ClaRNA

Doublet Group distance statistics: 40422

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Distances from reference structure (by RMSD)

1, 1, 5, 11, 5, 14, 21, 42, 6, 5, 14, 5, 32, 6, 1, 1, 2, 1, 5, 145,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4' B 0, 0.900, 1.649, 2.398, 4.031 max_d=4.031 avg_d=1.649 std_dev=0.749
C3' B 0, 0.770, 1.539, 2.309, 5.389 max_d=5.389 avg_d=1.539 std_dev=0.770
O4' B 0, 0.733, 1.579, 2.425, 3.864 max_d=3.864 avg_d=1.579 std_dev=0.846
C1' B 0, 0.516, 1.402, 2.288, 3.436 max_d=3.436 avg_d=1.402 std_dev=0.886
C2' B 0, 0.523, 1.507, 2.491, 4.996 max_d=4.996 avg_d=1.507 std_dev=0.984
O3' B 0, 1.021, 2.056, 3.092, 7.916 max_d=7.916 avg_d=2.056 std_dev=1.036
N9 B 0, 0.375, 1.419, 2.462, 3.921 max_d=3.921 avg_d=1.419 std_dev=1.043
N1 A 0, 0.756, 1.816, 2.876, 4.288 max_d=4.288 avg_d=1.816 std_dev=1.060
N6 A 0, 1.227, 2.385, 3.544, 5.084 max_d=5.084 avg_d=2.385 std_dev=1.158
C5' B 0, 1.078, 2.237, 3.395, 5.263 max_d=5.263 avg_d=2.237 std_dev=1.158
C8 B 0, 0.744, 1.951, 3.158, 4.376 max_d=4.376 avg_d=1.951 std_dev=1.207
C6 A 0, 0.633, 1.848, 3.063, 4.342 max_d=4.342 avg_d=1.848 std_dev=1.215
C2 A 0, 0.902, 2.169, 3.436, 5.473 max_d=5.473 avg_d=2.169 std_dev=1.267
N7 B 0, 0.823, 2.237, 3.651, 5.192 max_d=5.192 avg_d=2.237 std_dev=1.414
O5' B 0, 1.113, 2.577, 4.041, 5.779 max_d=5.779 avg_d=2.577 std_dev=1.464
C5 A 0, 0.651, 2.172, 3.694, 5.155 max_d=5.155 avg_d=2.172 std_dev=1.522
N3 A 0, 0.611, 2.134, 3.658, 5.564 max_d=5.564 avg_d=2.134 std_dev=1.524
C4 B 0, 0.033, 1.585, 3.138, 4.581 max_d=4.581 avg_d=1.585 std_dev=1.552
O2' B 0, 0.733, 2.303, 3.874, 7.001 max_d=7.001 avg_d=2.303 std_dev=1.570
C5 B 0, 0.266, 1.965, 3.664, 5.075 max_d=5.075 avg_d=1.965 std_dev=1.699
C4 A 0, 0.001, 1.816, 3.632, 4.962 max_d=4.962 avg_d=1.816 std_dev=1.816
N7 A 0, 1.294, 3.171, 5.048, 6.851 max_d=6.851 avg_d=3.171 std_dev=1.877
N3 B 0, 0.213, 2.119, 4.025, 5.825 max_d=5.825 avg_d=2.119 std_dev=1.906
P B 0, 1.418, 3.510, 5.602, 7.077 max_d=7.077 avg_d=3.510 std_dev=2.092
C8 A 0, 1.187, 3.293, 5.399, 7.104 max_d=7.104 avg_d=3.293 std_dev=2.106
N9 A 0, 0.379, 2.488, 4.598, 6.039 max_d=6.039 avg_d=2.488 std_dev=2.110
OP1 B 0, 1.518, 3.770, 6.022, 9.238 max_d=9.238 avg_d=3.770 std_dev=2.252
C6 B 0, 0.196, 2.504, 4.812, 6.440 max_d=6.440 avg_d=2.504 std_dev=2.308
