ClaRNA

Doublet Group distance statistics: 2794

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Distances from reference structure (by RMSD)

9, 112, 139, 100, 51, 25, 9, 3, 4, 7, 6, 0, 0, 1, 0, 0, 0, 0, 12, 22,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4 B 0, 0.066, 0.168, 0.270, 0.751 max_d=0.751 avg_d=0.168 std_dev=0.102
C5 B 0, 0.098, 0.286, 0.475, 1.036 max_d=1.036 avg_d=0.286 std_dev=0.188
N1 A 0, -0.017, 0.208, 0.433, 1.182 max_d=1.182 avg_d=0.208 std_dev=0.225
N3 B 0, 0.063, 0.315, 0.568, 1.357 max_d=1.357 avg_d=0.315 std_dev=0.253
C6 B 0, 0.098, 0.379, 0.659, 1.328 max_d=1.328 avg_d=0.379 std_dev=0.280
N9 B 0, -0.074, 0.305, 0.685, 2.029 max_d=2.029 avg_d=0.305 std_dev=0.380
C2' B 0, 0.144, 0.542, 0.940, 2.156 max_d=2.156 avg_d=0.542 std_dev=0.398
O6 B 0, 0.123, 0.539, 0.955, 1.926 max_d=1.926 avg_d=0.539 std_dev=0.416
C2 B 0, 0.017, 0.467, 0.917, 2.397 max_d=2.397 avg_d=0.467 std_dev=0.450
N1 B 0, 0.006, 0.456, 0.906, 2.201 max_d=2.201 avg_d=0.456 std_dev=0.450
N7 B 0, 0.034, 0.509, 0.984, 2.631 max_d=2.631 avg_d=0.509 std_dev=0.475
C6 A 0, -0.052, 0.430, 0.912, 2.340 max_d=2.340 avg_d=0.430 std_dev=0.482
C1' B 0, -0.100, 0.402, 0.905, 2.265 max_d=2.265 avg_d=0.402 std_dev=0.502
C2 A 0, -0.123, 0.412, 0.948, 2.497 max_d=2.497 avg_d=0.412 std_dev=0.536
C8 B 0, -0.080, 0.507, 1.095, 3.066 max_d=3.066 avg_d=0.507 std_dev=0.588
N3 A 0, -0.134, 0.516, 1.166, 3.199 max_d=3.199 avg_d=0.516 std_dev=0.650
C5 A 0, -0.120, 0.583, 1.286, 3.400 max_d=3.400 avg_d=0.583 std_dev=0.703
C4 A 0, -0.157, 0.558, 1.273, 3.542 max_d=3.542 avg_d=0.558 std_dev=0.715
C1' A 0, -0.271, 0.448, 1.167, 3.694 max_d=3.694 avg_d=0.448 std_dev=0.719
N2 B 0, -0.020, 0.724, 1.469, 4.011 max_d=4.011 avg_d=0.724 std_dev=0.744
O4' A 0, -0.116, 0.641, 1.397, 4.434 max_d=4.434 avg_d=0.641 std_dev=0.756
O2' B 0, 0.171, 0.969, 1.768, 3.621 max_d=3.621 avg_d=0.969 std_dev=0.798
O4' B 0, -0.278, 0.600, 1.479, 4.864 max_d=4.864 avg_d=0.600 std_dev=0.878
C3' B 0, 0.083, 0.969, 1.854, 4.175 max_d=4.175 avg_d=0.969 std_dev=0.885
C4' B 0, -0.146, 0.839, 1.823, 5.568 max_d=5.568 avg_d=0.839 std_dev=0.985
