ClaRNA

Doublet Group distance statistics: 48818

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Distances from reference structure (by RMSD)

1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.000, 0.006, 0.013, 0.013 max_d=0.013 avg_d=0.006 std_dev=0.006
N3 A 0, 0.000, 0.017, 0.035, 0.035 max_d=0.035 avg_d=0.017 std_dev=0.017
C4 A 0, 0.000, 0.019, 0.039, 0.039 max_d=0.039 avg_d=0.019 std_dev=0.019
C6 A 0, 0.000, 0.022, 0.044, 0.044 max_d=0.044 avg_d=0.022 std_dev=0.022
N1 A 0, 0.000, 0.022, 0.045, 0.045 max_d=0.045 avg_d=0.022 std_dev=0.022
C2 A 0, 0.000, 0.031, 0.061, 0.061 max_d=0.061 avg_d=0.031 std_dev=0.031
C1' A 0, 0.000, 0.033, 0.066, 0.066 max_d=0.066 avg_d=0.033 std_dev=0.033
O4 A 0, 0.000, 0.036, 0.071, 0.071 max_d=0.071 avg_d=0.036 std_dev=0.036
O2 A 0, 0.000, 0.078, 0.156, 0.156 max_d=0.156 avg_d=0.078 std_dev=0.078
O4' A 0, 0.000, 0.114, 0.227, 0.227 max_d=0.227 avg_d=0.114 std_dev=0.114
C2' A 0, 0.000, 0.186, 0.373, 0.373 max_d=0.373 avg_d=0.186 std_dev=0.186
C5' A 0, 0.000, 0.273, 0.547, 0.547 max_d=0.547 avg_d=0.273 std_dev=0.273
C4' A 0, 0.000, 0.430, 0.861, 0.861 max_d=0.861 avg_d=0.430 std_dev=0.430
P B 0, 0.000, 0.498, 0.997, 0.997 max_d=0.997 avg_d=0.498 std_dev=0.498
O2' A 0, 0.000, 0.510, 1.019, 1.019 max_d=1.019 avg_d=0.510 std_dev=0.510
OP2 B 0, 0.000, 0.596, 1.192, 1.192 max_d=1.192 avg_d=0.596 std_dev=0.596
O5' A 0, 0.000, 0.820, 1.640, 1.640 max_d=1.640 avg_d=0.820 std_dev=0.820
C3' A 0, 0.000, 0.856, 1.711, 1.711 max_d=1.711 avg_d=0.856 std_dev=0.856
OP1 B 0, 0.000, 0.971, 1.943, 1.943 max_d=1.943 avg_d=0.971 std_dev=0.971
O5' B 0, 0.000, 1.637, 3.274, 3.274 max_d=3.274 avg_d=1.637 std_dev=1.637
O3' A 0, 0.000, 1.651, 3.303, 3.303 max_d=3.303 avg_d=1.651 std_dev=1.651
P A 0, 0.000, 2.188, 4.377, 4.377 max_d=4.377 avg_d=2.188 std_dev=2.188
C5' B 0, 0.000, 2.214, 4.428, 4.428 max_d=4.428 avg_d=2.214 std_dev=2.214
OP2 A 0, 0.000, 2.699, 5.399, 5.399 max_d=5.399 avg_d=2.699 std_dev=2.699
OP1 A 0, 0.000, 2.839, 5.678, 5.678 max_d=5.678 avg_d=2.839 std_dev=2.839
C4' B 0, 0.000, 3.335, 6.670, 6.670 max_d=6.670 avg_d=3.335 std_dev=3.335
C3' B 0, 0.000, 3.686, 7.371, 7.371 max_d=7.371 avg_d=3.686 std_dev=3.686
O4' B 0, 0.000, 3.829, 7.659, 7.659 max_d=7.659 avg_d=3.829 std_dev=3.829
O3' B 0, 0.000, 4.409, 8.818, 8.818 max_d=8.818 avg_d=4.409 std_dev=4.409
C6 B 0, 0.000, 4.520, 9.040, 9.040 max_d=9.040 avg_d=4.520 std_dev=4.520
