ClaRNA

Doublet Group distance statistics: 55013

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Distances from reference structure (by RMSD)

1, 1, 0, 0, 0, 1, 1, 0, 3, 2, 1, 3, 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, 0.012, 0.023, 0.034, 0.039 max_d=0.039 avg_d=0.023 std_dev=0.011
C5 A 0, 0.013, 0.024, 0.036, 0.051 max_d=0.051 avg_d=0.024 std_dev=0.012
C2 A 0, 0.009, 0.022, 0.034, 0.056 max_d=0.056 avg_d=0.022 std_dev=0.012
C1' A 0, 0.011, 0.025, 0.039, 0.045 max_d=0.045 avg_d=0.025 std_dev=0.014
N3 A 0, 0.011, 0.025, 0.040, 0.058 max_d=0.058 avg_d=0.025 std_dev=0.014
N1 A 0, 0.007, 0.022, 0.036, 0.056 max_d=0.056 avg_d=0.022 std_dev=0.015
C4 A 0, 0.007, 0.024, 0.040, 0.072 max_d=0.072 avg_d=0.024 std_dev=0.016
N7 A 0, 0.024, 0.043, 0.063, 0.075 max_d=0.075 avg_d=0.043 std_dev=0.020
N9 A 0, 0.018, 0.039, 0.060, 0.081 max_d=0.081 avg_d=0.039 std_dev=0.021
C8 A 0, 0.026, 0.049, 0.072, 0.109 max_d=0.109 avg_d=0.049 std_dev=0.023
N6 A 0, 0.013, 0.041, 0.068, 0.091 max_d=0.091 avg_d=0.041 std_dev=0.028
P B 0, 0.319, 0.654, 0.990, 1.169 max_d=1.169 avg_d=0.654 std_dev=0.336
OP1 B 0, 0.356, 0.761, 1.166, 1.809 max_d=1.809 avg_d=0.761 std_dev=0.405
C2' A 0, -0.068, 0.342, 0.751, 1.750 max_d=1.750 avg_d=0.342 std_dev=0.410
O4' A 0, -0.142, 0.270, 0.683, 1.713 max_d=1.713 avg_d=0.270 std_dev=0.412
OP2 B 0, 0.625, 1.112, 1.599, 1.578 max_d=1.578 avg_d=1.112 std_dev=0.487
C3' A 0, 0.116, 0.604, 1.091, 1.925 max_d=1.925 avg_d=0.604 std_dev=0.487
C4' A 0, -0.088, 0.480, 1.048, 2.435 max_d=2.435 avg_d=0.480 std_dev=0.568
O3' A 0, 0.251, 0.960, 1.669, 2.301 max_d=2.301 avg_d=0.960 std_dev=0.709
O2' A 0, -0.016, 0.708, 1.432, 3.019 max_d=3.019 avg_d=0.708 std_dev=0.724
C5' A 0, -0.216, 0.713, 1.641, 3.903 max_d=3.903 avg_d=0.713 std_dev=0.929
O5' A 0, 0.002, 1.040, 2.079, 4.153 max_d=4.153 avg_d=1.040 std_dev=1.039
OP1 A 0, 0.125, 1.562, 2.998, 5.940 max_d=5.940 avg_d=1.562 std_dev=1.437
P A 0, -0.318, 1.189, 2.697, 5.224 max_d=5.224 avg_d=1.189 std_dev=1.507
O5' B 0, 1.067, 2.662, 4.257, 4.061 max_d=4.061 avg_d=2.662 std_dev=1.595
OP2 A 0, -0.291, 1.736, 3.763, 6.518 max_d=6.518 avg_d=1.736 std_dev=2.027
C5' B 0, 1.417, 3.769, 6.121, 5.792 max_d=5.792 avg_d=3.769 std_dev=2.352
