ClaRNA

Doublet Group distance statistics: 20466

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Distances from reference structure (by RMSD)

1, 21, 75, 8, 1, 1, 3, 6, 0, 0, 0, 0, 1, 1, 0, 2, 0, 2, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4 B 0, 0.033, 0.151, 0.270, 0.843 max_d=0.843 avg_d=0.151 std_dev=0.119
N1 A 0, 0.028, 0.167, 0.306, 0.964 max_d=0.964 avg_d=0.167 std_dev=0.139
C6 A 0, 0.048, 0.237, 0.426, 1.121 max_d=1.121 avg_d=0.237 std_dev=0.189
C2 A 0, 0.014, 0.292, 0.571, 1.666 max_d=1.666 avg_d=0.292 std_dev=0.278
C5 A 0, 0.031, 0.316, 0.601, 1.550 max_d=1.550 avg_d=0.316 std_dev=0.285
N9 B 0, -0.089, 0.216, 0.520, 1.875 max_d=1.875 avg_d=0.216 std_dev=0.305
N3 A 0, 0.005, 0.330, 0.655, 1.953 max_d=1.953 avg_d=0.330 std_dev=0.325
C1' A 0, -0.042, 0.291, 0.623, 2.139 max_d=2.139 avg_d=0.291 std_dev=0.332
C4 A 0, -0.018, 0.315, 0.647, 2.064 max_d=2.064 avg_d=0.315 std_dev=0.333
N1 B 0, 0.048, 0.385, 0.722, 2.679 max_d=2.679 avg_d=0.385 std_dev=0.337
N3 B 0, -0.122, 0.241, 0.604, 2.324 max_d=2.324 avg_d=0.241 std_dev=0.363
C1' B 0, 0.010, 0.373, 0.736, 2.693 max_d=2.693 avg_d=0.373 std_dev=0.363
C5 B 0, -0.103, 0.306, 0.716, 3.013 max_d=3.013 avg_d=0.306 std_dev=0.410
C6 B 0, 0.008, 0.421, 0.833, 2.689 max_d=2.689 avg_d=0.421 std_dev=0.412
C2 B 0, -0.137, 0.331, 0.798, 3.214 max_d=3.214 avg_d=0.331 std_dev=0.468
O2 A 0, -0.013, 0.462, 0.937, 2.706 max_d=2.706 avg_d=0.462 std_dev=0.475
O4 A 0, -0.059, 0.453, 0.965, 3.151 max_d=3.151 avg_d=0.453 std_dev=0.512
C2' A 0, 0.084, 0.622, 1.159, 2.763 max_d=2.763 avg_d=0.622 std_dev=0.537
O4' A 0, -0.025, 0.531, 1.088, 3.480 max_d=3.480 avg_d=0.531 std_dev=0.556
O2' A 0, 0.159, 0.818, 1.476, 2.960 max_d=2.960 avg_d=0.818 std_dev=0.659
O6 B 0, -0.073, 0.600, 1.272, 4.414 max_d=4.414 avg_d=0.600 std_dev=0.673
C8 B 0, -0.371, 0.322, 1.015, 4.489 max_d=4.489 avg_d=0.322 std_dev=0.693
N7 B 0, -0.353, 0.418, 1.189, 5.287 max_d=5.287 avg_d=0.418 std_dev=0.771
C4' A 0, 0.002, 0.823, 1.644, 4.501 max_d=4.501 avg_d=0.823 std_dev=0.821
N2 B 0, -0.385, 0.478, 1.342, 5.347 max_d=5.347 avg_d=0.478 std_dev=0.863
C3' A 0, -0.021, 0.848, 1.717, 4.418 max_d=4.418 avg_d=0.848 std_dev=0.869
