ClaRNA

Doublet Group distance statistics: 54741

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.002, 0.007, 0.011, 0.014 max_d=0.014 avg_d=0.007 std_dev=0.004
N3 A 0, 0.004, 0.012, 0.021, 0.023 max_d=0.023 avg_d=0.012 std_dev=0.008
N1 A 0, 0.006, 0.017, 0.028, 0.030 max_d=0.030 avg_d=0.017 std_dev=0.011
C2 A 0, 0.005, 0.017, 0.028, 0.033 max_d=0.033 avg_d=0.017 std_dev=0.011
C6 A 0, 0.003, 0.015, 0.026, 0.033 max_d=0.033 avg_d=0.015 std_dev=0.012
C1' A 0, 0.005, 0.017, 0.028, 0.035 max_d=0.035 avg_d=0.017 std_dev=0.012
C4 A 0, 0.003, 0.015, 0.027, 0.034 max_d=0.034 avg_d=0.015 std_dev=0.012
O2 A 0, 0.009, 0.037, 0.065, 0.083 max_d=0.083 avg_d=0.037 std_dev=0.028
N4 A 0, 0.005, 0.049, 0.092, 0.123 max_d=0.123 avg_d=0.049 std_dev=0.043
P B 0, 0.099, 0.310, 0.521, 0.576 max_d=0.576 avg_d=0.310 std_dev=0.211
OP2 B 0, 0.088, 0.628, 1.169, 1.444 max_d=1.444 avg_d=0.628 std_dev=0.541
O4' A 0, 0.013, 0.606, 1.199, 1.566 max_d=1.566 avg_d=0.606 std_dev=0.593
C2' A 0, 0.012, 0.641, 1.270, 1.605 max_d=1.605 avg_d=0.641 std_dev=0.629
OP1 B 0, 0.031, 0.799, 1.566, 2.241 max_d=2.241 avg_d=0.799 std_dev=0.767
C3' A 0, -0.018, 0.840, 1.699, 2.287 max_d=2.287 avg_d=0.840 std_dev=0.859
O5' B 0, 0.185, 1.074, 1.963, 2.859 max_d=2.859 avg_d=1.074 std_dev=0.889
C4' A 0, -0.009, 0.903, 1.815, 2.421 max_d=2.421 avg_d=0.903 std_dev=0.912
O2' A 0, 0.002, 0.991, 1.979, 2.515 max_d=2.515 avg_d=0.991 std_dev=0.988
C5' B 0, -0.275, 0.784, 1.842, 3.299 max_d=3.299 avg_d=0.784 std_dev=1.058
O3' A 0, -0.161, 0.902, 1.965, 2.669 max_d=2.669 avg_d=0.902 std_dev=1.063
C5' A 0, 0.031, 1.343, 2.655, 3.456 max_d=3.456 avg_d=1.343 std_dev=1.312
O5' A 0, 0.023, 1.458, 2.894, 3.636 max_d=3.636 avg_d=1.458 std_dev=1.436
C4' B 0, -0.454, 1.377, 3.207, 5.671 max_d=5.671 avg_d=1.377 std_dev=1.831
P A 0, 0.033, 2.044, 4.056, 5.639 max_d=5.639 avg_d=2.044 std_dev=2.012
OP1 A 0, 0.282, 2.388, 4.495, 5.006 max_d=5.006 avg_d=2.388 std_dev=2.107
O4' B 0, -0.324, 1.841, 4.005, 6.550 max_d=6.550 avg_d=1.841 std_dev=2.165
