ClaRNA

Doublet Group distance statistics: 21085

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Distances from reference structure (by RMSD)

35, 121, 148, 29, 5, 1, 0, 10, 24, 2, 0, 14, 13, 3, 4, 4, 30, 6, 38, 13,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4 B 0, 0.049, 0.205, 0.361, 0.759 max_d=0.759 avg_d=0.205 std_dev=0.156
N3 B 0, 0.052, 0.331, 0.610, 1.703 max_d=1.703 avg_d=0.331 std_dev=0.279
N1 A 0, -0.008, 0.289, 0.586, 1.100 max_d=1.100 avg_d=0.289 std_dev=0.297
C5 B 0, 0.007, 0.436, 0.865, 1.780 max_d=1.780 avg_d=0.436 std_dev=0.429
C2 A 0, -0.002, 0.518, 1.039, 2.149 max_d=2.149 avg_d=0.518 std_dev=0.520
C2 B 0, 0.006, 0.535, 1.064, 2.991 max_d=2.991 avg_d=0.535 std_dev=0.529
C6 A 0, -0.046, 0.533, 1.112, 2.595 max_d=2.595 avg_d=0.533 std_dev=0.579
N9 B 0, -0.069, 0.516, 1.100, 2.493 max_d=2.493 avg_d=0.516 std_dev=0.585
C6 B 0, -0.009, 0.595, 1.199, 1.989 max_d=1.989 avg_d=0.595 std_dev=0.604
N1 B 0, -0.027, 0.638, 1.302, 2.764 max_d=2.764 avg_d=0.638 std_dev=0.664
N3 A 0, -0.036, 0.701, 1.438, 3.358 max_d=3.358 avg_d=0.701 std_dev=0.737
C5 A 0, -0.076, 0.701, 1.478, 3.732 max_d=3.732 avg_d=0.701 std_dev=0.777
C4 A 0, -0.086, 0.705, 1.496, 3.897 max_d=3.897 avg_d=0.705 std_dev=0.791
N7 B 0, -0.040, 0.752, 1.545, 3.906 max_d=3.906 avg_d=0.752 std_dev=0.792
C8 B 0, -0.090, 0.762, 1.615, 4.284 max_d=4.284 avg_d=0.762 std_dev=0.852
C1' B 0, -0.115, 0.740, 1.596, 2.804 max_d=2.804 avg_d=0.740 std_dev=0.856
C1' A 0, -0.177, 0.729, 1.636, 3.778 max_d=3.778 avg_d=0.729 std_dev=0.907
N6 B 0, -0.038, 0.932, 1.901, 3.086 max_d=3.086 avg_d=0.932 std_dev=0.969
C2' B 0, -0.104, 0.943, 1.990, 5.612 max_d=5.612 avg_d=0.943 std_dev=1.047
O2 A 0, -0.095, 0.960, 2.015, 4.363 max_d=4.363 avg_d=0.960 std_dev=1.055
O2' B 0, 0.005, 1.128, 2.251, 6.853 max_d=6.853 avg_d=1.128 std_dev=1.123
O4' A 0, -0.178, 0.950, 2.077, 4.845 max_d=4.845 avg_d=0.950 std_dev=1.127
O3' B 0, 0.133, 1.285, 2.437, 6.271 max_d=6.271 avg_d=1.285 std_dev=1.152
C3' B 0, 0.041, 1.200, 2.358, 5.814 max_d=5.814 avg_d=1.200 std_dev=1.159
O4' B 0, -0.168, 1.076, 2.321, 4.192 max_d=4.192 avg_d=1.076 std_dev=1.245
N4 A 0, -0.204, 1.139, 2.481, 6.347 max_d=6.347 avg_d=1.139 std_dev=1.343
C4' B 0, -0.209, 1.352, 2.914, 5.552 max_d=5.552 avg_d=1.352 std_dev=1.562
C2' A 0, -0.463, 1.157, 2.776, 5.539 max_d=5.539 avg_d=1.157 std_dev=1.620
C4' A 0, -0.330, 1.533, 3.396, 6.420 max_d=6.420 avg_d=1.533 std_dev=1.863
C3' A 0, -0.354, 1.605, 3.565, 6.893 max_d=6.893 avg_d=1.605 std_dev=1.960
O5' B 0, -0.252, 1.800, 3.852, 7.836 max_d=7.836 avg_d=1.800 std_dev=2.052
