ClaRNA

Doublet Group distance statistics: 17320

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Distances from reference structure (by RMSD)

3, 48, 82, 86, 94, 76, 45, 10, 6, 8, 7, 7, 0, 4, 6, 4, 0, 0, 2, 12,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4 B 0, 0.098, 0.251, 0.404, 0.919 max_d=0.919 avg_d=0.251 std_dev=0.153
C4 A 0, 0.099, 0.256, 0.413, 0.919 max_d=0.919 avg_d=0.256 std_dev=0.157
N3 A 0, 0.118, 0.427, 0.735, 2.203 max_d=2.203 avg_d=0.427 std_dev=0.308
C5 B 0, 0.098, 0.411, 0.724, 2.622 max_d=2.622 avg_d=0.411 std_dev=0.313
N3 B 0, 0.082, 0.411, 0.740, 2.406 max_d=2.406 avg_d=0.411 std_dev=0.329
C5 A 0, 0.025, 0.377, 0.729, 2.908 max_d=2.908 avg_d=0.377 std_dev=0.352
N9 B 0, 0.024, 0.405, 0.786, 3.037 max_d=3.037 avg_d=0.405 std_dev=0.381
N9 A 0, 0.005, 0.434, 0.863, 3.093 max_d=3.093 avg_d=0.434 std_dev=0.429
C6 B 0, 0.088, 0.546, 1.004, 4.078 max_d=4.078 avg_d=0.546 std_dev=0.458
C2 B 0, 0.101, 0.572, 1.043, 3.811 max_d=3.811 avg_d=0.572 std_dev=0.471
C6 A 0, 0.023, 0.520, 1.016, 4.346 max_d=4.346 avg_d=0.520 std_dev=0.497
C2 A 0, 0.084, 0.583, 1.082, 3.870 max_d=3.870 avg_d=0.583 std_dev=0.499
N1 B 0, 0.105, 0.618, 1.132, 4.493 max_d=4.493 avg_d=0.618 std_dev=0.513
N1 A 0, 0.044, 0.614, 1.185, 4.750 max_d=4.750 avg_d=0.614 std_dev=0.570
C1' B 0, -0.030, 0.548, 1.125, 4.963 max_d=4.963 avg_d=0.548 std_dev=0.578
N7 B 0, 0.051, 0.637, 1.223, 4.761 max_d=4.761 avg_d=0.637 std_dev=0.586
C8 B 0, 0.030, 0.623, 1.216, 4.747 max_d=4.747 avg_d=0.623 std_dev=0.593
C1' A 0, 0.001, 0.618, 1.236, 4.851 max_d=4.851 avg_d=0.618 std_dev=0.617
N7 A 0, -0.049, 0.601, 1.251, 5.004 max_d=5.004 avg_d=0.601 std_dev=0.650
C8 A 0, -0.047, 0.623, 1.293, 4.961 max_d=4.961 avg_d=0.623 std_dev=0.670
C2' A 0, 0.086, 0.766, 1.446, 5.305 max_d=5.305 avg_d=0.766 std_dev=0.680
N6 B 0, 0.055, 0.794, 1.532, 6.488 max_d=6.488 avg_d=0.794 std_dev=0.738
N6 A 0, -0.016, 0.761, 1.538, 6.724 max_d=6.724 avg_d=0.761 std_dev=0.777
O4' B 0, -0.029, 0.783, 1.596, 6.285 max_d=6.285 avg_d=0.783 std_dev=0.812
O4' A 0, -0.124, 0.744, 1.612, 7.231 max_d=7.231 avg_d=0.744 std_dev=0.868
C3' A 0, 0.019, 0.897, 1.775, 7.490 max_d=7.490 avg_d=0.897 std_dev=0.878
C2' B 0, -0.238, 0.646, 1.530, 7.151 max_d=7.151 avg_d=0.646 std_dev=0.884