C3' B 0, -0.555, 1.784, 4.124, 7.214 max_d=7.214 avg_d=1.784 std_dev=2.339
C8 B 0, -0.238, 2.105, 4.448, 7.269 max_d=7.269 avg_d=2.105 std_dev=2.343
N7 B 0, -0.226, 2.234, 4.695, 7.771 max_d=7.771 avg_d=2.234 std_dev=2.461
OP2 A 0, -0.266, 2.346, 4.959, 7.818 max_d=7.818 avg_d=2.346 std_dev=2.613
O3' B 0, -0.337, 2.342, 5.021, 8.182 max_d=8.182 avg_d=2.342 std_dev=2.679
N9 B 0, -0.501, 2.209, 4.918, 8.331 max_d=8.331 avg_d=2.209 std_dev=2.710
C1' B 0, -0.547, 2.241, 5.028, 8.419 max_d=8.419 avg_d=2.241 std_dev=2.788
C5 B 0, -0.496, 2.393, 5.282, 9.097 max_d=9.097 avg_d=2.393 std_dev=2.889
C2' B 0, -0.557, 2.406, 5.369, 9.074 max_d=9.074 avg_d=2.406 std_dev=2.963
C4 B 0, -0.691, 2.433, 5.557, 9.715 max_d=9.715 avg_d=2.433 std_dev=3.124
N6 B 0, -0.464, 2.671, 5.806, 9.979 max_d=9.979 avg_d=2.671 std_dev=3.135
C6 B 0, -0.635, 2.614, 5.863, 10.253 max_d=10.253 avg_d=2.614 std_dev=3.249
O2' B 0, -0.373, 3.114, 6.602, 10.618 max_d=10.618 avg_d=3.114 std_dev=3.487
N3 B 0, -1.003, 2.746, 6.495, 11.627 max_d=11.627 avg_d=2.746 std_dev=3.749
N1 B 0, -0.983, 2.858, 6.698, 12.002 max_d=12.002 avg_d=2.858 std_dev=3.840
C2 B 0, -1.146, 2.929, 7.004, 12.658 max_d=12.658 avg_d=2.929 std_dev=4.075

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 0.02 0.01 0.01 0.07 0.01 0.01 0.02 0.02 0.03 0.02 0.29 0.00 0.38 0.23 0.18 0.27
C2 0.02 0.00 0.26 0.33 0.01 0.07 0.01 0.13 0.01 0.01 0.00 0.01 0.00 0.11 0.10 0.22 0.47 0.18 0.22 0.32
C2' 0.00 0.26 0.00 0.00 0.03 0.01 0.21 0.22 0.28 0.01 0.19 0.04 0.47 0.00 0.04 0.01 0.55 0.48 0.68 0.58
C3' 0.02 0.33 0.00 0.00 0.36 0.00 0.28 0.01 0.21 0.23 0.38 0.39 0.31 0.02 0.01 0.02 0.15 0.31 0.14 0.17
C4 0.02 0.01 0.03 0.36 0.00 0.12 0.00 0.12 0.01 0.01 0.00 0.00 0.01 0.34 0.15 0.04 0.77 0.42 0.70 0.74
C4' 0.01 0.07 0.01 0.00 0.12 0.00 0.19 0.01 0.20 0.08 0.08 0.13 0.14 0.30 0.02 0.00 0.02 0.14 0.39 0.08
C5 0.01 0.01 0.21 0.28 0.00 0.19 0.00 0.18 0.00 0.01 0.00 0.01 0.01 0.50 0.12 0.15 0.92 0.57 0.94 0.96
C5' 0.07 0.13 0.22 0.01 0.12 0.01 0.18 0.00 0.17 0.05 0.12 0.14 0.21 0.08 0.21 0.01 0.01 0.17 0.29 0.02
