ClaRNA

Doublet Group distance statistics: 13767

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C2 B 0, 0.073, 0.256, 0.439, 0.473 max_d=0.473 avg_d=0.256 std_dev=0.183
O2 B 0, 0.056, 0.427, 0.798, 1.104 max_d=1.104 avg_d=0.427 std_dev=0.371
N9 A 0, 0.083, 0.473, 0.863, 0.984 max_d=0.984 avg_d=0.473 std_dev=0.390
C1' A 0, 0.097, 0.519, 0.941, 1.066 max_d=1.066 avg_d=0.519 std_dev=0.422
C4 A 0, 0.058, 0.494, 0.929, 1.039 max_d=1.039 avg_d=0.494 std_dev=0.436
C8 A 0, 0.070, 0.551, 1.031, 1.254 max_d=1.254 avg_d=0.551 std_dev=0.481
C5 A 0, 0.057, 0.541, 1.025, 1.257 max_d=1.257 avg_d=0.541 std_dev=0.484
N3 B 0, 0.069, 0.572, 1.075, 1.412 max_d=1.412 avg_d=0.572 std_dev=0.503
N1 B 0, 0.048, 0.589, 1.130, 1.250 max_d=1.250 avg_d=0.589 std_dev=0.541
N3 A 0, 0.074, 0.618, 1.162, 1.422 max_d=1.422 avg_d=0.618 std_dev=0.544
N7 A 0, 0.058, 0.609, 1.161, 1.537 max_d=1.537 avg_d=0.609 std_dev=0.552
C6 A 0, 0.064, 0.632, 1.200, 1.483 max_d=1.483 avg_d=0.632 std_dev=0.568
N1 A 0, 0.050, 0.678, 1.307, 1.568 max_d=1.568 avg_d=0.678 std_dev=0.628
C2 A 0, 0.064, 0.706, 1.348, 1.676 max_d=1.676 avg_d=0.706 std_dev=0.642
O4' A 0, 0.065, 0.724, 1.384, 1.728 max_d=1.728 avg_d=0.724 std_dev=0.659
O6 A 0, 0.089, 0.755, 1.421, 1.841 max_d=1.841 avg_d=0.755 std_dev=0.666
C4 B 0, 0.059, 0.855, 1.651, 1.982 max_d=1.982 avg_d=0.855 std_dev=0.796
N2 A 0, 0.087, 0.913, 1.738, 2.270 max_d=2.270 avg_d=0.913 std_dev=0.825
C6 B 0, 0.066, 0.897, 1.727, 1.955 max_d=1.955 avg_d=0.897 std_dev=0.830
C2' B 0, 0.085, 0.959, 1.834, 2.009 max_d=2.009 avg_d=0.959 std_dev=0.875
C2' A 0, -0.003, 0.900, 1.803, 2.466 max_d=2.466 avg_d=0.900 std_dev=0.903
C1' B 0, 0.049, 0.961, 1.873, 2.258 max_d=2.258 avg_d=0.961 std_dev=0.912
C5 B 0, 0.066, 0.980, 1.894, 2.152 max_d=2.152 avg_d=0.980 std_dev=0.914
C4' A 0, -0.060, 0.875, 1.809, 2.365 max_d=2.365 avg_d=0.875 std_dev=0.934
C3' A 0, 0.008, 1.003, 1.997, 2.643 max_d=2.643 avg_d=1.003 std_dev=0.994
O3' A 0, 0.109, 1.159, 2.208, 2.679 max_d=2.679 avg_d=1.159 std_dev=1.049
O2' B 0, 0.143, 1.303, 2.462, 2.793 max_d=2.793 avg_d=1.303 std_dev=1.160