OP2 B 0, 1.570, 3.972, 6.374, 7.688 max_d=7.688 avg_d=3.972 std_dev=2.402
C1' A 0, 0.412, 2.818, 5.224, 7.316 max_d=7.316 avg_d=2.818 std_dev=2.406
O6 B 0, 0.575, 3.061, 5.546, 7.487 max_d=7.487 avg_d=3.061 std_dev=2.486
C2 B 0, 0.142, 2.709, 5.277, 7.410 max_d=7.410 avg_d=2.709 std_dev=2.568
C2' A 0, 1.289, 3.988, 6.687, 8.975 max_d=8.975 avg_d=3.988 std_dev=2.699
N1 B 0, -0.036, 2.749, 5.533, 7.338 max_d=7.338 avg_d=2.749 std_dev=2.784
O2' A 0, 1.920, 4.736, 7.552, 9.937 max_d=9.937 avg_d=4.736 std_dev=2.816
O4' A 0, 0.495, 3.405, 6.314, 8.449 max_d=8.449 avg_d=3.405 std_dev=2.909
O3' A 0, 2.150, 5.179, 8.207, 10.973 max_d=10.973 avg_d=5.179 std_dev=3.029
N2 B 0, 0.499, 3.590, 6.682, 9.723 max_d=9.723 avg_d=3.590 std_dev=3.091
C3' A 0, 1.259, 4.430, 7.600, 9.633 max_d=9.633 avg_d=4.430 std_dev=3.170
C4' A 0, 0.568, 4.093, 7.618, 9.756 max_d=9.756 avg_d=4.093 std_dev=3.525
O5' A 0, 2.171, 6.196, 10.220, 12.577 max_d=12.577 avg_d=6.196 std_dev=4.025
C5' A 0, 1.287, 5.493, 9.698, 12.208 max_d=12.208 avg_d=5.493 std_dev=4.206
OP2 A 0, 3.880, 8.424, 12.968, 15.308 max_d=15.308 avg_d=8.424 std_dev=4.544
P A 0, 3.341, 7.901, 12.461, 14.729 max_d=14.729 avg_d=7.901 std_dev=4.560
OP1 A 0, 3.678, 8.928, 14.177, 17.036 max_d=17.036 avg_d=8.928 std_dev=5.249

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.04 0.01 0.02 0.02 0.01 0.02 0.10 0.03 0.02 0.04 0.04 0.02 0.02 0.01 0.02 0.31 0.01 0.36 0.39 0.49 0.32
C2 0.04 0.00 0.30 0.27 0.01 0.20 0.01 0.37 0.01 0.02 0.01 0.01 0.01 0.02 0.02 0.51 0.39 0.24 0.53 0.85 0.90 0.60
C2' 0.01 0.30 0.00 0.01 0.16 0.02 0.09 0.22 0.15 0.15 0.24 0.30 0.11 0.09 0.03 0.00 0.04 0.02 0.59 0.58 0.66 0.57
C3' 0.02 0.27 0.01 0.00 0.26 0.01 0.36 0.02 0.36 0.42 0.31 0.24 0.41 0.44 0.25 0.02 0.01 0.02 0.30 0.38 0.25 0.27
C4 0.02 0.01 0.16 0.26 0.00 0.12 0.01 0.23 0.01 0.01 0.02 0.00 0.01 0.01 0.01 0.35 0.20 0.12 0.50 0.74 0.85 0.54
C4' 0.01 0.20 0.02 0.01 0.12 0.00 0.15 0.01 0.16 0.25 0.17 0.19 0.18 0.23 0.11 0.31 0.03 0.01 0.02 0.27 0.29 0.11
C5 0.02 0.01 0.09 0.36 0.01 0.15 0.00 0.27 0.01 0.01 0.01 0.01 0.02 0.00 0.01 0.38 0.17 0.06 0.61 0.94 1.10 0.72
C5' 0.10 0.37 0.22 0.02 0.23 0.01 0.27 0.00 0.29 0.38 0.33 0.34 0.32 0.37 0.19 0.10 0.22 0.03 0.01 0.31 0.37 0.02
C6 0.03 0.01 0.15 0.36 0.01 0.16 0.01 0.29 0.00 0.02 0.00 0.01 0.00 0.02 0.02 0.44 0.20 0.11 0.61 1.00 1.16 0.74
