ClaRNA

Doublet Group distance statistics: 24098

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Distances from reference structure (by RMSD)

1, 6, 9, 5, 0, 0, 0, 0, 0, 0, 0, 0, 1, 4, 0, 0, 0, 1, 0, 17,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N1 A 0, 0.077, 0.863, 1.649, 2.136 max_d=2.136 avg_d=0.863 std_dev=0.786
N1 B 0, 0.067, 0.909, 1.752, 2.409 max_d=2.409 avg_d=0.909 std_dev=0.842
C1' A 0, 0.106, 0.960, 1.814, 2.591 max_d=2.591 avg_d=0.960 std_dev=0.854
O4' A 0, -0.002, 0.915, 1.832, 4.858 max_d=4.858 avg_d=0.915 std_dev=0.917
C1' B 0, 0.141, 1.167, 2.192, 3.748 max_d=3.748 avg_d=1.167 std_dev=1.025
C6 A 0, 0.054, 1.084, 2.113, 2.934 max_d=2.934 avg_d=1.084 std_dev=1.030
O4' B 0, 0.279, 1.458, 2.637, 4.031 max_d=4.031 avg_d=1.458 std_dev=1.179
C6 B 0, 0.124, 1.306, 2.488, 3.034 max_d=3.034 avg_d=1.306 std_dev=1.182
C4' A 0, 0.028, 1.237, 2.446, 6.109 max_d=6.109 avg_d=1.237 std_dev=1.209
C3' A 0, 0.124, 1.545, 2.965, 5.226 max_d=5.226 avg_d=1.545 std_dev=1.421
C2' B 0, 0.019, 1.458, 2.896, 5.422 max_d=5.422 avg_d=1.458 std_dev=1.439
C2 B 0, 0.100, 1.547, 2.995, 3.926 max_d=3.926 avg_d=1.547 std_dev=1.447
C4' B 0, 0.193, 1.640, 3.088, 5.238 max_d=5.238 avg_d=1.640 std_dev=1.447
C3' B 0, -0.242, 1.215, 2.671, 5.561 max_d=5.561 avg_d=1.215 std_dev=1.456
C5' A 0, 0.156, 1.663, 3.170, 8.397 max_d=8.397 avg_d=1.663 std_dev=1.507
C2' A 0, 0.185, 1.764, 3.342, 4.966 max_d=4.966 avg_d=1.764 std_dev=1.579
C5 A 0, -0.009, 1.600, 3.209, 4.227 max_d=4.227 avg_d=1.600 std_dev=1.609
C2 A 0, -0.018, 1.646, 3.310, 4.143 max_d=4.143 avg_d=1.646 std_dev=1.664
O3' B 0, -0.283, 1.432, 3.147, 7.546 max_d=7.546 avg_d=1.432 std_dev=1.715
O3' A 0, 0.462, 2.209, 3.955, 5.690 max_d=5.690 avg_d=2.209 std_dev=1.747
N3 B 0, 0.046, 1.860, 3.674, 4.755 max_d=4.755 avg_d=1.860 std_dev=1.814
O5' A 0, 0.326, 2.193, 4.059, 10.425 max_d=10.425 avg_d=2.193 std_dev=1.867
C5 B 0, 0.008, 1.894, 3.780, 4.698 max_d=4.698 avg_d=1.894 std_dev=1.886
C5' B 0, 0.343, 2.256, 4.168, 6.110 max_d=6.110 avg_d=2.256 std_dev=1.912
C4 A 0, -0.077, 1.897, 3.872, 4.811 max_d=4.811 avg_d=1.897 std_dev=1.974
C4 B 0, -0.143, 1.903, 3.950, 4.923 max_d=4.923 avg_d=1.903 std_dev=2.047
O2' B 0, 0.140, 2.190, 4.239, 6.817 max_d=6.817 avg_d=2.190 std_dev=2.049
N3 A 0, -0.085, 1.972, 4.029, 4.921 max_d=4.921 avg_d=1.972 std_dev=2.057
O5' B 0, 0.453, 2.522, 4.591, 6.139 max_d=6.139 avg_d=2.522 std_dev=2.069
