ClaRNA

Doublet Group distance statistics: 43869

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Distances from reference structure (by RMSD)

13, 42, 24, 22, 4, 1, 5, 49, 4, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N1 B 0, 0.088, 0.193, 0.299, 0.486 max_d=0.486 avg_d=0.193 std_dev=0.105
C6 B 0, 0.160, 0.339, 0.518, 0.892 max_d=0.892 avg_d=0.339 std_dev=0.179
C2 B 0, 0.133, 0.312, 0.490, 0.759 max_d=0.759 avg_d=0.312 std_dev=0.179
N3 B 0, 0.159, 0.346, 0.533, 0.731 max_d=0.731 avg_d=0.346 std_dev=0.187
N1 A 0, 0.050, 0.252, 0.454, 0.597 max_d=0.597 avg_d=0.252 std_dev=0.202
C5 B 0, 0.158, 0.400, 0.643, 0.845 max_d=0.845 avg_d=0.400 std_dev=0.242
C4 B 0, 0.010, 0.270, 0.530, 0.707 max_d=0.707 avg_d=0.270 std_dev=0.260
C1' A 0, 0.131, 0.410, 0.689, 0.823 max_d=0.823 avg_d=0.410 std_dev=0.279
N3 A 0, 0.097, 0.377, 0.657, 0.916 max_d=0.916 avg_d=0.377 std_dev=0.280
C3' B 0, 0.167, 0.453, 0.740, 1.518 max_d=1.518 avg_d=0.453 std_dev=0.287
O6 B 0, 0.107, 0.400, 0.693, 0.936 max_d=0.936 avg_d=0.400 std_dev=0.293
C2' B 0, 0.130, 0.437, 0.744, 1.373 max_d=1.373 avg_d=0.437 std_dev=0.307
C4' B 0, 0.119, 0.427, 0.735, 2.240 max_d=2.240 avg_d=0.427 std_dev=0.308
C2 A 0, 0.133, 0.444, 0.756, 1.072 max_d=1.072 avg_d=0.444 std_dev=0.312
C6 A 0, 0.106, 0.425, 0.744, 1.268 max_d=1.268 avg_d=0.425 std_dev=0.319
N9 B 0, 0.054, 0.383, 0.712, 1.031 max_d=1.031 avg_d=0.383 std_dev=0.329
N7 B 0, 0.272, 0.621, 0.969, 1.494 max_d=1.494 avg_d=0.621 std_dev=0.349
C8 B 0, 0.226, 0.583, 0.940, 1.244 max_d=1.244 avg_d=0.583 std_dev=0.357
C1' B 0, 0.018, 0.385, 0.752, 1.256 max_d=1.256 avg_d=0.385 std_dev=0.367
O2' B 0, 0.143, 0.517, 0.892, 1.979 max_d=1.979 avg_d=0.517 std_dev=0.374
C4 A 0, 0.052, 0.441, 0.831, 1.044 max_d=1.044 avg_d=0.441 std_dev=0.389
O4' B 0, 0.093, 0.486, 0.879, 2.228 max_d=2.228 avg_d=0.486 std_dev=0.393
N2 B 0, 0.047, 0.453, 0.859, 1.203 max_d=1.203 avg_d=0.453 std_dev=0.406
O3' B 0, 0.126, 0.544, 0.962, 2.776 max_d=2.776 avg_d=0.544 std_dev=0.418
C5' B 0, 0.157, 0.601, 1.045, 3.815 max_d=3.815 avg_d=0.601 std_dev=0.444
C5 A 0, 0.131, 0.616, 1.102, 1.619 max_d=1.619 avg_d=0.616 std_dev=0.486
