ClaRNA

Doublet Group distance statistics: 52511

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.001, 0.004, 0.006, 0.006 max_d=0.006 avg_d=0.004 std_dev=0.003
N3 A 0, 0.000, 0.012, 0.023, 0.028 max_d=0.028 avg_d=0.012 std_dev=0.012
N1 A 0, 0.001, 0.017, 0.034, 0.040 max_d=0.040 avg_d=0.017 std_dev=0.017
C1' A 0, 0.003, 0.021, 0.040, 0.045 max_d=0.045 avg_d=0.021 std_dev=0.018
C4 A 0, 0.003, 0.022, 0.040, 0.045 max_d=0.045 avg_d=0.022 std_dev=0.019
C6 A 0, 0.003, 0.021, 0.040, 0.045 max_d=0.045 avg_d=0.021 std_dev=0.019
C2 A 0, 0.002, 0.022, 0.043, 0.049 max_d=0.049 avg_d=0.022 std_dev=0.020
N4 A 0, 0.011, 0.057, 0.104, 0.114 max_d=0.114 avg_d=0.057 std_dev=0.047
O2 A 0, 0.007, 0.061, 0.115, 0.131 max_d=0.131 avg_d=0.061 std_dev=0.054
O4' A 0, 0.001, 0.095, 0.189, 0.223 max_d=0.223 avg_d=0.095 std_dev=0.094
P B 0, 0.053, 0.183, 0.313, 0.288 max_d=0.288 avg_d=0.183 std_dev=0.130
C2' A 0, -0.043, 0.277, 0.597, 0.725 max_d=0.725 avg_d=0.277 std_dev=0.320
C4' A 0, -0.107, 0.415, 0.936, 1.151 max_d=1.151 avg_d=0.415 std_dev=0.522
OP1 B 0, -0.030, 0.512, 1.053, 1.261 max_d=1.261 avg_d=0.512 std_dev=0.542
O2' A 0, -0.101, 0.519, 1.140, 1.392 max_d=1.392 avg_d=0.519 std_dev=0.621
C3' A 0, -0.150, 0.590, 1.329, 1.633 max_d=1.633 avg_d=0.590 std_dev=0.740
C5' A 0, -0.149, 0.662, 1.473, 1.804 max_d=1.804 avg_d=0.662 std_dev=0.811
OP2 B 0, -0.132, 0.738, 1.607, 1.958 max_d=1.958 avg_d=0.738 std_dev=0.869
O5' B 0, -0.134, 0.745, 1.625, 1.980 max_d=1.980 avg_d=0.745 std_dev=0.879
O3' A 0, -0.271, 0.989, 2.249, 2.767 max_d=2.767 avg_d=0.989 std_dev=1.260
C5' B 0, -0.269, 1.069, 2.408, 2.957 max_d=2.957 avg_d=1.069 std_dev=1.339
O4' B 0, -0.286, 1.153, 2.592, 3.182 max_d=3.182 avg_d=1.153 std_dev=1.439
C4' B 0, -0.308, 1.166, 2.639, 3.244 max_d=3.244 avg_d=1.166 std_dev=1.473
C3' B 0, -0.436, 1.515, 3.467, 4.270 max_d=4.270 avg_d=1.515 std_dev=1.951
C1' B 0, -0.407, 1.548, 3.503, 4.305 max_d=4.305 avg_d=1.548 std_dev=1.955
O5' A 0, -0.494, 1.553, 3.600, 4.445 max_d=4.445 avg_d=1.553 std_dev=2.047
C6 B 0, -0.446, 1.604, 3.654, 4.497 max_d=4.497 avg_d=1.604 std_dev=2.050
N1 B 0, -0.460, 1.738, 3.936, 4.839 max_d=4.839 avg_d=1.738 std_dev=2.198
C2' B 0, -0.523, 1.835, 4.193, 5.164 max_d=5.164 avg_d=1.835 std_dev=2.358
O3' B 0, -0.600, 1.862, 4.324, 5.341 max_d=5.341 avg_d=1.862 std_dev=2.462
