ClaRNA

Doublet Group distance statistics: 54204

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C6 A 0, 0.002, 0.004, 0.007, 0.010 max_d=0.010 avg_d=0.004 std_dev=0.003
N3 A 0, 0.003, 0.007, 0.010, 0.012 max_d=0.012 avg_d=0.007 std_dev=0.004
C4 A 0, 0.002, 0.008, 0.015, 0.020 max_d=0.020 avg_d=0.008 std_dev=0.006
C2 A 0, 0.003, 0.010, 0.016, 0.020 max_d=0.020 avg_d=0.010 std_dev=0.007
N1 A 0, 0.001, 0.009, 0.017, 0.026 max_d=0.026 avg_d=0.009 std_dev=0.008
C1' A 0, 0.003, 0.011, 0.020, 0.027 max_d=0.027 avg_d=0.011 std_dev=0.008
N4 A 0, 0.006, 0.014, 0.023, 0.027 max_d=0.027 avg_d=0.014 std_dev=0.009
C5 A 0, -0.002, 0.007, 0.016, 0.024 max_d=0.024 avg_d=0.007 std_dev=0.009
O2 A 0, 0.010, 0.021, 0.032, 0.042 max_d=0.042 avg_d=0.021 std_dev=0.011
O2' A 0, 0.045, 0.284, 0.523, 0.680 max_d=0.680 avg_d=0.284 std_dev=0.239
C2' A 0, -0.029, 0.216, 0.461, 0.640 max_d=0.640 avg_d=0.216 std_dev=0.245
O4' A 0, -0.050, 0.205, 0.460, 0.644 max_d=0.644 avg_d=0.205 std_dev=0.255
C2' B 0, 0.169, 0.466, 0.762, 0.800 max_d=0.800 avg_d=0.466 std_dev=0.297
O5' A 0, 0.125, 0.438, 0.750, 0.910 max_d=0.910 avg_d=0.438 std_dev=0.313
C4' A 0, 0.010, 0.365, 0.719, 0.959 max_d=0.959 avg_d=0.365 std_dev=0.354
C3' A 0, 0.016, 0.394, 0.771, 1.027 max_d=1.027 avg_d=0.394 std_dev=0.378
O2' B 0, 0.143, 0.553, 0.963, 1.390 max_d=1.390 avg_d=0.553 std_dev=0.410
O3' A 0, 0.084, 0.586, 1.088, 1.396 max_d=1.396 avg_d=0.586 std_dev=0.502
C1' B 0, 0.072, 0.674, 1.275, 2.040 max_d=2.040 avg_d=0.674 std_dev=0.601
C5' A 0, -0.013, 0.637, 1.286, 1.738 max_d=1.738 avg_d=0.637 std_dev=0.650
P A 0, -0.025, 0.680, 1.385, 2.416 max_d=2.416 avg_d=0.680 std_dev=0.705
C3' B 0, -0.003, 0.800, 1.602, 2.542 max_d=2.542 avg_d=0.800 std_dev=0.802
OP2 A 0, 0.018, 0.898, 1.779, 2.961 max_d=2.961 avg_d=0.898 std_dev=0.881
O4' B 0, -0.093, 0.838, 1.769, 3.091 max_d=3.091 avg_d=0.838 std_dev=0.931
O3' B 0, -0.227, 0.719, 1.664, 3.159 max_d=3.159 avg_d=0.719 std_dev=0.945
OP1 A 0, -0.222, 0.871, 1.963, 3.660 max_d=3.660 avg_d=0.871 std_dev=1.092
N1 B 0, 0.066, 1.298, 2.529, 3.013 max_d=3.013 avg_d=1.298 std_dev=1.232
C4' B 0, -0.078, 1.176, 2.430, 3.341 max_d=3.341 avg_d=1.176 std_dev=1.254
C6 B 0, -0.026, 1.440, 2.906, 3.767 max_d=3.767 avg_d=1.440 std_dev=1.466
C2 B 0, 0.000, 2.133, 4.267, 5.312 max_d=5.312 avg_d=2.133 std_dev=2.134