C2' B 0, 0.202, 1.188, 2.175, 3.493 max_d=3.493 avg_d=1.188 std_dev=0.986
O4' B 0, 0.183, 1.334, 2.485, 2.762 max_d=2.762 avg_d=1.334 std_dev=1.151
C5' A 0, -0.014, 1.149, 2.312, 6.920 max_d=6.920 avg_d=1.149 std_dev=1.163
C4' B 0, 0.209, 1.456, 2.704, 3.149 max_d=3.149 avg_d=1.456 std_dev=1.248
O3' A 0, -0.027, 1.223, 2.472, 6.416 max_d=6.416 avg_d=1.223 std_dev=1.249
C3' B 0, 0.201, 1.458, 2.716, 4.154 max_d=4.154 avg_d=1.458 std_dev=1.257
O5' A 0, -0.059, 1.212, 2.483, 7.924 max_d=7.924 avg_d=1.212 std_dev=1.271
O3' B 0, 0.162, 1.660, 3.157, 6.630 max_d=6.630 avg_d=1.660 std_dev=1.497
P A 0, -0.116, 1.434, 2.984, 10.356 max_d=10.356 avg_d=1.434 std_dev=1.550
O2' B 0, 0.299, 1.868, 3.436, 5.309 max_d=5.309 avg_d=1.868 std_dev=1.568
OP2 A 0, 0.021, 1.605, 3.189, 10.820 max_d=10.820 avg_d=1.605 std_dev=1.584
OP1 A 0, -0.193, 1.591, 3.376, 12.184 max_d=12.184 avg_d=1.591 std_dev=1.785
C5' B 0, 0.212, 2.791, 5.369, 5.831 max_d=5.831 avg_d=2.791 std_dev=2.578
O5' B 0, 0.090, 3.493, 6.896, 7.442 max_d=7.442 avg_d=3.493 std_dev=3.403
P B 0, 0.154, 5.021, 9.888, 10.590 max_d=10.590 avg_d=5.021 std_dev=4.867
OP2 B 0, 0.220, 5.618, 11.015, 11.970 max_d=11.970 avg_d=5.618 std_dev=5.397
OP1 B 0, 0.240, 5.686, 11.133, 11.999 max_d=11.999 avg_d=5.686 std_dev=5.446

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 0.01 0.02 0.01 0.01 0.05 0.01 0.01 0.02 0.06 0.02 0.10 0.03 0.01 0.16 0.27 0.29 0.18
C2 0.03 0.00 0.17 0.18 0.01 0.14 0.01 0.24 0.01 0.01 0.00 0.01 0.20 0.18 0.02 0.13 0.30 0.43 0.49 0.38
C2' 0.01 0.17 0.00 0.01 0.06 0.01 0.10 0.08 0.14 0.02 0.14 0.30 0.00 0.02 0.07 0.01 0.18 0.38 0.33 0.28
C3' 0.01 0.18 0.01 0.00 0.17 0.00 0.25 0.01 0.26 0.10 0.17 0.28 0.02 0.01 0.19 0.02 0.10 0.24 0.18 0.12
C4 0.02 0.01 0.06 0.17 0.00 0.10 0.01 0.22 0.01 0.01 0.01 0.02 0.13 0.14 0.01 0.04 0.33 0.44 0.55 0.34
C4' 0.01 0.14 0.01 0.00 0.10 0.00 0.18 0.01 0.20 0.06 0.11 0.26 0.12 0.02 0.11 0.01 0.01 0.13 0.13 0.05
C5 0.01 0.01 0.10 0.25 0.01 0.18 0.00 0.31 0.00 0.01 0.01 0.02 0.17 0.25 0.01 0.10 0.45 0.53 0.66 0.44
C5' 0.05 0.24 0.08 0.01 0.22 0.01 0.31 0.00 0.30 0.13 0.23 0.41 0.06 0.08 0.24 0.02 0.01 0.16 0.12 0.02
