ClaRNA

Doublet Group distance statistics: 5108

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Distances from reference structure (by RMSD)

1, 1, 0, 1, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 1, 1, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C6 B 0, 0.111, 0.284, 0.457, 0.459 max_d=0.459 avg_d=0.284 std_dev=0.173
N1 B 0, 0.044, 0.252, 0.460, 0.532 max_d=0.532 avg_d=0.252 std_dev=0.208
N3 A 0, 0.030, 0.265, 0.501, 0.634 max_d=0.634 avg_d=0.265 std_dev=0.236
C4 A 0, 0.004, 0.339, 0.674, 0.819 max_d=0.819 avg_d=0.339 std_dev=0.335
C2 B 0, 0.126, 0.556, 0.985, 1.168 max_d=1.168 avg_d=0.556 std_dev=0.430
C5 B 0, 0.182, 0.669, 1.155, 1.323 max_d=1.323 avg_d=0.669 std_dev=0.486
C1' B 0, 0.144, 0.650, 1.157, 1.329 max_d=1.329 avg_d=0.650 std_dev=0.506
O2 B 0, 0.237, 0.850, 1.462, 1.648 max_d=1.648 avg_d=0.850 std_dev=0.613
O4' B 0, 0.156, 0.774, 1.392, 1.679 max_d=1.679 avg_d=0.774 std_dev=0.618
N3 B 0, 0.164, 0.794, 1.425, 1.706 max_d=1.706 avg_d=0.794 std_dev=0.630
C2 A 0, -0.055, 0.596, 1.247, 1.559 max_d=1.559 avg_d=0.596 std_dev=0.651
C4 B 0, 0.180, 0.863, 1.547, 1.836 max_d=1.836 avg_d=0.863 std_dev=0.684
C2' B 0, 0.286, 0.973, 1.659, 1.731 max_d=1.731 avg_d=0.973 std_dev=0.687
C4' A 0, 0.163, 0.862, 1.561, 1.740 max_d=1.740 avg_d=0.862 std_dev=0.699
C5 A 0, -0.093, 0.689, 1.471, 1.824 max_d=1.824 avg_d=0.689 std_dev=0.782
N9 A 0, -0.076, 0.714, 1.505, 1.856 max_d=1.856 avg_d=0.714 std_dev=0.790
N1 A 0, -0.120, 0.821, 1.761, 2.186 max_d=2.186 avg_d=0.821 std_dev=0.941
C3' B 0, 0.142, 1.103, 2.063, 2.934 max_d=2.934 avg_d=1.103 std_dev=0.961
C6 A 0, -0.146, 0.832, 1.810, 2.251 max_d=2.251 avg_d=0.832 std_dev=0.978
C4' B 0, 0.219, 1.201, 2.183, 2.734 max_d=2.734 avg_d=1.201 std_dev=0.982
O4' A 0, -0.014, 0.969, 1.952, 2.357 max_d=2.357 avg_d=0.969 std_dev=0.983
N4 B 0, 0.293, 1.301, 2.308, 2.735 max_d=2.735 avg_d=1.301 std_dev=1.007
O2' B 0, 0.381, 1.417, 2.453, 3.028 max_d=3.028 avg_d=1.417 std_dev=1.036
C1' A 0, -0.119, 0.943, 2.005, 2.477 max_d=2.477 avg_d=0.943 std_dev=1.062