C8 B 0, 1.782, 4.915, 8.049, 8.701 max_d=8.701 avg_d=4.915 std_dev=3.133
C4' B 0, 1.978, 5.224, 8.469, 8.291 max_d=8.291 avg_d=5.224 std_dev=3.245
N7 B 0, 1.817, 5.066, 8.314, 9.147 max_d=9.147 avg_d=5.066 std_dev=3.249
O4' B 0, 2.066, 5.553, 9.040, 8.947 max_d=8.947 avg_d=5.553 std_dev=3.487
C3' B 0, 2.210, 5.963, 9.715, 10.537 max_d=10.537 avg_d=5.963 std_dev=3.753
N9 B 0, 2.225, 6.209, 10.192, 10.962 max_d=10.962 avg_d=6.209 std_dev=3.983
C1' B 0, 2.356, 6.478, 10.600, 11.323 max_d=11.323 avg_d=6.478 std_dev=4.122
C5 B 0, 2.309, 6.543, 10.777, 11.770 max_d=11.770 avg_d=6.543 std_dev=4.234
O3' B 0, 2.594, 6.921, 11.248, 11.732 max_d=11.732 avg_d=6.921 std_dev=4.327
C2' B 0, 2.428, 6.791, 11.155, 12.536 max_d=12.536 avg_d=6.791 std_dev=4.364
N6 B 0, 2.392, 6.840, 11.288, 12.625 max_d=12.625 avg_d=6.840 std_dev=4.448
C4 B 0, 2.581, 7.315, 12.050, 12.926 max_d=12.926 avg_d=7.315 std_dev=4.735
C6 B 0, 2.590, 7.420, 12.250, 13.428 max_d=13.428 avg_d=7.420 std_dev=4.830
O2' B 0, 2.700, 7.615, 12.530, 13.987 max_d=13.987 avg_d=7.615 std_dev=4.915
N3 B 0, 3.108, 8.879, 14.649, 15.531 max_d=15.531 avg_d=8.879 std_dev=5.771
N1 B 0, 3.110, 8.975, 14.839, 15.996 max_d=15.996 avg_d=8.975 std_dev=5.865
C2 B 0, 3.341, 9.604, 15.867, 16.847 max_d=16.847 avg_d=9.604 std_dev=6.263

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 0.04 0.00 0.02 0.02 0.01 0.02 0.04 0.03 0.02 0.04 0.04 0.03 0.01 0.01 0.01 0.26 0.01 0.27 0.17 0.23 0.24
C2 0.04 0.00 0.25 0.15 0.01 0.14 0.02 0.12 0.01 0.02 0.00 0.00 0.02 0.02 0.02 0.41 0.29 0.21 0.42 0.25 0.72 0.52
C2' 0.00 0.25 0.00 0.00 0.14 0.02 0.07 0.14 0.13 0.13 0.21 0.25 0.10 0.07 0.02 0.01 0.03 0.01 0.33 0.29 0.37 0.31
C3' 0.02 0.15 0.00 0.00 0.19 0.01 0.30 0.01 0.29 0.36 0.22 0.12 0.35 0.38 0.21 0.03 0.01 0.02 0.12 0.21 0.21 0.13
C4 0.02 0.01 0.14 0.19 0.00 0.05 0.00 0.06 0.01 0.01 0.01 0.01 0.02 0.01 0.01 0.28 0.15 0.09 0.45 0.32 0.74 0.56
C4' 0.01 0.14 0.02 0.01 0.05 0.00 0.12 0.01 0.09 0.27 0.08 0.14 0.14 0.24 0.10 0.28 0.03 0.01 0.02 0.16 0.24 0.09
C5 0.02 0.02 0.07 0.30 0.00 0.12 0.00 0.18 0.01 0.01 0.01 0.01 0.02 0.01 0.01 0.32 0.12 0.03 0.57 0.52 1.06 0.76
C5' 0.04 0.12 0.14 0.01 0.06 0.01 0.18 0.00 0.14 0.34 0.06 0.13 0.22 0.34 0.12 0.12 0.18 0.02 0.01 0.11 0.09 0.01