C6 0.01 0.01 0.14 0.26 0.01 0.20 0.00 0.30 0.00 0.01 0.01 0.02 0.18 0.25 0.01 0.14 0.44 0.49 0.57 0.41
N1 0.01 0.01 0.02 0.10 0.01 0.06 0.01 0.13 0.01 0.00 0.01 0.02 0.08 0.05 0.02 0.02 0.24 0.33 0.39 0.24
N3 0.02 0.00 0.14 0.17 0.01 0.11 0.01 0.23 0.01 0.01 0.00 0.01 0.18 0.15 0.01 0.09 0.30 0.45 0.53 0.38
O2 0.06 0.01 0.30 0.28 0.02 0.26 0.02 0.41 0.02 0.02 0.01 0.00 0.35 0.35 0.02 0.22 0.48 0.62 0.64 0.61
O2' 0.02 0.20 0.00 0.02 0.13 0.12 0.17 0.06 0.18 0.08 0.18 0.35 0.00 0.05 0.14 0.09 0.13 0.37 0.35 0.26
O3' 0.10 0.18 0.02 0.01 0.14 0.02 0.25 0.08 0.25 0.05 0.15 0.35 0.05 0.00 0.16 0.08 0.18 0.27 0.26 0.18
O4 0.03 0.02 0.07 0.19 0.01 0.11 0.01 0.24 0.01 0.02 0.01 0.02 0.14 0.16 0.00 0.04 0.34 0.47 0.59 0.36
O4' 0.01 0.13 0.01 0.02 0.04 0.01 0.10 0.02 0.14 0.02 0.09 0.22 0.09 0.08 0.04 0.00 0.14 0.19 0.22 0.12
O5' 0.16 0.30 0.18 0.10 0.33 0.01 0.45 0.01 0.44 0.24 0.30 0.48 0.13 0.18 0.34 0.14 0.00 0.01 0.02 0.01
OP1 0.27 0.43 0.38 0.24 0.44 0.13 0.53 0.16 0.49 0.33 0.45 0.62 0.37 0.27 0.47 0.19 0.01 0.00 0.02 0.01
OP2 0.29 0.49 0.33 0.18 0.55 0.13 0.66 0.12 0.57 0.39 0.53 0.64 0.35 0.26 0.59 0.22 0.02 0.02 0.00 0.01
P 0.18 0.38 0.28 0.12 0.34 0.05 0.44 0.02 0.41 0.24 0.38 0.61 0.26 0.18 0.36 0.12 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' 0.54 0.55 0.55 0.64 0.49 0.55 0.49 0.48 0.47 0.55 0.44 0.72 0.56 0.59 0.51 0.77 0.64 0.57 0.62 0.58 0.72 1.86 0.89
C2 0.43 0.51 0.45 0.53 0.40 0.44 0.43 0.44 0.44 0.47 0.39 0.69 0.49 0.53 0.40 0.71 0.53 0.46 0.74 0.63 0.70 1.94 1.01
C2' 0.69 0.65 0.62 0.80 0.62 0.68 0.62 0.59 0.58 0.71 0.53 0.80 0.67 0.74 0.65 0.66 0.69 0.69 0.59 0.69 0.71 1.70 0.82
C3' 0.70 0.70 0.64 0.73 0.62 0.63 0.55 0.50 0.49 0.64 0.54 0.86 0.71 0.62 0.64 0.74 0.68 0.64 0.76 0.49 0.85 2.10 1.11
C4 0.47 0.31 0.62 0.50 0.34 0.45 0.36 0.73 0.43 0.37 0.32 0.40 0.37 0.41 0.38 0.85 0.61 0.39 1.41 0.64 1.46 2.92 1.90
C4' 0.66 0.68 0.68 0.70 0.59 0.61 0.51 0.51 0.44 0.59 0.53 0.84 0.69 0.56 0.61 0.90 0.73 0.63 0.80 0.41 0.88 2.19 1.14
C5 0.47 0.31 0.64 0.53 0.29 0.45 0.26 0.73 0.33 0.27 0.27 0.41 0.38 0.29 0.33 0.88 0.66 0.36 1.42 0.53 1.52 3.04 1.96