C5' A 0, 0.252, 1.372, 2.491, 2.834 max_d=2.834 avg_d=1.372 std_dev=1.119
C8 A 0, -0.135, 1.086, 2.308, 2.810 max_d=2.810 avg_d=1.086 std_dev=1.221
N7 A 0, -0.151, 1.089, 2.328, 2.870 max_d=2.870 avg_d=1.089 std_dev=1.240
C5' B 0, 0.277, 1.612, 2.947, 3.699 max_d=3.699 avg_d=1.612 std_dev=1.335
C3' A 0, -0.076, 1.299, 2.674, 3.310 max_d=3.310 avg_d=1.299 std_dev=1.375
O5' A 0, 0.321, 1.698, 3.076, 3.521 max_d=3.521 avg_d=1.698 std_dev=1.377
N6 A 0, -0.229, 1.242, 2.712, 3.334 max_d=3.334 avg_d=1.242 std_dev=1.470
O3' B 0, -0.103, 1.383, 2.869, 4.508 max_d=4.508 avg_d=1.383 std_dev=1.486
C2' A 0, -0.192, 1.308, 2.807, 3.501 max_d=3.501 avg_d=1.308 std_dev=1.499
O5' B 0, 0.202, 2.180, 4.158, 4.681 max_d=4.681 avg_d=2.180 std_dev=1.978
O2' A 0, -0.362, 2.003, 4.368, 5.438 max_d=5.438 avg_d=2.003 std_dev=2.365
O3' A 0, -0.324, 2.067, 4.458, 5.515 max_d=5.515 avg_d=2.067 std_dev=2.391
OP1 A 0, 0.411, 2.884, 5.356, 6.069 max_d=6.069 avg_d=2.884 std_dev=2.473
OP1 B 0, 0.683, 3.198, 5.714, 6.292 max_d=6.292 avg_d=3.198 std_dev=2.516
P A 0, 0.153, 2.807, 5.460, 6.334 max_d=6.334 avg_d=2.807 std_dev=2.653
P B 0, 0.258, 2.995, 5.732, 6.504 max_d=6.504 avg_d=2.995 std_dev=2.737
OP2 A 0, 0.158, 3.584, 7.011, 8.158 max_d=8.158 avg_d=3.584 std_dev=3.427
OP2 B 0, -0.217, 3.456, 7.129, 8.630 max_d=8.630 avg_d=3.456 std_dev=3.673

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 0.03 0.01 0.02 0.01 0.01 0.01 0.06 0.02 0.01 0.02 0.03 0.02 0.01 0.00 0.02 0.29 0.01 0.34 0.33 0.28 0.20
C2 0.03 0.00 0.07 0.23 0.01 0.72 0.01 1.41 0.02 0.01 0.01 0.01 0.04 0.01 0.02 0.06 0.10 0.58 1.08 1.46 2.02 1.63
C2' 0.01 0.07 0.00 0.00 0.03 0.02 0.04 0.18 0.03 0.08 0.04 0.08 0.04 0.07 0.02 0.01 0.03 0.01 0.23 0.33 0.82 0.43
C3' 0.02 0.23 0.00 0.00 0.09 0.01 0.31 0.01 0.22 0.58 0.07 0.26 0.34 0.56 0.27 0.02 0.01 0.02 0.33 0.38 0.57 0.41
C4 0.01 0.01 0.03 0.09 0.00 0.27 0.01 0.58 0.01 0.01 0.02 0.01 0.01 0.01 0.01 0.11 0.03 0.31 0.34 0.44 0.81 0.52
C4' 0.01 0.72 0.02 0.01 0.27 0.00 0.05 0.01 0.22 0.50 0.51 0.70 0.10 0.35 0.09 0.32 0.02 0.00 0.02 0.26 0.25 0.03
