ClaRNA

Doublet Group distance statistics: 2250

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Distances from reference structure (by RMSD)

1, 0, 0, 2, 4, 15, 14, 5, 0, 0, 28, 8, 3, 30, 51, 33, 27, 40, 46, 193,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N9 B 0, 0.700, 1.068, 1.436, 2.326 max_d=2.326 avg_d=1.068 std_dev=0.368
N3 A 0, 0.566, 0.986, 1.406, 2.349 max_d=2.349 avg_d=0.986 std_dev=0.420
C4 B 0, 0.393, 0.823, 1.254, 2.191 max_d=2.191 avg_d=0.823 std_dev=0.430
N1 A 0, 0.592, 1.074, 1.556, 2.823 max_d=2.823 avg_d=1.074 std_dev=0.482
C2 A 0, 0.958, 1.445, 1.931, 3.011 max_d=3.011 avg_d=1.445 std_dev=0.487
C5 B 0, 0.885, 1.611, 2.336, 4.244 max_d=4.244 avg_d=1.611 std_dev=0.725
C1' A 0, 1.178, 1.951, 2.723, 4.425 max_d=4.425 avg_d=1.951 std_dev=0.773
N3 B 0, 0.664, 1.441, 2.219, 4.398 max_d=4.398 avg_d=1.441 std_dev=0.777
C6 A 0, 0.752, 1.609, 2.466, 3.691 max_d=3.691 avg_d=1.609 std_dev=0.857
N1 B 0, 0.631, 1.521, 2.410, 5.235 max_d=5.235 avg_d=1.521 std_dev=0.889
C8 B 0, 0.835, 1.736, 2.637, 4.636 max_d=4.636 avg_d=1.736 std_dev=0.901
O5' B 0, 2.067, 2.975, 3.882, 6.049 max_d=6.049 avg_d=2.975 std_dev=0.908
C1' B 0, 0.801, 1.722, 2.643, 3.984 max_d=3.984 avg_d=1.722 std_dev=0.921
C4 A 0, 0.660, 1.589, 2.519, 4.004 max_d=4.004 avg_d=1.589 std_dev=0.930
C2 B 0, 0.520, 1.463, 2.407, 5.572 max_d=5.572 avg_d=1.463 std_dev=0.943
O4' B 0, 1.191, 2.161, 3.131, 4.774 max_d=4.774 avg_d=2.161 std_dev=0.970
C6 B 0, 1.049, 2.047, 3.046, 5.160 max_d=5.160 avg_d=2.047 std_dev=0.998
O4' A 0, 1.257, 2.330, 3.403, 4.670 max_d=4.670 avg_d=2.330 std_dev=1.073
O2 A 0, 1.649, 2.733, 3.818, 4.540 max_d=4.540 avg_d=2.733 std_dev=1.085
N7 B 0, 1.130, 2.325, 3.521, 5.505 max_d=5.505 avg_d=2.325 std_dev=1.195
C5' B 0, 2.357, 3.598, 4.840, 6.375 max_d=6.375 avg_d=3.598 std_dev=1.241
C2' A 0, 1.422, 2.664, 3.907, 6.560 max_d=6.560 avg_d=2.664 std_dev=1.243
C5 A 0, 0.944, 2.187, 3.430, 4.985 max_d=4.985 avg_d=2.187 std_dev=1.243
C4' A 0, 1.253, 2.522, 3.791, 6.215 max_d=6.215 avg_d=2.522 std_dev=1.269
O5' A 0, 2.933, 4.229, 5.526, 8.264 max_d=8.264 avg_d=4.229 std_dev=1.297
P B 0, 1.687, 2.991, 4.295, 5.930 max_d=5.930 avg_d=2.991 std_dev=1.304