O4' A 0, 0.435, 0.932, 1.429, 2.279 max_d=2.279 avg_d=0.932 std_dev=0.497
O2 A 0, 0.243, 0.785, 1.327, 1.950 max_d=1.950 avg_d=0.785 std_dev=0.542
C2' A 0, 0.374, 0.935, 1.496, 2.294 max_d=2.294 avg_d=0.935 std_dev=0.561
N4 A 0, 0.202, 0.775, 1.348, 1.490 max_d=1.490 avg_d=0.775 std_dev=0.573
O5' B 0, 0.252, 0.844, 1.436, 2.740 max_d=2.740 avg_d=0.844 std_dev=0.592
O2' A 0, 0.549, 1.189, 1.829, 2.857 max_d=2.857 avg_d=1.189 std_dev=0.640
C3' A 0, 0.377, 1.086, 1.796, 3.103 max_d=3.103 avg_d=1.086 std_dev=0.709
C4' A 0, 0.413, 1.175, 1.936, 3.374 max_d=3.374 avg_d=1.175 std_dev=0.762
C5' A 0, 0.475, 1.557, 2.638, 4.853 max_d=4.853 avg_d=1.557 std_dev=1.082
O3' A 0, 0.187, 1.332, 2.476, 3.392 max_d=3.392 avg_d=1.332 std_dev=1.144
P B 0, 0.417, 1.639, 2.862, 4.712 max_d=4.712 avg_d=1.639 std_dev=1.222
OP1 B 0, 0.757, 2.054, 3.351, 7.051 max_d=7.051 avg_d=2.054 std_dev=1.297
OP2 B 0, 0.902, 2.355, 3.808, 5.943 max_d=5.943 avg_d=2.355 std_dev=1.453
O5' A 0, 0.399, 2.188, 3.977, 6.124 max_d=6.124 avg_d=2.188 std_dev=1.789
OP1 A 0, 0.755, 3.471, 6.186, 7.680 max_d=7.680 avg_d=3.471 std_dev=2.716
P A 0, 0.502, 3.326, 6.151, 7.877 max_d=7.877 avg_d=3.326 std_dev=2.824
OP2 A 0, 0.758, 4.295, 7.832, 9.754 max_d=9.754 avg_d=4.295 std_dev=3.537

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 0.01 0.04 0.01 0.01 0.08 0.01 0.01 0.02 0.01 0.02 0.02 0.35 0.00 0.51 0.52 0.42 0.44
C2 0.02 0.00 0.12 0.08 0.06 0.17 0.02 0.27 0.01 0.01 0.01 0.01 0.01 0.32 0.38 0.22 0.58 0.44 0.44 0.42
C2' 0.00 0.12 0.00 0.00 0.04 0.01 0.06 0.23 0.08 0.03 0.11 0.04 0.16 0.00 0.03 0.02 0.55 0.69 0.98 0.72
C3' 0.01 0.08 0.00 0.00 0.34 0.00 0.45 0.02 0.44 0.20 0.17 0.38 0.11 0.02 0.01 0.01 0.20 0.80 0.52 0.43
C4 0.04 0.06 0.04 0.34 0.00 0.15 0.00 0.17 0.01 0.04 0.02 0.00 0.05 0.34 0.06 0.06 1.05 0.86 1.11 1.04
C4' 0.01 0.17 0.01 0.00 0.15 0.00 0.24 0.00 0.27 0.08 0.13 0.12 0.34 0.30 0.02 0.00 0.02 0.33 0.44 0.07
C5 0.01 0.02 0.06 0.45 0.00 0.24 0.00 0.26 0.00 0.01 0.02 0.01 0.02 0.43 0.24 0.14 1.32 1.19 1.53 1.42
C5' 0.08 0.27 0.23 0.02 0.17 0.00 0.26 0.00 0.28 0.08 0.23 0.12 0.46 0.07 0.22 0.01 0.01 0.19 0.37 0.01
