.20 0.15 0.03 0.20 0.01 0.16 0.00 0.13 0.13 0.22 0.22 0.23 0.15 0.20 0.02 0.01 0.34 0.12 0.02
C6 0.01 0.02 0.24 0.39 0.01 0.05 0.00 0.13 0.00 0.00 0.00 0.00 0.03 0.20 0.27 0.19 0.63 0.76 0.44 0.55
N1 0.01 0.01 0.02 0.17 0.01 0.07 0.00 0.13 0.00 0.00 0.01 0.00 0.02 0.18 0.18 0.02 0.56 0.40 0.42 0.23
N3 0.01 0.01 0.13 0.13 0.01 0.11 0.01 0.22 0.00 0.01 0.00 0.02 0.03 0.46 0.31 0.14 0.72 0.38 0.49 0.26
N4 0.01 0.03 0.03 0.26 0.01 0.10 0.00 0.22 0.00 0.00 0.02 0.00 0.04 0.32 0.16 0.04 0.74 0.64 0.35 0.35
O2 0.04 0.01 0.34 0.26 0.03 0.12 0.04 0.23 0.03 0.02 0.03 0.04 0.00 0.73 0.67 0.31 0.70 0.35 0.62 0.41
O2' 0.01 0.49 0.01 0.01 0.29 0.25 0.20 0.15 0.20 0.18 0.46 0.32 0.73 0.00 0.07 0.14 0.56 0.39 1.09 0.60
O3' 0.30 0.40 0.01 0.02 0.16 0.04 0.26 0.20 0.27 0.18 0.31 0.16 0.67 0.07 0.00 0.19 0.28 0.16 0.70 0.23
O4' 0.00 0.18 0.03 0.03 0.03 0.00 0.13 0.02 0.19 0.02 0.14 0.04 0.31 0.14 0.19 0.00 0.23 0.38 0.21 0.24
O5' 0.36 0.66 0.58 0.42 0.70 0.03 0.67 0.01 0.63 0.56 0.72 0.74 0.70 0.56 0.28 0.23 0.00 0.03 0.01 0.01
OP1 0.26 0.29 0.43 0.33 0.59 0.14 0.82 0.34 0.76 0.40 0.38 0.64 0.35 0.39 0.16 0.38 0.03 0.00 0.04 0.02
OP2 0.46 0.50 0.96 0.80 0.36 0.28 0.36 0.12 0.44 0.42 0.49 0.35 0.62 1.09 0.70 0.21 0.01 0.04 0.00 0.02
P 0.18 0.24 0.62 0.43 0.32 0.11 0.55 0.02 0.55 0.23 0.26 0.35 0.41 0.60 0.23 0.24 0.01 0.02 0.02 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.45 0.97 0.31 0.39 0.80 0.73 0.48 0.66 0.26 0.49 1.02 1.37 0.47 0.65 0.94 0.59 0.63 0.79 0.99 0.77
C2 0.55 1.26 0.27 0.36 1.22 0.57 0.88 0.66 0.64 0.77 1.40 1.58 0.51 0.26 1.39 0.62 1.05 1.42 1.57 1.28
C2' 0.42 1.18 0.20 0.14 0.95 0.21 0.56 0.09 0.36 0.64 1.22 1.59 0.14 0.24 1.05 0.30 0.47 0.64 0.92 0.64
C3' 0.37 0.98 0.43 0.29 1.05 0.32 0.88 0.26 0.70 0.63 1.11 1.27 0.28 0.45 1.18 0.25 0.61 0.64 1.17 0.77
C4 0.62 1.26 0.30 0.40 1.35 0.48 1.14 0.66 0.89 0.89 1.41 1.43 0.47 0.12 1.51 0.67 1.30 1.77 1.96 1.58
C4' 0.49 0.36 0.71 0.88 0.52 1.01 0.55 0.88 0.43 0.15 0.43 0.77 0.64 1.29 0.70 0.71 0.42 0.43 0.72 0.47
C5 0.62 1.12 0.27 0.27 1.19 0.56 1.06 0.63 0.84 0.82 1.21 1.30 0.44 0.29 1.31 0.70 1.19 1.48 1.79 1.42
C5' 0.93 0.54 1.16 1.42 0.63 1.40 0.74 1.18 0.70 0.61 0.46 0.83 1.00 1.88 0.80 1.10 0.52 0.50 0.52 0.35
C6 0.56 1.05 0.21 0.25 1.03 0.69 0.86 0.64 0.64 0.70 1.10 1.32 0.45 0.48 1.14 0.67 0.95 1.12 1.42 1.12
N1 0.53 1.13 0.24 0.30 1.03 0.66 0.75 0.64 0.52 0.67 1.20 1.46 0.49 0.45 1.17 0.63 0.88 1.12 1.34 1.07
N3 0.60 1.32 0.29 0.41 1.36 0.51 1.06 0.68 0.80 0.87 1.49 1.56 0.51 0.12 1.54 0.65 1.22 1.69 1.83 1.49
N4 0.63 1.26 0.34 0.47 1.46 0.38 1.28 0.69 1.01 0.94 1.45 1.37 0.46 0.10 1.63 0.66 1.43 2.05 2.21 1.78
O2 0.52 1.28 0.29 0.38 1.21 0.57 0.81 0.66 0.57 0.73 1.44 1.63 0.51 0.28 1.40 0.59 1.00 1.39 1.50 1.23
O2' 0.71 1.74 0.43 0.39 1.47 0.19 0.92 0.19 0.69 1.06 1.83 2.19 0.33 0.36 1.60 0.49 0.55 0.69 0.91 0.67