N4 B 0, 0.071, 1.268, 2.465, 3.077 max_d=3.077 avg_d=1.268 std_dev=1.197
O2' A 0, -0.107, 1.130, 2.367, 3.448 max_d=3.448 avg_d=1.130 std_dev=1.237
C5' A 0, -0.088, 1.267, 2.622, 3.760 max_d=3.760 avg_d=1.267 std_dev=1.355
O4' B 0, 0.010, 1.466, 2.921, 3.724 max_d=3.724 avg_d=1.466 std_dev=1.456
C3' B 0, 0.036, 1.530, 3.023, 3.642 max_d=3.642 avg_d=1.530 std_dev=1.493
O3' B 0, 0.015, 1.780, 3.545, 4.292 max_d=4.292 avg_d=1.780 std_dev=1.765
O5' B 0, 0.063, 1.908, 3.753, 4.652 max_d=4.652 avg_d=1.908 std_dev=1.845
C4' B 0, 0.008, 1.899, 3.789, 4.722 max_d=4.722 avg_d=1.899 std_dev=1.891
O5' A 0, -0.316, 1.689, 3.694, 5.858 max_d=5.858 avg_d=1.689 std_dev=2.005
OP2 B 0, 0.033, 2.115, 4.197, 5.507 max_d=5.507 avg_d=2.115 std_dev=2.082
P B 0, 0.133, 2.334, 4.536, 5.650 max_d=5.650 avg_d=2.334 std_dev=2.201
C5' B 0, 0.007, 2.421, 4.836, 6.117 max_d=6.117 avg_d=2.421 std_dev=2.415
OP1 B 0, 0.240, 2.878, 5.515, 6.803 max_d=6.803 avg_d=2.878 std_dev=2.638
P A 0, -0.952, 1.938, 4.828, 8.213 max_d=8.213 avg_d=1.938 std_dev=2.890
OP1 A 0, -0.941, 2.174, 5.289, 8.987 max_d=8.987 avg_d=2.174 std_dev=3.115
OP2 A 0, -1.121, 2.419, 5.960, 10.157 max_d=10.157 avg_d=2.419 std_dev=3.540

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.02 0.01 0.01 0.02 0.01 0.02 0.08 0.02 0.00 0.02 0.02 0.02 0.01 0.01 0.01 0.24 0.01 0.07 0.02 0.04 0.47 0.16
C2 0.02 0.00 0.34 0.24 0.00 0.22 0.00 0.38 0.01 0.01 0.01 0.00 0.00 0.01 0.00 0.34 0.34 0.35 0.58 0.01 0.56 0.74 0.55
C2' 0.01 0.34 0.00 0.00 0.17 0.00 0.09 0.19 0.15 0.21 0.26 0.42 0.34 0.14 0.05 0.01 0.03 0.01 0.22 0.12 0.16 0.41 0.15
C3' 0.01 0.24 0.00 0.00 0.18 0.00 0.22 0.03 0.24 0.25 0.24 0.26 0.21 0.27 0.15 0.01 0.01 0.01 0.40 0.25 0.27 0.41 0.21
C4 0.02 0.00 0.17 0.18 0.00 0.08 0.00 0.22 0.01 0.01 0.01 0.01 0.00 0.00 0.00 0.11 0.19 0.18 0.31 0.01 0.20 0.45 0.20
C4' 0.01 0.22 0.00 0.00 0.08 0.00 0.03 0.01 0.07 0.19 0.16 0.30 0.21 0.14 0.04 0.22 0.05 0.01 0.02 0.04 0.11 0.37 0.16
C5 0.02 0.00 0.09 0.22 0.00 0.03 0.00 0.17 0.01 0.00 0.00 0.01 0.00 0.00 0.00 0.18 0.15 0.09 0.29 0.01 0.22 0.58 0.31
C5' 0.08 0.38 0.19 0.03 0.22 0.01 0.17 0.00 0.23 0.14 0.32 0.45 0.34 0.12 0.10 0.04 0.21 0.01 0.01 0.20 0.13 0.32 0.01