C8 0.02 0.02 0.15 0.42 0.01 0.25 0.01 0.38 0.02 0.00 0.02 0.01 0.03 0.00 0.01 0.30 0.27 0.15 0.72 0.93 1.07 0.81
N1 0.04 0.01 0.24 0.31 0.02 0.17 0.01 0.33 0.00 0.02 0.00 0.01 0.01 0.02 0.02 0.50 0.28 0.19 0.56 0.94 1.04 0.67
N3 0.04 0.01 0.30 0.24 0.00 0.19 0.01 0.34 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.46 0.41 0.24 0.48 0.73 0.78 0.52
N6 0.02 0.01 0.11 0.41 0.01 0.18 0.02 0.32 0.00 0.03 0.01 0.01 0.00 0.03 0.02 0.45 0.24 0.08 0.67 1.14 1.32 0.86
N7 0.02 0.02 0.09 0.44 0.01 0.23 0.00 0.37 0.02 0.00 0.02 0.01 0.03 0.00 0.01 0.35 0.29 0.09 0.75 1.10 1.27 0.90
N9 0.01 0.02 0.03 0.25 0.01 0.11 0.01 0.19 0.02 0.01 0.02 0.01 0.02 0.01 0.00 0.21 0.11 0.01 0.50 0.64 0.77 0.52
O2' 0.02 0.51 0.00 0.02 0.35 0.31 0.38 0.10 0.44 0.30 0.50 0.46 0.45 0.35 0.21 0.00 0.07 0.23 0.40 0.51 0.70 0.46
O3' 0.31 0.39 0.04 0.01 0.20 0.03 0.17 0.22 0.20 0.27 0.28 0.41 0.24 0.29 0.11 0.07 0.00 0.22 0.31 0.61 0.55 0.45
O4' 0.01 0.24 0.02 0.02 0.12 0.01 0.06 0.03 0.11 0.15 0.19 0.24 0.08 0.09 0.01 0.23 0.22 0.00 0.23 0.25 0.34 0.20
O5' 0.36 0.53 0.59 0.30 0.50 0.02 0.61 0.01 0.61 0.72 0.56 0.48 0.67 0.75 0.50 0.40 0.31 0.23 0.00 0.03 0.02 0.01
OP1 0.39 0.85 0.58 0.38 0.74 0.27 0.94 0.31 1.00 0.93 0.94 0.73 1.14 1.10 0.64 0.51 0.61 0.25 0.03 0.00 0.01 0.01
OP2 0.49 0.90 0.66 0.25 0.85 0.29 1.10 0.37 1.16 1.07 1.04 0.78 1.32 1.27 0.77 0.70 0.55 0.34 0.02 0.01 0.00 0.01
P 0.32 0.60 0.57 0.27 0.54 0.11 0.72 0.02 0.74 0.81 0.67 0.52 0.86 0.90 0.52 0.46 0.45 0.20 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' 2.70 5.39 2.36 1.59 4.19 1.61 4.56 1.00 5.50 3.06 5.84 5.75 4.60 3.84 3.26 2.54 1.59 2.29 1.00 5.91 1.23 0.60 0.37
C2 2.34 3.75 2.19 1.58 3.16 1.68 3.37 1.13 3.80 2.48 3.92 3.92 3.38 2.99 2.61 2.44 1.64 2.10 1.10 3.96 1.18 0.75 0.46
C2' 2.90 5.62 2.59 1.79 4.41 1.79 4.83 1.14 5.84 3.29 6.14 5.97 4.80 4.11 3.46 2.86 1.86 2.42 1.07 6.37 1.23 0.60 0.44
C3' 2.61 5.49 2.30 1.60 4.17 1.60 4.60 1.06 5.66 3.03 6.03 5.91 4.60 3.86 3.19 2.56 1.75 2.16 0.97 6.22 1.55 0.61 0.71
C4 2.50 4.71 2.20 1.47 3.81 1.54 4.11 0.98 4.79 2.82 5.01 4.92 4.12 3.50 3.01 2.32 1.45 2.17 1.00 4.99 1.21 0.60 0.36
C4' 2.69 5.74 2.30 1.55 4.31 1.57 4.69 0.97 5.75 3.08 6.22 6.22 4.81 3.90 3.30 2.46 1.60 2.27 0.94 6.21 1.37 0.60 0.52
C5 2.44 4.60 2.10 1.38 3.77 1.47 3.96 0.95 4.52 2.73 4.79 4.79 4.08 3.31 2.97 2.08 1.29 2.14 0.96 4.56 1.20 0.58 0.35