O3' 0.79 1.56 0.72 0.42 1.68 0.35 1.42 0.45 1.20 1.18 1.76 1.75 0.63 0.14 1.83 0.53 0.82 0.78 1.32 0.94
O4' 0.80 0.66 0.90 1.08 0.41 1.33 0.37 1.21 0.37 0.48 0.56 1.06 0.95 1.46 0.54 1.07 0.86 0.83 0.97 0.88
O5' 1.36 0.87 1.42 1.86 0.38 1.82 0.68 1.56 0.86 0.96 0.48 1.22 1.16 2.43 0.37 1.55 0.94 0.75 0.60 0.64
OP1 1.83 1.30 1.91 2.70 0.52 2.76 0.80 2.75 1.14 1.34 0.88 1.73 1.52 3.27 0.38 2.26 2.01 2.07 1.07 1.78
OP2 1.97 1.65 2.07 2.72 0.89 2.55 1.09 2.39 1.38 1.60 1.25 2.08 1.82 3.11 0.70 2.19 1.76 1.70 1.01 1.43
P 1.99 1.49 2.06 2.75 0.71 2.68 0.95 2.50 1.29 1.53 1.05 1.87 1.71 3.33 0.47 2.29 1.79 1.68 0.88 1.46

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.03 0.00 0.01 0.06 0.01 0.05 0.07 0.04 0.02 0.03 0.04 0.01 0.34 0.06 0.01 0.27 0.29 0.27 0.17
C2 0.03 0.00 0.15 0.51 0.03 0.46 0.02 0.65 0.01 0.00 0.01 0.00 0.51 0.37 0.03 0.30 0.30 1.35 0.33 0.54
C2' 0.00 0.15 0.00 0.01 0.08 0.01 0.15 0.20 0.17 0.02 0.11 0.25 0.01 0.03 0.08 0.02 0.64 0.37 0.79 0.60
C3' 0.01 0.51 0.01 0.00 0.31 0.00 0.43 0.01 0.47 0.20 0.45 0.83 0.01 0.00 0.34 0.02 0.39 0.09 0.44 0.28
C4 0.06 0.03 0.08 0.31 0.00 0.10 0.01 0.16 0.02 0.04 0.01 0.03 0.45 0.08 0.01 0.07 0.66 0.55 1.10 0.62
C4' 0.01 0.46 0.01 0.00 0.10 0.00 0.37 0.01 0.44 0.06 0.34 0.87 0.28 0.03 0.11 0.00 0.01 0.17 0.04 0.01
C5 0.05 0.02 0.15 0.43 0.01 0.37 0.00 0.65 0.01 0.03 0.01 0.02 0.29 0.40 0.02 0.28 1.24 0.51 1.71 1.27
C5' 0.07 0.65 0.20 0.01 0.16 0.01 0.65 0.00 0.72 0.07 0.49 1.32 0.07 0.20 0.17 0.01 0.00 0.11 0.01 0.01
C6 0.04 0.01 0.17 0.47 0.02 0.44 0.01 0.72 0.00 0.01 0.01 0.01 0.21 0.43 0.03 0.34 1.24 0.51 1.50 1.21
N1 0.02 0.00 0.02 0.20 0.04 0.06 0.03 0.07 0.01 0.00 0.01 0.01 0.25 0.13 0.05 0.03 0.44 0.40 0.58 0.33
N3 0.03 0.01 0.11 0.45 0.01 0.34 0.01 0.49 0.01 0.01 0.00 0.01 0.53 0.25 0.02 0.18 0.23 1.26 0.47 0.40
O2 0.04 0.00 0.25 0.83 0.03 0.87 0.02 1.32 0.01 0.01 0.01 0.00 0.65 0.71 0.03 0.56 1.00 2.18 0.96 1.33
O2' 0.01 0.51 0.01 0.01 0.45 0.28 0.29 0.07 0.21 0.25 0.53 0.65 0.00 0.05 0.48 0.19 0.37 0.30 0.66 0.42
O3' 0.34 0.37 0.03 0.00 0.08 0.03 0.40 0.20 0.43 0.13 0.25 0.71 0.05 0.00 0.11 0.24 0.26 0.26 0.32 0.23
O4 0.06 0.03 0.08 0.34 0.01 0.11 0.02 0.17 0.03 0.05 0.02 0.03 0.48 0.11 0.00 0.07 0.67 0.64 1.20 0.65
O4' 0.01 0.30 0.02 0.02 0.07 0.00 0.28 0.01 0.34 0.03 0.18 0.56 0.19 0.24 0.07 0.00 0.05 0.44 0.16 0.11
O5' 0.27 0.30 0.64 0.39 0.66 0.01 1.24 0.00 1.24 0.44 0.23 1.00 0.37 0.26 0.67 0.05 0.00 0.01 0.01 0.01
OP1 0.29 1.35 0.37 0.09 0.55 0.17 0.51 0.11 0.51 0.40 1.26 2.18 0.30 0.26 0.64 0.44 0.01 0.00 0.01 0.00
OP2 0.27 0.33 0.79 0.44 1.10 0.04 1.71 0.01 1.50 0.58 0.47 0.96 0.66 0.32 1.20 0.16 0.01 0.01 0.00 0.01
P 0.17 0.54 0.60 0.28 0.62 0.01 1.27 0.01 1.21 0.33 0.40 1.33 0.42 0.23 0.65 0.11 0.01 0.00 0.01 0.00