C5 B 0, -0.561, 1.913, 4.388, 5.407 max_d=5.407 avg_d=1.913 std_dev=2.474
P A 0, -0.665, 1.919, 4.503, 5.572 max_d=5.572 avg_d=1.919 std_dev=2.584
OP1 A 0, -0.655, 1.939, 4.534, 5.607 max_d=5.607 avg_d=1.939 std_dev=2.595
OP2 A 0, -0.710, 1.997, 4.704, 5.824 max_d=5.824 avg_d=1.997 std_dev=2.707
C2 B 0, -0.558, 2.156, 4.871, 5.985 max_d=5.985 avg_d=2.156 std_dev=2.715
O2 B 0, -0.582, 2.352, 5.286, 6.489 max_d=6.489 avg_d=2.352 std_dev=2.934
O2' B 0, -0.687, 2.304, 5.295, 6.528 max_d=6.528 avg_d=2.304 std_dev=2.991
C4 B 0, -0.673, 2.330, 5.333, 6.570 max_d=6.570 avg_d=2.330 std_dev=3.003
N3 B 0, -0.646, 2.400, 5.447, 6.699 max_d=6.699 avg_d=2.400 std_dev=3.046
O4 B 0, -0.815, 2.659, 6.133, 7.567 max_d=7.567 avg_d=2.659 std_dev=3.474

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.02 0.01 0.02 0.00 0.02 0.00 0.00 0.01 0.01 0.03 0.00 0.04 0.01 0.41 0.47 0.27 0.39
C2 0.02 0.00 0.01 0.16 0.00 0.08 0.00 0.21 0.01 0.02 0.00 0.00 0.00 0.20 0.09 0.03 0.90 0.89 1.02 0.97
C2' 0.00 0.01 0.00 0.00 0.11 0.01 0.14 0.02 0.13 0.06 0.05 0.12 0.11 0.00 0.01 0.01 0.22 0.38 0.27 0.30
C3' 0.02 0.16 0.00 0.00 0.39 0.00 0.45 0.02 0.39 0.22 0.27 0.43 0.03 0.00 0.01 0.01 0.08 0.35 0.15 0.21
C4 0.01 0.00 0.11 0.39 0.00 0.24 0.01 0.47 0.01 0.01 0.00 0.00 0.00 0.12 0.37 0.04 1.44 1.47 1.70 1.60
C4' 0.02 0.08 0.01 0.00 0.24 0.00 0.29 0.00 0.26 0.12 0.15 0.27 0.02 0.09 0.02 0.00 0.00 0.31 0.21 0.04
C5 0.00 0.00 0.14 0.45 0.01 0.29 0.00 0.54 0.00 0.00 0.01 0.02 0.00 0.03 0.44 0.04 1.56 1.54 1.65 1.66
C5' 0.02 0.21 0.02 0.02 0.47 0.00 0.54 0.00 0.45 0.24 0.34 0.53 0.07 0.07 0.02 0.01 0.01 0.34 0.44 0.01
C6 0.00 0.01 0.13 0.39 0.01 0.26 0.00 0.45 0.00 0.00 0.02 0.02 0.02 0.01 0.36 0.04 1.35 1.27 1.19 1.33
N1 0.00 0.02 0.06 0.22 0.01 0.12 0.00 0.24 0.00 0.00 0.01 0.01 0.02 0.07 0.16 0.02 0.93 0.90 0.85 0.92
N3 0.01 0.00 0.05 0.27 0.00 0.15 0.01 0.34 0.02 0.01 0.00 0.00 0.00 0.19 0.22 0.04 1.17 1.18 1.41 1.30
N4 0.01 0.00 0.12 0.43 0.00 0.27 0.02 0.53 0.02 0.01 0.00 0.00 0.01 0.12 0.43 0.05 1.57 1.65 1.96 1.80
O2 0.03 0.00 0.11 0.03 0.00 0.02 0.00 0.07 0.02 0.02 0.00 0.01 0.00 0.31 0.12 0.03 0.59 0.58 0.75 0.66
O2' 0.00 0.20 0.00 0.00 0.12 0.09 0.03 0.07 0.01 0.07 0.19 0.12 0.31 0.00 0.08 0.12 0.05 0.28 0.16 0.15
O3' 0.04 0.09 0.01 0.01 0.37 0.02 0.44 0.02 0.36 0.16 0.22 0.43 0.12 0.08 0.00 0.02 0.27 0.22 0.07 0.03