C6 0.02 0.01 0.15 0.24 0.01 0.07 0.01 0.23 0.00 0.01 0.00 0.02 0.01 0.01 0.01 0.14 0.19 0.16 0.37 0.00 0.25 0.47 0.25
C8 0.00 0.01 0.21 0.25 0.01 0.19 0.00 0.14 0.01 0.00 0.01 0.01 0.01 0.00 0.00 0.44 0.18 0.20 0.45 0.01 0.55 1.09 0.72
N1 0.02 0.01 0.26 0.24 0.01 0.16 0.00 0.32 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.20 0.26 0.27 0.50 0.01 0.42 0.52 0.37
N2 0.02 0.00 0.42 0.26 0.01 0.30 0.01 0.45 0.02 0.01 0.01 0.00 0.00 0.01 0.00 0.48 0.43 0.42 0.71 0.02 0.77 1.03 0.79
N3 0.02 0.00 0.34 0.21 0.00 0.21 0.00 0.34 0.01 0.01 0.00 0.00 0.00 0.01 0.00 0.34 0.33 0.35 0.51 0.01 0.47 0.67 0.49
N7 0.01 0.01 0.14 0.27 0.00 0.14 0.00 0.12 0.01 0.00 0.01 0.01 0.01 0.00 0.00 0.39 0.19 0.11 0.40 0.01 0.52 1.06 0.69
N9 0.01 0.00 0.05 0.15 0.00 0.04 0.00 0.10 0.01 0.00 0.01 0.00 0.00 0.00 0.00 0.17 0.12 0.02 0.18 0.01 0.16 0.58 0.26
O2' 0.01 0.34 0.01 0.01 0.11 0.22 0.18 0.04 0.14 0.44 0.20 0.48 0.34 0.39 0.17 0.00 0.02 0.14 0.19 0.20 0.16 0.43 0.15
O3' 0.24 0.34 0.03 0.01 0.19 0.05 0.15 0.21 0.19 0.18 0.26 0.43 0.33 0.19 0.12 0.02 0.00 0.18 0.45 0.19 0.42 0.28 0.23
O4' 0.01 0.35 0.01 0.01 0.18 0.01 0.09 0.01 0.16 0.20 0.27 0.42 0.35 0.11 0.02 0.14 0.18 0.00 0.12 0.12 0.11 0.49 0.21
O5' 0.07 0.58 0.22 0.40 0.31 0.02 0.29 0.01 0.37 0.45 0.50 0.71 0.51 0.40 0.18 0.19 0.45 0.12 0.00 0.35 0.01 0.01 0.00
O6 0.02 0.01 0.12 0.25 0.01 0.04 0.01 0.20 0.00 0.01 0.01 0.02 0.01 0.01 0.01 0.20 0.19 0.12 0.35 0.00 0.28 0.56 0.33
OP1 0.04 0.56 0.16 0.27 0.20 0.11 0.22 0.13 0.25 0.55 0.42 0.77 0.47 0.52 0.16 0.16 0.42 0.11 0.01 0.28 0.00 0.01 0.00
OP2 0.47 0.74 0.41 0.41 0.45 0.37 0.58 0.32 0.47 1.09 0.52 1.03 0.67 1.06 0.58 0.43 0.28 0.49 0.01 0.56 0.01 0.00 0.00
P 0.16 0.55 0.15 0.21 0.20 0.16 0.31 0.01 0.25 0.72 0.37 0.79 0.49 0.69 0.26 0.15 0.23 0.21 0.00 0.33 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 1.03 0.47 0.98 1.26 0.59 1.56 0.63 1.86 0.88 0.76 0.51 0.99 0.43 1.04 1.31 1.38 1.54 1.81 1.18 1.64
C2 1.23 0.75 1.27 1.67 0.86 1.76 1.40 2.09 1.45 1.15 0.57 0.64 0.56 1.14 1.71 1.50 1.53 1.78 1.65 1.68