C5' 0.68 0.75 0.79 0.73 0.63 0.63 0.54 0.63 0.49 0.57 0.61 0.88 0.74 0.53 0.63 1.05 0.82 0.62 1.11 0.40 1.17 2.65 1.53
C6 0.40 0.31 0.53 0.47 0.22 0.34 0.15 0.49 0.21 0.19 0.14 0.48 0.37 0.23 0.25 0.80 0.59 0.31 1.12 0.44 1.15 2.66 1.58
N1 0.42 0.44 0.47 0.51 0.34 0.39 0.32 0.38 0.33 0.37 0.29 0.62 0.45 0.42 0.35 0.74 0.56 0.41 0.80 0.51 0.78 2.16 1.14
N3 0.37 0.35 0.45 0.43 0.31 0.35 0.38 0.47 0.42 0.40 0.27 0.53 0.37 0.48 0.33 0.71 0.48 0.36 1.01 0.67 0.95 2.32 1.36
O2 0.57 0.70 0.57 0.71 0.60 0.65 0.64 0.66 0.65 0.68 0.63 0.87 0.66 0.75 0.59 0.76 0.63 0.65 0.62 0.78 0.77 1.49 0.76
O2' 0.83 0.73 0.76 0.99 0.76 0.90 0.81 0.87 0.76 0.92 0.66 0.86 0.76 0.96 0.82 0.70 0.83 0.88 0.62 0.87 0.95 1.31 0.73
O3' 0.89 0.81 0.79 0.93 0.79 0.81 0.74 0.66 0.66 0.86 0.67 0.95 0.85 0.83 0.84 0.79 0.83 0.83 0.76 0.66 0.94 1.99 1.07
O4 0.62 0.47 0.79 0.65 0.52 0.64 0.56 1.00 0.64 0.56 0.57 0.46 0.50 0.58 0.55 0.97 0.74 0.56 1.74 0.79 1.87 3.30 2.30
O4' 0.57 0.60 0.67 0.65 0.51 0.54 0.45 0.48 0.40 0.51 0.46 0.76 0.61 0.51 0.52 0.95 0.74 0.57 0.77 0.42 0.82 2.14 1.08
O5' 0.67 0.75 0.87 0.78 0.65 0.70 0.57 0.89 0.55 0.59 0.65 0.85 0.73 0.56 0.63 1.13 0.87 0.62 1.53 0.48 1.65 3.15 2.03
OP1 0.89 0.94 1.08 1.03 0.91 0.96 0.89 1.20 0.90 0.89 0.93 0.97 0.93 0.89 0.89 1.26 1.10 0.86 1.84 0.88 2.04 3.59 2.42
OP2 1.00 1.04 1.24 1.19 1.01 1.19 0.99 1.58 0.98 0.98 1.02 1.03 1.03 0.97 1.00 1.41 1.23 1.05 2.31 0.93 2.64 4.12 2.98
P 0.83 0.89 1.05 0.99 0.84 0.92 0.81 1.19 0.81 0.80 0.86 0.93 0.88 0.79 0.82 1.26 1.06 0.80 1.87 0.77 2.07 3.61 2.45

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.07 0.01 0.01 0.03 0.01 0.01 0.07 0.02 0.03 0.05 0.09 0.07 0.02 0.01 0.02 0.38 0.01 0.34 0.02 0.30 0.50 0.34
C2 0.07 0.00 0.38 0.33 0.01 0.61 0.01 1.23 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.46 0.28 0.51 2.08 0.02 2.23 3.36 2.59
C2' 0.01 0.38 0.00 0.01 0.19 0.01 0.10 0.22 0.17 0.19 0.29 0.47 0.37 0.12 0.02 0.00 0.05 0.03 0.78 0.15 0.87 0.86 0.80
C3' 0.01 0.33 0.01 0.00 0.13 0.01 0.26 0.01 0.20 0.53 0.20 0.50 0.33 0.48 0.23 0.02 0.01 0.03 0.43 0.27 0.72 0.19 0.37
C4 0.03 0.01 0.19 0.13 0.00 0.23 0.01 0.48 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.35 0.19 0.26 1.09 0.02 0.96 1.73 1.23