C4' B 0, 1.639, 2.985, 4.331, 6.289 max_d=6.289 avg_d=2.985 std_dev=1.346
OP2 B 0, 1.254, 2.613, 3.972, 6.893 max_d=6.893 avg_d=2.613 std_dev=1.359
O4 A 0, 0.920, 2.287, 3.654, 6.250 max_d=6.250 avg_d=2.287 std_dev=1.367
OP1 B 0, 2.656, 4.044, 5.432, 6.770 max_d=6.770 avg_d=4.044 std_dev=1.388
C3' A 0, 1.467, 2.875, 4.284, 7.441 max_d=7.441 avg_d=2.875 std_dev=1.408
N2 B 0, 0.805, 2.314, 3.823, 7.777 max_d=7.777 avg_d=2.314 std_dev=1.509
C2' B 0, 1.013, 2.576, 4.140, 6.202 max_d=6.202 avg_d=2.576 std_dev=1.564
C5' A 0, 1.676, 3.270, 4.865, 6.851 max_d=6.851 avg_d=3.270 std_dev=1.594
O6 B 0, 1.420, 3.057, 4.695, 7.395 max_d=7.395 avg_d=3.057 std_dev=1.637
C3' B 0, 1.705, 3.366, 5.028, 7.173 max_d=7.173 avg_d=3.366 std_dev=1.662
O2' A 0, 2.147, 3.912, 5.676, 8.609 max_d=8.609 avg_d=3.912 std_dev=1.764
P A 0, 4.087, 5.929, 7.771, 10.839 max_d=10.839 avg_d=5.929 std_dev=1.842
O3' A 0, 1.783, 3.863, 5.943, 10.028 max_d=10.028 avg_d=3.863 std_dev=2.080
OP1 A 0, 3.952, 6.184, 8.416, 11.682 max_d=11.682 avg_d=6.184 std_dev=2.232
O2' B 0, 0.981, 3.286, 5.591, 8.419 max_d=8.419 avg_d=3.286 std_dev=2.305
O3' B 0, 2.227, 4.570, 6.913, 9.984 max_d=9.984 avg_d=4.570 std_dev=2.343
OP2 A 0, 4.668, 7.014, 9.360, 13.166 max_d=13.166 avg_d=7.014 std_dev=2.346

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 0.01 0.02 0.02 0.02 0.02 0.09 0.02 0.01 0.02 0.03 0.03 0.34 0.03 0.01 0.32 0.46 0.38 0.31
C2 0.02 0.00 0.17 0.21 0.01 0.09 0.01 0.18 0.01 0.01 0.01 0.01 0.32 0.30 0.02 0.15 0.41 0.63 0.64 0.43
C2' 0.01 0.17 0.00 0.01 0.08 0.02 0.15 0.22 0.18 0.04 0.13 0.30 0.00 0.05 0.09 0.03 0.52 0.63 0.58 0.54
C3' 0.02 0.21 0.01 0.00 0.38 0.01 0.43 0.03 0.38 0.23 0.30 0.16 0.02 0.01 0.41 0.02 0.18 0.27 0.28 0.18
C4 0.02 0.01 0.08 0.38 0.00 0.16 0.01 0.28 0.01 0.01 0.01 0.02 0.41 0.23 0.01 0.04 0.67 0.88 1.19 0.82
C4' 0.02 0.09 0.02 0.01 0.16 0.00 0.22 0.01 0.22 0.09 0.11 0.15 0.33 0.04 0.17 0.01 0.02 0.20 0.36 0.13
C5 0.02 0.01 0.15 0.43 0.01 0.22 0.00 0.35 0.00 0.01 0.01 0.01 0.41 0.30 0.01 0.12 0.77 0.99 1.31 0.96
C5' 0.09 0.18 0.22 0.03 0.28 0.01 0.35 0.00 0.32 0.16 0.22 0.23 0.15 0.22 0.30 0.02 0.01 0.21 0.30 0.02
