ClaRNA

Doublet Group distance statistics: 136

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Distances from reference structure (by RMSD)

1, 0, 9, 24, 1, 0, 3, 3, 1, 1, 1, 0, 4, 38, 14, 37, 24, 9, 49, 281,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.886, 1.392, 1.899, 2.957 max_d=2.957 avg_d=1.392 std_dev=0.507
C4 A 0, 0.987, 1.527, 2.067, 2.799 max_d=2.799 avg_d=1.527 std_dev=0.540
C6 A 0, 1.005, 1.565, 2.126, 2.993 max_d=2.993 avg_d=1.565 std_dev=0.561
N1 B 0, 0.871, 1.512, 2.154, 2.920 max_d=2.920 avg_d=1.512 std_dev=0.641
C6 B 0, 0.837, 1.495, 2.153, 2.836 max_d=2.836 avg_d=1.495 std_dev=0.658
O5' B 0, 1.351, 2.063, 2.775, 4.376 max_d=4.376 avg_d=2.063 std_dev=0.712
N4 A 0, 0.957, 1.734, 2.512, 4.325 max_d=4.325 avg_d=1.734 std_dev=0.777
P B 0, 1.540, 2.342, 3.145, 5.690 max_d=5.690 avg_d=2.342 std_dev=0.802
N1 A 0, 0.895, 1.778, 2.661, 3.031 max_d=3.031 avg_d=1.778 std_dev=0.883
C2' A 0, 1.646, 2.532, 3.419, 5.643 max_d=5.643 avg_d=2.532 std_dev=0.887
N3 A 0, 0.948, 1.867, 2.786, 4.213 max_d=4.213 avg_d=1.867 std_dev=0.919
C2 B 0, 1.110, 2.053, 2.996, 4.013 max_d=4.013 avg_d=2.053 std_dev=0.943
C1' A 0, 1.442, 2.391, 3.340, 3.817 max_d=3.817 avg_d=2.391 std_dev=0.949
O4' A 0, 1.807, 2.805, 3.803, 5.583 max_d=5.583 avg_d=2.805 std_dev=0.998
OP1 B 0, 2.107, 3.120, 4.133, 6.832 max_d=6.832 avg_d=3.120 std_dev=1.013
C5 B 0, 1.247, 2.332, 3.418, 4.380 max_d=4.380 avg_d=2.332 std_dev=1.086
C2 A 0, 0.852, 1.967, 3.083, 3.784 max_d=3.784 avg_d=1.967 std_dev=1.115
OP2 B 0, 1.664, 2.819, 3.974, 7.362 max_d=7.362 avg_d=2.819 std_dev=1.155
C1' B 0, 0.553, 1.722, 2.892, 4.730 max_d=4.730 avg_d=1.722 std_dev=1.169
O2 B 0, 1.281, 2.493, 3.705, 5.560 max_d=5.560 avg_d=2.493 std_dev=1.212
O2' A 0, 1.926, 3.190, 4.454, 6.986 max_d=6.986 avg_d=3.190 std_dev=1.264
C5' B 0, 1.107, 2.401, 3.694, 5.972 max_d=5.972 avg_d=2.401 std_dev=1.293
O4' B 0, 0.173, 1.530, 2.887, 5.355 max_d=5.355 avg_d=1.530 std_dev=1.357
C3' A 0, 1.490, 2.850, 4.210, 6.881 max_d=6.881 avg_d=2.850 std_dev=1.360
C4' A 0, 1.532, 2.914, 4.296, 7.523 max_d=7.523 avg_d=2.914 std_dev=1.382
C4 B 0, 1.374, 2.771, 4.169, 5.274 max_d=5.274 avg_d=2.771 std_dev=1.398
N3 B 0, 1.068, 2.470, 3.872, 4.643 max_d=4.643 avg_d=2.470 std_dev=1.402
C3' B 0, 1.584, 2.994, 4.404, 5.781 max_d=5.781 avg_d=2.994 std_dev=1.410
O2 A 0, 1.161, 2.604, 4.046, 5.130 max_d=5.130 avg_d=2.604 std_dev=1.442
