ClaRNA

Doublet Group distance statistics: 21578

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Distances from reference structure (by RMSD)

1, 2, 13, 54, 37, 10, 11, 6, 26, 20, 8, 3, 46, 8, 52, 21, 9, 18, 61, 91,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N1 B 0, 0.228, 0.735, 1.241, 2.335 max_d=2.335 avg_d=0.735 std_dev=0.507
C5 A 0, 0.498, 1.085, 1.672, 2.709 max_d=2.709 avg_d=1.085 std_dev=0.587
C6 B 0, 0.388, 1.005, 1.623, 2.885 max_d=2.885 avg_d=1.005 std_dev=0.618
N1 A 0, 0.228, 0.849, 1.471, 2.766 max_d=2.766 avg_d=0.849 std_dev=0.622
C4 A 0, 0.308, 1.000, 1.692, 3.098 max_d=3.098 avg_d=1.000 std_dev=0.692
C2 B 0, 0.477, 1.233, 1.988, 3.379 max_d=3.379 avg_d=1.233 std_dev=0.755
C6 A 0, 0.441, 1.220, 1.999, 3.362 max_d=3.362 avg_d=1.220 std_dev=0.779
C1' B 0, 0.264, 1.076, 1.889, 3.721 max_d=3.721 avg_d=1.076 std_dev=0.813
C5 B 0, 0.552, 1.415, 2.278, 3.371 max_d=3.371 avg_d=1.415 std_dev=0.863
C2 A 0, 0.335, 1.224, 2.113, 3.543 max_d=3.543 avg_d=1.224 std_dev=0.889
C1' A 0, 0.433, 1.334, 2.234, 4.148 max_d=4.148 avg_d=1.334 std_dev=0.901
N3 B 0, 0.490, 1.402, 2.314, 3.851 max_d=3.851 avg_d=1.402 std_dev=0.912
O4' B 0, 0.425, 1.337, 2.250, 4.384 max_d=4.384 avg_d=1.337 std_dev=0.913
C4 B 0, 0.476, 1.458, 2.440, 4.188 max_d=4.188 avg_d=1.458 std_dev=0.982
OP2 B 0, 1.175, 2.240, 3.306, 6.054 max_d=6.054 avg_d=2.240 std_dev=1.066
N4 A 0, 0.336, 1.411, 2.486, 4.780 max_d=4.780 avg_d=1.411 std_dev=1.075
C2' B 0, 0.791, 1.887, 2.984, 5.718 max_d=5.718 avg_d=1.887 std_dev=1.096
N3 A 0, 0.292, 1.412, 2.531, 3.570 max_d=3.570 avg_d=1.412 std_dev=1.119
O2 B 0, 0.676, 1.862, 3.048, 5.011 max_d=5.011 avg_d=1.862 std_dev=1.186
C5' B 0, 1.153, 2.343, 3.532, 7.669 max_d=7.669 avg_d=2.343 std_dev=1.189
P B 0, 0.596, 1.833, 3.070, 8.293 max_d=8.293 avg_d=1.833 std_dev=1.237
C4' B 0, 0.539, 1.876, 3.213, 5.977 max_d=5.977 avg_d=1.876 std_dev=1.337
O4 B 0, 0.615, 1.992, 3.369, 5.408 max_d=5.408 avg_d=1.992 std_dev=1.377
O2' B 0, 1.068, 2.449, 3.830, 7.856 max_d=7.856 avg_d=2.449 std_dev=1.381
O2 A 0, 0.465, 1.857, 3.249, 5.452 max_d=5.452 avg_d=1.857 std_dev=1.392
C2' A 0, 0.587, 1.980, 3.373, 4.725 max_d=4.725 avg_d=1.980 std_dev=1.393
O5' B 0, 0.431, 1.833, 3.235, 7.923 max_d=7.923 avg_d=1.833 std_dev=1.402
O4' A 0, 0.677, 2.162, 3.646, 6.328 max_d=6.328 avg_d=2.162 std_dev=1.485
C3' B 0, 0.601, 2.140, 3.678, 6.284 max_d=6.284 avg_d=2.140 std_dev=1.539