O4' 0.01 0.03 0.01 0.01 0.04 0.00 0.04 0.01 0.04 0.02 0.04 0.05 0.03 0.12 0.02 0.00 0.33 0.39 0.06 0.23
O5' 0.41 0.90 0.22 0.08 1.44 0.00 1.56 0.01 1.35 0.93 1.17 1.57 0.59 0.05 0.27 0.33 0.00 0.01 0.00 0.01
OP1 0.47 0.89 0.38 0.35 1.47 0.31 1.54 0.34 1.27 0.90 1.18 1.65 0.58 0.28 0.22 0.39 0.01 0.00 0.01 0.00
OP2 0.27 1.02 0.27 0.15 1.70 0.21 1.65 0.44 1.19 0.85 1.41 1.96 0.75 0.16 0.07 0.06 0.00 0.01 0.00 0.00
P 0.39 0.97 0.30 0.21 1.60 0.04 1.66 0.01 1.33 0.92 1.30 1.80 0.66 0.15 0.03 0.23 0.01 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 1.10 2.10 1.05 0.33 2.53 0.26 2.17 0.08 1.79 1.71 2.49 1.99 0.84 0.04 2.80 0.80 0.05 0.06 0.59 0.07
C2 1.26 1.99 1.33 0.82 2.22 0.56 1.92 0.35 1.66 1.68 2.24 1.97 1.21 0.70 2.42 0.99 0.21 0.07 0.39 0.09
C2' 1.02 2.08 1.09 0.29 2.44 0.13 2.02 0.05 1.64 1.62 2.46 2.06 1.05 0.06 2.73 0.63 0.21 0.28 0.32 0.15
C3' 0.65 1.89 0.69 0.24 2.29 0.35 1.79 0.52 1.35 1.33 2.34 1.90 0.72 0.70 2.61 0.19 0.69 0.67 0.04 0.55
C4 1.12 1.63 1.14 0.84 1.79 0.56 1.59 0.37 1.41 1.42 1.80 1.59 0.98 0.79 1.93 0.94 0.27 0.08 0.26 0.08
C4' 0.51 1.80 0.39 0.48 2.40 0.42 1.92 0.53 1.42 1.29 2.36 1.66 0.20 1.04 2.76 0.17 0.63 0.41 0.27 0.37
C5 1.03 1.59 0.96 0.56 1.84 0.38 1.67 0.19 1.46 1.41 1.79 1.48 0.70 0.36 1.98 0.86 0.09 0.05 0.45 0.08
C5' 0.13 1.62 0.10 1.02 2.26 0.87 1.71 0.96 1.15 1.01 2.26 1.47 0.26 1.68 2.63 0.23 1.05 0.74 0.05 0.72
C6 1.07 1.81 0.98 0.39 2.14 0.29 1.92 0.09 1.64 1.57 2.08 1.66 0.69 0.08 2.32 0.84 0.03 0.05 0.57 0.08
N1 1.18 2.00 1.17 0.55 2.32 0.39 2.02 0.19 1.72 1.68 2.29 1.91 0.97 0.29 2.53 0.90 0.06 0.05 0.52 0.08
N3 1.23 1.83 1.31 0.94 1.99 0.63 1.74 0.43 1.52 1.56 2.02 1.82 1.20 0.91 2.15 1.00 0.30 0.09 0.27 0.09
N4 1.04 1.43 1.05 0.90 1.53 0.60 1.35 0.44 1.21 1.25 1.55 1.43 0.94 0.95 1.64 0.90 0.38 0.11 0.07 0.07
O2 1.32 2.10 1.41 0.87 2.33 0.61 1.99 0.39 1.71 1.74 2.36 2.10 1.34 0.79 2.55 1.02 0.24 0.08 0.38 0.09
O2' 0.87 1.90 0.93 0.21 2.37 0.09 1.98 0.03 1.56 1.48 2.33 1.82 0.81 0.16 2.70 0.55 0.12 0.09 0.44 0.03
O3' 0.34 1.62 0.42 0.50 2.13 0.64 1.61 0.75 1.12 1.06 2.14 1.60 0.47 1.02 2.52 0.13 0.87 0.76 0.19 0.68
O4' 0.93 2.04 0.75 0.02 2.58 0.05 2.21 0.11 1.77 1.64 2.51 1.85 0.44 0.50 2.87 0.66 0.21 0.07 0.66 0.06
O5' 0.56 1.16 0.81 1.91 1.78 1.81 1.06 1.99 0.43 0.37 1.86 1.17 0.68 2.44 2.25 1.07 2.18 1.92 1.18 1.88
OP1 1.11 0.57 1.14 2.22 1.16 2.30 0.45 2.37 0.17 0.23 1.26 0.64 0.81 2.91 1.65 1.71 2.50 2.21 1.61 2.18