C6 0.03 0.01 0.13 0.29 0.01 0.09 0.01 0.14 0.00 0.02 0.01 0.01 0.01 0.01 0.02 0.35 0.11 0.06 0.57 0.52 1.13 0.79
C8 0.02 0.02 0.13 0.36 0.01 0.27 0.01 0.34 0.02 0.00 0.02 0.02 0.04 0.00 0.00 0.39 0.24 0.18 0.63 0.59 0.98 0.78
N1 0.04 0.00 0.21 0.22 0.01 0.08 0.01 0.06 0.01 0.02 0.00 0.01 0.02 0.01 0.02 0.38 0.17 0.15 0.49 0.38 0.96 0.66
N3 0.04 0.00 0.25 0.12 0.01 0.14 0.01 0.13 0.01 0.02 0.01 0.00 0.02 0.01 0.02 0.39 0.32 0.21 0.38 0.21 0.57 0.44
N6 0.03 0.02 0.10 0.35 0.02 0.14 0.02 0.22 0.01 0.04 0.02 0.02 0.00 0.03 0.03 0.37 0.16 0.04 0.64 0.67 1.34 0.92
N7 0.01 0.02 0.07 0.38 0.01 0.24 0.01 0.34 0.01 0.00 0.01 0.01 0.03 0.00 0.01 0.39 0.25 0.12 0.68 0.70 1.24 0.91
N9 0.01 0.02 0.02 0.21 0.01 0.10 0.01 0.12 0.02 0.00 0.02 0.02 0.03 0.01 0.00 0.21 0.11 0.03 0.44 0.32 0.62 0.51
O2' 0.01 0.41 0.01 0.03 0.28 0.28 0.32 0.12 0.35 0.39 0.38 0.39 0.37 0.39 0.21 0.00 0.05 0.20 0.18 0.23 0.54 0.25
O3' 0.26 0.29 0.03 0.01 0.15 0.03 0.12 0.18 0.11 0.24 0.17 0.32 0.16 0.25 0.11 0.05 0.00 0.17 0.33 0.48 0.56 0.41
O4' 0.01 0.21 0.01 0.02 0.09 0.01 0.03 0.02 0.06 0.18 0.15 0.21 0.04 0.12 0.03 0.20 0.17 0.00 0.22 0.26 0.20 0.21
O5' 0.27 0.42 0.33 0.12 0.45 0.02 0.57 0.01 0.57 0.63 0.49 0.38 0.64 0.68 0.44 0.18 0.33 0.22 0.00 0.01 0.02 0.01
OP1 0.17 0.25 0.29 0.21 0.32 0.16 0.52 0.11 0.52 0.59 0.38 0.21 0.67 0.70 0.32 0.23 0.48 0.26 0.01 0.00 0.02 0.01
OP2 0.23 0.72 0.37 0.21 0.74 0.24 1.06 0.09 1.13 0.98 0.96 0.57 1.34 1.24 0.62 0.54 0.56 0.20 0.02 0.02 0.00 0.01
P 0.24 0.52 0.31 0.13 0.56 0.09 0.76 0.01 0.79 0.78 0.66 0.44 0.92 0.91 0.51 0.25 0.41 0.21 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 1.20 1.81 1.34 1.06 1.50 1.05 1.51 1.07 1.74 1.11 1.87 1.65 1.78 1.23 1.27 1.52 1.10 1.08 0.67 0.43 0.29 0.18
C2 1.60 1.99 1.74 1.50 1.82 1.46 1.68 1.40 1.69 1.36 1.86 1.97 1.43 1.36 1.64 1.75 1.49 1.50 0.94 0.48 0.34 0.19
C2' 1.19 1.78 1.30 1.08 1.44 1.08 1.39 1.10 1.60 1.05 1.79 1.62 1.56 1.12 1.22 1.44 1.09 1.12 0.70 0.40 0.35 0.24
C3' 0.97 1.42 1.07 0.85 1.14 0.91 1.10 0.97 1.27 0.86 1.43 1.30 1.24 0.90 0.99 1.25 0.85 0.94 0.69 0.40 0.31 0.28
C4 1.10 1.52 1.28 0.98 1.33 0.97 1.32 1.02 1.44 0.99 1.52 1.44 1.37 1.08 1.15 1.40 0.99 0.98 0.67 0.42 0.28 0.18