O2' A 0, -0.349, 1.736, 3.820, 7.372 max_d=7.372 avg_d=1.736 std_dev=2.085
C5' B 0, -0.273, 1.832, 3.937, 7.865 max_d=7.865 avg_d=1.832 std_dev=2.105
O5' A 0, -0.274, 1.925, 4.123, 8.967 max_d=8.967 avg_d=1.925 std_dev=2.198
C5' A 0, -0.300, 1.916, 4.132, 8.211 max_d=8.211 avg_d=1.916 std_dev=2.216
OP2 B 0, -0.224, 2.148, 4.519, 11.748 max_d=11.748 avg_d=2.148 std_dev=2.371
OP2 A 0, 0.458, 2.919, 5.380, 11.775 max_d=11.775 avg_d=2.919 std_dev=2.461
P A 0, -0.167, 2.507, 5.181, 11.860 max_d=11.860 avg_d=2.507 std_dev=2.674
O3' A 0, -0.407, 2.313, 5.033, 9.470 max_d=9.470 avg_d=2.313 std_dev=2.720
P B 0, -0.561, 2.173, 4.906, 9.803 max_d=9.803 avg_d=2.173 std_dev=2.733
OP1 B 0, -0.380, 2.758, 5.896, 10.700 max_d=10.700 avg_d=2.758 std_dev=3.138
OP1 A 0, -0.075, 3.232, 6.539, 13.655 max_d=13.655 avg_d=3.232 std_dev=3.307

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 0.01 0.02 0.01 0.01 0.05 0.01 0.01 0.02 0.02 0.03 0.02 0.24 0.01 0.18 0.50 0.29 0.18
C2 0.02 0.00 0.14 0.19 0.01 0.08 0.01 0.14 0.01 0.01 0.00 0.01 0.01 0.15 0.19 0.11 0.32 0.74 0.42 0.22
C2' 0.00 0.14 0.00 0.00 0.05 0.01 0.11 0.15 0.14 0.02 0.10 0.06 0.25 0.00 0.03 0.02 0.39 0.55 0.38 0.40
C3' 0.01 0.19 0.00 0.00 0.29 0.01 0.32 0.02 0.29 0.18 0.24 0.31 0.19 0.02 0.01 0.02 0.22 0.33 0.16 0.17
C4 0.02 0.01 0.05 0.29 0.00 0.13 0.00 0.18 0.01 0.01 0.00 0.00 0.01 0.31 0.11 0.03 0.46 0.91 0.70 0.37
C4' 0.01 0.08 0.01 0.01 0.13 0.00 0.20 0.01 0.20 0.07 0.08 0.14 0.16 0.23 0.02 0.00 0.02 0.17 0.32 0.07
C5 0.01 0.01 0.11 0.32 0.00 0.20 0.00 0.25 0.00 0.01 0.01 0.01 0.01 0.35 0.20 0.09 0.53 0.93 0.74 0.45
C5' 0.05 0.14 0.15 0.02 0.18 0.01 0.25 0.00 0.23 0.09 0.15 0.21 0.25 0.09 0.17 0.02 0.01 0.27 0.37 0.02
C6 0.01 0.01 0.14 0.29 0.01 0.20 0.00 0.23 0.00 0.00 0.01 0.01 0.02 0.30 0.17 0.12 0.46 0.81 0.54 0.36
N1 0.01 0.01 0.02 0.18 0.01 0.07 0.01 0.09 0.00 0.00 0.01 0.01 0.02 0.17 0.09 0.02 0.30 0.68 0.36 0.20
N3 0.02 0.00 0.10 0.24 0.00 0.08 0.01 0.15 0.01 0.01 0.00 0.01 0.01 0.23 0.13 0.08 0.39 0.84 0.55 0.28
N4 0.02 0.01 0.06 0.31 0.00 0.14 0.01 0.21 0.01 0.01 0.01 0.00 0.02 0.35 0.15 0.04 0.50 0.96 0.81 0.43
O2 0.03 0.01 0.25 0.19 0.01 0.16 0.01 0.25 0.02 0.02 0.01 0.02 0.00 0.16 0.35 0.19 0.33 0.72 0.42 0.30
O2' 0.02 0.15 0.00 0.02 0.31 0.23 0.35 0.09 0.30 0.17 0.23 0.35 0.16 0.00 0.05 0.16 0.25 0.41 0.43 0.32
O3' 0.24 0.19 0.03 0.01 0.11 0.02 0.20 0.17 0.17 0.09 0.13 0.15 0.35 0.05 0.00 0.16 0.23 0.48 0.27 0.27
O4' 0.01 0.11 0.02 0.02 0.03 0.00 0.09 0.02 0.12 0.02 0.08 0.04 0.19 0.16 0.16 0.00 0.09 0.40 0.42 0.20
O5' 0.18 0.32 0.39 0.22 0.46 0.02 0.53 0.01 0.46 0.30 0.39 0.50 0.33 0.25 0.23 0.09 0.00 0.02 0.02 0.01