C6 0.02 0.01 0.18 0.38 0.01 0.22 0.00 0.32 0.00 0.01 0.01 0.01 0.34 0.25 0.02 0.16 0.70 0.87 1.03 0.81
N1 0.01 0.01 0.04 0.23 0.01 0.09 0.01 0.16 0.01 0.00 0.01 0.01 0.23 0.17 0.02 0.02 0.47 0.63 0.65 0.50
N3 0.02 0.01 0.13 0.30 0.01 0.11 0.01 0.22 0.01 0.01 0.00 0.01 0.38 0.23 0.02 0.10 0.52 0.73 0.89 0.59
O2 0.03 0.01 0.30 0.16 0.02 0.15 0.01 0.23 0.01 0.01 0.01 0.00 0.38 0.51 0.03 0.25 0.29 0.62 0.49 0.31
O2' 0.03 0.32 0.00 0.02 0.41 0.33 0.41 0.15 0.34 0.23 0.38 0.38 0.00 0.07 0.45 0.22 0.38 0.55 0.74 0.47
O3' 0.34 0.30 0.05 0.01 0.23 0.04 0.30 0.22 0.25 0.17 0.23 0.51 0.07 0.00 0.26 0.23 0.37 0.51 0.69 0.48
O4 0.03 0.02 0.09 0.41 0.01 0.17 0.01 0.30 0.02 0.02 0.02 0.03 0.45 0.26 0.00 0.05 0.71 0.95 1.34 0.90
O4' 0.01 0.15 0.03 0.02 0.04 0.01 0.12 0.02 0.16 0.02 0.10 0.25 0.22 0.23 0.05 0.00 0.23 0.35 0.36 0.25
O5' 0.32 0.41 0.52 0.18 0.67 0.02 0.77 0.01 0.70 0.47 0.52 0.29 0.38 0.37 0.71 0.23 0.00 0.02 0.02 0.01
OP1 0.46 0.63 0.63 0.27 0.88 0.20 0.99 0.21 0.87 0.63 0.73 0.62 0.55 0.51 0.95 0.35 0.02 0.00 0.01 0.01
OP2 0.38 0.64 0.58 0.28 1.19 0.36 1.31 0.30 1.03 0.65 0.89 0.49 0.74 0.69 1.34 0.36 0.02 0.01 0.00 0.01
P 0.31 0.43 0.54 0.18 0.82 0.13 0.96 0.02 0.81 0.50 0.59 0.31 0.47 0.48 0.90 0.25 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' 2.29 2.55 2.56 2.12 2.27 1.95 2.41 1.46 2.62 2.20 2.60 2.74 2.43 2.50 2.14 3.12 2.21 2.03 1.10 2.90 1.12 0.81 0.48
C2 1.56 1.92 1.83 1.45 1.60 1.40 1.77 1.14 1.96 1.67 1.97 2.11 1.75 1.90 1.49 2.15 1.39 1.44 0.89 2.17 1.14 0.83 0.39
C2' 2.45 2.55 2.84 2.41 2.31 2.14 2.38 1.62 2.56 2.22 2.54 2.76 2.50 2.45 2.23 3.50 2.57 2.11 1.27 2.83 1.15 0.82 0.64
C3' 2.48 2.65 2.87 2.43 2.35 2.09 2.43 1.55 2.65 2.22 2.64 2.89 2.58 2.48 2.24 3.63 2.66 2.09 1.20 2.97 1.14 0.79 0.57
C4 1.15 2.16 1.30 0.99 1.65 0.99 1.87 0.95 2.18 1.48 2.27 2.40 1.85 1.83 1.32 1.52 0.97 1.12 0.58 2.37 1.09 0.89 0.33
C4' 2.43 2.88 2.70 2.23 2.50 1.97 2.67 1.42 2.97 2.31 2.95 3.13 2.73 2.69 2.30 3.40 2.43 2.07 1.03 3.35 1.12 0.83 0.45
C5 1.43 2.44 1.56 1.17 1.91 1.15 2.17 1.01 2.53 1.72 2.60 2.69 2.10 2.12 1.58 1.89 1.14 1.33 0.66 2.80 1.09 0.87 0.35
C5' 2.34 3.03 2.57 2.07 2.56 1.82 2.78 1.31 3.16 2.34 3.15 3.30 2.79 2.76 2.30 3.25 2.23 1.97 0.94 3.58 1.12 0.86 0.42