OP2 0.27 1.72 0.53 1.83 2.20 1.98 1.35 2.26 0.68 0.74 2.45 1.83 0.09 2.25 2.63 1.06 2.60 2.42 1.65 2.30
P 0.98 0.89 1.19 2.38 1.55 2.37 0.75 2.48 0.07 0.01 1.66 0.93 0.88 3.03 2.07 1.60 2.65 2.31 1.63 2.28

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.00 0.00 0.03 0.00 0.02 0.00 0.09 0.00 0.00 0.00 0.00 0.02 0.24 0.00 0.00 0.13 0.48 0.80 0.36
C2 0.00 0.00 0.11 0.06 0.01 0.02 0.01 0.15 0.01 0.00 0.00 0.00 0.03 0.19 0.01 0.03 0.20 0.77 0.98 0.49
C2' 0.00 0.11 0.00 0.01 0.01 0.02 0.07 0.22 0.10 0.01 0.08 0.20 0.00 0.01 0.03 0.02 0.00 0.29 0.53 0.12
C3' 0.03 0.06 0.01 0.00 0.05 0.00 0.01 0.01 0.02 0.01 0.06 0.07 0.01 0.01 0.06 0.01 0.09 0.22 0.47 0.17
C4 0.00 0.01 0.01 0.05 0.00 0.04 0.00 0.27 0.00 0.00 0.00 0.01 0.08 0.17 0.00 0.03 0.19 0.97 1.07 0.57
C4' 0.02 0.02 0.02 0.00 0.04 0.00 0.07 0.00 0.07 0.02 0.00 0.06 0.12 0.01 0.04 0.00 0.01 0.07 0.36 0.10
C5 0.00 0.01 0.07 0.01 0.00 0.07 0.00 0.31 0.00 0.01 0.01 0.01 0.13 0.18 0.00 0.01 0.16 0.92 1.04 0.54
C5' 0.09 0.15 0.22 0.01 0.27 0.00 0.31 0.00 0.29 0.19 0.20 0.08 0.08 0.16 0.27 0.01 0.00 0.01 0.11 0.01
C6 0.00 0.01 0.10 0.02 0.00 0.07 0.00 0.29 0.00 0.01 0.00 0.01 0.13 0.19 0.00 0.00 0.14 0.79 1.00 0.49
N1 0.00 0.00 0.01 0.01 0.00 0.02 0.01 0.19 0.01 0.00 0.00 0.00 0.05 0.21 0.00 0.02 0.16 0.70 0.95 0.46
N3 0.00 0.00 0.08 0.06 0.00 0.00 0.01 0.20 0.00 0.00 0.00 0.00 0.02 0.17 0.00 0.04 0.21 0.91 1.04 0.55
O2 0.00 0.00 0.20 0.07 0.01 0.06 0.01 0.08 0.01 0.00 0.00 0.00 0.16 0.18 0.01 0.03 0.20 0.69 0.92 0.45
O2' 0.02 0.03 0.00 0.01 0.08 0.12 0.13 0.08 0.13 0.05 0.02 0.16 0.00 0.07 0.08 0.05 0.01 0.17 0.51 0.07
O3' 0.24 0.19 0.01 0.01 0.17 0.01 0.18 0.16 0.19 0.21 0.17 0.18 0.07 0.00 0.16 0.20 0.17 0.17 0.40 0.20
O4 0.00 0.01 0.03 0.06 0.00 0.04 0.00 0.27 0.00 0.00 0.00 0.01 0.08 0.16 0.00 0.03 0.22 1.07 1.09 0.61
O4' 0.00 0.03 0.02 0.01 0.03 0.00 0.01 0.01 0.00 0.02 0.04 0.03 0.05 0.20 0.03 0.00 0.18 0.47 0.80 0.42
O5' 0.13 0.20 0.00 0.09 0.19 0.01 0.16 0.00 0.14 0.16 0.21 0.20 0.01 0.17 0.22 0.18 0.00 0.02 0.05 0.00
OP1 0.48 0.77 0.29 0.22 0.97 0.07 0.92 0.01 0.79 0.70 0.91 0.69 0.17 0.17 1.07 0.47 0.02 0.00 0.01 0.01
OP2 0.80 0.98 0.53 0.47 1.07 0.36 1.04 0.11 1.00 0.95 1.04 0.92 0.51 0.40 1.09 0.80 0.05 0.01 0.00 0.00
P 0.36 0.49 0.12 0.17 0.57 0.10 0.54 0.01 0.49 0.46 0.55 0.45 0.07 0.20 0.61 0.42 0.00 0.01 0.00 0.00