C5' B 0, -0.243, 1.928, 4.099, 4.874 max_d=4.874 avg_d=1.928 std_dev=2.171
C5 B 0, -0.152, 2.067, 4.285, 5.548 max_d=5.548 avg_d=2.067 std_dev=2.219
O2 B 0, 0.036, 2.442, 4.849, 6.094 max_d=6.094 avg_d=2.442 std_dev=2.406
O5' B 0, -0.297, 2.266, 4.828, 6.072 max_d=6.072 avg_d=2.266 std_dev=2.563
C4 B 0, -0.167, 2.670, 5.506, 6.582 max_d=6.582 avg_d=2.670 std_dev=2.837
N3 B 0, -0.102, 2.772, 5.646, 6.728 max_d=6.728 avg_d=2.772 std_dev=2.874
P B 0, -0.411, 3.176, 6.762, 7.828 max_d=7.828 avg_d=3.176 std_dev=3.587
OP1 B 0, -0.203, 3.411, 7.025, 8.362 max_d=8.362 avg_d=3.411 std_dev=3.614
N4 B 0, -0.283, 3.372, 7.027, 8.466 max_d=8.466 avg_d=3.372 std_dev=3.655
OP2 B 0, -0.382, 3.569, 7.520, 8.835 max_d=8.835 avg_d=3.569 std_dev=3.951

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 0.01 0.00 0.01 0.01 0.00 0.01 0.02 0.01 0.01 0.01 0.01 0.02 0.01 0.02 0.00 0.03 0.10 0.24 0.11
C2 0.01 0.00 0.10 0.16 0.00 0.09 0.01 0.16 0.01 0.01 0.00 0.00 0.00 0.06 0.17 0.02 0.13 0.13 0.52 0.34
C2' 0.00 0.10 0.00 0.00 0.03 0.00 0.06 0.02 0.07 0.01 0.08 0.03 0.18 0.00 0.04 0.00 0.25 0.32 0.35 0.19
C3' 0.01 0.16 0.00 0.00 0.13 0.00 0.13 0.02 0.13 0.07 0.17 0.14 0.24 0.02 0.00 0.01 0.44 0.50 0.43 0.32
C4 0.01 0.00 0.03 0.13 0.00 0.11 0.00 0.21 0.01 0.01 0.00 0.00 0.01 0.03 0.13 0.03 0.21 0.45 0.74 0.59
C4' 0.00 0.09 0.00 0.00 0.11 0.00 0.10 0.00 0.08 0.06 0.11 0.12 0.11 0.02 0.02 0.00 0.01 0.35 0.25 0.06
C5 0.01 0.01 0.06 0.13 0.00 0.10 0.00 0.19 0.00 0.01 0.01 0.00 0.01 0.03 0.14 0.03 0.23 0.54 0.73 0.64
C5' 0.02 0.16 0.02 0.02 0.21 0.00 0.19 0.00 0.15 0.11 0.20 0.23 0.16 0.02 0.04 0.01 0.01 0.41 0.42 0.01
C6 0.01 0.01 0.07 0.13 0.01 0.08 0.00 0.15 0.00 0.00 0.00 0.01 0.01 0.03 0.14 0.03 0.19 0.40 0.58 0.51
N1 0.01 0.01 0.01 0.07 0.01 0.06 0.01 0.11 0.00 0.00 0.01 0.01 0.01 0.02 0.05 0.02 0.13 0.16 0.45 0.33
N3 0.01 0.00 0.08 0.17 0.00 0.11 0.01 0.20 0.00 0.01 0.00 0.00 0.01 0.05 0.17 0.02 0.18 0.27 0.65 0.47
N4 0.01 0.00 0.03 0.14 0.00 0.12 0.00 0.23 0.01 0.01 0.00 0.00 0.01 0.03 0.15 0.03 0.24 0.55 0.83 0.67
O2 0.02 0.00 0.18 0.24 0.01 0.11 0.01 0.16 0.01 0.01 0.01 0.01 0.00 0.11 0.27 0.02 0.09 0.05 0.44 0.22
O2' 0.01 0.06 0.00 0.02 0.03 0.02 0.03 0.02 0.03 0.02 0.05 0.03 0.11 0.00 0.08 0.02 0.11 0.41 0.17 0.10
O3' 0.02 0.17 0.04 0.00 0.13 0.02 0.14 0.04 0.14 0.05 0.17 0.15 0.27 0.08 0.00 0.01 0.51 0.70 0.46 0.39
