ClaRNA

Doublet Group distance statistics: 51371

back

Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C6 A 0, -0.002, 0.005, 0.013, 0.016 max_d=0.016 avg_d=0.005 std_dev=0.008
C2 A 0, -0.002, 0.006, 0.013, 0.017 max_d=0.017 avg_d=0.006 std_dev=0.008
C5 A 0, -0.003, 0.008, 0.018, 0.023 max_d=0.023 avg_d=0.008 std_dev=0.011
C1' A 0, -0.003, 0.008, 0.019, 0.024 max_d=0.024 avg_d=0.008 std_dev=0.011
N1 A 0, -0.004, 0.010, 0.024, 0.029 max_d=0.029 avg_d=0.010 std_dev=0.014
N3 A 0, -0.005, 0.012, 0.029, 0.036 max_d=0.036 avg_d=0.012 std_dev=0.017
N7 A 0, -0.005, 0.013, 0.030, 0.038 max_d=0.038 avg_d=0.013 std_dev=0.018
N9 A 0, -0.005, 0.013, 0.030, 0.038 max_d=0.038 avg_d=0.013 std_dev=0.018
C4 A 0, -0.006, 0.014, 0.033, 0.041 max_d=0.041 avg_d=0.014 std_dev=0.019
O6 A 0, -0.006, 0.015, 0.037, 0.046 max_d=0.046 avg_d=0.015 std_dev=0.022
N2 A 0, -0.006, 0.016, 0.038, 0.047 max_d=0.047 avg_d=0.016 std_dev=0.022
C8 A 0, -0.007, 0.018, 0.042, 0.053 max_d=0.053 avg_d=0.018 std_dev=0.025
O4' A 0, -0.117, 0.282, 0.682, 0.847 max_d=0.847 avg_d=0.282 std_dev=0.399
C2' A 0, -0.120, 0.290, 0.700, 0.870 max_d=0.870 avg_d=0.290 std_dev=0.410
OP2 B 0, -0.131, 0.317, 0.766, 0.952 max_d=0.952 avg_d=0.317 std_dev=0.449
O2' A 0, -0.137, 0.330, 0.796, 0.989 max_d=0.989 avg_d=0.330 std_dev=0.466
OP1 B 0, -0.152, 0.366, 0.884, 1.099 max_d=1.099 avg_d=0.366 std_dev=0.518
C4' A 0, -0.164, 0.396, 0.955, 1.187 max_d=1.187 avg_d=0.396 std_dev=0.560
C3' A 0, -0.184, 0.444, 1.071, 1.331 max_d=1.331 avg_d=0.444 std_dev=0.627
P B 0, -0.214, 0.516, 1.246, 1.549 max_d=1.549 avg_d=0.516 std_dev=0.730
O3' A 0, -0.252, 0.608, 1.467, 1.823 max_d=1.823 avg_d=0.608 std_dev=0.859
C5' A 0, -0.302, 0.729, 1.759, 2.186 max_d=2.186 avg_d=0.729 std_dev=1.030
O5' A 0, -0.421, 1.017, 2.455, 3.050 max_d=3.050 avg_d=1.017 std_dev=1.438
OP2 A 0, -0.446, 1.076, 2.599, 3.229 max_d=3.229 avg_d=1.076 std_dev=1.522
O5' B 0, -0.526, 1.269, 3.063, 3.806 max_d=3.806 avg_d=1.269 std_dev=1.794
P A 0, -0.548, 1.322, 3.193, 3.967 max_d=3.967 avg_d=1.322 std_dev=1.870
C5' B 0, -0.626, 1.512, 3.651, 4.537 max_d=4.537 avg_d=1.512 std_dev=2.139
OP1 A 0, -0.665, 1.606, 3.878, 4.819 max_d=4.819 avg_d=1.606 std_dev=2.272
C4' B 0, -0.814, 1.965, 4.743, 5.894 max_d=5.894 avg_d=1.965 std_dev=2.778
O3' B 0, -0.987, 2.382, 5.750, 7.145 max_d=7.145 avg_d=2.382 std_dev=3.368
C3' B 0, -1.015, 2.451, 5.916, 7.352 max_d=7.352 avg_d=2.451 std_dev=3.466
