ClaRNA

Doublet Group distance statistics: 54067

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Distances from reference structure (by RMSD)

2, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.001, 0.004, 0.008, 0.009 max_d=0.009 avg_d=0.004 std_dev=0.004
C2 A 0, -0.003, 0.009, 0.020, 0.025 max_d=0.025 avg_d=0.009 std_dev=0.011
C6 A 0, -0.002, 0.011, 0.024, 0.029 max_d=0.029 avg_d=0.011 std_dev=0.013
N1 A 0, -0.003, 0.010, 0.024, 0.030 max_d=0.030 avg_d=0.010 std_dev=0.014
N3 A 0, -0.003, 0.011, 0.026, 0.032 max_d=0.032 avg_d=0.011 std_dev=0.014
C4 A 0, -0.004, 0.012, 0.028, 0.034 max_d=0.034 avg_d=0.012 std_dev=0.016
C1' A 0, -0.005, 0.020, 0.045, 0.055 max_d=0.055 avg_d=0.020 std_dev=0.025
O2 A 0, -0.006, 0.021, 0.049, 0.060 max_d=0.060 avg_d=0.021 std_dev=0.028
N4 A 0, -0.006, 0.022, 0.050, 0.061 max_d=0.061 avg_d=0.022 std_dev=0.028
O3' A 0, -0.065, 0.167, 0.398, 0.495 max_d=0.495 avg_d=0.167 std_dev=0.232
C2' B 0, -0.084, 0.246, 0.575, 0.711 max_d=0.711 avg_d=0.246 std_dev=0.330
C3' A 0, -0.130, 0.328, 0.787, 0.976 max_d=0.976 avg_d=0.328 std_dev=0.458
C2' A 0, -0.156, 0.403, 0.961, 1.192 max_d=1.192 avg_d=0.403 std_dev=0.558
O4' A 0, -0.160, 0.400, 0.961, 1.193 max_d=1.193 avg_d=0.400 std_dev=0.560
C6 B 0, -0.158, 0.454, 1.067, 1.320 max_d=1.320 avg_d=0.454 std_dev=0.612
C4' A 0, -0.192, 0.476, 1.144, 1.421 max_d=1.421 avg_d=0.476 std_dev=0.668
O2' B 0, -0.246, 0.626, 1.497, 1.858 max_d=1.858 avg_d=0.626 std_dev=0.872
C1' B 0, -0.245, 0.651, 1.547, 1.918 max_d=1.918 avg_d=0.651 std_dev=0.896
O2' A 0, -0.276, 0.719, 1.713, 2.125 max_d=2.125 avg_d=0.719 std_dev=0.994
N1 B 0, -0.329, 0.866, 2.061, 2.556 max_d=2.556 avg_d=0.866 std_dev=1.195
C5' A 0, -0.361, 0.898, 2.158, 2.679 max_d=2.679 avg_d=0.898 std_dev=1.260
O5' A 0, -0.372, 0.937, 2.246, 2.789 max_d=2.789 avg_d=0.937 std_dev=1.309
C5 B 0, -0.377, 0.991, 2.360, 2.926 max_d=2.926 avg_d=0.991 std_dev=1.368
C3' B 0, -0.407, 1.018, 2.444, 3.034 max_d=3.034 avg_d=1.018 std_dev=1.425
O3' B 0, -0.438, 1.093, 2.624, 3.258 max_d=3.258 avg_d=1.093 std_dev=1.531
O4' B 0, -0.440, 1.121, 2.681, 3.327 max_d=3.327 avg_d=1.121 std_dev=1.561
P A 0, -0.465, 1.168, 2.802, 3.479 max_d=3.479 avg_d=1.168 std_dev=1.634
OP2 A 0, -0.547, 1.368, 3.283, 4.076 max_d=4.076 avg_d=1.368 std_dev=1.915
C4' B 0, -0.597, 1.489, 3.575, 4.439 max_d=4.439 avg_d=1.489 std_dev=2.086