C6 0.01 0.01 0.28 0.21 0.01 0.20 0.00 0.17 0.00 0.00 0.01 0.01 0.01 0.48 0.05 0.22 0.87 0.53 0.76 0.85
N1 0.01 0.01 0.01 0.23 0.01 0.08 0.01 0.05 0.00 0.00 0.01 0.02 0.01 0.21 0.09 0.02 0.59 0.30 0.28 0.47
N3 0.02 0.00 0.19 0.38 0.00 0.08 0.00 0.12 0.01 0.01 0.00 0.01 0.01 0.17 0.12 0.17 0.59 0.26 0.41 0.47
N4 0.02 0.01 0.04 0.39 0.00 0.13 0.01 0.14 0.01 0.02 0.01 0.00 0.01 0.36 0.19 0.05 0.80 0.45 0.82 0.80
O2 0.03 0.00 0.47 0.31 0.01 0.14 0.01 0.21 0.01 0.01 0.01 0.01 0.00 0.33 0.15 0.36 0.27 0.06 0.34 0.08
O2' 0.02 0.11 0.00 0.02 0.34 0.30 0.50 0.08 0.48 0.21 0.17 0.36 0.33 0.00 0.07 0.22 0.48 0.46 0.83 0.58
O3' 0.29 0.10 0.04 0.01 0.15 0.02 0.12 0.21 0.05 0.09 0.12 0.19 0.15 0.07 0.00 0.22 0.15 0.45 0.18 0.19
O4' 0.00 0.22 0.01 0.02 0.04 0.00 0.15 0.01 0.22 0.02 0.17 0.05 0.36 0.22 0.22 0.00 0.26 0.17 0.37 0.12
O5' 0.38 0.47 0.55 0.15 0.77 0.02 0.92 0.01 0.87 0.59 0.59 0.80 0.27 0.48 0.15 0.26 0.00 0.02 0.04 0.01
OP1 0.23 0.18 0.48 0.31 0.42 0.14 0.57 0.17 0.53 0.30 0.26 0.45 0.06 0.46 0.45 0.17 0.02 0.00 0.01 0.00
OP2 0.18 0.22 0.68 0.14 0.70 0.39 0.94 0.29 0.76 0.28 0.41 0.82 0.34 0.83 0.18 0.37 0.04 0.01 0.00 0.02
P 0.27 0.32 0.58 0.17 0.74 0.08 0.96 0.02 0.85 0.47 0.47 0.80 0.08 0.58 0.19 0.12 0.01 0.00 0.02 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 2.12 3.32 2.44 1.99 2.53 1.51 2.23 0.91 2.52 1.55 3.05 3.11 2.23 1.63 2.07 2.59 2.01 1.59 0.74 0.20 0.43 0.17
C2 1.68 2.86 1.89 1.49 2.14 1.19 1.98 0.73 2.33 1.28 2.75 2.60 2.18 1.44 1.70 1.98 1.40 1.32 0.66 0.29 0.37 0.18
C2' 1.75 2.97 2.18 1.86 2.12 1.35 1.83 0.98 2.18 1.09 2.72 2.72 1.96 1.21 1.65 2.34 1.98 1.29 0.99 0.57 0.49 0.56
C3' 2.15 3.19 2.61 2.22 2.44 1.64 2.11 1.01 2.38 1.49 2.89 3.02 2.14 1.56 2.03 2.83 2.41 1.62 0.82 0.29 0.54 0.24
C4 1.30 2.06 1.34 0.99 1.66 0.88 1.58 0.56 1.79 1.06 1.98 1.94 1.73 1.22 1.34 1.36 0.81 1.13 0.59 0.35 0.33 0.18
C4' 2.55 3.45 2.98 2.47 2.75 1.93 2.35 1.20 2.55 1.80 3.07 3.35 2.22 1.79 2.38 3.25 2.61 2.01 0.94 0.46 0.62 0.40