O4' B 0, -1.045, 2.522, 6.088, 7.566 max_d=7.566 avg_d=2.522 std_dev=3.566
C2' B 0, -1.289, 3.112, 7.512, 9.335 max_d=9.335 avg_d=3.112 std_dev=4.400
C1' B 0, -1.316, 3.178, 7.673, 9.535 max_d=9.535 avg_d=3.178 std_dev=4.495
O2' B 0, -1.318, 3.182, 7.681, 9.545 max_d=9.545 avg_d=3.182 std_dev=4.499
C8 B 0, -1.403, 3.386, 8.175, 10.158 max_d=10.158 avg_d=3.386 std_dev=4.789
N9 B 0, -1.448, 3.496, 8.441, 10.489 max_d=10.489 avg_d=3.496 std_dev=4.944
N7 B 0, -1.571, 3.792, 9.154, 11.375 max_d=11.375 avg_d=3.792 std_dev=5.362
C4 B 0, -1.680, 4.056, 9.793, 12.169 max_d=12.169 avg_d=4.056 std_dev=5.737
C5 B 0, -1.728, 4.172, 10.073, 12.517 max_d=12.517 avg_d=4.172 std_dev=5.901
N3 B 0, -1.857, 4.482, 10.821, 13.446 max_d=13.446 avg_d=4.482 std_dev=6.339
C6 B 0, -1.950, 4.708, 11.367, 14.125 max_d=14.125 avg_d=4.708 std_dev=6.659
O6 B 0, -2.033, 4.907, 11.847, 14.722 max_d=14.722 avg_d=4.907 std_dev=6.940
C2 B 0, -2.075, 5.010, 12.096, 15.030 max_d=15.030 avg_d=5.010 std_dev=7.085
N1 B 0, -2.109, 5.091, 12.291, 15.274 max_d=15.274 avg_d=5.091 std_dev=7.200
N2 B 0, -2.300, 5.553, 13.407, 16.660 max_d=16.660 avg_d=5.553 std_dev=7.853

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 0.01 0.00 0.00 0.01 0.00 0.00 0.00 0.00 0.01 0.01 0.02 0.01 0.00 0.00 0.01 0.00 0.00 0.06 0.00 0.44 0.00 0.03
C2 0.01 0.00 0.22 0.25 0.00 0.05 0.00 0.05 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.13 0.32 0.09 0.05 0.00 0.95 0.27 0.15
C2' 0.00 0.22 0.00 0.00 0.11 0.00 0.03 0.00 0.08 0.12 0.16 0.27 0.23 0.08 0.00 0.00 0.01 0.00 0.03 0.05 0.29 0.02 0.07
C3' 0.00 0.25 0.00 0.00 0.14 0.00 0.09 0.00 0.14 0.10 0.21 0.29 0.23 0.03 0.03 0.01 0.00 0.01 0.09 0.11 0.11 0.05 0.09
C4 0.01 0.00 0.11 0.14 0.00 0.04 0.00 0.05 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.04 0.16 0.04 0.01 0.00 0.90 0.25 0.13
C4' 0.00 0.05 0.00 0.00 0.04 0.00 0.05 0.00 0.06 0.03 0.06 0.04 0.04 0.04 0.02 0.01 0.02 0.00 0.00 0.07 0.02 0.27 0.02
C5 0.00 0.00 0.03 0.09 0.00 0.05 0.00 0.08 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.02 0.09 0.00 0.01 0.01 1.11 0.36 0.18
C5' 0.00 0.05 0.00 0.00 0.05 0.00 0.08 0.00 0.09 0.07 0.07 0.03 0.03 0.10 0.04 0.01 0.02 0.01 0.00 0.11 0.25 0.45 0.00
C6 0.00 0.00 0.08 0.14 0.00 0.06 0.00 0.09 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.01 0.16 0.02 0.05 0.00 1.20 0.40 0.21