O2' A 0, 0.119, 1.020, 1.922, 7.657 max_d=7.657 avg_d=1.020 std_dev=0.901
C4' A 0, -0.111, 0.882, 1.874, 8.233 max_d=8.233 avg_d=0.882 std_dev=0.992
O2' B 0, -0.195, 0.951, 2.097, 8.268 max_d=8.268 avg_d=0.951 std_dev=1.146
C4' B 0, -0.261, 0.886, 2.033, 9.085 max_d=9.085 avg_d=0.886 std_dev=1.147
C3' B 0, -0.412, 0.752, 1.916, 9.448 max_d=9.448 avg_d=0.752 std_dev=1.164
O3' A 0, 0.042, 1.210, 2.377, 9.282 max_d=9.282 avg_d=1.210 std_dev=1.167
C5' A 0, -0.239, 0.983, 2.206, 9.794 max_d=9.794 avg_d=0.983 std_dev=1.222
O5' A 0, -0.241, 1.008, 2.258, 9.587 max_d=9.587 avg_d=1.008 std_dev=1.250
O3' B 0, -0.535, 0.926, 2.386, 11.101 max_d=11.101 avg_d=0.926 std_dev=1.461
C5' B 0, -0.190, 1.296, 2.781, 10.907 max_d=10.907 avg_d=1.296 std_dev=1.486
O5' B 0, 0.101, 1.720, 3.338, 10.897 max_d=10.897 avg_d=1.720 std_dev=1.619
P A 0, -0.509, 1.113, 2.734, 12.053 max_d=12.053 avg_d=1.113 std_dev=1.622
OP2 A 0, -0.491, 1.302, 3.095, 12.613 max_d=12.613 avg_d=1.302 std_dev=1.793
OP1 A 0, -0.521, 1.350, 3.221, 13.924 max_d=13.924 avg_d=1.350 std_dev=1.871
P B 0, 0.167, 2.247, 4.327, 13.172 max_d=13.172 avg_d=2.247 std_dev=2.080
OP1 B 0, 0.316, 2.569, 4.822, 15.438 max_d=15.438 avg_d=2.569 std_dev=2.253
OP2 B 0, 0.550, 2.867, 5.184, 13.748 max_d=13.748 avg_d=2.867 std_dev=2.317

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 0.00 0.02 0.02 0.01 0.01 0.06 0.02 0.02 0.03 0.04 0.02 0.01 0.01 0.02 0.21 0.01 0.21 0.21 0.31 0.19
C2 0.03 0.00 0.27 0.26 0.01 0.16 0.01 0.31 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.29 0.34 0.19 0.37 0.44 0.58 0.44
C2' 0.00 0.27 0.00 0.01 0.14 0.02 0.08 0.14 0.13 0.13 0.21 0.27 0.11 0.08 0.03 0.00 0.03 0.01 0.31 0.37 0.43 0.32
C3' 0.02 0.26 0.01 0.00 0.20 0.01 0.25 0.02 0.26 0.30 0.26 0.24 0.29 0.31 0.17 0.02 0.01 0.02 0.25 0.34 0.28 0.21
C4 0.02 0.01 0.14 0.20 0.00 0.08 0.01 0.18 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.19 0.19 0.10 0.36 0.32 0.52 0.34
C4' 0.01 0.16 0.02 0.01 0.08 0.00 0.10 0.01 0.10 0.20 0.12 0.16 0.12 0.17 0.08 0.21 0.03 0.00 0.02 0.16 0.25 0.08
C5 0.01 0.01 0.08 0.25 0.01 0.10 0.00 0.19 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.21 0.16 0.05 0.49 0.42 0.70 0.46
C5' 0.06 0.31 0.14 0.02 0.18 0.01 0.19 0.00 0.22 0.27 0.26 0.29 0.23 0.27 0.13 0.08 0.16 0.02 0.01 0.22 0.27 0.02