C2' B 0, 1.189, 2.650, 4.112, 5.358 max_d=5.358 avg_d=2.650 std_dev=1.462
C4' B 0, 0.846, 2.327, 3.808, 6.197 max_d=6.197 avg_d=2.327 std_dev=1.481
O5' A 0, 1.488, 3.154, 4.821, 8.879 max_d=8.879 avg_d=3.154 std_dev=1.666
O3' A 0, 2.254, 4.060, 5.866, 9.175 max_d=9.175 avg_d=4.060 std_dev=1.806
C5' A 0, 1.279, 3.126, 4.973, 9.435 max_d=9.435 avg_d=3.126 std_dev=1.847
N4 B 0, 1.780, 3.734, 5.688, 7.667 max_d=7.667 avg_d=3.734 std_dev=1.954
P A 0, 2.257, 4.220, 6.184, 11.262 max_d=11.262 avg_d=4.220 std_dev=1.964
O3' B 0, 2.197, 4.269, 6.341, 8.259 max_d=8.259 avg_d=4.269 std_dev=2.072
OP1 A 0, 3.736, 5.929, 8.121, 12.008 max_d=12.008 avg_d=5.929 std_dev=2.193
OP2 A 0, 2.191, 4.393, 6.596, 13.186 max_d=13.186 avg_d=4.393 std_dev=2.203
O2' B 0, 0.949, 3.287, 5.625, 8.035 max_d=8.035 avg_d=3.287 std_dev=2.338

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 0.02 0.00 0.02 0.02 0.01 0.02 0.11 0.02 0.01 0.02 0.02 0.05 0.02 0.36 0.01 0.35 0.44 0.50 0.31
C2 0.02 0.00 0.20 0.27 0.01 0.11 0.01 0.21 0.01 0.01 0.00 0.01 0.01 0.26 0.23 0.14 0.61 0.67 0.66 0.57
C2' 0.00 0.20 0.00 0.01 0.06 0.02 0.14 0.25 0.19 0.03 0.15 0.07 0.35 0.00 0.05 0.02 0.48 0.73 0.81 0.58
C3' 0.02 0.27 0.01 0.00 0.41 0.01 0.43 0.03 0.38 0.25 0.35 0.44 0.26 0.02 0.01 0.02 0.32 0.59 0.44 0.35
C4 0.02 0.01 0.06 0.41 0.00 0.14 0.00 0.20 0.01 0.01 0.01 0.01 0.01 0.38 0.20 0.04 0.87 1.01 1.02 0.91
C4' 0.01 0.11 0.02 0.01 0.14 0.00 0.21 0.01 0.21 0.09 0.11 0.15 0.19 0.33 0.04 0.01 0.02 0.25 0.35 0.11
C5 0.02 0.01 0.14 0.43 0.00 0.21 0.00 0.26 0.00 0.01 0.01 0.01 0.02 0.41 0.29 0.10 0.95 1.09 1.09 0.98
C5' 0.11 0.21 0.25 0.03 0.20 0.01 0.26 0.00 0.25 0.13 0.21 0.22 0.32 0.11 0.25 0.02 0.01 0.38 0.40 0.02
C6 0.02 0.01 0.19 0.38 0.01 0.21 0.00 0.25 0.00 0.00 0.01 0.01 0.02 0.36 0.23 0.14 0.85 0.91 0.89 0.80
N1 0.01 0.01 0.03 0.25 0.01 0.09 0.01 0.13 0.00 0.00 0.01 0.01 0.02 0.22 0.14 0.02 0.61 0.67 0.65 0.54
N3 0.02 0.00 0.15 0.35 0.01 0.11 0.01 0.21 0.01 0.01 0.00 0.01 0.01 0.32 0.17 0.11 0.74 0.83 0.83 0.73
N4 0.02 0.01 0.07 0.44 0.01 0.15 0.01 0.22 0.01 0.01 0.01 0.00 0.02 0.41 0.25 0.04 0.93 1.12 1.15 1.01
O2 0.05 0.01 0.35 0.26 0.01 0.19 0.02 0.32 0.02 0.02 0.01 0.02 0.00 0.31 0.43 0.24 0.50 0.56 0.57 0.46
O2' 0.02 0.26 0.00 0.02 0.38 0.33 0.41 0.11 0.36 0.22 0.32 0.41 0.31 0.00 0.09 0.23 0.31 0.69 0.82 0.50
O3' 0.36 0.23 0.05 0.01 0.20 0.04 0.29 0.25 0.23 0.14 0.17 0.25 0.43 0.09 0.00 0.26 0.35 0.65 0.57 0.42