C8 0.01 0.00 0.12 0.10 0.00 0.03 0.00 0.07 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.10 0.11 0.09 0.08 0.01 0.94 0.29 0.12
N1 0.01 0.00 0.16 0.21 0.00 0.06 0.00 0.07 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.07 0.26 0.06 0.06 0.00 1.12 0.35 0.19
N2 0.02 0.00 0.27 0.29 0.00 0.04 0.00 0.03 0.00 0.00 0.00 0.00 0.00 0.00 0.01 0.18 0.39 0.12 0.06 0.00 0.90 0.25 0.14
N3 0.01 0.00 0.23 0.23 0.00 0.04 0.00 0.03 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.14 0.28 0.10 0.03 0.00 0.82 0.21 0.11
N7 0.00 0.00 0.08 0.03 0.00 0.04 0.00 0.10 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.09 0.05 0.06 0.03 0.01 1.16 0.40 0.18
N9 0.00 0.00 0.00 0.03 0.00 0.02 0.00 0.04 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.03 0.02 0.01 0.05 0.01 0.76 0.18 0.09
O2' 0.01 0.13 0.00 0.01 0.04 0.01 0.02 0.01 0.01 0.10 0.07 0.18 0.14 0.09 0.03 0.00 0.02 0.01 0.05 0.01 0.15 0.12 0.06
O3' 0.00 0.32 0.01 0.00 0.16 0.02 0.09 0.02 0.16 0.11 0.26 0.39 0.28 0.05 0.02 0.02 0.00 0.01 0.14 0.14 0.15 0.13 0.09
O4' 0.00 0.09 0.00 0.01 0.04 0.00 0.00 0.01 0.02 0.09 0.06 0.12 0.10 0.06 0.01 0.01 0.01 0.00 0.12 0.01 0.27 0.14 0.03
O5' 0.06 0.05 0.03 0.09 0.01 0.00 0.01 0.00 0.05 0.08 0.06 0.06 0.03 0.03 0.05 0.05 0.14 0.12 0.00 0.06 0.00 0.00 0.00
O6 0.00 0.00 0.05 0.11 0.00 0.07 0.01 0.11 0.00 0.01 0.00 0.00 0.00 0.01 0.01 0.01 0.14 0.01 0.06 0.00 1.32 0.46 0.24
OP1 0.44 0.95 0.29 0.11 0.90 0.02 1.11 0.25 1.20 0.94 1.12 0.90 0.82 1.16 0.76 0.15 0.15 0.27 0.00 1.32 0.00 0.00 0.00
OP2 0.00 0.27 0.02 0.05 0.25 0.27 0.36 0.45 0.40 0.29 0.35 0.25 0.21 0.40 0.18 0.12 0.13 0.14 0.00 0.46 0.00 0.00 0.00
P 0.03 0.15 0.07 0.09 0.13 0.02 0.18 0.00 0.21 0.12 0.19 0.14 0.11 0.18 0.09 0.06 0.09 0.03 0.00 0.24 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 3.03 4.33 3.05 2.21 4.17 1.43 4.79 0.71 5.25 4.12 4.98 4.01 3.90 4.71 3.77 2.73 1.66 2.07 0.91 5.67 0.45 0.03 0.03
C2 2.16 2.30 2.20 1.75 2.87 0.99 3.55 0.52 3.53 3.58 2.89 1.73 2.21 4.00 2.88 1.68 1.20 1.44 0.76 3.88 0.47 0.04 0.08
C2' 3.10 4.90 2.99 2.04 4.42 1.36 4.98 0.60 5.58 4.08 5.53 4.72 4.32 4.70 3.86 2.70 1.38 2.12 0.81 5.94 0.71 0.21 0.18
C3' 2.89 4.83 2.74 1.75 4.22 1.13 4.77 0.36 5.46 3.82 5.48 4.78 4.19 4.46 3.63 2.50 1.09 1.92 0.62 5.89 0.80 0.36 0.31
C4 2.44 3.13 2.42 1.75 3.42 1.02 4.17 0.41 4.42 3.79 3.83 2.62 2.88 4.39 3.21 2.01 1.18 1.60 0.68 4.90 0.48 0.07 0.13
C4' 3.00 4.66 2.98 2.05 4.21 1.32 4.75 0.55 5.34 3.95 5.27 4.55 4.10 4.54 3.70 2.75 1.48 2.01 0.79 5.78 0.56 0.18 0.14