C6 0.01 0.01 0.08 0.44 0.01 0.27 0.00 0.28 0.00 0.01 0.04 0.01 0.01 0.42 0.22 0.20 1.27 1.15 1.31 1.31
N1 0.01 0.01 0.03 0.20 0.04 0.08 0.01 0.08 0.01 0.00 0.03 0.01 0.01 0.21 0.15 0.01 0.81 0.67 0.61 0.71
N3 0.02 0.01 0.11 0.17 0.02 0.13 0.02 0.23 0.04 0.03 0.00 0.01 0.01 0.35 0.26 0.16 0.75 0.56 0.65 0.62
N4 0.01 0.01 0.04 0.38 0.00 0.12 0.01 0.12 0.01 0.01 0.01 0.00 0.01 0.36 0.07 0.03 1.26 0.98 1.45 1.29
O2 0.02 0.01 0.16 0.11 0.05 0.34 0.02 0.46 0.01 0.01 0.01 0.01 0.00 0.42 0.63 0.41 0.28 0.36 0.68 0.32
O2' 0.02 0.32 0.00 0.02 0.34 0.30 0.43 0.07 0.42 0.21 0.35 0.36 0.42 0.00 0.04 0.22 0.51 0.80 1.21 0.80
O3' 0.35 0.38 0.03 0.01 0.06 0.02 0.24 0.22 0.22 0.15 0.26 0.07 0.63 0.04 0.00 0.26 0.16 1.05 0.34 0.39
O4' 0.00 0.22 0.02 0.01 0.06 0.00 0.14 0.01 0.20 0.01 0.16 0.03 0.41 0.22 0.26 0.00 0.37 0.31 0.39 0.17
O5' 0.51 0.58 0.55 0.20 1.05 0.02 1.32 0.01 1.27 0.81 0.75 1.26 0.28 0.51 0.16 0.37 0.00 0.02 0.02 0.00
OP1 0.52 0.44 0.69 0.80 0.86 0.33 1.19 0.19 1.15 0.67 0.56 0.98 0.36 0.80 1.05 0.31 0.02 0.00 0.01 0.01
OP2 0.42 0.44 0.98 0.52 1.11 0.44 1.53 0.37 1.31 0.61 0.65 1.45 0.68 1.21 0.34 0.39 0.02 0.01 0.00 0.01
P 0.44 0.42 0.72 0.43 1.04 0.07 1.42 0.01 1.31 0.71 0.62 1.29 0.32 0.80 0.39 0.17 0.00 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.60 0.37 0.68 0.57 0.40 0.48 0.25 0.37 0.20 0.44 0.26 0.35 0.44 0.26 0.50 0.70 0.53 0.59 0.40 0.19 0.83 1.52 1.16
C2 0.66 0.45 0.67 0.52 0.53 0.49 0.45 0.40 0.29 0.62 0.33 0.24 0.53 0.53 0.62 0.73 0.46 0.63 0.51 0.16 0.87 1.53 1.20
C2' 0.43 0.25 0.52 0.44 0.26 0.36 0.18 0.44 0.21 0.24 0.21 0.26 0.30 0.19 0.32 0.54 0.42 0.43 0.48 0.14 0.85 1.80 1.24
C3' 0.22 0.39 0.27 0.14 0.35 0.25 0.42 0.63 0.48 0.31 0.46 0.42 0.35 0.42 0.28 0.29 0.15 0.20 0.74 0.45 1.15 2.02 1.55
C4 0.76 0.65 0.69 0.50 0.72 0.52 0.73 0.40 0.62 0.82 0.59 0.28 0.69 0.82 0.77 0.75 0.41 0.74 0.45 0.25 0.73 1.63 1.15
C4' 0.66 0.60 0.74 0.69 0.57 0.62 0.58 0.49 0.64 0.53 0.62 0.75 0.59 0.54 0.59 0.73 0.64 0.67 0.25 0.88 0.67 1.17 0.88
C5 0.75 0.62 0.67 0.49 0.69 0.50 0.70 0.41 0.59 0.82 0.56 0.31 0.66 0.81 0.76 0.71 0.41 0.74 0.42 0.21 0.66 1.70 1.13
C5' 0.98 0.87 0.95 0.86 0.88 0.87 0.84 0.67 0.84 0.89 0.85 0.89 0.89 0.82 0.92 0.97 0.76 1.01 0.35 1.11 0.47 1.05 0.67