C6 0.02 0.01 0.13 0.26 0.01 0.10 0.01 0.22 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.24 0.21 0.09 0.47 0.43 0.73 0.47
C8 0.02 0.01 0.13 0.30 0.01 0.20 0.01 0.27 0.01 0.00 0.01 0.01 0.02 0.00 0.01 0.24 0.20 0.12 0.62 0.51 0.74 0.57
N1 0.03 0.01 0.21 0.26 0.01 0.12 0.01 0.26 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.26 0.28 0.15 0.41 0.43 0.64 0.44
N3 0.04 0.01 0.27 0.24 0.00 0.16 0.01 0.29 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.27 0.34 0.19 0.33 0.39 0.51 0.39
N6 0.02 0.01 0.11 0.29 0.01 0.12 0.01 0.23 0.01 0.02 0.01 0.01 0.00 0.02 0.02 0.25 0.22 0.07 0.54 0.51 0.86 0.55
N7 0.01 0.01 0.08 0.31 0.01 0.17 0.00 0.27 0.01 0.00 0.01 0.01 0.02 0.00 0.01 0.25 0.21 0.07 0.64 0.56 0.88 0.62
N9 0.01 0.01 0.03 0.17 0.01 0.08 0.01 0.13 0.01 0.01 0.01 0.01 0.02 0.01 0.00 0.14 0.09 0.02 0.38 0.30 0.47 0.32
O2' 0.02 0.29 0.00 0.02 0.19 0.21 0.21 0.08 0.24 0.24 0.26 0.27 0.25 0.25 0.14 0.00 0.07 0.15 0.22 0.31 0.45 0.27
O3' 0.21 0.34 0.03 0.01 0.19 0.03 0.16 0.16 0.21 0.20 0.28 0.34 0.22 0.21 0.09 0.07 0.00 0.15 0.26 0.47 0.34 0.28
O4' 0.01 0.19 0.01 0.02 0.10 0.00 0.05 0.02 0.09 0.12 0.15 0.19 0.07 0.07 0.02 0.15 0.15 0.00 0.16 0.19 0.31 0.21
O5' 0.21 0.37 0.31 0.25 0.36 0.02 0.49 0.01 0.47 0.62 0.41 0.33 0.54 0.64 0.38 0.22 0.26 0.16 0.00 0.02 0.02 0.01
OP1 0.21 0.44 0.37 0.34 0.32 0.16 0.42 0.22 0.43 0.51 0.43 0.39 0.51 0.56 0.30 0.31 0.47 0.19 0.02 0.00 0.02 0.01
OP2 0.31 0.58 0.43 0.28 0.52 0.25 0.70 0.27 0.73 0.74 0.64 0.51 0.86 0.88 0.47 0.45 0.34 0.31 0.02 0.02 0.00 0.01
P 0.19 0.44 0.32 0.21 0.34 0.08 0.46 0.02 0.47 0.57 0.44 0.39 0.55 0.62 0.32 0.27 0.28 0.21 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.55 0.91 0.76 0.79 0.57 0.67 0.65 0.78 0.82 0.56 0.92 0.75 0.95 0.67 0.47 0.88 0.92 0.56 0.88 1.12 1.10 1.03
C2 0.94 0.59 0.89 0.81 0.71 0.93 0.69 1.01 0.55 0.95 0.47 0.68 0.72 0.89 0.88 1.11 0.81 1.00 1.12 1.36 1.44 1.28
C2' 0.41 0.89 0.64 0.69 0.51 0.56 0.65 0.73 0.85 0.55 0.94 0.70 1.02 0.70 0.38 0.79 0.87 0.45 0.91 1.21 1.25 1.14
C3' 0.55 0.89 0.84 0.92 0.54 0.75 0.61 0.87 0.79 0.51 0.89 0.75 0.95 0.63 0.44 0.97 1.16 0.58 1.01 1.34 1.28 1.22
C4 0.50 0.51 0.52 0.52 0.30 0.53 0.43 0.67 0.52 0.57 0.55 0.39 0.69 0.60 0.43 0.73 0.55 0.55 0.83 1.05 1.20 1.00