C5 0.01 0.01 0.04 0.31 0.01 0.05 0.00 0.22 0.00 0.01 0.01 0.01 0.01 0.00 0.01 0.23 0.19 0.15 0.57 0.56 0.66 0.53
C5' 0.06 1.41 0.18 0.01 0.58 0.01 0.22 0.00 0.55 0.71 1.07 1.31 0.34 0.48 0.05 0.13 0.22 0.01 0.01 0.36 0.28 0.01
C6 0.02 0.02 0.03 0.22 0.01 0.22 0.00 0.55 0.00 0.01 0.01 0.02 0.01 0.01 0.01 0.18 0.20 0.28 0.44 0.58 0.88 0.62
C8 0.01 0.01 0.08 0.58 0.01 0.50 0.01 0.71 0.01 0.00 0.01 0.01 0.03 0.01 0.00 0.34 0.21 0.30 1.41 1.38 1.25 1.36
N1 0.02 0.01 0.04 0.07 0.02 0.51 0.01 1.07 0.01 0.01 0.00 0.02 0.03 0.01 0.02 0.06 0.10 0.46 0.73 1.09 1.54 1.20
N3 0.03 0.01 0.08 0.26 0.01 0.70 0.01 1.31 0.02 0.01 0.02 0.00 0.03 0.02 0.02 0.08 0.17 0.58 0.94 1.19 1.77 1.37
N6 0.02 0.04 0.04 0.34 0.01 0.10 0.01 0.34 0.01 0.03 0.03 0.03 0.00 0.04 0.03 0.24 0.30 0.19 0.54 0.61 0.80 0.61
N7 0.01 0.01 0.07 0.56 0.01 0.35 0.00 0.48 0.01 0.01 0.01 0.02 0.04 0.00 0.00 0.35 0.29 0.14 1.24 1.24 1.22 1.23
N9 0.00 0.02 0.02 0.27 0.01 0.09 0.01 0.05 0.01 0.00 0.02 0.02 0.03 0.00 0.00 0.19 0.02 0.01 0.64 0.57 0.44 0.50
O2' 0.02 0.06 0.01 0.02 0.11 0.32 0.23 0.13 0.18 0.34 0.06 0.08 0.24 0.35 0.19 0.00 0.05 0.23 0.12 0.19 0.74 0.22
O3' 0.29 0.10 0.03 0.01 0.03 0.02 0.19 0.22 0.20 0.21 0.10 0.17 0.30 0.29 0.02 0.05 0.00 0.21 0.25 0.34 0.34 0.26
O4' 0.01 0.58 0.01 0.02 0.31 0.00 0.15 0.01 0.28 0.30 0.46 0.58 0.19 0.14 0.01 0.23 0.21 0.00 0.47 0.53 0.17 0.37
O5' 0.34 1.08 0.23 0.33 0.34 0.02 0.57 0.01 0.44 1.41 0.73 0.94 0.54 1.24 0.64 0.12 0.25 0.47 0.00 0.01 0.02 0.01
OP1 0.33 1.46 0.33 0.38 0.44 0.26 0.56 0.36 0.58 1.38 1.09 1.19 0.61 1.24 0.57 0.19 0.34 0.53 0.01 0.00 0.02 0.01
OP2 0.28 2.02 0.82 0.57 0.81 0.25 0.66 0.28 0.88 1.25 1.54 1.77 0.80 1.22 0.44 0.74 0.34 0.17 0.02 0.02 0.00 0.01
P 0.20 1.63 0.43 0.41 0.52 0.03 0.53 0.01 0.62 1.36 1.20 1.37 0.61 1.23 0.50 0.22 0.26 0.37 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' 0.70 1.05 0.86 1.02 1.69 0.95 1.49 1.06 1.16 0.94 1.51 2.05 0.74 1.29 1.52 0.74 1.43 0.81 0.96 1.21
C2 1.02 0.69 1.12 1.18 0.46 1.06 0.37 0.60 0.37 0.66 0.41 0.85 1.07 1.41 1.39 0.92 0.43 0.73 0.43 0.16