O4' 0.01 0.14 0.02 0.02 0.04 0.01 0.10 0.02 0.14 0.02 0.11 0.04 0.24 0.23 0.26 0.00 0.33 0.47 0.37 0.34
O5' 0.35 0.61 0.48 0.32 0.87 0.02 0.95 0.01 0.85 0.61 0.74 0.93 0.50 0.31 0.35 0.33 0.00 0.02 0.02 0.01
OP1 0.44 0.67 0.73 0.59 1.01 0.25 1.09 0.38 0.91 0.67 0.83 1.12 0.56 0.69 0.65 0.47 0.02 0.00 0.01 0.01
OP2 0.50 0.66 0.81 0.44 1.02 0.35 1.09 0.40 0.89 0.65 0.83 1.15 0.57 0.82 0.57 0.37 0.02 0.01 0.00 0.01
P 0.31 0.57 0.58 0.35 0.91 0.11 0.98 0.02 0.80 0.54 0.73 1.01 0.46 0.50 0.42 0.34 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 3.06 4.31 3.12 2.52 4.42 1.87 3.73 1.26 3.31 3.60 4.68 4.68 4.43 3.20 2.64 2.31 1.24 0.89 1.22 0.66
C2 2.73 3.89 2.57 1.99 4.31 1.58 3.72 1.06 3.15 3.29 4.33 4.65 3.89 2.59 1.97 2.13 0.94 0.94 1.11 0.40
C2' 2.85 4.03 3.05 2.48 4.15 1.74 3.47 1.19 3.04 3.33 4.39 4.45 4.20 3.21 2.70 2.07 1.16 0.91 1.27 0.64
C3' 2.82 3.94 3.11 2.63 4.00 1.90 3.31 1.42 2.92 3.24 4.29 4.31 4.16 3.35 3.02 2.09 1.32 1.10 1.23 0.85
C4 1.97 2.78 1.81 1.38 3.23 1.13 2.98 0.84 2.51 2.45 3.12 3.46 2.68 1.78 1.37 1.62 0.69 0.98 1.11 0.32
C4' 3.16 4.23 3.46 2.93 4.20 2.16 3.52 1.55 3.18 3.54 4.52 4.46 4.46 3.69 3.31 2.40 1.48 0.97 1.25 0.88
C5 1.98 2.75 1.97 1.60 3.06 1.15 2.82 0.88 2.48 2.45 3.02 3.20 2.66 1.95 1.66 1.56 0.92 0.88 1.23 0.55
C5' 3.06 3.85 3.50 3.11 3.83 2.32 3.28 1.74 2.98 3.30 4.07 4.09 4.07 3.83 3.65 2.40 1.62 1.03 1.33 1.05
C6 2.44 3.36 2.50 2.09 3.58 1.50 3.19 1.09 2.84 2.94 3.64 3.73 3.32 2.52 2.19 1.88 1.13 0.87 1.25 0.66
N1 2.77 3.90 2.74 2.20 4.14 1.64 3.59 1.12 3.15 3.33 4.26 4.37 3.92 2.76 2.25 2.11 1.10 0.89 1.20 0.57
N3 2.38 3.35 2.16 1.65 3.88 1.41 3.45 0.99 2.86 2.88 3.78 4.24 3.30 2.17 1.63 1.93 0.77 1.00 1.06 0.31
N4 1.51 2.14 1.35 0.99 2.63 0.98 2.47 0.84 2.01 1.89 2.46 2.88 2.04 1.34 1.05 1.34 0.50 1.11 1.01 0.30
O2 2.94 4.21 2.77 2.12 4.66 1.72 3.91 1.13 3.29 3.50 4.73 5.14 4.28 2.84 2.11 2.27 0.96 0.95 1.08 0.38
O2' 2.90 4.16 3.07 2.46 4.34 1.74 3.61 1.17 3.13 3.41 4.57 4.71 4.35 3.23 2.64 2.10 1.17 0.94 1.39 0.73
O3' 2.94 4.17 3.22 2.70 4.25 1.97 3.48 1.46 3.04 3.38 4.57 4.63 4.42 3.48 3.11 2.16 1.34 1.10 1.22 0.82
O4' 3.25 4.41 3.40 2.82 4.42 2.13 3.73 1.50 3.38 3.72 4.73 4.62 4.56 3.50 3.02 2.50 1.45 0.93 1.24 0.84
O5' 2.71 3.31 3.16 3.00 3.36 2.32 2.93 1.95 2.66 2.88 3.51 3.62 3.49 3.46 3.58 2.24 1.81 1.48 1.56 1.40