OP1 A 0, -0.625, 1.568, 3.762, 4.671 max_d=4.671 avg_d=1.568 std_dev=2.194
C2 B 0, -0.708, 1.788, 4.284, 5.318 max_d=5.318 avg_d=1.788 std_dev=2.496
C4 B 0, -0.725, 1.837, 4.399, 5.460 max_d=5.460 avg_d=1.837 std_dev=2.562
O5' B 0, -0.801, 1.982, 4.766, 5.919 max_d=5.919 avg_d=1.982 std_dev=2.784
C5' B 0, -0.851, 2.106, 5.064, 6.289 max_d=6.289 avg_d=2.106 std_dev=2.958
N3 B 0, -0.884, 2.219, 5.322, 6.607 max_d=6.607 avg_d=2.219 std_dev=3.103
O2 B 0, -0.899, 2.250, 5.398, 6.702 max_d=6.702 avg_d=2.250 std_dev=3.148
N4 B 0, -0.944, 2.373, 5.691, 7.065 max_d=7.065 avg_d=2.373 std_dev=3.317
P B 0, -1.036, 2.558, 6.153, 7.641 max_d=7.641 avg_d=2.558 std_dev=3.594
OP1 B 0, -1.056, 2.623, 6.303, 7.827 max_d=7.827 avg_d=2.623 std_dev=3.679
OP2 B 0, -1.347, 3.302, 7.950, 9.876 max_d=9.876 avg_d=3.302 std_dev=4.649

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 0.04 0.00 0.00 0.04 0.01 0.02 0.02 0.01 0.02 0.04 0.04 0.04 0.01 0.02 0.00 0.05 0.03 0.41 0.29
C2 0.04 0.00 0.13 0.05 0.01 0.05 0.00 0.03 0.01 0.00 0.00 0.01 0.01 0.18 0.02 0.12 0.20 0.40 1.00 0.67
C2' 0.00 0.13 0.00 0.00 0.06 0.01 0.18 0.03 0.22 0.03 0.08 0.07 0.28 0.00 0.00 0.00 0.04 0.34 0.05 0.07
C3' 0.00 0.05 0.00 0.00 0.04 0.00 0.10 0.01 0.12 0.02 0.03 0.05 0.12 0.02 0.00 0.01 0.09 0.67 0.34 0.32
C4 0.04 0.01 0.06 0.04 0.00 0.03 0.00 0.03 0.01 0.02 0.00 0.01 0.00 0.11 0.06 0.02 0.14 0.74 1.23 0.85
C4' 0.01 0.05 0.01 0.00 0.03 0.00 0.01 0.01 0.01 0.02 0.04 0.03 0.08 0.02 0.00 0.00 0.01 0.34 0.01 0.01
C5 0.02 0.00 0.18 0.10 0.00 0.01 0.00 0.04 0.00 0.01 0.01 0.01 0.01 0.27 0.07 0.09 0.04 0.71 1.07 0.78
C5' 0.02 0.03 0.03 0.01 0.03 0.01 0.04 0.00 0.05 0.04 0.02 0.03 0.03 0.02 0.00 0.02 0.00 0.15 0.01 0.01
C6 0.01 0.01 0.22 0.12 0.01 0.01 0.00 0.05 0.00 0.00 0.01 0.01 0.01 0.28 0.07 0.12 0.01 0.47 0.81 0.62
N1 0.02 0.00 0.03 0.02 0.02 0.02 0.01 0.04 0.00 0.00 0.01 0.02 0.00 0.05 0.04 0.01 0.10 0.30 0.79 0.56
N3 0.04 0.00 0.08 0.03 0.00 0.04 0.01 0.02 0.01 0.01 0.00 0.01 0.01 0.09 0.03 0.09 0.21 0.61 1.20 0.81
N4 0.04 0.01 0.07 0.05 0.01 0.03 0.01 0.03 0.01 0.02 0.01 0.00 0.00 0.13 0.07 0.02 0.15 0.87 1.33 0.92
O2 0.04 0.01 0.28 0.12 0.00 0.08 0.01 0.03 0.01 0.00 0.01 0.00 0.00 0.45 0.00 0.20 0.23 0.26 0.92 0.60
O2' 0.01 0.18 0.00 0.02 0.11 0.02 0.27 0.02 0.28 0.05 0.09 0.13 0.45 0.00 0.05 0.01 0.08 0.49 0.24 0.20
O3' 0.02 0.02 0.00 0.00 0.06 0.00 0.07 0.00 0.07 0.04 0.03 0.07 0.00 0.05 0.00 0.01 0.09 0.81 0.40 0.35