C4' 0.77 0.94 1.07 1.11 0.66 0.96 0.65 0.99 0.78 0.62 0.89 0.87 0.92 0.67 0.61 1.23 1.36 0.78 1.03 1.33 1.12 1.14
C5 0.54 0.58 0.56 0.58 0.35 0.57 0.34 0.70 0.42 0.55 0.56 0.48 0.56 0.52 0.46 0.79 0.59 0.57 0.89 1.10 1.33 1.08
C5' 0.91 0.92 1.26 1.36 0.70 1.15 0.63 1.09 0.74 0.63 0.84 0.90 0.86 0.65 0.69 1.43 1.69 0.90 1.05 1.32 1.05 1.08
C6 0.74 0.63 0.71 0.63 0.53 0.69 0.45 0.80 0.39 0.72 0.55 0.61 0.51 0.65 0.66 1.00 0.63 0.75 0.96 1.25 1.45 1.19
C8 0.66 0.84 0.85 0.99 0.64 0.82 0.62 0.89 0.73 0.56 0.83 0.77 0.79 0.58 0.58 0.87 1.04 0.66 1.01 1.08 1.28 1.08
N1 0.95 0.69 0.91 0.79 0.72 0.89 0.65 0.96 0.50 0.91 0.55 0.74 0.61 0.83 0.86 1.18 0.79 0.97 1.07 1.36 1.46 1.26
N3 0.73 0.46 0.68 0.65 0.50 0.76 0.59 0.88 0.58 0.81 0.50 0.45 0.78 0.80 0.67 0.89 0.66 0.81 1.00 1.23 1.32 1.17
N6 0.80 0.76 0.81 0.74 0.60 0.79 0.54 0.91 0.58 0.77 0.73 0.71 0.68 0.71 0.70 1.12 0.75 0.81 1.09 1.42 1.65 1.36
N7 0.62 0.74 0.74 0.88 0.55 0.78 0.53 0.91 0.64 0.59 0.75 0.66 0.70 0.57 0.55 0.82 0.89 0.67 1.09 1.18 1.47 1.22
N9 0.46 0.75 0.64 0.70 0.44 0.57 0.54 0.68 0.70 0.48 0.78 0.61 0.81 0.57 0.38 0.75 0.79 0.48 0.82 1.00 1.11 0.95
O2' 0.44 0.94 0.63 0.65 0.58 0.57 0.77 0.78 0.96 0.70 1.02 0.72 1.17 0.86 0.48 0.80 0.82 0.50 0.99 1.30 1.39 1.25
O3' 0.61 0.88 0.82 0.93 0.59 0.86 0.70 1.04 0.87 0.66 0.93 0.73 1.07 0.77 0.54 0.94 1.15 0.71 1.21 1.52 1.51 1.46
O4' 0.79 0.95 1.06 1.07 0.69 0.92 0.68 0.94 0.79 0.65 0.89 0.89 0.90 0.69 0.65 1.18 1.23 0.78 0.96 1.19 1.03 1.04
O5' 1.00 0.89 1.36 1.55 0.77 1.28 0.69 1.23 0.74 0.75 0.81 0.91 0.83 0.72 0.81 1.42 1.88 1.00 1.20 1.37 1.19 1.18
OP1 1.13 0.74 1.44 1.78 0.67 1.64 0.52 1.64 0.54 0.72 0.62 0.82 0.68 0.59 0.81 1.56 2.26 1.25 1.49 1.74 1.41 1.45
OP2 1.20 0.83 1.45 1.88 0.90 1.70 0.88 1.82 0.84 1.07 0.80 0.90 0.95 1.00 1.04 1.41 2.14 1.35 1.83 1.92 1.87 1.81
P 1.18 0.76 1.50 1.87 0.77 1.66 0.65 1.64 0.62 0.85 0.64 0.85 0.72 0.74 0.91 1.53 2.29 1.28 1.55 1.65 1.45 1.47

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.04 0.01 0.02 0.02 0.01 0.01 0.06 0.02 0.02 0.03 0.04 0.02 0.01 0.01 0.02 0.20 0.01 0.25 0.47 0.42 0.25
C2 0.04 0.00 0.30 0.28 0.01 0.21 0.01 0.38 0.01 0.01 0.00 0.00 0.01 0.01 0.01 0.30 0.33 0.26 0.53 0.76 0.92 0.64
C2' 0.01 0.30 0.00 0.01 0.16 0.02 0.09 0.12 0.15 0.14 0.24 0.29 0.12 0.08 0.03 0.00 0.03 0.02 0.34 0.47 0.54 0.37