C4' 0.99 1.49 1.12 0.84 1.21 0.88 1.22 0.94 1.42 0.93 1.55 1.34 1.47 1.01 1.04 1.35 0.88 0.91 0.59 0.48 0.22 0.16
C5 0.74 1.19 0.95 0.59 0.96 0.61 0.96 0.72 1.11 0.63 1.20 1.08 1.08 0.73 0.78 1.09 0.58 0.63 0.52 0.36 0.25 0.17
C5' 0.74 1.18 0.87 0.59 0.93 0.65 0.96 0.79 1.15 0.73 1.25 1.03 1.23 0.81 0.78 1.12 0.59 0.66 0.55 0.41 0.20 0.17
C6 0.74 1.07 0.97 0.62 0.90 0.62 0.86 0.72 0.95 0.59 1.04 1.01 0.91 0.67 0.75 1.05 0.59 0.62 0.54 0.36 0.26 0.17
C8 0.67 1.29 0.82 0.44 0.95 0.51 0.98 0.64 1.23 0.60 1.37 1.11 1.28 0.73 0.73 1.04 0.46 0.56 0.46 0.34 0.24 0.18
N1 1.18 1.32 1.40 1.13 1.24 1.11 1.11 1.14 1.09 0.96 1.21 1.34 0.91 0.91 1.16 1.40 1.10 1.08 0.81 0.43 0.32 0.18
N3 1.55 2.12 1.68 1.41 1.87 1.38 1.80 1.32 1.91 1.36 2.07 2.03 1.72 1.44 1.62 1.74 1.43 1.43 0.87 0.47 0.32 0.19
N6 0.68 1.29 0.75 0.33 1.05 0.36 1.05 0.36 1.19 0.67 1.28 1.19 1.21 0.92 0.79 0.80 0.32 0.62 0.36 0.28 0.23 0.17
N7 0.64 1.42 0.75 0.31 1.02 0.38 1.05 0.50 1.33 0.55 1.50 1.21 1.37 0.74 0.72 0.94 0.33 0.52 0.41 0.31 0.23 0.18
N9 0.97 1.45 1.14 0.83 1.21 0.85 1.23 0.92 1.40 0.90 1.49 1.32 1.42 1.00 1.02 1.31 0.85 0.86 0.60 0.40 0.27 0.18
O2' 1.59 2.38 1.69 1.43 1.92 1.42 1.87 1.38 2.14 1.42 2.39 2.17 2.11 1.53 1.64 1.84 1.49 1.48 0.76 0.64 0.64 0.49
O3' 1.31 1.83 1.37 1.07 1.52 1.14 1.48 1.10 1.65 1.19 1.83 1.70 1.62 1.25 1.34 1.61 1.10 1.23 0.57 0.57 0.29 0.19
O4' 1.10 1.67 1.24 0.92 1.38 0.93 1.43 0.97 1.67 1.08 1.77 1.50 1.77 1.21 1.18 1.48 0.97 0.96 0.60 0.54 0.27 0.22
O5' 0.50 0.99 0.67 0.52 0.69 0.56 0.74 0.84 0.97 0.55 1.09 0.81 1.08 0.62 0.54 0.90 0.49 0.44 0.64 0.53 0.58 0.50
OP1 0.69 1.55 0.68 0.64 1.08 0.47 1.12 0.66 1.46 0.67 1.67 1.28 1.58 0.83 0.79 0.79 0.60 0.45 0.68 0.39 0.56 0.51
OP2 0.69 1.52 0.84 0.99 1.00 0.85 1.10 1.17 1.49 0.80 1.70 1.19 1.69 0.90 0.77 0.81 0.98 0.60 1.14 1.13 1.28 1.19
P 0.64 1.44 0.70 0.72 0.99 0.59 1.06 0.84 1.39 0.70 1.57 1.17 1.55 0.84 0.75 0.78 0.70 0.47 0.82 0.73 0.85 0.78

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.07 0.01 0.04 0.04 0.02 0.02 0.07 0.04 0.02 0.06 0.07 0.04 0.02 0.01 0.03 0.25 0.01 0.31 0.54 0.41 0.36
C2 0.07 0.00 0.51 0.44 0.01 0.20 0.01 0.29 0.01 0.02 0.00 0.01 0.01 0.02 0.02 0.38 0.41 0.36 0.46 0.66 0.87 0.63