C5 1.40 2.03 1.51 1.24 1.71 1.03 1.61 0.66 1.75 1.14 1.92 1.97 1.64 1.29 1.43 1.50 1.07 1.18 0.64 0.27 0.42 0.18
C5' 2.62 3.23 3.06 2.61 2.68 2.08 2.27 1.33 2.41 1.82 2.86 3.21 2.09 1.76 2.39 3.37 2.80 2.13 1.08 0.63 0.65 0.52
C6 1.73 2.53 1.97 1.66 2.10 1.28 1.91 0.81 2.08 1.36 2.36 2.44 1.88 1.48 1.74 1.99 1.55 1.36 0.71 0.22 0.44 0.18
N1 1.85 2.95 2.11 1.73 2.29 1.33 2.07 0.82 2.36 1.41 2.77 2.75 2.13 1.53 1.85 2.19 1.67 1.42 0.70 0.23 0.42 0.18
N3 1.44 2.47 1.54 1.17 1.87 0.98 1.76 0.61 2.08 1.14 2.39 2.24 2.01 1.31 1.48 1.61 1.01 1.19 0.61 0.34 0.32 0.18
N4 1.06 1.61 0.95 0.57 1.35 0.63 1.31 0.39 1.45 0.93 1.56 1.52 1.43 1.07 1.12 0.98 0.36 1.01 0.54 0.41 0.24 0.17
O2 1.76 3.07 1.99 1.56 2.22 1.23 2.03 0.75 2.43 1.31 2.95 2.75 2.28 1.45 1.76 2.13 1.50 1.37 0.66 0.29 0.36 0.18
O2' 1.51 2.84 1.96 1.62 1.90 1.11 1.58 0.92 1.96 0.84 2.57 2.56 1.73 0.96 1.41 2.15 1.77 1.01 1.09 1.00 0.76 0.93
O3' 2.12 3.15 2.62 2.21 2.35 1.62 1.97 0.97 2.23 1.37 2.81 2.98 1.94 1.39 1.95 2.91 2.45 1.59 0.77 0.37 0.52 0.26
O4' 2.60 3.57 2.93 2.38 2.88 1.90 2.49 1.20 2.68 1.92 3.19 3.47 2.33 1.92 2.49 3.12 2.38 2.05 0.89 0.43 0.65 0.41
O5' 3.17 3.66 3.56 3.27 3.24 2.75 2.89 2.09 2.99 2.48 3.36 3.66 2.71 2.43 2.99 3.73 3.41 2.76 1.90 1.21 1.07 1.27
OP1 2.87 3.06 3.18 2.93 2.74 2.60 2.42 1.96 2.47 2.16 2.78 3.10 2.24 2.07 2.60 3.51 3.25 2.58 1.78 1.32 0.96 1.24
OP2 3.23 3.19 3.41 3.39 3.04 3.23 2.77 2.85 2.77 2.63 2.96 3.27 2.57 2.53 2.98 3.55 3.52 3.12 2.62 2.26 1.58 2.11
P 3.39 3.51 3.70 3.55 3.25 3.19 2.92 2.58 2.94 2.69 3.23 3.58 2.69 2.58 3.13 3.91 3.81 3.13 2.37 1.75 1.38 1.75

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.02 0.01 0.01 0.01 0.09 0.02 0.01 0.02 0.02 0.01 0.01 0.01 0.02 0.06 0.00 0.35 0.09 0.54 0.26
C2 0.02 0.00 0.22 0.18 0.01 0.11 0.01 0.21 0.00 0.01 0.00 0.00 0.01 0.01 0.01 0.37 0.25 0.06 0.45 0.43 0.55 0.26
C2' 0.00 0.22 0.00 0.01 0.11 0.03 0.08 0.04 0.10 0.13 0.16 0.24 0.10 0.11 0.04 0.00 0.03 0.03 0.18 0.27 0.45 0.12
C3' 0.02 0.18 0.01 0.00 0.16 0.01 0.33 0.02 0.29 0.48 0.19 0.19 0.39 0.49 0.24 0.02 0.01 0.02 0.11 0.42 0.55 0.28