C5' 2.81 6.08 2.34 1.60 4.53 1.61 4.88 1.02 5.98 3.22 6.55 6.65 5.08 4.03 3.46 2.42 1.64 2.37 0.98 6.40 1.37 0.72 0.61
C6 2.21 3.82 1.95 1.27 3.24 1.38 3.36 0.93 3.70 2.43 3.91 3.97 3.47 2.88 2.64 1.92 1.17 1.97 0.97 3.69 1.19 0.57 0.32
C8 2.67 5.53 2.23 1.50 4.25 1.56 4.49 0.98 5.35 2.96 5.83 5.88 4.75 3.66 3.26 2.23 1.44 2.31 0.93 5.49 1.22 0.61 0.39
N1 2.13 3.40 1.97 1.37 2.91 1.51 3.05 1.04 3.36 2.29 3.50 3.55 3.10 2.70 2.42 2.09 1.37 1.93 1.06 3.42 1.18 0.68 0.41
N3 2.47 4.31 2.26 1.59 3.54 1.65 3.84 1.08 4.44 2.72 4.59 4.52 3.81 3.35 2.86 2.51 1.63 2.16 1.06 4.70 1.19 0.69 0.42
N6 2.09 3.42 1.85 1.22 2.94 1.33 2.89 0.94 3.13 2.15 3.39 3.59 3.19 2.44 2.44 1.67 1.05 1.92 0.93 3.04 1.16 0.59 0.33
N7 2.60 5.20 2.16 1.46 4.09 1.54 4.22 0.99 4.90 2.82 5.36 5.48 4.56 3.42 3.16 2.08 1.37 2.29 0.92 4.90 1.21 0.62 0.40
N9 2.63 5.25 2.26 1.51 4.12 1.56 4.44 0.97 5.30 2.97 5.63 5.55 4.52 3.71 3.20 2.36 1.48 2.25 0.98 5.57 1.22 0.59 0.37
O2' 3.25 5.76 2.98 2.08 4.70 2.04 5.17 1.35 6.10 3.73 6.27 6.05 5.02 4.57 3.83 3.28 2.07 2.72 1.34 6.68 0.83 0.97 0.46
O3' 2.66 5.41 2.41 1.69 4.15 1.68 4.60 1.13 5.63 3.09 5.94 5.81 4.55 3.94 3.22 2.70 1.87 2.20 1.03 6.22 1.38 0.61 0.55
O4' 2.68 5.60 2.28 1.53 4.25 1.56 4.59 0.97 5.58 3.03 6.03 6.05 4.73 3.80 3.26 2.39 1.52 2.30 0.97 5.96 1.26 0.63 0.41
O5' 3.07 6.39 2.62 1.93 4.81 1.88 5.14 1.33 6.26 3.46 6.87 6.94 5.37 4.26 3.72 2.68 2.02 2.59 1.20 6.64 1.36 0.92 0.76
OP1 3.48 6.88 2.99 2.37 5.19 2.29 5.44 1.78 6.51 3.81 7.24 7.59 5.84 4.55 4.11 3.00 2.45 3.00 1.66 6.80 1.55 1.48 1.31
OP2 3.50 6.81 3.06 2.51 5.13 2.39 5.34 1.91 6.38 3.74 7.15 7.46 5.78 4.43 4.07 3.11 2.67 3.01 1.71 6.57 1.77 1.52 1.40
P 3.30 6.72 2.81 2.18 5.03 2.11 5.29 1.56 6.37 3.62 7.10 7.40 5.67 4.38 3.93 2.83 2.29 2.82 1.38 6.64 1.37 1.16 0.96

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.05 0.01 0.02 0.02 0.01 0.02 0.09 0.02 0.02 0.04 0.06 0.05 0.02 0.01 0.02 0.34 0.01 0.27 0.02 0.51 0.43 0.25
C2 0.05 0.00 0.51 0.38 0.01 0.36 0.01 0.60 0.01 0.01 0.01 0.01 0.01 0.01 0.02 0.50 0.32 0.52 0.64 0.02 0.94 0.64 0.66
C2' 0.01 0.51 0.00 0.01 0.27 0.02 0.14 0.21 0.24 0.26 0.41 0.61 0.50 0.13 0.03 0.00 0.05 0.02 0.57 0.19 1.03 0.74 0.72
C3' 0.02 0.38 0.01 0.00 0.32 0.01 0.40 0.02 0.43 0.38 0.41 0.40 0.33 0.43 0.26 0.02 0.01 0.03 0.31 0.47 0.77 0.34 0.40