C1' B 0, 0.000, 4.557, 9.114, 9.114 max_d=9.114 avg_d=4.557 std_dev=4.557
C2' B 0, 0.000, 4.577, 9.153, 9.153 max_d=9.153 avg_d=4.577 std_dev=4.577
C5 B 0, 0.000, 4.659, 9.318, 9.318 max_d=9.318 avg_d=4.659 std_dev=4.659
N1 B 0, 0.000, 4.731, 9.462, 9.462 max_d=9.462 avg_d=4.731 std_dev=4.731
C4 B 0, 0.000, 5.167, 10.335, 10.335 max_d=10.335 avg_d=5.167 std_dev=5.167
C2 B 0, 0.000, 5.312, 10.623, 10.623 max_d=10.623 avg_d=5.312 std_dev=5.312
N4 B 0, 0.000, 5.416, 10.832, 10.832 max_d=10.832 avg_d=5.416 std_dev=5.416
O2' B 0, 0.000, 5.451, 10.903, 10.903 max_d=10.903 avg_d=5.451 std_dev=5.451
N3 B 0, 0.000, 5.566, 11.131, 11.131 max_d=11.131 avg_d=5.566 std_dev=5.566
O2 B 0, 0.000, 5.701, 11.402, 11.402 max_d=11.402 avg_d=5.701 std_dev=5.701

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 0.04 0.00 0.01 0.01 0.00 0.00 0.03 0.01 0.01 0.03 0.07 0.01 0.24 0.02 0.00 0.03 0.35 0.18 0.08
C2 0.04 0.00 0.10 0.17 0.00 0.08 0.01 0.04 0.00 0.01 0.00 0.00 0.22 0.11 0.01 0.03 0.09 0.23 0.41 0.26
C2' 0.00 0.10 0.00 0.00 0.08 0.01 0.04 0.12 0.01 0.04 0.11 0.14 0.00 0.02 0.09 0.02 0.30 0.92 0.36 0.43
C3' 0.01 0.17 0.00 0.00 0.28 0.01 0.28 0.02 0.24 0.17 0.23 0.10 0.02 0.01 0.30 0.03 0.04 0.83 0.15 0.31
C4 0.01 0.00 0.08 0.28 0.00 0.09 0.01 0.07 0.01 0.01 0.00 0.00 0.22 0.04 0.00 0.00 0.28 0.28 0.92 0.67
C4' 0.00 0.08 0.01 0.01 0.09 0.00 0.08 0.01 0.07 0.07 0.09 0.10 0.24 0.01 0.09 0.00 0.01 0.32 0.04 0.03
C5 0.00 0.01 0.04 0.28 0.01 0.08 0.00 0.08 0.00 0.01 0.00 0.01 0.18 0.07 0.01 0.01 0.34 0.49 1.09 0.83
C5' 0.03 0.04 0.12 0.02 0.07 0.01 0.08 0.00 0.07 0.04 0.06 0.05 0.12 0.20 0.08 0.01 0.01 0.02 0.01 0.01
C6 0.01 0.00 0.01 0.24 0.01 0.07 0.00 0.07 0.00 0.00 0.01 0.01 0.13 0.03 0.01 0.01 0.30 0.36 0.91 0.71
N1 0.01 0.01 0.04 0.17 0.01 0.07 0.01 0.04 0.00 0.00 0.00 0.02 0.15 0.09 0.01 0.01 0.14 0.06 0.51 0.37
N3 0.03 0.00 0.11 0.23 0.00 0.09 0.00 0.06 0.01 0.00 0.00 0.00 0.24 0.03 0.00 0.01 0.17 0.04 0.62 0.43
O2 0.07 0.00 0.14 0.10 0.00 0.10 0.01 0.05 0.01 0.02 0.00 0.00 0.22 0.19 0.00 0.06 0.00 0.50 0.16 0.05
O2' 0.01 0.22 0.00 0.02 0.22 0.24 0.18 0.12 0.13 0.15 0.24 0.22 0.00 0.01 0.24 0.14 0.21 0.95 0.47 0.43
O3' 0.24 0.11 0.02 0.01 0.04 0.01 0.07 0.20 0.03 0.09 0.03 0.19 0.01 0.00 0.07 0.14 0.16 0.72 0.03 0.19
O4 0.02 0.01 0.09 0.30 0.00 0.09 0.01 0.08 0.01 0.01 0.00 0.00 0.24 0.07 0.00 0.00 0.30 0.35 1.00 0.72