OP1 B 0, 1.023, 2.577, 4.130, 9.757 max_d=9.757 avg_d=2.577 std_dev=1.554
O2' A 0, 0.818, 2.399, 3.981, 5.687 max_d=5.687 avg_d=2.399 std_dev=1.581
C3' A 0, 0.468, 2.557, 4.646, 6.689 max_d=6.689 avg_d=2.557 std_dev=2.089
C4' A 0, 0.572, 2.744, 4.916, 7.858 max_d=7.858 avg_d=2.744 std_dev=2.172
O3' B 0, 0.433, 2.620, 4.807, 8.596 max_d=8.596 avg_d=2.620 std_dev=2.187
O3' A 0, 0.730, 3.324, 5.918, 8.863 max_d=8.863 avg_d=3.324 std_dev=2.594
C5' A 0, 0.432, 3.470, 6.509, 10.108 max_d=10.108 avg_d=3.470 std_dev=3.038
O5' A 0, 0.214, 3.479, 6.745, 10.471 max_d=10.471 avg_d=3.479 std_dev=3.266
OP2 A 0, 0.278, 4.243, 8.208, 12.227 max_d=12.227 avg_d=4.243 std_dev=3.965
P A 0, 0.143, 4.238, 8.332, 12.172 max_d=12.172 avg_d=4.238 std_dev=4.094
OP1 A 0, 0.352, 5.033, 9.714, 14.197 max_d=14.197 avg_d=5.033 std_dev=4.681

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 0.01 0.02 0.02 0.01 0.02 0.08 0.01 0.01 0.02 0.02 0.04 0.02 0.29 0.01 0.32 0.45 0.48 0.32
C2 0.02 0.00 0.17 0.26 0.01 0.13 0.02 0.25 0.01 0.01 0.01 0.02 0.01 0.25 0.20 0.15 0.58 0.74 0.87 0.63
C2' 0.01 0.17 0.00 0.00 0.06 0.02 0.14 0.19 0.18 0.03 0.13 0.07 0.32 0.01 0.03 0.02 0.40 0.57 0.52 0.41
C3' 0.02 0.26 0.00 0.00 0.37 0.01 0.39 0.02 0.34 0.22 0.32 0.40 0.27 0.02 0.01 0.02 0.33 0.56 0.40 0.27
C4 0.02 0.01 0.06 0.37 0.00 0.18 0.01 0.32 0.01 0.01 0.01 0.01 0.02 0.37 0.17 0.04 0.77 0.98 1.36 0.96
C4' 0.01 0.13 0.02 0.01 0.18 0.00 0.25 0.01 0.25 0.11 0.14 0.20 0.23 0.28 0.03 0.01 0.02 0.23 0.50 0.15
C5 0.02 0.02 0.14 0.39 0.01 0.25 0.00 0.40 0.00 0.01 0.01 0.02 0.02 0.39 0.25 0.12 0.84 1.06 1.42 1.05
C5' 0.08 0.25 0.19 0.02 0.32 0.01 0.40 0.00 0.37 0.18 0.28 0.35 0.38 0.10 0.20 0.02 0.01 0.36 0.35 0.02
C6 0.01 0.01 0.18 0.34 0.01 0.25 0.00 0.37 0.00 0.00 0.01 0.02 0.02 0.34 0.21 0.16 0.76 0.91 1.11 0.87
N1 0.01 0.01 0.03 0.22 0.01 0.11 0.01 0.18 0.00 0.00 0.01 0.02 0.02 0.22 0.11 0.02 0.54 0.68 0.76 0.57
N3 0.02 0.01 0.13 0.32 0.01 0.14 0.01 0.28 0.01 0.01 0.00 0.01 0.01 0.32 0.16 0.11 0.68 0.87 1.13 0.80
N4 0.02 0.02 0.07 0.40 0.01 0.20 0.02 0.35 0.02 0.02 0.01 0.00 0.03 0.41 0.22 0.05 0.82 1.06 1.55 1.07
O2 0.04 0.01 0.32 0.27 0.02 0.23 0.02 0.38 0.02 0.02 0.01 0.03 0.00 0.26 0.39 0.27 0.59 0.74 0.82 0.63
O2' 0.02 0.25 0.01 0.02 0.37 0.28 0.39 0.10 0.34 0.22 0.32 0.41 0.26 0.00 0.07 0.21 0.35 0.55 0.53 0.35
O3' 0.29 0.20 0.03 0.01 0.17 0.03 0.25 0.20 0.21 0.11 0.16 0.22 0.39 0.07 0.00 0.19 0.39 0.79 0.61 0.41