O2 B 0, 0.196, 2.272, 4.347, 5.489 max_d=5.489 avg_d=2.272 std_dev=2.075
O2 A 0, 0.032, 2.342, 4.653, 6.068 max_d=6.068 avg_d=2.342 std_dev=2.310
O2' A 0, 0.372, 2.815, 5.257, 6.322 max_d=6.322 avg_d=2.815 std_dev=2.443
OP1 A 0, 0.607, 3.061, 5.515, 13.808 max_d=13.808 avg_d=3.061 std_dev=2.454
O4 A 0, -0.011, 2.562, 5.135, 6.262 max_d=6.262 avg_d=2.562 std_dev=2.573
P A 0, 0.198, 2.861, 5.525, 12.898 max_d=12.898 avg_d=2.861 std_dev=2.663
N4 B 0, -0.082, 2.666, 5.413, 6.656 max_d=6.656 avg_d=2.666 std_dev=2.748
P B 0, 0.190, 3.305, 6.419, 7.929 max_d=7.929 avg_d=3.305 std_dev=3.114
OP2 B 0, 0.243, 3.717, 7.191, 8.716 max_d=8.716 avg_d=3.717 std_dev=3.474
OP1 B 0, 0.443, 3.958, 7.472, 9.411 max_d=9.411 avg_d=3.958 std_dev=3.515
OP2 A 0, 0.377, 3.909, 7.440, 15.164 max_d=15.164 avg_d=3.909 std_dev=3.532

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.03 0.01 0.03 0.02 0.02 0.03 0.13 0.03 0.01 0.02 0.07 0.03 0.30 0.02 0.01 0.32 0.35 0.30 0.22
C2 0.03 0.00 0.28 0.34 0.01 0.39 0.01 0.86 0.01 0.01 0.01 0.00 0.25 0.30 0.01 0.25 0.64 0.65 0.90 0.71
C2' 0.01 0.28 0.00 0.01 0.07 0.03 0.24 0.25 0.29 0.03 0.18 0.53 0.00 0.07 0.07 0.02 0.22 0.32 0.27 0.21
C3' 0.03 0.34 0.01 0.00 0.24 0.01 0.46 0.02 0.50 0.15 0.26 0.68 0.03 0.01 0.25 0.02 0.23 0.40 0.26 0.24
C4 0.02 0.01 0.07 0.24 0.00 0.16 0.01 0.48 0.02 0.02 0.01 0.01 0.23 0.22 0.01 0.08 0.59 0.65 0.67 0.51
C4' 0.02 0.39 0.03 0.01 0.16 0.00 0.24 0.01 0.30 0.08 0.33 0.67 0.24 0.04 0.18 0.01 0.02 0.23 0.33 0.23
C5 0.03 0.01 0.24 0.46 0.01 0.24 0.00 0.35 0.01 0.01 0.01 0.02 0.26 0.35 0.01 0.14 0.92 0.96 0.93 0.80
C5' 0.13 0.86 0.25 0.02 0.48 0.01 0.35 0.00 0.39 0.30 0.80 1.33 0.10 0.22 0.54 0.03 0.01 0.42 0.38 0.02
C6 0.03 0.01 0.29 0.50 0.02 0.30 0.01 0.39 0.00 0.01 0.02 0.02 0.25 0.35 0.02 0.20 0.96 0.95 0.91 0.81
N1 0.01 0.01 0.03 0.15 0.02 0.08 0.01 0.30 0.01 0.00 0.02 0.02 0.14 0.21 0.02 0.03 0.47 0.48 0.44 0.36
N3 0.02 0.01 0.18 0.26 0.01 0.33 0.01 0.80 0.02 0.02 0.00 0.01 0.25 0.24 0.01 0.19 0.61 0.65 0.89 0.66
O2 0.07 0.00 0.53 0.68 0.01 0.67 0.02 1.33 0.02 0.02 0.01 0.00 0.37 0.52 0.02 0.41 1.16 1.11 1.48 1.24
O2' 0.03 0.25 0.00 0.03 0.23 0.24 0.26 0.10 0.25 0.14 0.25 0.37 0.00 0.13 0.25 0.15 0.20 0.36 0.26 0.21
O3' 0.30 0.30 0.07 0.01 0.22 0.04 0.35 0.22 0.35 0.21 0.24 0.52 0.13 0.00 0.23 0.22 0.29 0.55 0.38 0.39