OP1 0.50 0.74 0.55 0.33 0.91 0.17 0.93 0.27 0.81 0.68 0.84 0.96 0.72 0.41 0.48 0.40 0.02 0.00 0.01 0.01
OP2 0.29 0.42 0.38 0.16 0.70 0.32 0.74 0.37 0.54 0.36 0.55 0.81 0.42 0.43 0.27 0.42 0.02 0.01 0.00 0.01
P 0.18 0.22 0.40 0.17 0.37 0.07 0.45 0.02 0.36 0.20 0.28 0.43 0.30 0.32 0.27 0.20 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' 1.10 0.70 1.43 1.62 0.40 1.64 0.42 2.07 0.64 1.18 0.90 0.38 0.95 0.90 0.89 1.37 1.48 1.37 2.35 3.24 2.20 2.84
C2 0.54 0.72 0.72 0.80 0.29 0.76 0.37 1.08 0.34 0.85 0.67 0.49 0.47 0.82 0.53 0.77 0.68 0.68 1.37 2.44 1.31 1.86
C2' 1.41 0.76 1.72 1.98 0.51 2.09 0.51 2.58 0.72 1.52 1.04 0.38 1.13 1.14 1.16 1.56 1.84 1.77 2.86 3.90 2.75 3.41
C3' 1.70 0.77 2.14 2.41 0.57 2.50 0.39 2.99 0.89 1.41 1.12 0.54 1.45 0.85 1.25 1.98 2.28 2.06 3.23 3.88 2.90 3.64
C4 0.42 0.42 0.55 0.63 0.22 0.44 0.17 0.47 0.30 0.41 0.41 0.35 0.43 0.34 0.34 0.75 0.64 0.38 0.62 1.36 0.76 0.87
C4' 1.54 0.71 2.04 2.35 0.47 2.34 0.36 2.80 0.87 1.15 1.03 0.50 1.41 0.69 1.07 1.98 2.26 1.85 3.00 3.46 2.71 3.35
C5 0.53 0.50 0.79 0.76 0.32 0.60 0.32 0.71 0.48 0.46 0.55 0.43 0.60 0.40 0.41 1.11 0.75 0.48 0.87 1.43 0.87 1.06
C5' 1.57 0.71 2.17 2.52 0.50 2.41 0.49 2.77 1.02 0.93 1.05 0.60 1.62 0.62 1.00 2.20 2.54 1.84 2.84 2.95 2.44 2.97
C6 0.86 0.51 1.20 1.22 0.38 1.11 0.34 1.31 0.56 0.73 0.65 0.40 0.81 0.54 0.66 1.38 1.16 0.91 1.49 2.07 1.22 1.72
N1 0.80 0.61 1.09 1.18 0.30 1.16 0.32 1.48 0.49 0.93 0.74 0.33 0.70 0.74 0.68 1.13 1.06 0.97 1.74 2.60 1.55 2.14
N3 0.46 0.61 0.57 0.63 0.32 0.48 0.31 0.60 0.26 0.58 0.43 0.53 0.49 0.63 0.41 0.69 0.64 0.45 0.83 1.84 0.85 1.23
N4 0.85 0.46 0.97 1.10 0.38 0.93 0.24 0.82 0.49 0.58 0.59 0.44 0.71 0.37 0.64 1.00 1.15 0.82 0.72 0.98 0.99 0.66
O2 0.66 0.91 0.79 0.89 0.41 0.90 0.50 1.27 0.45 1.02 0.81 0.66 0.62 1.02 0.63 0.79 0.78 0.82 1.58 2.82 1.62 2.17
O2' 1.52 1.02 1.76 2.06 0.86 2.24 0.96 2.80 1.04 1.75 1.25 0.73 1.34 1.49 1.35 1.56 1.89 1.92 3.09 4.27 3.26 3.78
O3' 1.95 0.79 2.38 2.77 0.62 2.95 0.41 3.56 0.95 1.54 1.18 0.56 1.58 0.90 1.39 2.15 2.62 2.42 3.78 4.50 3.66 4.39
O4' 1.22 0.66 1.67 1.88 0.42 1.85 0.37 2.25 0.73 1.02 0.90 0.44 1.13 0.69 0.89 1.66 1.80 1.47 2.48 3.07 2.23 2.86
O5' 1.68 0.91 2.29 2.59 0.77 2.37 0.70 2.53 1.12 0.87 1.11 0.92 1.68 0.69 1.09 2.41 2.68 1.83 2.50 2.44 1.84 2.40
OP1 1.92 1.31 2.54 2.95 1.14 2.61 1.06 2.59 1.37 0.96 1.35 1.39 1.91 1.04 1.28 2.79 3.21 2.01 2.32 1.89 1.69 2.00
OP2 1.35 1.20 1.89 2.08 0.98 1.74 1.20 1.64 1.47 0.96 1.32 1.16 1.94 1.34 0.94 2.36 2.44 1.32 1.42 1.26 1.24 1.20
P 1.57 0.96 2.20 2.54 0.80 2.22 0.86 2.22 1.20 0.76 1.09 1.00 1.77 0.93 0.97 2.47 2.82 1.67 2.03 1.76 1.44 1.78

Atoms distances Chain-B - Chain-B