C6 1.69 2.44 1.88 1.43 1.99 1.36 2.23 1.10 2.55 1.88 2.58 2.68 2.17 2.25 1.74 2.30 1.40 1.53 0.78 2.85 1.12 0.85 0.37
N1 1.84 2.27 2.08 1.65 1.93 1.56 2.12 1.21 2.35 1.91 2.35 2.47 2.08 2.22 1.77 2.52 1.64 1.66 0.92 2.61 1.13 0.83 0.41
N3 1.09 1.81 1.33 0.96 1.39 0.96 1.59 0.88 1.82 1.38 1.88 2.04 1.56 1.66 1.17 1.56 0.87 1.04 0.62 2.00 1.14 0.89 0.30
O2 1.77 1.86 2.06 1.76 1.65 1.71 1.76 1.39 1.88 1.74 1.87 2.00 1.77 1.90 1.61 2.35 1.73 1.66 1.09 2.07 1.10 0.78 0.48
O2' 2.69 2.81 3.09 2.61 2.61 2.29 2.68 1.71 2.85 2.48 2.81 2.98 2.78 2.73 2.51 3.76 2.82 2.27 1.39 3.10 1.34 1.05 0.90
O3' 2.63 2.73 3.07 2.68 2.46 2.22 2.52 1.65 2.72 2.33 2.69 2.97 2.70 2.59 2.37 3.90 3.00 2.17 1.30 3.05 1.38 0.91 0.85
O4 1.17 2.29 1.24 1.11 1.76 1.13 1.92 1.11 2.24 1.43 2.38 2.52 1.97 1.77 1.37 1.34 1.21 1.20 0.64 2.37 1.02 0.91 0.41
O4' 2.36 2.89 2.53 2.04 2.52 1.87 2.73 1.35 3.03 2.35 3.00 3.11 2.71 2.76 2.30 3.11 2.15 2.05 0.98 3.38 1.12 0.88 0.44
O5' 2.27 2.93 2.55 2.06 2.45 1.84 2.63 1.43 3.00 2.23 3.04 3.22 2.68 2.60 2.21 3.20 2.19 1.93 1.10 3.38 1.20 0.89 0.57
OP1 2.38 3.50 2.55 2.05 2.91 1.77 3.19 1.37 3.67 2.59 3.72 3.80 3.13 3.07 2.52 3.12 2.11 1.99 1.12 4.12 1.11 1.12 0.72
OP2 2.13 3.09 2.37 1.92 2.44 1.84 2.56 1.57 3.00 2.04 3.18 3.46 2.76 2.39 2.10 2.93 2.04 1.92 1.22 3.32 1.37 1.11 0.85
P 2.23 3.20 2.43 1.93 2.59 1.76 2.80 1.39 3.24 2.26 3.34 3.53 2.87 2.67 2.25 3.02 2.02 1.92 1.06 3.63 1.18 0.96 0.58

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.04 0.00 0.02 0.02 0.01 0.01 0.12 0.02 0.02 0.03 0.05 0.04 0.01 0.01 0.03 0.34 0.01 0.35 0.02 0.45 0.50 0.35
C2 0.04 0.00 0.45 0.40 0.01 0.39 0.01 0.68 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.49 0.36 0.46 0.73 0.01 0.92 1.14 0.87
C2' 0.00 0.45 0.00 0.01 0.24 0.02 0.13 0.24 0.21 0.21 0.36 0.54 0.44 0.12 0.03 0.00 0.04 0.02 0.56 0.17 0.75 0.80 0.63
C3' 0.02 0.40 0.01 0.00 0.32 0.01 0.39 0.03 0.42 0.36 0.42 0.43 0.35 0.41 0.25 0.02 0.01 0.02 0.32 0.45 0.51 0.50 0.35
C4 0.02 0.01 0.24 0.32 0.00 0.19 0.00 0.38 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.27 0.21 0.24 0.56 0.01 0.70 0.91 0.65