C5 2.02 2.51 1.95 1.32 2.91 0.67 3.73 0.10 3.95 3.47 3.26 1.95 2.30 4.09 2.78 1.56 0.76 1.25 0.42 4.54 0.47 0.16 0.22
C5' 2.78 4.41 2.75 1.82 3.95 1.12 4.51 0.35 5.11 3.72 5.03 4.33 3.85 4.32 3.46 2.55 1.26 1.81 0.63 5.60 0.58 0.27 0.23
C6 1.57 1.67 1.50 0.98 2.27 0.38 3.09 0.10 3.15 3.11 2.38 1.06 1.57 3.66 2.29 1.09 0.46 0.90 0.24 3.70 0.46 0.19 0.28
C8 2.42 3.40 2.34 1.56 3.47 0.90 4.24 0.23 4.69 3.70 4.18 2.97 3.03 4.35 3.17 2.01 1.00 1.54 0.53 5.34 0.48 0.16 0.19
N1 1.65 1.61 1.62 1.20 2.28 0.54 3.04 0.12 3.00 3.20 2.25 0.99 1.55 3.65 2.36 1.15 0.68 1.01 0.42 3.43 0.47 0.07 0.21
N2 2.12 2.03 2.24 1.96 2.64 1.15 3.21 0.77 3.12 3.42 2.54 1.48 2.00 3.68 2.75 1.67 1.45 1.48 0.95 3.40 0.45 0.17 0.03
N3 2.55 3.08 2.61 2.01 3.44 1.21 4.11 0.64 4.23 3.86 3.68 2.56 2.90 4.35 3.29 2.14 1.45 1.73 0.85 4.58 0.47 0.02 0.05
N7 2.04 2.72 1.95 1.24 2.99 0.63 3.80 0.01 4.15 3.42 3.51 2.22 2.45 4.06 2.79 1.61 0.69 1.24 0.35 4.83 0.47 0.20 0.25
N9 2.67 3.70 2.64 1.87 3.75 1.14 4.48 0.47 4.88 3.91 4.43 3.27 3.34 4.54 3.43 2.28 1.30 1.76 0.72 5.41 0.47 0.09 0.12
O2' 3.51 5.34 3.46 2.48 4.79 1.75 5.20 0.98 5.73 4.33 5.81 5.26 4.79 4.87 4.21 3.20 1.86 2.49 1.09 5.95 0.58 0.04 0.01
O3' 2.98 5.22 2.77 1.72 4.37 1.15 4.82 0.36 5.56 3.77 5.77 5.35 4.49 4.40 3.69 2.58 1.03 2.00 0.62 5.92 0.92 0.43 0.35
O4' 2.97 4.27 3.03 2.18 4.07 1.40 4.67 0.66 5.16 4.03 4.92 4.02 3.83 4.60 3.68 2.75 1.67 2.00 0.87 5.62 0.38 0.02 0.02
O5' 2.43 4.01 2.32 1.41 3.60 0.79 4.21 0.06 4.83 3.42 4.68 3.89 3.46 4.05 3.12 2.10 0.82 1.51 0.43 5.39 0.66 0.36 0.32
O6 1.09 0.97 1.01 0.53 1.66 0.01 2.47 0.43 2.48 2.62 1.67 0.33 0.91 3.13 1.76 0.65 0.07 0.50 0.07 3.06 0.42 0.27 0.37
OP1 1.25 2.72 1.19 0.25 2.30 0.37 2.85 1.17 3.44 2.14 3.33 2.66 2.19 2.71 1.86 1.09 0.25 0.31 0.79 3.98 1.67 1.53 1.46
OP2 2.56 3.88 2.44 1.58 3.66 0.99 4.33 0.31 4.89 3.67 4.61 3.66 3.40 4.31 3.27 2.19 1.00 1.69 0.71 5.54 0.19 0.10 0.08
P 2.07 3.50 1.98 1.09 3.15 0.48 3.75 0.25 4.33 3.05 4.16 3.37 2.99 3.65 2.72 1.79 0.54 1.17 0.15 4.91 0.76 0.55 0.51

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.01 0.01 0.00 0.00 0.01 0.01 0.00 0.00 0.00 0.01 0.00 0.23 0.02 0.14 0.41 0.22
C2 0.00 0.00 0.38 0.12 0.00 0.60 0.01 1.04 0.00 0.01 0.00 0.00 0.00 0.01 0.00 0.59 0.02 0.67 0.87 0.01 0.89 0.35 0.75
C2' 0.00 0.38 0.00 0.00 0.20 0.01 0.11 0.00 0.20 0.20 0.31 0.45 0.36 0.09 0.01 0.00 0.02 0.01 0.32 0.16 0.15 0.32 0.19