C6 0.71 0.54 0.68 0.51 0.61 0.50 0.57 0.40 0.45 0.74 0.45 0.33 0.59 0.68 0.69 0.70 0.44 0.70 0.41 0.14 0.67 1.68 1.12
N1 0.66 0.46 0.67 0.52 0.53 0.48 0.44 0.38 0.30 0.63 0.34 0.31 0.52 0.52 0.62 0.71 0.45 0.65 0.44 0.12 0.78 1.59 1.17
N3 0.70 0.57 0.67 0.50 0.64 0.50 0.61 0.40 0.49 0.72 0.48 0.24 0.62 0.69 0.70 0.74 0.42 0.67 0.51 0.25 0.83 1.58 1.19
N4 0.81 0.69 0.64 0.44 0.81 0.52 0.89 0.41 0.81 0.98 0.71 0.12 0.71 1.02 0.86 0.70 0.29 0.80 0.47 0.15 0.78 1.67 1.21
O2 0.60 0.35 0.70 0.57 0.42 0.50 0.26 0.40 0.15 0.47 0.20 0.23 0.45 0.35 0.52 0.76 0.57 0.57 0.55 0.15 0.94 1.40 1.18
O2' 0.65 0.35 0.71 0.68 0.40 0.61 0.36 0.47 0.37 0.44 0.32 0.30 0.42 0.40 0.50 0.73 0.65 0.68 0.34 0.38 0.44 1.48 0.84
O3' 0.93 1.14 0.87 0.76 1.13 0.84 1.19 1.04 1.21 1.12 1.21 0.38 1.10 1.19 1.06 0.86 0.69 0.84 1.12 0.41 1.08 1.89 1.64
O4' 0.91 0.70 0.97 0.88 0.72 0.81 0.60 0.56 0.58 0.76 0.62 0.73 0.75 0.56 0.82 0.97 0.81 0.91 0.22 0.75 0.64 1.12 0.88
O5' 0.93 1.00 0.83 0.62 0.99 0.62 0.99 0.47 0.97 0.99 0.97 0.96 0.99 1.00 0.98 0.83 0.48 0.88 0.34 1.00 1.06 1.60 1.16
OP1 0.64 0.86 0.61 0.64 0.77 0.61 0.86 0.68 0.99 0.71 0.96 1.05 0.77 0.83 0.69 0.60 0.71 0.63 0.63 1.43 0.78 1.47 0.91
OP2 0.98 1.59 0.69 0.46 1.42 0.46 1.58 0.64 1.76 1.23 1.73 1.89 1.44 1.50 1.20 0.69 0.53 0.80 0.84 2.26 1.35 2.29 1.64
P 0.88 1.20 0.67 0.42 1.11 0.44 1.20 0.36 1.28 1.03 1.26 1.44 1.12 1.17 1.01 0.67 0.29 0.79 0.34 1.64 0.95 1.66 1.11

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.03 0.01 0.02 0.02 0.03 0.01 0.05 0.03 0.01 0.03 0.02 0.03 0.01 0.00 0.03 0.10 0.01 0.30 0.01 0.68 0.25 0.44
C2 0.03 0.00 0.13 0.19 0.01 0.07 0.03 0.17 0.07 0.02 0.02 0.00 0.00 0.03 0.01 0.15 0.17 0.04 0.57 0.01 0.99 0.59 0.86
C2' 0.01 0.13 0.00 0.01 0.07 0.03 0.08 0.08 0.08 0.08 0.13 0.09 0.13 0.08 0.04 0.00 0.03 0.01 0.25 0.08 0.49 0.40 0.34
C3' 0.02 0.19 0.01 0.00 0.16 0.01 0.21 0.07 0.21 0.19 0.23 0.16 0.16 0.23 0.13 0.02 0.01 0.02 0.16 0.12 0.31 0.30 0.17
C4 0.02 0.01 0.07 0.16 0.00 0.06 0.00 0.22 0.02 0.01 0.03 0.01 0.00 0.00 0.00 0.11 0.12 0.02 0.61 0.01 1.03 0.66 0.91