O4' 0.00 0.02 0.00 0.01 0.03 0.00 0.03 0.01 0.03 0.02 0.02 0.03 0.02 0.02 0.01 0.00 0.19 0.15 0.26 0.19
O5' 0.03 0.13 0.25 0.44 0.21 0.01 0.23 0.01 0.19 0.13 0.18 0.24 0.09 0.11 0.51 0.19 0.00 0.02 0.02 0.00
OP1 0.10 0.13 0.32 0.50 0.45 0.35 0.54 0.41 0.40 0.16 0.27 0.55 0.05 0.41 0.70 0.15 0.02 0.00 0.01 0.00
OP2 0.24 0.52 0.35 0.43 0.74 0.25 0.73 0.42 0.58 0.45 0.65 0.83 0.44 0.17 0.46 0.26 0.02 0.01 0.00 0.00
P 0.11 0.34 0.19 0.32 0.59 0.06 0.64 0.01 0.51 0.33 0.47 0.67 0.22 0.10 0.39 0.19 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' 0.67 1.73 0.09 0.35 1.46 0.83 0.92 1.38 0.69 1.03 1.86 1.60 2.17 0.17 0.30 0.47 1.01 1.45 0.62 1.10
C2 0.62 1.80 0.20 0.17 1.67 0.73 1.09 1.01 0.78 1.08 2.02 1.87 2.19 0.19 0.18 0.34 0.48 0.83 0.51 0.46
C2' 0.72 1.73 0.20 0.23 1.49 0.63 0.93 1.21 0.69 1.04 1.87 1.64 2.16 0.36 0.33 0.48 0.87 1.38 0.50 0.97
C3' 0.78 1.56 0.32 0.32 1.32 0.33 0.86 0.88 0.66 0.99 1.65 1.44 1.93 0.54 0.54 0.57 0.62 1.09 0.37 0.69
C4 0.53 1.61 0.28 0.28 1.72 0.52 1.29 0.50 0.96 1.06 1.89 1.91 1.76 0.21 0.52 0.24 0.11 0.21 1.10 0.37
C4' 0.73 1.49 0.16 0.41 1.29 0.43 0.90 1.07 0.70 0.95 1.58 1.41 1.83 0.39 0.68 0.57 0.94 1.45 0.65 1.08
C5 0.57 1.42 0.26 0.24 1.39 0.49 1.04 0.47 0.81 0.97 1.56 1.50 1.60 0.22 0.44 0.30 0.09 0.18 1.01 0.34
C5' 0.72 1.18 0.27 0.47 1.03 0.07 0.78 0.60 0.61 0.80 1.22 1.12 1.45 0.52 0.86 0.73 0.62 0.98 0.38 0.69
C6 0.67 1.48 0.18 0.15 1.26 0.62 0.85 0.79 0.66 0.96 1.54 1.34 1.81 0.22 0.11 0.41 0.33 0.51 0.56 0.23
N1 0.66 1.69 0.16 0.20 1.45 0.74 0.93 1.07 0.68 1.03 1.81 1.58 2.11 0.19 0.09 0.41 0.61 0.92 0.42 0.58
N3 0.56 1.76 0.25 0.21 1.80 0.63 1.26 0.76 0.91 1.09 2.05 2.03 2.02 0.20 0.38 0.28 0.17 0.45 0.83 0.18
N4 0.46 1.55 0.31 0.39 1.91 0.42 1.53 0.28 1.13 1.08 1.95 2.16 1.48 0.21 0.69 0.16 0.41 0.40 1.48 0.73
O2 0.61 1.88 0.18 0.20 1.75 0.79 1.10 1.18 0.76 1.09 2.14 1.98 2.29 0.18 0.12 0.36 0.67 1.11 0.44 0.71
O2' 0.66 1.79 0.10 0.37 1.59 0.80 1.00 1.52 0.73 1.04 2.00 1.79 2.24 0.25 0.41 0.48 1.24 1.89 0.92 1.47
O3' 0.78 1.56 0.38 0.41 1.35 0.24 0.88 0.83 0.66 0.98 1.67 1.50 1.93 0.60 0.65 0.57 0.64 1.19 0.43 0.77
O4' 0.70 1.59 0.05 0.44 1.34 0.73 0.90 1.34 0.71 1.00 1.67 1.43 1.97 0.22 0.53 0.51 1.09 1.52 0.74 1.20
O5' 0.59 1.03 0.18 0.53 1.11 0.34 1.04 0.91 0.86 0.78 1.13 1.21 1.18 0.50 0.96 0.75 0.94 1.18 0.63 0.94
OP1 0.46 0.41 1.13 1.52 1.03 0.83 1.17 0.88 0.99 0.56 0.72 1.21 0.10 1.21 1.75 0.22 1.34 1.25 1.49 1.39