C2' 0.61 0.79 0.81 0.97 1.42 0.89 1.27 0.93 0.95 0.74 1.21 1.78 0.51 1.27 1.45 0.67 1.28 0.67 0.83 1.04
C3' 0.50 0.46 0.89 1.12 1.05 0.97 0.86 0.92 0.56 0.39 0.88 1.42 0.23 1.24 1.54 0.58 1.05 0.39 0.64 0.83
C4 0.57 0.13 0.89 0.98 1.01 0.84 0.83 0.61 0.39 0.16 0.66 1.53 0.45 1.32 1.35 0.51 0.84 0.58 0.49 0.64
C4' 0.51 0.73 0.82 1.13 1.39 1.01 1.16 1.04 0.80 0.59 1.22 1.79 0.45 1.18 1.63 0.61 1.24 0.62 0.85 1.09
C5 0.85 0.37 1.13 1.19 0.85 0.99 0.68 0.61 0.20 0.35 0.44 1.47 0.92 1.51 1.47 0.72 0.69 0.56 0.40 0.49
C5' 0.75 0.38 1.15 1.52 1.13 1.37 0.85 1.25 0.46 0.34 0.92 1.63 0.31 1.34 2.01 0.87 1.07 0.69 0.65 0.95
C6 1.34 1.07 1.46 1.50 0.46 1.29 0.35 0.77 0.52 0.95 0.67 0.89 1.58 1.71 1.64 1.15 0.44 0.70 0.47 0.10
C8 0.52 0.82 0.82 1.01 1.81 0.89 1.56 0.94 1.10 0.74 1.50 2.29 0.30 1.27 1.47 0.61 1.27 0.80 0.82 1.10
N1 1.36 1.13 1.41 1.47 0.56 1.31 0.50 0.80 0.70 1.04 0.79 0.74 1.54 1.62 1.58 1.22 0.39 0.84 0.56 0.13
N3 0.65 0.19 0.89 0.97 0.73 0.85 0.57 0.52 0.17 0.22 0.41 1.21 0.57 1.29 1.30 0.58 0.70 0.60 0.42 0.47
N6 1.78 1.67 1.85 1.88 0.72 1.61 0.60 1.05 0.96 1.47 1.26 0.71 2.18 2.00 1.94 1.54 0.55 0.83 0.66 0.25
N7 0.63 0.23 1.04 1.15 1.42 0.92 1.19 0.73 0.65 0.26 0.95 2.07 0.55 1.49 1.50 0.56 0.94 0.63 0.57 0.79
N9 0.48 0.68 0.79 0.95 1.52 0.84 1.31 0.85 0.90 0.61 1.25 1.97 0.28 1.25 1.41 0.53 1.19 0.70 0.75 0.99
O2' 1.11 1.37 1.04 1.16 1.93 1.19 1.83 1.33 1.55 1.34 1.73 2.23 1.09 1.45 1.65 1.18 1.71 1.09 1.19 1.44
O3' 0.80 0.98 0.86 1.05 1.38 0.99 1.24 1.08 1.03 0.91 1.27 1.64 0.81 1.30 1.50 0.86 1.45 0.71 1.09 1.24
O4' 0.58 0.98 0.81 1.08 1.68 0.97 1.43 1.08 1.05 0.82 1.50 2.07 0.67 1.20 1.60 0.64 1.38 0.77 0.98 1.23
O5' 1.63 0.80 2.03 2.37 0.62 2.22 0.64 2.02 0.89 1.07 0.53 0.97 1.04 2.15 2.78 1.75 1.53 1.38 1.11 1.32
OP1 2.12 1.13 2.62 3.06 0.69 2.85 0.90 2.71 1.30 1.50 0.66 0.88 1.38 2.62 3.47 2.29 2.10 1.99 1.69 1.86
OP2 2.57 1.53 3.14 3.50 0.82 3.21 1.11 2.95 1.60 1.89 0.88 0.88 1.87 3.20 3.85 2.67 2.31 2.07 1.97 2.01
P 2.20 1.17 2.68 3.09 0.65 2.88 0.87 2.68 1.30 1.53 0.63 0.87 1.47 2.73 3.51 2.35 2.06 1.92 1.67 1.81