O4' 0.00 0.03 0.02 0.03 0.00 0.00 0.01 0.01 0.01 0.01 0.01 0.06 0.14 0.14 0.00 0.00 0.11 0.00 0.37 0.31
O5' 0.03 0.09 0.30 0.04 0.28 0.01 0.34 0.01 0.30 0.14 0.17 0.00 0.21 0.16 0.30 0.11 0.00 0.01 0.00 0.01
OP1 0.35 0.23 0.92 0.83 0.28 0.32 0.49 0.02 0.36 0.06 0.04 0.50 0.95 0.72 0.35 0.00 0.01 0.00 0.00 0.00
OP2 0.18 0.41 0.36 0.15 0.92 0.04 1.09 0.01 0.91 0.51 0.62 0.16 0.47 0.03 1.00 0.37 0.00 0.00 0.00 0.00
P 0.08 0.26 0.43 0.31 0.67 0.03 0.83 0.01 0.71 0.37 0.43 0.05 0.43 0.19 0.72 0.31 0.01 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 1.71 1.74 2.05 1.53 0.95 1.36 0.75 0.96 1.10 1.56 1.46 0.51 2.02 2.31 1.45 1.46 0.81 0.19 0.04 0.23
C2 1.44 1.45 1.81 1.41 0.31 1.27 0.03 0.94 0.44 1.16 1.02 0.15 1.94 1.90 1.27 1.31 0.83 0.23 0.04 0.27
C2' 2.00 1.97 2.39 1.78 1.35 1.52 1.26 1.00 1.57 1.90 1.71 0.89 2.13 2.73 1.79 1.61 0.78 0.08 0.14 0.09
C3' 2.02 2.02 2.42 1.77 1.58 1.47 1.50 0.90 1.71 1.95 1.85 1.24 2.16 2.84 1.80 1.58 0.70 0.07 0.21 0.03
C4 1.19 1.58 1.27 0.90 0.45 1.01 0.14 0.81 0.17 1.00 1.28 0.16 2.27 1.26 0.61 1.21 0.78 0.01 0.13 0.32
C4' 1.92 2.01 2.23 1.63 1.56 1.44 1.38 0.96 1.56 1.86 1.88 1.27 2.19 2.58 1.58 1.59 0.79 0.07 0.01 0.16
C5 1.45 1.95 1.49 1.02 0.95 1.14 0.35 0.89 0.60 1.35 1.75 0.68 2.55 1.52 0.72 1.42 0.82 0.03 0.15 0.33
C5' 2.17 2.41 2.37 1.72 2.12 1.59 1.85 1.09 1.92 2.19 2.38 1.98 2.56 2.72 1.64 1.83 0.89 0.03 0.01 0.20
C6 1.65 2.06 1.76 1.26 1.15 1.29 0.64 0.97 0.90 1.57 1.87 0.84 2.53 1.87 1.01 1.54 0.86 0.06 0.14 0.32
N1 1.65 1.83 1.91 1.42 0.87 1.33 0.50 0.97 0.87 1.49 1.53 0.45 2.24 2.05 1.25 1.48 0.85 0.16 0.08 0.28
N3 1.19 1.33 1.44 1.12 0.14 1.09 0.35 0.86 0.07 0.90 0.92 0.23 1.98 1.46 0.91 1.17 0.82 0.15 0.06 0.29
O2 1.39 1.09 1.94 1.58 0.06 1.29 0.24 0.93 0.33 0.99 0.58 0.58 1.52 2.10 1.54 1.20 0.79 0.36 0.00 0.23
O2' 2.23 1.84 2.77 2.23 1.03 1.89 1.16 1.38 1.68 1.98 1.40 0.42 2.00 3.17 2.32 1.85 1.13 0.59 0.22 0.47
O3' 2.07 1.92 2.62 2.03 1.39 1.62 1.39 1.06 1.68 1.92 1.67 1.00 2.07 3.08 2.13 1.62 0.89 0.21 0.07 0.20
O4 0.91 1.37 0.92 0.59 0.26 0.78 0.39 0.67 0.14 0.72 1.09 0.04 2.12 0.86 0.27 1.00 0.66 0.13 0.14 0.32
O4' 1.77 1.92 2.03 1.48 1.29 1.37 1.03 0.97 1.27 1.68 1.74 0.95 2.17 2.30 1.37 1.53 0.83 0.15 0.10 0.27
O5' 2.45 2.80 2.55 1.82 2.65 1.72 2.31 1.14 2.29 2.54 2.85 2.60 2.91 2.91 1.72 2.05 0.88 0.13 0.14 0.11