O4' 0.00 0.12 0.00 0.01 0.02 0.00 0.09 0.02 0.12 0.01 0.09 0.02 0.20 0.01 0.01 0.00 0.09 0.05 0.46 0.37
O5' 0.05 0.20 0.04 0.09 0.14 0.01 0.04 0.00 0.01 0.10 0.21 0.15 0.23 0.08 0.09 0.09 0.00 0.01 0.00 0.01
OP1 0.03 0.40 0.34 0.67 0.74 0.34 0.71 0.15 0.47 0.30 0.61 0.87 0.26 0.49 0.81 0.05 0.01 0.00 0.01 0.00
OP2 0.41 1.00 0.05 0.34 1.23 0.01 1.07 0.01 0.81 0.79 1.20 1.33 0.92 0.24 0.40 0.46 0.00 0.01 0.00 0.00
P 0.29 0.67 0.07 0.32 0.85 0.01 0.78 0.01 0.62 0.56 0.81 0.92 0.60 0.20 0.35 0.37 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' 0.48 1.53 0.02 0.68 1.18 0.66 0.56 1.12 0.34 0.80 1.64 1.30 2.03 0.50 0.81 0.03 1.28 1.17 1.07 1.07
C2 0.47 1.96 0.04 1.01 1.66 1.04 0.79 1.72 0.44 0.97 2.23 1.90 2.51 0.62 1.07 0.24 1.91 1.92 2.22 1.90
C2' 0.83 1.73 0.58 0.11 1.48 0.25 0.98 0.67 0.78 1.14 1.84 1.59 2.10 1.05 0.33 0.31 0.70 0.55 0.32 0.38
C3' 0.69 1.32 0.43 0.01 1.07 0.09 0.69 0.40 0.56 0.87 1.37 1.14 1.64 0.71 0.15 0.34 0.47 0.31 0.12 0.10
C4 0.41 2.14 0.10 1.21 1.94 1.27 0.94 2.05 0.49 1.03 2.54 2.23 2.64 0.63 1.18 0.41 2.27 2.37 2.95 2.43
C4' 0.38 0.98 0.04 0.36 0.68 0.31 0.30 0.59 0.19 0.53 1.00 0.72 1.36 0.13 0.46 0.12 0.74 0.64 0.19 0.45
C5 0.42 2.06 0.10 1.19 1.75 1.19 0.87 1.87 0.47 1.02 2.34 1.95 2.57 0.61 1.17 0.35 2.08 2.04 2.39 2.09
C5' 0.48 0.90 0.12 0.11 0.67 0.10 0.42 0.32 0.34 0.59 0.89 0.70 1.16 0.15 0.22 0.28 0.40 0.37 0.23 0.11
C6 0.47 1.85 0.04 1.03 1.47 0.97 0.73 1.52 0.42 0.95 2.00 1.60 2.39 0.62 1.10 0.20 1.69 1.60 1.70 1.56
N1 0.49 1.81 0.02 0.92 1.46 0.90 0.71 1.48 0.41 0.92 1.99 1.62 2.35 0.60 1.02 0.15 1.64 1.58 1.69 1.53
N3 0.44 2.10 0.08 1.14 1.87 1.20 0.90 1.97 0.47 1.02 2.47 2.17 2.63 0.63 1.16 0.35 2.17 2.27 2.77 2.29
N4 0.35 2.19 0.13 1.26 2.13 1.37 1.04 2.23 0.51 1.04 2.72 2.52 2.62 0.61 1.19 0.51 2.45 2.73 3.54 2.82
O2 0.48 1.91 0.02 0.93 1.62 0.97 0.77 1.66 0.42 0.95 2.18 1.86 2.46 0.60 1.00 0.20 1.84 1.86 2.13 1.82
O2' 0.94 1.91 0.74 0.02 1.71 0.17 1.17 0.61 0.94 1.29 2.07 1.86 2.25 1.24 0.23 0.39 0.61 0.41 0.27 0.27
O3' 0.55 1.17 0.25 0.09 0.89 0.14 0.48 0.44 0.37 0.70 1.21 0.95 1.52 0.48 0.20 0.25 0.58 0.38 0.02 0.21
O4' 0.24 1.12 0.33 0.84 0.74 0.69 0.20 1.07 0.04 0.48 1.17 0.82 1.63 0.01 0.93 0.13 1.28 1.20 0.94 1.07
O5' 0.78 1.22 0.65 0.20 1.04 0.03 0.79 0.30 0.70 0.92 1.23 1.07 1.42 0.88 0.00 0.40 0.24 0.22 0.39 0.10