C4' 0.01 0.39 0.02 0.01 0.19 0.00 0.14 0.01 0.19 0.27 0.30 0.50 0.37 0.21 0.09 0.33 0.03 0.01 0.02 0.17 0.27 0.24 0.09
C5 0.01 0.01 0.13 0.39 0.00 0.14 0.00 0.31 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.30 0.20 0.11 0.66 0.01 0.81 1.12 0.78
C5' 0.12 0.68 0.24 0.03 0.38 0.01 0.31 0.00 0.41 0.34 0.58 0.84 0.62 0.30 0.19 0.13 0.24 0.02 0.01 0.38 0.25 0.30 0.02
C6 0.02 0.01 0.21 0.42 0.01 0.19 0.01 0.41 0.00 0.01 0.00 0.02 0.01 0.01 0.01 0.32 0.24 0.20 0.68 0.01 0.88 1.22 0.84
C8 0.02 0.01 0.21 0.36 0.01 0.27 0.01 0.34 0.01 0.00 0.01 0.02 0.01 0.00 0.00 0.44 0.20 0.24 0.82 0.02 0.79 1.14 0.85
N1 0.03 0.01 0.36 0.42 0.01 0.30 0.01 0.58 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.39 0.29 0.36 0.70 0.01 0.91 1.20 0.86
N2 0.05 0.01 0.54 0.43 0.01 0.50 0.01 0.84 0.02 0.02 0.01 0.00 0.01 0.01 0.02 0.63 0.46 0.56 0.85 0.02 1.07 1.28 1.02
N3 0.04 0.01 0.44 0.35 0.00 0.37 0.01 0.62 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.47 0.36 0.46 0.64 0.01 0.80 0.96 0.74
N7 0.01 0.01 0.12 0.41 0.01 0.21 0.00 0.30 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.42 0.24 0.13 0.81 0.02 0.90 1.30 0.93
N9 0.01 0.01 0.03 0.25 0.01 0.09 0.01 0.19 0.01 0.00 0.01 0.02 0.01 0.01 0.00 0.21 0.14 0.02 0.54 0.02 0.59 0.79 0.56
O2' 0.03 0.49 0.00 0.02 0.27 0.33 0.30 0.13 0.32 0.44 0.39 0.63 0.47 0.42 0.21 0.00 0.07 0.23 0.39 0.34 0.68 0.78 0.51
O3' 0.34 0.36 0.04 0.01 0.21 0.03 0.20 0.24 0.24 0.20 0.29 0.46 0.36 0.24 0.14 0.07 0.00 0.27 0.30 0.28 0.61 0.52 0.38
O4' 0.01 0.46 0.02 0.02 0.24 0.01 0.11 0.02 0.20 0.24 0.36 0.56 0.46 0.13 0.02 0.23 0.27 0.00 0.25 0.15 0.30 0.36 0.26
O5' 0.35 0.73 0.56 0.32 0.56 0.02 0.66 0.01 0.68 0.82 0.70 0.85 0.64 0.81 0.54 0.39 0.30 0.25 0.00 0.73 0.02 0.02 0.01
O6 0.02 0.01 0.17 0.45 0.01 0.17 0.01 0.38 0.01 0.02 0.01 0.02 0.01 0.02 0.02 0.34 0.28 0.15 0.73 0.00 0.95 1.34 0.92
OP1 0.45 0.92 0.75 0.51 0.70 0.27 0.81 0.25 0.88 0.79 0.91 1.07 0.80 0.90 0.59 0.68 0.61 0.30 0.02 0.95 0.00 0.01 0.01
OP2 0.50 1.14 0.80 0.50 0.91 0.24 1.12 0.30 1.22 1.14 1.20 1.28 0.96 1.30 0.79 0.78 0.52 0.36 0.02 1.34 0.01 0.00 0.01
P 0.35 0.87 0.63 0.35 0.65 0.09 0.78 0.02 0.84 0.85 0.86 1.02 0.74 0.93 0.56 0.51 0.38 0.26 0.01 0.92 0.01 0.01 0.00