O2 A 0, -0.316, 0.717, 1.751, 4.766 max_d=4.766 avg_d=0.717 std_dev=1.034
O4 A 0, -0.303, 0.827, 1.956, 5.613 max_d=5.613 avg_d=0.827 std_dev=1.129
C2' A 0, -0.591, 0.731, 2.053, 6.123 max_d=6.123 avg_d=0.731 std_dev=1.322
O3' B 0, 0.157, 1.511, 2.866, 5.876 max_d=5.876 avg_d=1.511 std_dev=1.355
C4' A 0, -0.457, 0.917, 2.291, 7.209 max_d=7.209 avg_d=0.917 std_dev=1.374
C5' B 0, -0.381, 1.035, 2.451, 8.170 max_d=8.170 avg_d=1.035 std_dev=1.416
C3' A 0, -0.660, 0.927, 2.515, 7.381 max_d=7.381 avg_d=0.927 std_dev=1.587
O5' B 0, -0.490, 1.125, 2.741, 9.164 max_d=9.164 avg_d=1.125 std_dev=1.615
C5' A 0, -0.390, 1.280, 2.950, 8.727 max_d=8.727 avg_d=1.280 std_dev=1.670
O5' A 0, -0.397, 1.310, 3.018, 8.414 max_d=8.414 avg_d=1.310 std_dev=1.708
O2' A 0, -0.745, 1.011, 2.767, 8.302 max_d=8.302 avg_d=1.011 std_dev=1.756
O3' A 0, -0.931, 1.205, 3.340, 10.022 max_d=10.022 avg_d=1.205 std_dev=2.135
P A 0, -0.507, 1.720, 3.947, 10.617 max_d=10.617 avg_d=1.720 std_dev=2.227
P B 0, -0.908, 1.352, 3.612, 12.037 max_d=12.037 avg_d=1.352 std_dev=2.260
OP2 A 0, -0.398, 1.954, 4.306, 11.576 max_d=11.576 avg_d=1.954 std_dev=2.352
OP2 B 0, -0.862, 1.594, 4.049, 12.933 max_d=12.933 avg_d=1.594 std_dev=2.455
OP1 B 0, -0.961, 1.541, 4.043, 13.665 max_d=13.665 avg_d=1.541 std_dev=2.502
OP1 A 0, -0.349, 2.229, 4.807, 12.939 max_d=12.939 avg_d=2.229 std_dev=2.578

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.01 0.02 0.01 0.02 0.05 0.02 0.01 0.02 0.04 0.02 0.15 0.02 0.01 0.15 0.42 0.32 0.19
C2 0.02 0.00 0.12 0.14 0.01 0.04 0.01 0.09 0.01 0.01 0.01 0.01 0.12 0.13 0.02 0.07 0.24 0.62 0.54 0.29
C2' 0.00 0.12 0.00 0.00 0.06 0.01 0.10 0.10 0.12 0.03 0.09 0.21 0.01 0.02 0.08 0.01 0.27 0.32 0.39 0.28
C3' 0.01 0.14 0.00 0.00 0.20 0.01 0.23 0.02 0.20 0.12 0.17 0.16 0.02 0.01 0.22 0.02 0.20 0.23 0.21 0.15
C4 0.02 0.01 0.06 0.20 0.00 0.09 0.01 0.15 0.01 0.01 0.01 0.02 0.18 0.16 0.01 0.04 0.36 0.80 0.79 0.44
C4' 0.01 0.04 0.01 0.01 0.09 0.00 0.12 0.01 0.12 0.05 0.06 0.07 0.15 0.03 0.10 0.00 0.02 0.20 0.23 0.08
C5 0.02 0.01 0.10 0.23 0.01 0.12 0.00 0.17 0.01 0.01 0.01 0.02 0.20 0.20 0.01 0.06 0.38 0.80 0.79 0.46
C5' 0.05 0.09 0.10 0.02 0.15 0.01 0.17 0.00 0.15 0.09 0.12 0.09 0.07 0.11 0.16 0.02 0.01 0.20 0.32 0.02