O4 0.02 0.01 0.07 0.25 0.01 0.18 0.01 0.54 0.02 0.02 0.01 0.02 0.25 0.23 0.00 0.10 0.60 0.68 0.74 0.54
O4' 0.01 0.25 0.02 0.02 0.08 0.01 0.14 0.03 0.20 0.03 0.19 0.41 0.15 0.22 0.10 0.00 0.38 0.36 0.36 0.24
O5' 0.32 0.64 0.22 0.23 0.59 0.02 0.92 0.01 0.96 0.47 0.61 1.16 0.20 0.29 0.60 0.38 0.00 0.03 0.02 0.01
OP1 0.35 0.65 0.32 0.40 0.65 0.23 0.96 0.42 0.95 0.48 0.65 1.11 0.36 0.55 0.68 0.36 0.03 0.00 0.01 0.01
OP2 0.30 0.90 0.27 0.26 0.67 0.33 0.93 0.38 0.91 0.44 0.89 1.48 0.26 0.38 0.74 0.36 0.02 0.01 0.00 0.01
P 0.22 0.71 0.21 0.24 0.51 0.23 0.80 0.02 0.81 0.36 0.66 1.24 0.21 0.39 0.54 0.24 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' 1.13 1.64 0.97 0.87 2.49 1.46 2.23 1.51 1.55 1.33 2.15 3.01 1.51 1.22 1.06 1.39 0.56 0.92 1.06 0.34
C2 1.78 3.03 1.59 1.07 3.81 1.11 3.28 1.09 2.58 2.49 3.64 4.27 2.87 1.29 0.84 1.48 0.48 1.04 0.99 0.26
C2' 1.13 1.60 1.12 1.03 2.62 1.44 2.52 1.33 1.77 1.38 2.14 3.14 1.40 1.51 1.37 1.26 0.61 0.80 1.63 0.73
C3' 1.03 1.08 1.07 0.95 2.11 1.36 2.12 1.03 1.37 0.92 1.56 2.65 1.03 1.71 1.35 1.19 0.69 1.17 2.12 1.22
C4 2.53 3.58 2.62 2.00 3.70 1.44 3.20 0.83 2.84 3.05 3.86 3.85 3.63 2.31 1.72 1.91 0.83 0.96 0.86 0.28
C4' 0.96 0.99 0.93 0.93 2.00 1.36 1.93 1.13 1.19 0.81 1.50 2.58 0.94 1.49 1.28 1.24 0.69 1.18 1.89 1.03
C5 2.01 2.79 2.17 1.76 2.96 1.22 2.67 0.71 2.37 2.45 3.01 3.08 2.78 1.85 1.52 1.52 0.79 0.89 0.91 0.31
C5' 1.02 1.12 1.10 1.24 2.18 1.39 2.14 1.21 1.47 1.03 1.65 2.74 0.95 1.51 1.54 1.21 1.20 1.64 2.37 1.55
C6 1.33 2.13 1.36 1.02 2.60 0.82 2.38 0.76 1.95 1.82 2.47 2.82 2.02 1.03 0.77 1.08 0.47 0.88 1.02 0.25
N1 1.30 2.27 1.17 0.79 3.02 1.02 2.69 1.10 2.06 1.88 2.78 3.41 2.10 0.94 0.64 1.21 0.40 0.95 1.04 0.25
N3 2.31 3.62 2.21 1.56 4.07 1.24 3.45 0.91 2.89 3.00 4.12 4.39 3.57 1.88 1.24 1.78 0.64 1.04 0.91 0.25
O2 1.75 3.09 1.49 1.02 4.06 1.26 3.43 1.27 2.63 2.49 3.83 4.71 2.89 1.32 0.98 1.52 0.50 1.07 1.00 0.30
O2' 1.71 1.66 1.89 1.97 2.44 2.33 2.22 2.19 1.58 1.49 2.05 3.05 1.66 2.35 2.44 1.90 1.23 1.23 1.17 0.88
O3' 1.88 1.33 1.94 1.75 1.68 2.12 1.70 1.62 1.19 1.28 1.34 2.18 1.66 2.60 2.06 1.99 1.06 1.23 1.79 1.25
O4 3.02 4.04 3.22 2.48 3.87 1.80 3.29 0.97 3.03 3.43 4.20 3.98 4.24 3.01 2.29 2.25 1.01 0.94 0.79 0.32
O4' 0.90 1.28 0.75 0.73 2.15 1.25 1.96 1.18 1.29 1.01 1.79 2.67 1.16 1.08 0.96 1.22 0.49 0.98 1.45 0.59
O5' 0.96 1.43 1.12 1.29 2.53 1.06 2.52 0.95 1.85 1.32 2.00 3.06 1.14 1.31 1.52 0.95 1.52 2.11 3.06 2.09