C2' 1.16 0.69 1.03 1.27 0.87 1.68 0.71 1.99 0.94 0.88 0.80 1.33 0.68 1.12 1.28 1.56 1.76 2.06 1.47 1.92
C3' 1.28 0.45 1.16 1.42 0.56 1.93 0.47 2.23 0.84 0.84 0.41 1.08 0.48 1.36 1.47 1.76 2.02 2.42 1.42 2.19
C4 1.16 0.56 1.15 1.50 0.49 1.72 1.01 2.06 1.22 0.98 0.35 0.44 0.45 1.11 1.54 1.50 1.62 1.93 1.62 1.79
C4' 1.33 0.74 1.22 1.36 0.71 1.76 0.71 1.92 0.96 0.99 0.64 1.03 0.77 1.39 1.37 1.68 1.69 1.89 0.76 1.58
C5 1.19 0.62 1.17 1.53 0.57 1.75 1.07 2.10 1.25 1.02 0.41 0.40 0.49 1.12 1.57 1.53 1.68 2.06 1.75 1.89
C5' 1.42 0.93 1.27 1.31 0.80 1.72 0.80 1.77 1.03 1.11 0.80 1.00 0.99 1.48 1.31 1.72 1.59 1.87 0.66 1.45
C6 1.24 0.73 1.24 1.63 0.77 1.80 1.26 2.16 1.38 1.12 0.55 0.57 0.57 1.15 1.68 1.55 1.68 2.06 1.84 1.90
C8 1.11 0.49 1.05 1.35 0.41 1.66 0.74 1.98 1.02 0.86 0.36 0.59 0.43 1.08 1.39 1.47 1.67 2.09 1.55 1.87
N1 1.25 0.79 1.29 1.69 0.92 1.80 1.40 2.15 1.45 1.17 0.64 0.74 0.61 1.16 1.74 1.54 1.61 1.93 1.79 1.80
N2 1.23 0.84 1.32 1.72 1.08 1.73 1.54 2.04 1.51 1.21 0.72 0.93 0.62 1.15 1.77 1.46 1.41 1.63 1.56 1.55
N3 1.18 0.61 1.20 1.57 0.59 1.72 1.19 2.05 1.33 1.05 0.39 0.43 0.46 1.11 1.60 1.49 1.53 1.76 1.54 1.66
N7 1.16 0.56 1.11 1.44 0.46 1.72 0.90 2.06 1.13 0.95 0.36 0.43 0.46 1.11 1.48 1.51 1.70 2.14 1.70 1.92
N9 1.10 0.48 1.06 1.37 0.42 1.65 0.76 1.97 1.04 0.86 0.36 0.66 0.42 1.08 1.41 1.46 1.62 1.96 1.48 1.79
O2' 1.36 1.31 1.20 1.21 1.50 1.48 1.24 1.60 1.25 1.28 1.46 1.86 1.31 1.24 1.13 1.56 1.48 1.53 1.09 1.46
O3' 1.40 0.47 1.27 1.51 0.51 2.10 0.39 2.40 0.80 0.88 0.32 1.04 0.56 1.52 1.58 1.91 2.17 2.44 1.29 2.32
O4' 1.32 0.86 1.27 1.44 0.79 1.71 0.89 1.89 1.14 1.09 0.76 0.98 0.85 1.35 1.46 1.60 1.56 1.72 0.85 1.48
O5' 1.87 1.42 1.68 1.68 1.11 2.06 1.18 2.07 1.48 1.59 1.21 1.11 1.49 1.88 1.64 2.12 1.82 2.04 0.91 1.66
O6 1.26 0.77 1.26 1.66 0.83 1.82 1.29 2.19 1.39 1.14 0.61 0.65 0.61 1.17 1.72 1.57 1.72 2.13 1.91 1.96
OP1 2.23 1.87 2.02 1.81 1.37 2.15 1.31 1.93 1.63 1.92 1.61 1.26 2.05 2.31 1.76 2.35 1.72 1.78 0.52 1.32
OP2 3.00 2.61 2.76 2.58 1.94 2.89 1.99 2.71 2.43 2.71 2.26 1.54 2.77 2.99 2.51 3.08 2.36 2.42 1.51 2.10
P 2.50 2.05 2.30 2.16 1.48 2.49 1.52 2.32 1.93 2.18 1.74 1.25 2.21 2.55 2.11 2.65 2.06 2.11 0.93 1.70