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 0.08 0.02 0.02 0.03 0.03 0.02 0.01 0.00 0.02 0.29 0.00 0.20 0.78 0.26 0.28
C2 0.03 0.00 0.28 0.20 0.01 0.26 0.01 0.40 0.01 0.01 0.00 0.00 0.01 0.01 0.01 0.52 0.37 0.33 0.43 1.10 0.80 0.51
C2' 0.00 0.28 0.00 0.00 0.15 0.02 0.08 0.19 0.14 0.15 0.23 0.27 0.11 0.08 0.02 0.00 0.04 0.02 0.43 0.71 0.52 0.51
C3' 0.02 0.20 0.00 0.00 0.20 0.00 0.28 0.02 0.28 0.32 0.24 0.18 0.32 0.34 0.19 0.02 0.01 0.02 0.14 0.38 0.32 0.19
C4 0.02 0.01 0.15 0.20 0.00 0.13 0.00 0.22 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.31 0.21 0.18 0.30 1.09 0.59 0.35
C4' 0.01 0.26 0.02 0.00 0.13 0.00 0.12 0.01 0.15 0.21 0.21 0.24 0.15 0.18 0.08 0.26 0.03 0.01 0.02 0.23 0.24 0.08
C5 0.01 0.01 0.08 0.28 0.00 0.12 0.00 0.22 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.30 0.13 0.09 0.36 1.27 0.75 0.44
C5' 0.08 0.40 0.19 0.02 0.22 0.01 0.22 0.00 0.27 0.31 0.35 0.36 0.27 0.28 0.14 0.10 0.19 0.01 0.01 0.17 0.39 0.02
C6 0.02 0.01 0.14 0.28 0.01 0.15 0.01 0.27 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.37 0.17 0.16 0.38 1.27 0.84 0.45
C8 0.02 0.01 0.15 0.32 0.01 0.21 0.01 0.31 0.01 0.00 0.01 0.01 0.02 0.00 0.00 0.33 0.17 0.18 0.48 1.36 0.69 0.60
N1 0.03 0.00 0.23 0.24 0.01 0.21 0.01 0.35 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.46 0.26 0.26 0.40 1.19 0.84 0.47
N3 0.03 0.00 0.27 0.18 0.00 0.24 0.01 0.36 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.48 0.39 0.33 0.38 1.01 0.66 0.44
N6 0.02 0.01 0.11 0.32 0.01 0.15 0.01 0.27 0.00 0.02 0.01 0.01 0.00 0.03 0.02 0.36 0.17 0.12 0.42 1.36 0.95 0.50
N7 0.01 0.01 0.08 0.34 0.01 0.18 0.00 0.28 0.01 0.00 0.01 0.01 0.03 0.00 0.01 0.32 0.19 0.10 0.48 1.43 0.85 0.60
N9 0.00 0.01 0.02 0.19 0.01 0.08 0.01 0.14 0.01 0.00 0.01 0.01 0.02 0.01 0.00 0.18 0.12 0.02 0.28 1.06 0.45 0.36
O2' 0.02 0.52 0.00 0.02 0.31 0.26 0.30 0.10 0.37 0.33 0.46 0.48 0.36 0.32 0.18 0.00 0.06 0.18 0.33 0.62 0.62 0.45
O3' 0.29 0.37 0.04 0.01 0.21 0.03 0.13 0.19 0.17 0.17 0.26 0.39 0.17 0.19 0.12 0.06 0.00 0.20 0.21 0.50 0.38 0.28
O4' 0.00 0.33 0.02 0.02 0.18 0.01 0.09 0.01 0.16 0.18 0.26 0.33 0.12 0.10 0.02 0.18 0.20 0.00 0.10 0.70 0.21 0.23
O5' 0.20 0.43 0.43 0.14 0.30 0.02 0.36 0.01 0.38 0.48 0.40 0.38 0.42 0.48 0.28 0.33 0.21 0.10 0.00 0.02 0.02 0.01
OP1 0.78 1.10 0.71 0.38 1.09 0.23 1.27 0.17 1.27 1.36 1.19 1.01 1.36 1.43 1.06 0.62 0.50 0.70 0.02 0.00 0.01 0.01
OP2 0.26 0.80 0.52 0.32 0.59 0.24 0.75 0.39 0.84 0.69 0.84 0.66 0.95 0.85 0.45 0.62 0.38 0.21 0.02 0.01 0.00 0.01
P 0.28 0.51 0.51 0.19 0.35 0.08 0.44 0.02 0.45 0.60 0.47 0.44 0.50 0.60 0.36 0.45 0.28 0.23 0.01 0.01 0.01 0.00