OP2 0.37 0.54 0.62 0.86 0.94 0.22 0.97 0.35 0.73 0.48 0.74 1.09 0.50 1.02 1.37 0.66 0.15 0.37 0.72 0.37
P 0.22 0.44 0.82 1.20 0.86 0.44 0.86 0.46 0.60 0.28 0.69 1.05 0.47 1.07 1.68 0.25 0.70 0.60 0.75 0.64

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.08 0.01 0.01 0.01 0.01 0.01 0.02 0.35 0.01 0.31 0.23 0.60 0.29
C2 0.01 0.00 0.09 0.17 0.01 0.04 0.00 0.05 0.00 0.00 0.00 0.01 0.00 0.27 0.26 0.07 0.50 0.08 0.93 0.46
C2' 0.00 0.09 0.00 0.00 0.04 0.01 0.07 0.23 0.09 0.01 0.08 0.05 0.16 0.00 0.03 0.02 0.46 0.60 1.02 0.68
C3' 0.01 0.17 0.00 0.00 0.35 0.00 0.41 0.01 0.38 0.22 0.26 0.38 0.09 0.01 0.00 0.01 0.09 0.40 0.55 0.30
C4 0.01 0.01 0.04 0.35 0.00 0.12 0.00 0.10 0.00 0.00 0.00 0.00 0.01 0.38 0.08 0.05 0.73 0.40 1.41 0.77
C4' 0.01 0.04 0.01 0.00 0.12 0.00 0.17 0.00 0.16 0.08 0.07 0.13 0.04 0.29 0.02 0.00 0.01 0.21 0.24 0.11
C5 0.01 0.00 0.07 0.41 0.00 0.17 0.00 0.13 0.00 0.00 0.00 0.00 0.00 0.35 0.24 0.04 0.79 0.47 1.48 0.83
C5' 0.08 0.05 0.23 0.01 0.10 0.00 0.13 0.00 0.09 0.03 0.07 0.12 0.07 0.06 0.23 0.01 0.01 0.09 0.06 0.02
C6 0.01 0.00 0.09 0.38 0.00 0.16 0.00 0.09 0.00 0.00 0.00 0.01 0.00 0.27 0.19 0.06 0.71 0.29 1.14 0.64
N1 0.01 0.00 0.01 0.22 0.00 0.08 0.00 0.03 0.00 0.00 0.01 0.01 0.00 0.22 0.11 0.02 0.52 0.08 0.85 0.43
N3 0.01 0.00 0.08 0.26 0.00 0.07 0.00 0.07 0.00 0.01 0.00 0.01 0.01 0.35 0.14 0.07 0.61 0.22 1.17 0.61
N4 0.01 0.01 0.05 0.38 0.00 0.13 0.00 0.12 0.01 0.01 0.01 0.00 0.01 0.41 0.13 0.06 0.77 0.51 1.60 0.87
O2 0.01 0.00 0.16 0.09 0.01 0.04 0.00 0.07 0.00 0.00 0.01 0.01 0.00 0.20 0.50 0.10 0.38 0.14 0.79 0.37
O2' 0.02 0.27 0.00 0.01 0.38 0.29 0.35 0.06 0.27 0.22 0.35 0.41 0.20 0.00 0.05 0.21 0.41 0.62 1.29 0.74
O3' 0.35 0.26 0.03 0.00 0.08 0.02 0.24 0.23 0.19 0.11 0.14 0.13 0.50 0.05 0.00 0.25 0.21 0.41 0.36 0.12
O4' 0.01 0.07 0.02 0.01 0.05 0.00 0.04 0.01 0.06 0.02 0.07 0.06 0.10 0.21 0.25 0.00 0.23 0.07 0.35 0.19
O5' 0.31 0.50 0.46 0.09 0.73 0.01 0.79 0.01 0.71 0.52 0.61 0.77 0.38 0.41 0.21 0.23 0.00 0.02 0.01 0.00
OP1 0.23 0.08 0.60 0.40 0.40 0.21 0.47 0.09 0.29 0.08 0.22 0.51 0.14 0.62 0.41 0.07 0.02 0.00 0.00 0.00
OP2 0.60 0.93 1.02 0.55 1.41 0.24 1.48 0.06 1.14 0.85 1.17 1.60 0.79 1.29 0.36 0.35 0.01 0.00 0.00 0.00
P 0.29 0.46 0.68 0.30 0.77 0.11 0.83 0.02 0.64 0.43 0.61 0.87 0.37 0.74 0.12 0.19 0.00 0.00 0.00 0.00