C4' 0.03 0.07 0.03 0.01 0.06 0.00 0.11 0.01 0.09 0.16 0.09 0.10 0.07 0.17 0.07 0.13 0.02 0.01 0.02 0.06 0.31 0.30 0.08
C5 0.01 0.03 0.08 0.21 0.00 0.11 0.00 0.35 0.01 0.00 0.02 0.01 0.01 0.00 0.00 0.12 0.19 0.02 0.78 0.01 1.23 1.01 1.20
C5' 0.05 0.17 0.08 0.07 0.22 0.01 0.35 0.00 0.33 0.41 0.27 0.14 0.13 0.45 0.23 0.14 0.09 0.03 0.01 0.11 0.19 0.28 0.03
C6 0.03 0.07 0.08 0.21 0.02 0.09 0.01 0.33 0.00 0.01 0.02 0.01 0.04 0.01 0.02 0.15 0.20 0.03 0.80 0.00 1.26 1.07 1.24
C8 0.01 0.02 0.08 0.19 0.01 0.16 0.00 0.41 0.01 0.00 0.02 0.01 0.01 0.00 0.00 0.10 0.19 0.05 0.78 0.01 1.22 0.98 1.17
N1 0.03 0.02 0.13 0.23 0.03 0.09 0.02 0.27 0.02 0.02 0.00 0.01 0.01 0.01 0.03 0.15 0.20 0.03 0.73 0.00 1.16 0.88 1.10
N2 0.02 0.00 0.09 0.16 0.01 0.10 0.01 0.14 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.09 0.19 0.03 0.13 0.01 0.57 0.22 0.29
N3 0.03 0.00 0.13 0.16 0.00 0.07 0.01 0.13 0.04 0.01 0.01 0.01 0.00 0.01 0.01 0.14 0.14 0.04 0.50 0.01 0.90 0.46 0.74
N7 0.01 0.03 0.08 0.23 0.00 0.17 0.00 0.45 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.12 0.23 0.04 0.88 0.01 1.35 1.22 1.36
N9 0.00 0.01 0.04 0.13 0.00 0.07 0.00 0.23 0.02 0.00 0.03 0.01 0.01 0.01 0.00 0.07 0.11 0.01 0.57 0.01 0.97 0.59 0.84
O2' 0.03 0.15 0.00 0.02 0.11 0.13 0.12 0.14 0.15 0.10 0.15 0.09 0.14 0.12 0.07 0.00 0.06 0.07 0.13 0.08 0.36 0.60 0.23
O3' 0.10 0.17 0.03 0.01 0.12 0.02 0.19 0.09 0.20 0.19 0.20 0.19 0.14 0.23 0.11 0.06 0.00 0.08 0.18 0.16 0.16 0.45 0.20
O4' 0.01 0.04 0.01 0.02 0.02 0.01 0.02 0.03 0.03 0.05 0.03 0.03 0.04 0.04 0.01 0.07 0.08 0.00 0.20 0.02 0.61 0.16 0.33
O5' 0.30 0.57 0.25 0.16 0.61 0.02 0.78 0.01 0.80 0.78 0.73 0.13 0.50 0.88 0.57 0.13 0.18 0.20 0.00 0.18 0.02 0.02 0.00
O6 0.01 0.01 0.08 0.12 0.01 0.06 0.01 0.11 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.08 0.16 0.02 0.18 0.00 0.73 0.19 0.35
OP1 0.68 0.99 0.49 0.31 1.03 0.31 1.23 0.19 1.26 1.22 1.16 0.57 0.90 1.35 0.97 0.36 0.16 0.61 0.02 0.73 0.00 0.01 0.01
OP2 0.25 0.59 0.40 0.30 0.66 0.30 1.01 0.28 1.07 0.98 0.88 0.22 0.46 1.22 0.59 0.60 0.45 0.16 0.02 0.19 0.01 0.00 0.01
P 0.44 0.86 0.34 0.17 0.91 0.08 1.20 0.03 1.24 1.17 1.10 0.29 0.74 1.36 0.84 0.23 0.20 0.33 0.00 0.35 0.01 0.01 0.00