C6 0.02 0.01 0.12 0.20 0.01 0.12 0.01 0.15 0.00 0.01 0.01 0.02 0.18 0.18 0.01 0.08 0.33 0.67 0.62 0.37
N1 0.01 0.01 0.03 0.12 0.01 0.05 0.01 0.09 0.01 0.00 0.01 0.02 0.10 0.08 0.02 0.02 0.24 0.57 0.49 0.28
N3 0.02 0.01 0.09 0.17 0.01 0.06 0.01 0.12 0.01 0.01 0.00 0.01 0.14 0.13 0.01 0.05 0.30 0.72 0.68 0.37
O2 0.04 0.01 0.21 0.16 0.02 0.07 0.02 0.09 0.02 0.02 0.01 0.00 0.18 0.24 0.03 0.11 0.20 0.56 0.47 0.25
O2' 0.02 0.12 0.01 0.02 0.18 0.15 0.20 0.07 0.18 0.10 0.14 0.18 0.00 0.05 0.19 0.11 0.19 0.31 0.38 0.23
O3' 0.15 0.13 0.02 0.01 0.16 0.03 0.20 0.11 0.18 0.08 0.13 0.24 0.05 0.00 0.18 0.10 0.21 0.43 0.28 0.22
O4 0.02 0.02 0.08 0.22 0.01 0.10 0.01 0.16 0.01 0.02 0.01 0.03 0.19 0.18 0.00 0.04 0.38 0.86 0.87 0.48
O4' 0.01 0.07 0.01 0.02 0.04 0.00 0.06 0.02 0.08 0.02 0.05 0.11 0.11 0.10 0.04 0.00 0.11 0.41 0.30 0.18
O5' 0.15 0.24 0.27 0.20 0.36 0.02 0.38 0.01 0.33 0.24 0.30 0.20 0.19 0.21 0.38 0.11 0.00 0.02 0.02 0.01
OP1 0.42 0.62 0.32 0.23 0.80 0.20 0.80 0.20 0.67 0.57 0.72 0.56 0.31 0.43 0.86 0.41 0.02 0.00 0.02 0.01
OP2 0.32 0.54 0.39 0.21 0.79 0.23 0.79 0.32 0.62 0.49 0.68 0.47 0.38 0.28 0.87 0.30 0.02 0.02 0.00 0.01
P 0.19 0.29 0.28 0.15 0.44 0.08 0.46 0.02 0.37 0.28 0.37 0.25 0.23 0.22 0.48 0.18 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.77 0.65 0.54 0.75 0.32 1.03 0.35 1.15 0.51 0.83 0.73 0.92 0.38 0.62 0.63 0.51 0.65 1.10 1.20 0.64 1.24 1.28 1.36
C2 0.71 0.47 0.47 0.62 0.34 0.84 0.36 0.79 0.52 0.62 0.58 0.60 0.37 0.51 0.54 0.52 0.67 0.94 0.78 0.69 0.67 0.73 0.78
C2' 1.03 0.71 0.81 1.10 0.42 1.38 0.42 1.53 0.55 1.07 0.81 1.05 0.40 0.78 0.84 0.71 1.00 1.40 1.56 0.72 1.56 1.51 1.68
C3' 1.00 0.83 0.89 1.13 0.53 1.36 0.56 1.59 0.56 1.20 0.84 1.21 0.56 0.96 0.90 0.73 1.01 1.33 1.74 0.64 1.87 1.98 2.05
C4 0.54 0.61 0.66 0.60 0.38 0.55 0.25 0.47 0.35 0.38 0.51 0.74 0.57 0.39 0.40 0.86 0.77 0.57 0.46 0.47 0.31 0.58 0.40
C4' 0.76 0.83 0.68 0.85 0.43 1.08 0.50 1.34 0.55 1.02 0.82 1.19 0.55 0.86 0.70 0.59 0.71 1.09 1.50 0.63 1.77 1.92 1.91
C5 0.54 0.79 0.73 0.61 0.51 0.49 0.36 0.41 0.47 0.38 0.66 0.93 0.74 0.39 0.44 0.97 0.74 0.53 0.42 0.49 0.36 0.76 0.50