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.01 0.01 0.03 0.04 0.02 0.05 0.13 0.05 0.02 0.02 0.05 0.04 0.02 0.31 0.01 0.37 0.84 0.38 0.18
C2 0.01 0.00 0.04 0.18 0.02 0.06 0.03 0.25 0.02 0.01 0.01 0.03 0.01 0.35 0.17 0.03 0.63 1.04 0.46 0.53
C2' 0.01 0.04 0.00 0.01 0.08 0.03 0.12 0.26 0.12 0.05 0.04 0.09 0.11 0.01 0.03 0.02 0.74 0.61 0.76 0.66
C3' 0.03 0.18 0.01 0.00 0.38 0.01 0.45 0.02 0.40 0.24 0.28 0.41 0.07 0.03 0.01 0.02 0.41 0.41 0.62 0.31
C4 0.04 0.02 0.08 0.38 0.00 0.19 0.01 0.42 0.02 0.03 0.01 0.01 0.03 0.32 0.27 0.09 0.65 1.36 0.53 0.72
C4' 0.02 0.06 0.03 0.01 0.19 0.00 0.25 0.00 0.22 0.10 0.11 0.22 0.05 0.27 0.03 0.01 0.01 0.56 0.29 0.19
C5 0.05 0.03 0.12 0.45 0.01 0.25 0.00 0.47 0.01 0.02 0.01 0.03 0.04 0.21 0.36 0.10 0.54 1.38 0.49 0.64
C5' 0.13 0.25 0.26 0.02 0.42 0.00 0.47 0.00 0.40 0.25 0.32 0.48 0.20 0.13 0.22 0.02 0.01 0.23 0.32 0.02
C6 0.05 0.02 0.12 0.40 0.02 0.22 0.01 0.40 0.00 0.01 0.01 0.04 0.03 0.14 0.30 0.09 0.48 1.19 0.44 0.48
N1 0.02 0.01 0.05 0.24 0.03 0.10 0.02 0.25 0.01 0.00 0.02 0.04 0.03 0.17 0.17 0.03 0.52 1.01 0.39 0.40
N3 0.02 0.01 0.04 0.28 0.01 0.11 0.01 0.32 0.01 0.02 0.00 0.02 0.03 0.38 0.16 0.05 0.68 1.21 0.52 0.67
N4 0.05 0.03 0.09 0.41 0.01 0.22 0.03 0.48 0.04 0.04 0.02 0.00 0.04 0.35 0.32 0.11 0.68 1.49 0.59 0.82
O2 0.04 0.01 0.11 0.07 0.03 0.05 0.04 0.20 0.03 0.03 0.03 0.04 0.00 0.46 0.32 0.05 0.63 0.92 0.46 0.49
O2' 0.02 0.35 0.01 0.03 0.32 0.27 0.21 0.13 0.14 0.17 0.38 0.35 0.46 0.00 0.07 0.20 0.51 0.66 0.66 0.50
O3' 0.31 0.17 0.03 0.01 0.27 0.03 0.36 0.22 0.30 0.17 0.16 0.32 0.32 0.07 0.00 0.26 0.18 0.47 0.39 0.03
O4' 0.01 0.03 0.02 0.02 0.09 0.01 0.10 0.02 0.09 0.03 0.05 0.11 0.05 0.20 0.26 0.00 0.23 0.96 0.63 0.45
O5' 0.37 0.63 0.74 0.41 0.65 0.01 0.54 0.01 0.48 0.52 0.68 0.68 0.63 0.51 0.18 0.23 0.00 0.03 0.03 0.01
OP1 0.84 1.04 0.61 0.41 1.36 0.56 1.38 0.23 1.19 1.01 1.21 1.49 0.92 0.66 0.47 0.96 0.03 0.00 0.04 0.02
OP2 0.38 0.46 0.76 0.62 0.53 0.29 0.49 0.32 0.44 0.39 0.52 0.59 0.46 0.66 0.39 0.63 0.03 0.04 0.00 0.03
P 0.18 0.53 0.66 0.31 0.72 0.19 0.64 0.02 0.48 0.40 0.67 0.82 0.49 0.50 0.03 0.45 0.01 0.02 0.03 0.00