C3' 0.01 0.12 0.00 0.00 0.08 0.00 0.06 0.01 0.07 0.01 0.10 0.14 0.12 0.02 0.04 0.01 0.00 0.01 0.39 0.05 0.02 0.17 0.22
C4 0.00 0.00 0.20 0.08 0.00 0.29 0.00 0.46 0.01 0.00 0.01 0.00 0.00 0.00 0.00 0.28 0.01 0.34 0.05 0.01 0.13 0.49 0.13
C4' 0.00 0.60 0.01 0.00 0.29 0.00 0.14 0.00 0.26 0.28 0.47 0.74 0.56 0.15 0.01 0.06 0.02 0.00 0.00 0.19 0.31 0.19 0.12
C5 0.00 0.01 0.11 0.06 0.00 0.14 0.00 0.24 0.01 0.00 0.01 0.01 0.00 0.00 0.00 0.16 0.03 0.15 0.37 0.02 0.40 1.07 0.66
C5' 0.01 1.04 0.00 0.01 0.46 0.00 0.24 0.00 0.47 0.49 0.83 1.30 0.92 0.27 0.01 0.06 0.06 0.01 0.01 0.35 0.06 0.33 0.01
C6 0.01 0.00 0.20 0.07 0.01 0.26 0.01 0.47 0.00 0.02 0.00 0.00 0.01 0.01 0.01 0.30 0.01 0.28 0.09 0.00 0.21 0.84 0.39
C8 0.00 0.01 0.20 0.01 0.00 0.28 0.00 0.49 0.02 0.00 0.01 0.01 0.00 0.00 0.00 0.23 0.07 0.34 1.23 0.02 1.08 1.77 1.47
N1 0.00 0.00 0.31 0.10 0.01 0.47 0.01 0.83 0.00 0.01 0.00 0.00 0.00 0.01 0.01 0.48 0.01 0.51 0.49 0.00 0.42 0.14 0.28
N2 0.01 0.00 0.45 0.14 0.00 0.74 0.01 1.30 0.00 0.01 0.00 0.00 0.00 0.01 0.00 0.73 0.04 0.81 1.33 0.00 1.40 0.90 1.31
N3 0.01 0.00 0.36 0.12 0.00 0.56 0.00 0.92 0.01 0.00 0.00 0.00 0.00 0.00 0.00 0.54 0.02 0.67 0.75 0.01 0.83 0.27 0.64
N7 0.00 0.01 0.09 0.02 0.00 0.15 0.00 0.27 0.01 0.00 0.01 0.01 0.00 0.00 0.00 0.10 0.06 0.18 1.07 0.02 1.10 1.86 1.44
N9 0.00 0.00 0.01 0.04 0.00 0.01 0.00 0.01 0.01 0.00 0.01 0.00 0.00 0.00 0.00 0.02 0.03 0.00 0.47 0.02 0.26 0.87 0.59
O2' 0.00 0.59 0.00 0.01 0.28 0.06 0.16 0.06 0.30 0.23 0.48 0.73 0.54 0.10 0.02 0.00 0.04 0.05 0.04 0.25 0.62 0.05 0.19
O3' 0.01 0.02 0.02 0.00 0.01 0.02 0.03 0.06 0.01 0.07 0.01 0.04 0.02 0.06 0.03 0.04 0.00 0.01 0.22 0.01 0.22 0.21 0.06
O4' 0.00 0.67 0.01 0.01 0.34 0.00 0.15 0.01 0.28 0.34 0.51 0.81 0.67 0.18 0.00 0.05 0.01 0.00 0.01 0.19 0.25 0.13 0.03
O5' 0.23 0.87 0.32 0.39 0.05 0.00 0.37 0.01 0.09 1.23 0.49 1.33 0.75 1.07 0.47 0.04 0.22 0.01 0.00 0.30 0.01 0.03 0.00
O6 0.02 0.01 0.16 0.05 0.01 0.19 0.02 0.35 0.00 0.02 0.00 0.00 0.01 0.02 0.02 0.25 0.01 0.19 0.30 0.00 0.51 1.17 0.68
OP1 0.14 0.89 0.15 0.02 0.13 0.31 0.40 0.06 0.21 1.08 0.42 1.40 0.83 1.10 0.26 0.62 0.22 0.25 0.01 0.51 0.00 0.00 0.00
OP2 0.41 0.35 0.32 0.17 0.49 0.19 1.07 0.33 0.84 1.77 0.14 0.90 0.27 1.86 0.87 0.05 0.21 0.13 0.03 1.17 0.00 0.00 0.00
P 0.22 0.75 0.19 0.22 0.13 0.12 0.66 0.01 0.39 1.47 0.28 1.31 0.64 1.44 0.59 0.19 0.06 0.03 0.00 0.68 0.00 0.00 0.00