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.01 0.00 0.00 0.01 0.00 0.01 0.02 0.01 0.01 0.02 0.02 0.02 0.01 0.02 0.00 0.24 0.24 0.30 0.23
C2 0.01 0.00 0.07 0.13 0.00 0.06 0.00 0.09 0.01 0.00 0.00 0.01 0.00 0.07 0.13 0.01 0.48 0.42 0.70 0.48
C2' 0.00 0.07 0.00 0.00 0.02 0.01 0.04 0.01 0.06 0.01 0.06 0.02 0.13 0.00 0.02 0.01 0.31 0.41 0.28 0.30
C3' 0.00 0.13 0.00 0.00 0.09 0.00 0.06 0.02 0.06 0.05 0.13 0.11 0.16 0.02 0.00 0.01 0.39 0.57 0.22 0.35
C4 0.01 0.00 0.02 0.09 0.00 0.09 0.01 0.16 0.01 0.01 0.00 0.01 0.01 0.06 0.09 0.02 0.64 0.56 1.01 0.67
C4' 0.00 0.06 0.01 0.00 0.09 0.00 0.09 0.01 0.08 0.05 0.08 0.10 0.06 0.06 0.01 0.00 0.01 0.23 0.22 0.00
C5 0.01 0.00 0.04 0.06 0.01 0.09 0.00 0.17 0.00 0.01 0.01 0.01 0.01 0.05 0.06 0.04 0.65 0.55 0.98 0.67
C5' 0.02 0.09 0.01 0.02 0.16 0.01 0.17 0.00 0.14 0.08 0.13 0.18 0.07 0.05 0.03 0.00 0.01 0.37 0.36 0.01
C6 0.01 0.01 0.06 0.06 0.01 0.08 0.00 0.14 0.00 0.00 0.00 0.01 0.01 0.04 0.06 0.05 0.58 0.47 0.76 0.54
N1 0.01 0.00 0.01 0.05 0.01 0.05 0.01 0.08 0.00 0.00 0.01 0.01 0.01 0.04 0.04 0.01 0.46 0.39 0.60 0.43
N3 0.02 0.00 0.06 0.13 0.00 0.08 0.01 0.13 0.00 0.01 0.00 0.00 0.01 0.07 0.14 0.01 0.57 0.50 0.88 0.59
N4 0.02 0.01 0.02 0.11 0.01 0.10 0.01 0.18 0.01 0.01 0.00 0.00 0.01 0.07 0.11 0.03 0.68 0.62 1.14 0.74
O2 0.02 0.00 0.13 0.16 0.01 0.06 0.01 0.07 0.01 0.01 0.01 0.01 0.00 0.09 0.19 0.04 0.40 0.37 0.58 0.41
O2' 0.01 0.07 0.00 0.02 0.06 0.06 0.05 0.05 0.04 0.04 0.07 0.07 0.09 0.00 0.06 0.06 0.06 0.21 0.11 0.06
O3' 0.02 0.13 0.02 0.00 0.09 0.01 0.06 0.03 0.06 0.04 0.14 0.11 0.19 0.06 0.00 0.02 0.30 0.60 0.22 0.29
O4' 0.00 0.01 0.01 0.01 0.02 0.00 0.04 0.00 0.05 0.01 0.01 0.03 0.04 0.06 0.02 0.00 0.12 0.14 0.21 0.12
O5' 0.24 0.48 0.31 0.39 0.64 0.01 0.65 0.01 0.58 0.46 0.57 0.68 0.40 0.06 0.30 0.12 0.00 0.04 0.02 0.00
OP1 0.24 0.42 0.41 0.57 0.56 0.23 0.55 0.37 0.47 0.39 0.50 0.62 0.37 0.21 0.60 0.14 0.04 0.00 0.01 0.01
OP2 0.30 0.70 0.28 0.22 1.01 0.22 0.98 0.36 0.76 0.60 0.88 1.14 0.58 0.11 0.22 0.21 0.02 0.01 0.00 0.00
P 0.23 0.48 0.30 0.35 0.67 0.00 0.67 0.01 0.54 0.43 0.59 0.74 0.41 0.06 0.29 0.12 0.00 0.01 0.00 0.00