C4' 0.01 0.61 0.01 0.01 0.23 0.00 0.07 0.00 0.15 0.47 0.41 0.81 0.60 0.35 0.10 0.34 0.02 0.01 0.01 0.09 0.26 0.27 0.04
C5 0.01 0.01 0.10 0.26 0.01 0.07 0.00 0.14 0.01 0.02 0.01 0.01 0.01 0.01 0.01 0.45 0.12 0.08 0.70 0.02 0.58 1.42 0.83
C5' 0.07 1.23 0.22 0.01 0.48 0.00 0.14 0.00 0.37 0.74 0.87 1.64 1.15 0.56 0.09 0.12 0.27 0.01 0.01 0.21 0.40 0.42 0.02
C6 0.02 0.01 0.17 0.20 0.01 0.15 0.01 0.37 0.00 0.03 0.01 0.01 0.02 0.03 0.02 0.49 0.15 0.17 1.04 0.01 0.97 2.02 1.29
C8 0.03 0.01 0.19 0.53 0.01 0.47 0.02 0.74 0.03 0.00 0.02 0.01 0.01 0.00 0.00 0.44 0.11 0.33 0.55 0.05 0.84 0.61 0.67
N1 0.05 0.01 0.29 0.20 0.01 0.41 0.01 0.87 0.01 0.02 0.00 0.01 0.01 0.02 0.01 0.47 0.21 0.36 1.66 0.02 1.74 2.90 2.10
N2 0.09 0.01 0.47 0.50 0.01 0.81 0.01 1.64 0.01 0.01 0.01 0.00 0.02 0.01 0.02 0.53 0.35 0.62 2.58 0.02 3.02 4.27 3.36
N3 0.07 0.01 0.37 0.33 0.00 0.60 0.01 1.15 0.02 0.01 0.01 0.02 0.00 0.01 0.01 0.41 0.30 0.52 1.93 0.02 1.92 2.81 2.25
N7 0.02 0.01 0.12 0.48 0.01 0.35 0.01 0.56 0.03 0.00 0.02 0.01 0.01 0.00 0.01 0.50 0.12 0.21 0.41 0.05 0.69 0.72 0.51
N9 0.01 0.01 0.02 0.23 0.01 0.10 0.01 0.09 0.02 0.00 0.01 0.02 0.01 0.01 0.00 0.27 0.17 0.02 0.41 0.03 0.34 0.77 0.43
O2' 0.02 0.46 0.00 0.02 0.35 0.34 0.45 0.12 0.49 0.44 0.47 0.53 0.41 0.50 0.27 0.00 0.07 0.22 0.42 0.54 0.54 0.66 0.50
O3' 0.38 0.28 0.05 0.01 0.19 0.02 0.12 0.27 0.15 0.11 0.21 0.35 0.30 0.12 0.17 0.07 0.00 0.22 0.15 0.16 0.49 0.48 0.16
O4' 0.01 0.51 0.03 0.03 0.26 0.01 0.08 0.01 0.17 0.33 0.36 0.62 0.52 0.21 0.02 0.22 0.22 0.00 0.09 0.10 0.20 0.23 0.12
O5' 0.34 2.08 0.78 0.43 1.09 0.01 0.70 0.01 1.04 0.55 1.66 2.58 1.93 0.41 0.41 0.42 0.15 0.09 0.00 0.85 0.02 0.02 0.00
O6 0.02 0.02 0.15 0.27 0.02 0.09 0.02 0.21 0.01 0.05 0.02 0.02 0.02 0.05 0.03 0.54 0.16 0.10 0.85 0.00 0.76 1.84 1.07
OP1 0.30 2.23 0.87 0.72 0.96 0.26 0.58 0.40 0.97 0.84 1.74 3.02 1.92 0.69 0.34 0.54 0.49 0.20 0.02 0.76 0.00 0.01 0.01
OP2 0.50 3.36 0.86 0.19 1.73 0.27 1.42 0.42 2.02 0.61 2.90 4.27 2.81 0.72 0.77 0.66 0.48 0.23 0.02 1.84 0.01 0.00 0.01
P 0.34 2.59 0.80 0.37 1.23 0.04 0.83 0.02 1.29 0.67 2.10 3.36 2.25 0.51 0.43 0.50 0.16 0.12 0.00 1.07 0.01 0.01 0.00