C3' 0.02 0.28 0.01 0.00 0.21 0.01 0.25 0.03 0.27 0.27 0.28 0.25 0.29 0.28 0.16 0.02 0.01 0.02 0.32 0.40 0.45 0.28
C4 0.02 0.01 0.16 0.21 0.00 0.10 0.00 0.22 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.17 0.18 0.14 0.48 0.69 0.84 0.55
C4' 0.01 0.21 0.02 0.01 0.10 0.00 0.12 0.01 0.12 0.22 0.16 0.21 0.14 0.20 0.08 0.19 0.03 0.00 0.02 0.33 0.30 0.15
C5 0.01 0.01 0.09 0.25 0.00 0.12 0.00 0.26 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.20 0.17 0.07 0.60 0.86 1.10 0.74
C5' 0.06 0.38 0.12 0.03 0.22 0.01 0.26 0.00 0.29 0.36 0.33 0.34 0.32 0.36 0.17 0.10 0.14 0.02 0.01 0.24 0.35 0.02
C6 0.02 0.01 0.15 0.27 0.01 0.12 0.01 0.29 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.21 0.23 0.12 0.61 0.89 1.18 0.78
C8 0.02 0.01 0.14 0.27 0.01 0.22 0.01 0.36 0.01 0.00 0.01 0.01 0.03 0.00 0.00 0.29 0.18 0.15 0.69 0.89 1.03 0.78
N1 0.03 0.00 0.24 0.28 0.01 0.16 0.01 0.33 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.25 0.29 0.20 0.57 0.83 1.07 0.72
N3 0.04 0.00 0.29 0.25 0.01 0.21 0.01 0.34 0.01 0.01 0.01 0.00 0.02 0.01 0.01 0.29 0.31 0.26 0.48 0.67 0.79 0.54
N6 0.02 0.01 0.12 0.29 0.01 0.14 0.01 0.32 0.01 0.03 0.01 0.02 0.00 0.03 0.02 0.23 0.24 0.09 0.68 1.01 1.35 0.90
N7 0.01 0.01 0.08 0.28 0.01 0.20 0.00 0.36 0.01 0.00 0.01 0.01 0.03 0.00 0.01 0.28 0.19 0.08 0.73 1.01 1.26 0.90
N9 0.01 0.01 0.03 0.16 0.01 0.08 0.01 0.17 0.01 0.00 0.01 0.01 0.02 0.01 0.00 0.14 0.10 0.02 0.46 0.64 0.72 0.48
O2' 0.02 0.30 0.00 0.02 0.17 0.19 0.20 0.10 0.21 0.29 0.25 0.29 0.23 0.28 0.14 0.00 0.06 0.14 0.20 0.52 0.52 0.35
O3' 0.20 0.33 0.03 0.01 0.18 0.03 0.17 0.14 0.23 0.18 0.29 0.31 0.24 0.19 0.10 0.06 0.00 0.13 0.32 0.59 0.49 0.32
O4' 0.01 0.26 0.02 0.02 0.14 0.00 0.07 0.02 0.12 0.15 0.20 0.26 0.09 0.08 0.02 0.14 0.13 0.00 0.20 0.47 0.37 0.26
O5' 0.25 0.53 0.34 0.32 0.48 0.02 0.60 0.01 0.61 0.69 0.57 0.48 0.68 0.73 0.46 0.20 0.32 0.20 0.00 0.02 0.02 0.01
OP1 0.47 0.76 0.47 0.40 0.69 0.33 0.86 0.24 0.89 0.89 0.83 0.67 1.01 1.01 0.64 0.52 0.59 0.47 0.02 0.00 0.01 0.01
OP2 0.42 0.92 0.54 0.45 0.84 0.30 1.10 0.35 1.18 1.03 1.07 0.79 1.35 1.26 0.72 0.52 0.49 0.37 0.02 0.01 0.00 0.01
P 0.25 0.64 0.37 0.28 0.55 0.15 0.74 0.02 0.78 0.78 0.72 0.54 0.90 0.90 0.48 0.35 0.32 0.26 0.01 0.01 0.01 0.00