C2' 0.01 0.51 0.00 0.01 0.27 0.03 0.15 0.15 0.26 0.24 0.41 0.50 0.19 0.12 0.03 0.00 0.03 0.02 0.42 0.91 0.64 0.60
C3' 0.04 0.44 0.01 0.00 0.35 0.01 0.40 0.02 0.45 0.27 0.47 0.38 0.47 0.35 0.24 0.03 0.02 0.03 0.29 0.89 0.36 0.48
C4 0.04 0.01 0.27 0.35 0.00 0.06 0.01 0.15 0.01 0.01 0.02 0.01 0.02 0.01 0.01 0.09 0.28 0.18 0.51 0.63 0.68 0.58
C4' 0.02 0.20 0.03 0.01 0.06 0.00 0.11 0.01 0.08 0.29 0.12 0.20 0.13 0.25 0.10 0.31 0.04 0.01 0.03 0.42 0.31 0.10
C5 0.02 0.01 0.15 0.40 0.01 0.11 0.00 0.21 0.01 0.01 0.01 0.01 0.02 0.01 0.01 0.18 0.30 0.06 0.66 0.72 0.74 0.70
C5' 0.07 0.29 0.15 0.02 0.15 0.01 0.21 0.00 0.19 0.40 0.21 0.28 0.25 0.38 0.16 0.18 0.19 0.03 0.01 0.34 0.43 0.01
C6 0.04 0.01 0.26 0.45 0.01 0.08 0.01 0.19 0.00 0.01 0.00 0.01 0.01 0.02 0.02 0.12 0.38 0.14 0.65 0.75 0.83 0.72
C8 0.02 0.02 0.24 0.27 0.01 0.29 0.01 0.40 0.01 0.00 0.01 0.02 0.03 0.00 0.01 0.50 0.14 0.25 0.78 0.71 0.65 0.76
N1 0.06 0.00 0.41 0.47 0.02 0.12 0.01 0.21 0.00 0.01 0.00 0.01 0.01 0.01 0.02 0.22 0.42 0.27 0.55 0.72 0.86 0.68
N3 0.07 0.01 0.50 0.38 0.01 0.20 0.01 0.28 0.01 0.02 0.01 0.00 0.01 0.01 0.02 0.40 0.36 0.37 0.42 0.62 0.80 0.57
N6 0.04 0.01 0.19 0.47 0.02 0.13 0.02 0.25 0.01 0.03 0.01 0.01 0.00 0.04 0.03 0.19 0.41 0.08 0.74 0.83 0.90 0.81
N7 0.02 0.02 0.12 0.35 0.01 0.25 0.01 0.38 0.02 0.00 0.01 0.01 0.04 0.00 0.02 0.44 0.25 0.15 0.82 0.79 0.81 0.83
N9 0.01 0.02 0.03 0.24 0.01 0.10 0.01 0.16 0.02 0.01 0.02 0.02 0.03 0.02 0.00 0.18 0.16 0.02 0.52 0.60 0.51 0.53
O2' 0.03 0.38 0.00 0.03 0.09 0.31 0.18 0.18 0.12 0.50 0.22 0.40 0.19 0.44 0.18 0.00 0.05 0.22 0.20 0.76 0.55 0.40
O3' 0.25 0.41 0.03 0.02 0.28 0.04 0.30 0.19 0.38 0.14 0.42 0.36 0.41 0.25 0.16 0.05 0.00 0.17 0.19 0.87 0.29 0.37
O4' 0.01 0.36 0.02 0.03 0.18 0.01 0.06 0.03 0.14 0.25 0.27 0.37 0.08 0.15 0.02 0.22 0.17 0.00 0.30 0.45 0.49 0.39
O5' 0.31 0.46 0.42 0.29 0.51 0.03 0.66 0.01 0.65 0.78 0.55 0.42 0.74 0.82 0.52 0.20 0.19 0.30 0.00 0.02 0.01 0.01
OP1 0.54 0.66 0.91 0.89 0.63 0.42 0.72 0.34 0.75 0.71 0.72 0.62 0.83 0.79 0.60 0.76 0.87 0.45 0.02 0.00 0.01 0.01
OP2 0.41 0.87 0.64 0.36 0.68 0.31 0.74 0.43 0.83 0.65 0.86 0.80 0.90 0.81 0.51 0.55 0.29 0.49 0.01 0.01 0.00 0.01
P 0.36 0.63 0.60 0.48 0.58 0.10 0.70 0.01 0.72 0.76 0.68 0.57 0.81 0.83 0.53 0.40 0.37 0.39 0.01 0.01 0.01 0.00