OP1 2.66 3.00 3.04 3.02 3.34 2.61 3.09 2.38 2.73 2.74 3.25 3.73 3.07 3.43 3.73 2.48 2.15 1.85 1.86 1.83
OP2 2.59 2.70 3.08 3.14 2.79 2.73 2.62 2.60 2.45 2.53 2.80 3.01 2.82 3.46 3.71 2.43 2.36 1.97 1.92 1.96
P 2.66 2.93 3.11 3.14 3.08 2.63 2.84 2.36 2.59 2.69 3.09 3.36 3.05 3.46 3.84 2.44 2.13 1.69 1.74 1.72

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.01 0.02 0.01 0.02 0.08 0.02 0.01 0.02 0.02 0.04 0.02 0.28 0.01 0.23 0.45 0.42 0.23
C2 0.02 0.00 0.15 0.22 0.01 0.06 0.01 0.11 0.01 0.01 0.01 0.01 0.01 0.22 0.20 0.07 0.33 0.64 0.65 0.40
C2' 0.00 0.15 0.00 0.00 0.07 0.02 0.12 0.19 0.14 0.03 0.12 0.07 0.27 0.00 0.03 0.02 0.49 0.63 0.70 0.53
C3' 0.01 0.22 0.00 0.00 0.32 0.01 0.33 0.03 0.29 0.20 0.28 0.34 0.20 0.02 0.01 0.02 0.30 0.39 0.30 0.24
C4 0.02 0.01 0.07 0.32 0.00 0.12 0.00 0.17 0.01 0.01 0.00 0.00 0.01 0.34 0.17 0.03 0.44 0.95 0.93 0.64
C4' 0.01 0.06 0.02 0.01 0.12 0.00 0.15 0.01 0.14 0.07 0.08 0.13 0.06 0.28 0.04 0.00 0.02 0.36 0.29 0.13
C5 0.02 0.01 0.12 0.33 0.00 0.15 0.00 0.19 0.00 0.01 0.01 0.01 0.02 0.34 0.22 0.06 0.46 0.98 0.93 0.67
C5' 0.08 0.11 0.19 0.03 0.17 0.01 0.19 0.00 0.17 0.11 0.14 0.19 0.11 0.09 0.20 0.02 0.01 0.29 0.34 0.02
C6 0.02 0.01 0.14 0.29 0.01 0.14 0.00 0.17 0.00 0.00 0.01 0.01 0.02 0.28 0.17 0.08 0.41 0.77 0.74 0.54
N1 0.01 0.01 0.03 0.20 0.01 0.07 0.01 0.11 0.00 0.00 0.01 0.01 0.02 0.19 0.11 0.02 0.32 0.59 0.59 0.38
N3 0.02 0.01 0.12 0.28 0.00 0.08 0.01 0.14 0.01 0.01 0.00 0.01 0.01 0.29 0.16 0.06 0.39 0.80 0.80 0.52
N4 0.02 0.01 0.07 0.34 0.00 0.13 0.01 0.19 0.01 0.01 0.01 0.00 0.02 0.38 0.21 0.04 0.47 1.06 1.04 0.71
O2 0.04 0.01 0.27 0.20 0.01 0.06 0.02 0.11 0.02 0.02 0.01 0.02 0.00 0.19 0.35 0.12 0.28 0.57 0.57 0.31
O2' 0.02 0.22 0.00 0.02 0.34 0.28 0.34 0.09 0.28 0.19 0.29 0.38 0.19 0.00 0.06 0.19 0.32 0.69 0.70 0.47
O3' 0.28 0.20 0.03 0.01 0.17 0.04 0.22 0.20 0.17 0.11 0.16 0.21 0.35 0.06 0.00 0.20 0.32 0.44 0.25 0.24
O4' 0.01 0.07 0.02 0.02 0.03 0.00 0.06 0.02 0.08 0.02 0.06 0.04 0.12 0.19 0.20 0.00 0.15 0.41 0.42 0.24
O5' 0.23 0.33 0.49 0.30 0.44 0.02 0.46 0.01 0.41 0.32 0.39 0.47 0.28 0.32 0.32 0.15 0.00 0.02 0.02 0.01
OP1 0.45 0.64 0.63 0.39 0.95 0.36 0.98 0.29 0.77 0.59 0.80 1.06 0.57 0.69 0.44 0.41 0.02 0.00 0.01 0.01
OP2 0.42 0.65 0.70 0.30 0.93 0.29 0.93 0.34 0.74 0.59 0.80 1.04 0.57 0.70 0.25 0.42 0.02 0.01 0.00 0.01
P 0.23 0.40 0.53 0.24 0.64 0.13 0.67 0.02 0.54 0.38 0.52 0.71 0.31 0.47 0.24 0.24 0.01 0.01 0.01 0.00