C5' 0.62 0.95 0.72 0.74 0.52 0.84 0.61 1.10 0.65 1.00 0.88 1.34 0.71 0.95 0.64 0.75 0.61 0.86 1.33 0.72 1.69 2.03 1.84
C6 0.43 0.78 0.53 0.45 0.41 0.44 0.36 0.46 0.48 0.54 0.70 0.98 0.64 0.50 0.39 0.72 0.48 0.55 0.60 0.49 0.62 0.98 0.79
N1 0.58 0.61 0.39 0.52 0.28 0.72 0.29 0.77 0.46 0.65 0.65 0.81 0.40 0.51 0.48 0.46 0.48 0.84 0.84 0.56 0.82 0.98 0.96
N3 0.57 0.47 0.48 0.53 0.30 0.62 0.35 0.53 0.48 0.47 0.49 0.60 0.42 0.50 0.41 0.60 0.68 0.69 0.53 0.65 0.36 0.54 0.48
O2 0.99 0.54 0.73 0.90 0.53 1.16 0.50 1.10 0.65 0.74 0.67 0.63 0.53 0.59 0.75 0.78 0.95 1.23 1.00 0.88 0.88 0.78 0.94
O2' 1.15 0.79 0.95 1.27 0.47 1.59 0.48 1.75 0.72 1.05 0.95 1.12 0.47 0.75 0.87 0.92 1.22 1.54 1.66 0.93 1.76 1.48 1.75
O3' 1.12 0.85 1.06 1.39 0.52 1.62 0.53 1.96 0.56 1.26 0.88 1.28 0.56 0.96 0.95 0.88 1.31 1.49 2.09 0.67 2.40 2.27 2.51
O4 0.75 0.70 0.91 0.85 0.49 0.79 0.35 0.74 0.42 0.58 0.59 0.87 0.67 0.52 0.59 1.11 1.04 0.74 0.68 0.59 0.58 0.67 0.57
O4' 0.61 0.74 0.49 0.62 0.34 0.87 0.40 1.06 0.52 0.81 0.75 1.04 0.48 0.67 0.55 0.51 0.49 0.94 1.19 0.60 1.36 1.52 1.51
O5' 0.60 1.09 0.81 0.71 0.66 0.64 0.74 0.81 0.80 0.96 0.99 1.46 0.89 1.01 0.65 0.94 0.67 0.67 1.05 0.88 1.31 1.82 1.49
OP1 0.74 1.32 1.02 0.89 0.86 0.69 0.94 0.69 1.07 0.96 1.21 1.67 1.15 1.11 0.74 1.25 1.00 0.67 0.86 1.21 1.26 1.85 1.37
OP2 0.92 1.33 1.29 1.08 1.02 0.78 1.13 0.73 1.23 1.09 1.26 1.62 1.21 1.29 0.92 1.60 1.15 0.70 0.86 1.41 1.14 1.71 1.23
P 0.64 1.22 0.98 0.80 0.78 0.56 0.86 0.58 0.97 0.89 1.10 1.57 1.05 1.05 0.66 1.25 0.89 0.54 0.78 1.11 1.11 1.72 1.27

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.05 0.01 0.02 0.02 0.01 0.02 0.08 0.03 0.02 0.04 0.06 0.04 0.02 0.01 0.02 0.33 0.01 0.20 0.03 0.20 0.35 0.22
C2 0.05 0.00 0.32 0.30 0.01 0.32 0.01 0.61 0.01 0.01 0.01 0.01 0.01 0.01 0.02 0.26 0.42 0.27 0.63 0.02 0.87 0.91 0.77
C2' 0.01 0.32 0.00 0.01 0.17 0.02 0.10 0.21 0.16 0.16 0.25 0.38 0.31 0.10 0.03 0.01 0.03 0.02 0.45 0.13 0.47 0.61 0.49
C3' 0.02 0.30 0.01 0.00 0.24 0.01 0.34 0.02 0.34 0.44 0.30 0.37 0.28 0.45 0.24 0.02 0.01 0.02 0.21 0.38 0.25 0.30 0.18
C4 0.02 0.01 0.17 0.24 0.00 0.13 0.00 0.27 0.01 0.01 0.01 0.02 0.01 0.01 0.01 0.23 0.22 0.14 0.30 0.02 0.37 0.48 0.35