C4 0.01 0.01 0.11 0.16 0.00 0.13 0.00 0.31 0.00 0.01 0.01 0.01 0.00 0.00 0.00 0.23 0.12 0.03 0.33 0.27 0.59 0.20
C4' 0.01 0.11 0.03 0.01 0.13 0.00 0.27 0.01 0.24 0.43 0.14 0.11 0.32 0.42 0.20 0.13 0.03 0.00 0.02 0.17 0.43 0.10
C5 0.01 0.01 0.08 0.33 0.00 0.27 0.00 0.54 0.00 0.01 0.01 0.01 0.01 0.00 0.00 0.18 0.30 0.02 0.22 0.42 0.67 0.26
C5' 0.09 0.21 0.04 0.02 0.31 0.01 0.54 0.00 0.51 0.76 0.33 0.16 0.64 0.78 0.38 0.12 0.07 0.02 0.01 0.35 0.40 0.01
C6 0.02 0.00 0.10 0.29 0.00 0.24 0.00 0.51 0.00 0.01 0.00 0.01 0.00 0.00 0.01 0.24 0.29 0.02 0.20 0.50 0.65 0.26
C8 0.01 0.01 0.13 0.48 0.01 0.43 0.01 0.76 0.01 0.00 0.01 0.01 0.01 0.00 0.00 0.05 0.44 0.07 0.35 0.45 0.71 0.37
N1 0.02 0.00 0.16 0.19 0.01 0.14 0.01 0.33 0.00 0.01 0.00 0.00 0.01 0.00 0.01 0.32 0.20 0.05 0.32 0.47 0.58 0.22
N3 0.02 0.00 0.24 0.19 0.01 0.11 0.01 0.16 0.01 0.01 0.00 0.00 0.00 0.01 0.01 0.35 0.25 0.06 0.47 0.34 0.55 0.28
N6 0.01 0.01 0.10 0.39 0.00 0.32 0.01 0.64 0.00 0.01 0.01 0.00 0.00 0.02 0.01 0.21 0.40 0.02 0.17 0.63 0.72 0.38
N7 0.01 0.01 0.11 0.49 0.00 0.42 0.00 0.78 0.00 0.00 0.00 0.01 0.02 0.00 0.01 0.08 0.47 0.05 0.32 0.54 0.77 0.43
N9 0.01 0.01 0.04 0.24 0.00 0.20 0.00 0.38 0.01 0.00 0.01 0.01 0.01 0.01 0.00 0.09 0.17 0.02 0.29 0.20 0.60 0.21
O2' 0.02 0.37 0.00 0.02 0.23 0.13 0.18 0.12 0.24 0.05 0.32 0.35 0.21 0.08 0.09 0.00 0.09 0.18 0.09 0.42 0.50 0.23
O3' 0.06 0.25 0.03 0.01 0.12 0.03 0.30 0.07 0.29 0.44 0.20 0.25 0.40 0.47 0.17 0.09 0.00 0.04 0.38 0.81 0.73 0.58
O4' 0.00 0.06 0.03 0.02 0.03 0.00 0.02 0.02 0.02 0.07 0.05 0.06 0.02 0.05 0.02 0.18 0.04 0.00 0.42 0.34 0.58 0.43
O5' 0.35 0.45 0.18 0.11 0.33 0.02 0.22 0.01 0.20 0.35 0.32 0.47 0.17 0.32 0.29 0.09 0.38 0.42 0.00 0.03 0.02 0.00
OP1 0.09 0.43 0.27 0.42 0.27 0.17 0.42 0.35 0.50 0.45 0.47 0.34 0.63 0.54 0.20 0.42 0.81 0.34 0.03 0.00 0.04 0.01
OP2 0.54 0.55 0.45 0.55 0.59 0.43 0.67 0.40 0.65 0.71 0.58 0.55 0.72 0.77 0.60 0.50 0.73 0.58 0.02 0.04 0.00 0.01
P 0.26 0.26 0.12 0.28 0.20 0.10 0.26 0.01 0.26 0.37 0.22 0.28 0.38 0.43 0.21 0.23 0.58 0.43 0.00 0.01 0.01 0.00