OP1 1.43 1.51 1.71 1.78 2.37 1.49 2.40 1.36 1.84 1.46 1.89 2.90 1.45 2.04 2.08 1.35 1.84 2.67 3.31 2.49
OP2 1.69 2.15 2.00 2.21 3.04 1.72 2.94 1.70 2.40 2.02 2.64 3.54 1.90 1.95 2.45 1.50 2.23 2.92 3.45 2.69
P 1.30 1.56 1.58 1.77 2.48 1.42 2.45 1.30 1.88 1.47 2.02 3.00 1.38 1.76 2.08 1.24 1.76 2.50 3.12 2.29

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 0.03 0.02 0.19 0.01 0.20 0.25 0.16 0.18
C2 0.02 0.00 0.12 0.18 0.01 0.15 0.02 0.25 0.01 0.01 0.01 0.02 0.01 0.17 0.19 0.15 0.46 0.55 0.55 0.48
C2' 0.00 0.12 0.00 0.00 0.04 0.02 0.11 0.14 0.13 0.02 0.09 0.05 0.22 0.01 0.04 0.01 0.19 0.23 0.22 0.20
C3' 0.01 0.18 0.00 0.00 0.22 0.01 0.27 0.02 0.27 0.13 0.20 0.24 0.27 0.02 0.01 0.01 0.20 0.28 0.15 0.18
C4 0.02 0.01 0.04 0.22 0.00 0.09 0.01 0.21 0.01 0.01 0.01 0.01 0.02 0.20 0.13 0.05 0.61 0.77 0.75 0.64
C4' 0.01 0.15 0.02 0.01 0.09 0.00 0.18 0.01 0.20 0.06 0.12 0.10 0.29 0.20 0.04 0.01 0.02 0.18 0.16 0.03
C5 0.02 0.02 0.11 0.27 0.01 0.18 0.00 0.32 0.00 0.01 0.01 0.02 0.02 0.23 0.22 0.12 0.72 0.87 0.84 0.77
C5' 0.08 0.25 0.14 0.02 0.21 0.01 0.32 0.00 0.33 0.14 0.24 0.23 0.44 0.07 0.16 0.02 0.01 0.27 0.29 0.02
C6 0.02 0.01 0.13 0.27 0.01 0.20 0.00 0.33 0.00 0.00 0.01 0.02 0.02 0.21 0.21 0.17 0.67 0.75 0.67 0.67
N1 0.01 0.01 0.02 0.13 0.01 0.06 0.01 0.14 0.00 0.00 0.01 0.01 0.02 0.12 0.10 0.02 0.41 0.47 0.39 0.38
N3 0.02 0.01 0.09 0.20 0.01 0.12 0.01 0.24 0.01 0.01 0.00 0.02 0.02 0.19 0.15 0.12 0.54 0.67 0.68 0.57
N4 0.02 0.02 0.05 0.24 0.01 0.10 0.02 0.23 0.02 0.01 0.02 0.00 0.03 0.22 0.15 0.06 0.65 0.85 0.86 0.72
O2 0.03 0.01 0.22 0.27 0.02 0.29 0.02 0.44 0.02 0.02 0.02 0.03 0.00 0.26 0.36 0.26 0.61 0.67 0.72 0.66
O2' 0.02 0.17 0.01 0.02 0.20 0.20 0.23 0.07 0.21 0.12 0.19 0.22 0.26 0.00 0.06 0.14 0.16 0.22 0.21 0.16
O3' 0.19 0.19 0.04 0.01 0.13 0.04 0.22 0.16 0.21 0.10 0.15 0.15 0.36 0.06 0.00 0.14 0.20 0.44 0.20 0.23
O4' 0.01 0.15 0.01 0.01 0.05 0.01 0.12 0.02 0.17 0.02 0.12 0.06 0.26 0.14 0.14 0.00 0.21 0.24 0.18 0.19
O5' 0.20 0.46 0.19 0.20 0.61 0.02 0.72 0.01 0.67 0.41 0.54 0.65 0.61 0.16 0.20 0.21 0.00 0.02 0.02 0.01
OP1 0.25 0.55 0.23 0.28 0.77 0.18 0.87 0.27 0.75 0.47 0.67 0.85 0.67 0.22 0.44 0.24 0.02 0.00 0.01 0.01
OP2 0.16 0.55 0.22 0.15 0.75 0.16 0.84 0.29 0.67 0.39 0.68 0.86 0.72 0.21 0.20 0.18 0.02 0.01 0.00 0.01
P 0.18 0.48 0.20 0.18 0.64 0.03 0.77 0.02 0.67 0.38 0.57 0.72 0.66 0.16 0.23 0.19 0.01 0.01 0.01 0.00