C4' 0.01 0.32 0.02 0.01 0.13 0.00 0.12 0.01 0.13 0.30 0.23 0.43 0.31 0.25 0.10 0.31 0.03 0.00 0.02 0.14 0.14 0.23 0.06
C5 0.02 0.01 0.10 0.34 0.00 0.12 0.00 0.21 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.33 0.16 0.07 0.35 0.02 0.37 0.58 0.39
C5' 0.08 0.61 0.21 0.02 0.27 0.01 0.21 0.00 0.28 0.39 0.46 0.79 0.56 0.34 0.12 0.11 0.22 0.02 0.01 0.27 0.14 0.22 0.02
C6 0.03 0.01 0.16 0.34 0.01 0.13 0.01 0.28 0.00 0.01 0.01 0.02 0.01 0.01 0.02 0.33 0.20 0.12 0.37 0.01 0.47 0.64 0.44
C8 0.02 0.01 0.16 0.44 0.01 0.30 0.01 0.39 0.01 0.00 0.01 0.02 0.01 0.00 0.01 0.38 0.24 0.17 0.61 0.02 0.59 0.78 0.65
N1 0.04 0.01 0.25 0.30 0.01 0.23 0.01 0.46 0.01 0.01 0.00 0.01 0.01 0.01 0.02 0.28 0.29 0.21 0.48 0.01 0.69 0.77 0.61
N2 0.06 0.01 0.38 0.37 0.02 0.43 0.01 0.79 0.02 0.02 0.01 0.00 0.01 0.02 0.02 0.30 0.55 0.33 0.83 0.02 1.19 1.22 1.06
N3 0.04 0.01 0.31 0.28 0.01 0.31 0.01 0.56 0.01 0.01 0.01 0.01 0.00 0.01 0.02 0.23 0.43 0.27 0.57 0.02 0.73 0.76 0.66
N7 0.02 0.01 0.10 0.45 0.01 0.25 0.00 0.34 0.01 0.00 0.01 0.02 0.01 0.00 0.01 0.41 0.26 0.10 0.57 0.02 0.59 0.84 0.65
N9 0.01 0.02 0.03 0.24 0.01 0.10 0.01 0.12 0.02 0.01 0.02 0.02 0.02 0.01 0.00 0.22 0.12 0.02 0.27 0.02 0.25 0.42 0.29
O2' 0.02 0.26 0.01 0.02 0.23 0.31 0.33 0.11 0.33 0.38 0.28 0.30 0.23 0.41 0.22 0.00 0.06 0.22 0.34 0.38 0.35 0.67 0.41
O3' 0.33 0.42 0.03 0.01 0.22 0.03 0.16 0.22 0.20 0.24 0.29 0.55 0.43 0.26 0.12 0.06 0.00 0.23 0.30 0.22 0.50 0.40 0.33
O4' 0.01 0.27 0.02 0.02 0.14 0.00 0.07 0.02 0.12 0.17 0.21 0.33 0.27 0.10 0.02 0.22 0.23 0.00 0.11 0.09 0.14 0.29 0.17
O5' 0.20 0.63 0.45 0.21 0.30 0.02 0.35 0.01 0.37 0.61 0.48 0.83 0.57 0.57 0.27 0.34 0.30 0.11 0.00 0.40 0.02 0.02 0.01
O6 0.03 0.02 0.13 0.38 0.02 0.14 0.02 0.27 0.01 0.02 0.01 0.02 0.02 0.02 0.02 0.38 0.22 0.09 0.40 0.00 0.49 0.72 0.48
OP1 0.20 0.87 0.47 0.25 0.37 0.14 0.37 0.14 0.47 0.59 0.69 1.19 0.73 0.59 0.25 0.35 0.50 0.14 0.02 0.49 0.00 0.01 0.01
OP2 0.35 0.91 0.61 0.30 0.48 0.23 0.58 0.22 0.64 0.78 0.77 1.22 0.76 0.84 0.42 0.67 0.40 0.29 0.02 0.72 0.01 0.00 0.01
P 0.22 0.77 0.49 0.18 0.35 0.06 0.39 0.02 0.44 0.65 0.61 1.06 0.66 0.65 0.29 0.41 0.33 0.17 0.01 0.48 0.01 0.01 0.00