C4 0.02 0.01 0.27 0.32 0.00 0.14 0.00 0.28 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.18 0.19 0.27 0.43 0.01 0.57 0.50 0.35
C4' 0.01 0.36 0.02 0.01 0.14 0.00 0.11 0.01 0.12 0.34 0.24 0.49 0.35 0.28 0.10 0.32 0.03 0.00 0.02 0.13 0.34 0.35 0.11
C5 0.02 0.01 0.14 0.40 0.00 0.11 0.00 0.21 0.01 0.01 0.01 0.02 0.01 0.00 0.01 0.25 0.20 0.12 0.48 0.01 0.52 0.68 0.43
C5' 0.09 0.60 0.21 0.02 0.28 0.01 0.21 0.00 0.27 0.43 0.45 0.77 0.55 0.37 0.13 0.12 0.23 0.02 0.01 0.26 0.26 0.37 0.02
C6 0.02 0.01 0.24 0.43 0.01 0.12 0.01 0.27 0.00 0.01 0.01 0.02 0.01 0.01 0.01 0.22 0.24 0.22 0.50 0.01 0.62 0.69 0.46
C8 0.02 0.01 0.26 0.38 0.01 0.34 0.01 0.43 0.01 0.00 0.01 0.02 0.01 0.00 0.00 0.58 0.20 0.28 0.66 0.03 0.53 0.84 0.63
N1 0.04 0.01 0.41 0.41 0.01 0.24 0.01 0.45 0.01 0.01 0.00 0.02 0.01 0.01 0.02 0.32 0.27 0.40 0.55 0.02 0.80 0.61 0.53
N2 0.06 0.01 0.61 0.40 0.01 0.49 0.02 0.77 0.02 0.02 0.02 0.00 0.01 0.02 0.02 0.69 0.41 0.63 0.80 0.03 1.19 0.82 0.88
N3 0.05 0.01 0.50 0.33 0.00 0.35 0.01 0.55 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.48 0.32 0.52 0.60 0.02 0.86 0.58 0.59
N7 0.02 0.01 0.13 0.43 0.01 0.28 0.00 0.37 0.01 0.00 0.01 0.02 0.01 0.00 0.01 0.51 0.25 0.15 0.66 0.03 0.58 0.94 0.67
N9 0.01 0.02 0.03 0.26 0.01 0.10 0.01 0.13 0.01 0.00 0.02 0.02 0.01 0.01 0.00 0.22 0.13 0.02 0.38 0.02 0.43 0.51 0.29
O2' 0.02 0.50 0.00 0.02 0.18 0.32 0.25 0.12 0.22 0.58 0.32 0.69 0.48 0.51 0.22 0.00 0.08 0.22 0.38 0.27 0.98 0.79 0.63
O3' 0.34 0.32 0.05 0.01 0.19 0.03 0.20 0.23 0.24 0.20 0.27 0.41 0.32 0.25 0.13 0.08 0.00 0.23 0.33 0.29 0.66 0.38 0.35
O4' 0.01 0.52 0.02 0.03 0.27 0.00 0.12 0.02 0.22 0.28 0.40 0.63 0.52 0.15 0.02 0.22 0.23 0.00 0.14 0.16 0.25 0.48 0.23
O5' 0.27 0.64 0.57 0.31 0.43 0.02 0.48 0.01 0.50 0.66 0.55 0.80 0.60 0.66 0.38 0.38 0.33 0.14 0.00 0.54 0.02 0.02 0.01
O6 0.02 0.02 0.19 0.47 0.01 0.13 0.01 0.26 0.01 0.03 0.02 0.03 0.02 0.03 0.02 0.27 0.29 0.16 0.54 0.00 0.64 0.82 0.54
OP1 0.51 0.94 1.03 0.77 0.57 0.34 0.52 0.26 0.62 0.53 0.80 1.19 0.86 0.58 0.43 0.98 0.66 0.25 0.02 0.64 0.00 0.02 0.01
OP2 0.43 0.64 0.74 0.34 0.50 0.35 0.68 0.37 0.69 0.84 0.61 0.82 0.58 0.94 0.51 0.79 0.38 0.48 0.02 0.82 0.02 0.00 0.01
P 0.25 0.66 0.72 0.40 0.35 0.11 0.43 0.02 0.46 0.63 0.53 0.88 0.59 0.67 0.29 0.63 0.35 0.23 0.01 0.54 0.01 0.01 0.00