O4' 0.01 0.15 0.02 0.02 0.04 0.01 0.12 0.02 0.16 0.02 0.11 0.05 0.27 0.21 0.19 0.00 0.22 0.31 0.50 0.26
O5' 0.32 0.58 0.40 0.33 0.77 0.02 0.84 0.01 0.76 0.54 0.68 0.82 0.59 0.35 0.39 0.22 0.00 0.02 0.02 0.01
OP1 0.45 0.74 0.57 0.56 0.98 0.23 1.06 0.36 0.91 0.68 0.87 1.06 0.74 0.55 0.79 0.31 0.02 0.00 0.01 0.01
OP2 0.48 0.87 0.52 0.40 1.36 0.50 1.42 0.35 1.11 0.76 1.13 1.55 0.82 0.53 0.61 0.50 0.02 0.01 0.00 0.01
P 0.32 0.63 0.41 0.27 0.96 0.15 1.05 0.02 0.87 0.57 0.80 1.07 0.63 0.35 0.41 0.26 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 1.91 2.45 2.20 2.25 2.49 1.80 2.14 1.58 1.83 1.99 2.61 2.75 2.46 2.64 2.73 1.65 1.05 0.95 0.97 0.66
C2 1.36 2.11 1.52 1.46 2.62 1.29 2.38 1.27 1.89 1.71 2.47 2.24 1.75 1.82 2.93 1.22 0.72 0.92 0.92 0.40
C2' 1.84 2.25 2.19 2.33 2.38 1.83 2.09 1.59 1.75 1.85 2.42 2.56 2.46 2.84 2.68 1.60 1.08 1.06 0.95 0.69
C3' 2.14 2.39 2.52 2.67 2.24 2.11 1.94 1.74 1.73 2.00 2.40 2.79 2.83 3.22 2.45 1.87 1.21 1.08 1.09 0.82
C4 0.99 1.62 1.17 1.03 2.02 1.02 1.96 1.12 1.59 1.31 1.89 1.79 1.36 1.30 2.24 0.96 0.59 0.92 0.95 0.36
C4' 2.66 2.90 3.00 3.07 2.50 2.49 2.14 2.03 2.07 2.49 2.82 3.34 3.32 3.58 2.61 2.33 1.47 1.05 1.11 0.96
C5 1.30 1.77 1.57 1.58 1.80 1.34 1.66 1.35 1.43 1.41 1.87 2.08 1.67 1.75 1.94 1.22 0.89 0.94 1.03 0.62
C5' 3.17 3.21 3.49 3.60 2.56 3.02 2.22 2.45 2.31 2.86 2.98 3.69 3.83 4.18 2.55 2.86 1.85 1.22 1.25 1.25
C6 1.72 2.14 2.02 2.07 2.04 1.70 1.80 1.56 1.60 1.75 2.20 2.48 2.18 2.32 2.18 1.55 1.07 0.96 1.02 0.71
N1 1.60 2.18 1.87 1.91 2.35 1.55 2.08 1.44 1.73 1.76 2.38 2.44 2.07 2.23 2.58 1.41 0.93 0.94 0.97 0.59
N3 1.23 1.94 1.32 1.14 2.51 1.16 2.38 1.19 1.90 1.62 2.32 2.03 1.57 1.49 2.80 1.14 0.62 0.93 0.90 0.31
N4 0.96 1.45 1.10 0.77 1.87 0.95 1.91 1.06 1.60 1.24 1.71 1.58 1.32 1.01 2.06 0.96 0.55 0.94 0.92 0.30
O2 1.48 2.31 1.58 1.47 2.95 1.33 2.63 1.27 2.08 1.89 2.76 2.39 1.84 1.87 3.35 1.31 0.71 0.93 0.89 0.36
O2' 1.97 2.36 2.31 2.47 2.53 2.02 2.20 1.79 1.86 1.97 2.55 2.65 2.61 3.03 2.87 1.76 1.28 1.23 1.04 0.90
O3' 2.16 2.39 2.55 2.71 2.27 2.13 1.96 1.72 1.72 2.00 2.41 2.80 2.90 3.34 2.53 1.87 1.19 1.12 1.08 0.80
O4' 2.48 2.91 2.77 2.76 2.61 2.23 2.22 1.86 2.09 2.45 2.91 3.29 3.05 3.13 2.73 2.15 1.33 0.97 1.05 0.85
O5' 3.39 3.35 3.71 3.90 2.73 3.34 2.46 2.79 2.58 3.07 3.12 3.80 3.94 4.43 2.70 3.13 2.27 1.51 1.74 1.66