OP1 3.05 3.14 3.16 2.37 3.04 2.22 3.00 1.54 3.01 3.09 3.10 2.89 3.17 3.69 2.32 2.55 1.20 0.16 0.07 0.37
OP2 2.55 2.96 2.46 1.63 3.04 1.61 2.74 0.91 2.57 2.71 3.09 3.18 3.00 2.90 1.51 2.08 0.55 0.65 0.66 0.33
P 2.51 2.80 2.54 1.75 2.78 1.68 2.56 1.02 2.47 2.62 2.86 2.79 2.85 2.99 1.65 2.06 0.70 0.37 0.41 0.12

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.00 0.00 0.02 0.00 0.02 0.01 0.02 0.01 0.00 0.00 0.00 0.00 0.00 0.13 0.01 0.05 0.03 0.08 0.12
C2 0.00 0.00 0.12 0.10 0.01 0.21 0.00 0.30 0.00 0.00 0.00 0.02 0.00 0.10 0.08 0.34 0.25 0.24 0.13 0.17
C2' 0.00 0.12 0.00 0.01 0.05 0.03 0.02 0.00 0.05 0.02 0.10 0.05 0.17 0.00 0.02 0.01 0.06 0.24 0.19 0.10
C3' 0.02 0.10 0.01 0.00 0.35 0.01 0.47 0.03 0.43 0.21 0.20 0.38 0.11 0.01 0.00 0.02 0.06 0.22 0.07 0.03
C4 0.00 0.01 0.05 0.35 0.00 0.16 0.00 0.32 0.01 0.00 0.00 0.00 0.01 0.22 0.27 0.00 0.53 0.66 0.91 0.77
C4' 0.02 0.21 0.03 0.01 0.16 0.00 0.43 0.01 0.47 0.09 0.10 0.18 0.54 0.21 0.01 0.01 0.01 0.09 0.03 0.01
C5 0.01 0.00 0.02 0.47 0.00 0.43 0.00 0.75 0.00 0.00 0.00 0.00 0.00 0.43 0.30 0.27 1.05 1.19 1.51 1.36
C5' 0.02 0.30 0.00 0.03 0.32 0.01 0.75 0.00 0.77 0.17 0.13 0.35 0.83 0.18 0.10 0.01 0.01 0.02 0.01 0.01
C6 0.01 0.00 0.05 0.43 0.01 0.47 0.00 0.77 0.00 0.00 0.00 0.00 0.00 0.45 0.22 0.36 1.02 1.04 1.27 1.23
N1 0.00 0.00 0.02 0.21 0.00 0.09 0.00 0.17 0.00 0.00 0.00 0.01 0.00 0.14 0.08 0.01 0.28 0.26 0.41 0.40
N3 0.00 0.00 0.10 0.20 0.00 0.10 0.00 0.13 0.00 0.00 0.00 0.01 0.01 0.00 0.18 0.24 0.03 0.03 0.18 0.10
N4 0.00 0.02 0.05 0.38 0.00 0.18 0.00 0.35 0.00 0.01 0.01 0.00 0.02 0.24 0.32 0.00 0.58 0.79 1.07 0.88
O2 0.00 0.00 0.17 0.11 0.01 0.54 0.00 0.83 0.00 0.00 0.01 0.02 0.00 0.37 0.04 0.65 0.90 0.90 0.86 0.88
O2' 0.00 0.10 0.00 0.01 0.22 0.21 0.43 0.18 0.45 0.14 0.00 0.24 0.37 0.00 0.10 0.16 0.06 0.14 0.15 0.00
O3' 0.13 0.08 0.02 0.00 0.27 0.01 0.30 0.10 0.22 0.08 0.18 0.32 0.04 0.10 0.00 0.06 0.19 0.11 0.07 0.08
O4' 0.01 0.34 0.01 0.02 0.00 0.01 0.27 0.01 0.36 0.01 0.24 0.00 0.65 0.16 0.06 0.00 0.00 0.01 0.04 0.10
O5' 0.05 0.25 0.06 0.06 0.53 0.01 1.05 0.01 1.02 0.28 0.03 0.58 0.90 0.06 0.19 0.00 0.00 0.00 0.03 0.00
OP1 0.03 0.24 0.24 0.22 0.66 0.09 1.19 0.02 1.04 0.26 0.03 0.79 0.90 0.14 0.11 0.01 0.00 0.00 0.00 0.00
OP2 0.08 0.13 0.19 0.07 0.91 0.03 1.51 0.01 1.27 0.41 0.18 1.07 0.86 0.15 0.07 0.04 0.03 0.00 0.00 0.00
P 0.12 0.17 0.10 0.03 0.77 0.01 1.36 0.01 1.23 0.40 0.10 0.88 0.88 0.00 0.08 0.10 0.00 0.00 0.00 0.00