OP1 0.47 0.35 0.22 0.18 0.39 0.70 0.44 0.72 0.46 0.42 0.34 0.38 0.30 0.12 0.01 0.67 0.59 0.62 0.52 0.14
OP2 0.32 0.65 0.66 0.16 0.56 0.51 0.38 0.83 0.29 0.45 0.68 0.59 0.75 1.05 0.01 0.21 0.57 0.46 0.34 0.07
P 0.17 0.40 0.29 0.04 0.29 0.41 0.15 0.57 0.10 0.24 0.41 0.31 0.52 0.49 0.00 0.16 0.47 0.42 0.44 0.04

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.01 0.00 0.02 0.02 0.01 0.01 0.04 0.01 0.00 0.01 0.02 0.02 0.01 0.18 0.00 0.14 0.36 0.42 0.06
C2 0.01 0.00 0.04 0.03 0.01 0.04 0.00 0.02 0.00 0.00 0.00 0.01 0.00 0.15 0.23 0.05 0.21 0.44 0.32 0.01
C2' 0.00 0.04 0.00 0.00 0.03 0.01 0.08 0.12 0.09 0.01 0.02 0.03 0.09 0.00 0.00 0.00 0.17 0.00 0.71 0.34
C3' 0.02 0.03 0.00 0.00 0.07 0.00 0.13 0.01 0.13 0.03 0.00 0.08 0.09 0.02 0.01 0.01 0.13 0.14 0.61 0.16
C4 0.02 0.01 0.03 0.07 0.00 0.00 0.00 0.09 0.00 0.02 0.00 0.00 0.01 0.08 0.08 0.01 0.27 0.39 0.07 0.07
C4' 0.01 0.04 0.01 0.00 0.00 0.00 0.03 0.00 0.04 0.00 0.02 0.00 0.07 0.09 0.03 0.01 0.02 0.33 0.43 0.03
C5 0.01 0.00 0.08 0.13 0.00 0.03 0.00 0.14 0.00 0.01 0.01 0.00 0.00 0.01 0.01 0.04 0.28 0.32 0.02 0.10
C5' 0.04 0.02 0.12 0.01 0.09 0.00 0.14 0.00 0.14 0.07 0.04 0.10 0.04 0.04 0.09 0.01 0.00 0.26 0.26 0.00
C6 0.01 0.00 0.09 0.13 0.00 0.04 0.00 0.14 0.00 0.00 0.01 0.00 0.00 0.02 0.01 0.06 0.26 0.32 0.08 0.06
N1 0.00 0.00 0.01 0.03 0.02 0.00 0.01 0.07 0.00 0.00 0.01 0.02 0.01 0.05 0.13 0.00 0.22 0.39 0.28 0.01
N3 0.01 0.00 0.02 0.00 0.00 0.02 0.01 0.04 0.01 0.01 0.00 0.01 0.00 0.14 0.18 0.04 0.24 0.44 0.22 0.02
N4 0.02 0.01 0.03 0.08 0.00 0.00 0.00 0.10 0.00 0.02 0.01 0.00 0.01 0.08 0.07 0.01 0.28 0.37 0.01 0.09
O2 0.02 0.00 0.09 0.09 0.01 0.07 0.00 0.04 0.00 0.01 0.00 0.01 0.00 0.21 0.33 0.10 0.16 0.48 0.42 0.04
O2' 0.01 0.15 0.00 0.02 0.08 0.09 0.01 0.04 0.02 0.05 0.14 0.08 0.21 0.00 0.08 0.04 0.14 0.08 0.85 0.43
O3' 0.18 0.23 0.00 0.01 0.08 0.03 0.01 0.09 0.01 0.13 0.18 0.07 0.33 0.08 0.00 0.15 0.25 0.19 0.53 0.08
O4' 0.00 0.05 0.00 0.01 0.01 0.01 0.04 0.01 0.06 0.00 0.04 0.01 0.10 0.04 0.15 0.00 0.06 0.57 0.22 0.13
O5' 0.14 0.21 0.17 0.13 0.27 0.02 0.28 0.00 0.26 0.22 0.24 0.28 0.16 0.14 0.25 0.06 0.00 0.01 0.01 0.00
OP1 0.36 0.44 0.00 0.14 0.39 0.33 0.32 0.26 0.32 0.39 0.44 0.37 0.48 0.08 0.19 0.57 0.01 0.00 0.00 0.00
OP2 0.42 0.32 0.71 0.61 0.07 0.43 0.02 0.26 0.08 0.28 0.22 0.01 0.42 0.85 0.53 0.22 0.01 0.00 0.00 0.00
P 0.06 0.01 0.34 0.16 0.07 0.03 0.10 0.00 0.06 0.01 0.02 0.09 0.04 0.43 0.08 0.13 0.00 0.00 0.00 0.00