OP1 4.00 3.85 4.15 4.32 3.17 3.94 2.94 3.28 3.11 3.62 3.56 4.29 4.41 5.05 3.10 3.80 2.75 1.93 2.05 2.11
OP2 3.69 3.55 3.80 4.14 3.04 3.92 2.87 3.49 2.99 3.37 3.34 3.88 3.86 4.58 2.99 3.66 3.12 2.42 2.74 2.62
P 3.91 3.71 4.10 4.39 3.05 3.98 2.84 3.36 3.02 3.52 3.43 4.12 4.26 5.06 2.97 3.76 2.84 1.95 2.18 2.18

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.03 0.01 0.02 0.02 0.01 0.02 0.14 0.02 0.01 0.02 0.04 0.03 0.33 0.02 0.01 0.31 0.62 0.54 0.32
C2 0.03 0.00 0.19 0.37 0.01 0.27 0.01 0.45 0.01 0.01 0.01 0.01 0.30 0.26 0.02 0.21 0.54 0.87 0.74 0.59
C2' 0.01 0.19 0.00 0.01 0.07 0.03 0.18 0.25 0.21 0.04 0.14 0.36 0.01 0.05 0.09 0.02 0.51 0.89 0.84 0.64
C3' 0.02 0.37 0.01 0.00 0.33 0.01 0.38 0.04 0.37 0.20 0.36 0.59 0.02 0.01 0.36 0.03 0.31 0.75 0.41 0.37
C4 0.02 0.01 0.07 0.33 0.00 0.14 0.01 0.36 0.01 0.01 0.01 0.02 0.36 0.20 0.00 0.05 0.63 0.95 1.10 0.67
C4' 0.01 0.27 0.03 0.01 0.14 0.00 0.28 0.01 0.31 0.08 0.21 0.51 0.31 0.03 0.15 0.01 0.02 0.38 0.33 0.11
C5 0.02 0.01 0.18 0.38 0.01 0.28 0.00 0.56 0.00 0.01 0.01 0.02 0.38 0.33 0.01 0.16 0.84 1.04 1.40 0.92
C5' 0.14 0.45 0.25 0.04 0.36 0.01 0.56 0.00 0.59 0.25 0.41 0.79 0.13 0.25 0.38 0.02 0.01 0.36 0.40 0.02
C6 0.02 0.01 0.21 0.37 0.01 0.31 0.00 0.59 0.00 0.01 0.01 0.02 0.34 0.32 0.01 0.22 0.83 0.95 1.26 0.87
N1 0.01 0.01 0.04 0.20 0.01 0.08 0.01 0.25 0.01 0.00 0.01 0.02 0.21 0.17 0.02 0.02 0.47 0.73 0.75 0.46
N3 0.02 0.01 0.14 0.36 0.01 0.21 0.01 0.41 0.01 0.01 0.00 0.01 0.34 0.20 0.01 0.15 0.57 0.93 0.85 0.62
O2 0.04 0.01 0.36 0.59 0.02 0.51 0.02 0.79 0.02 0.02 0.01 0.00 0.40 0.50 0.02 0.37 0.79 1.05 0.94 0.91
O2' 0.03 0.30 0.01 0.02 0.36 0.31 0.38 0.13 0.34 0.21 0.34 0.40 0.00 0.09 0.39 0.19 0.35 0.88 0.83 0.55
O3' 0.33 0.26 0.05 0.01 0.20 0.03 0.33 0.25 0.32 0.17 0.20 0.50 0.09 0.00 0.23 0.26 0.27 0.74 0.36 0.31
O4 0.02 0.02 0.09 0.36 0.00 0.15 0.01 0.38 0.01 0.02 0.01 0.02 0.39 0.23 0.00 0.06 0.65 1.00 1.18 0.72
O4' 0.01 0.21 0.02 0.03 0.05 0.01 0.16 0.02 0.22 0.02 0.15 0.37 0.19 0.26 0.06 0.00 0.35 0.59 0.45 0.37
O5' 0.31 0.54 0.51 0.31 0.63 0.02 0.84 0.01 0.83 0.47 0.57 0.79 0.35 0.27 0.65 0.35 0.00 0.03 0.02 0.01
OP1 0.62 0.87 0.89 0.75 0.95 0.38 1.04 0.36 0.95 0.73 0.93 1.05 0.88 0.74 1.00 0.59 0.03 0.00 0.01 0.01
OP2 0.54 0.74 0.84 0.41 1.10 0.33 1.40 0.40 1.26 0.75 0.85 0.94 0.83 0.36 1.18 0.45 0.02 0.01 0.00 0.01
P 0.32 0.59 0.64 0.37 0.67 0.11 0.92 0.02 0.87 0.46 0.62 0.91 0.55 0.31 0.72 0.37 0.01 0.01 0.01 0.00