ClaRNA

Doublet Group distance statistics: 51703

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C6 A 0, 0.007, 0.017, 0.028, 0.039 max_d=0.039 avg_d=0.017 std_dev=0.010
C4 A 0, 0.009, 0.028, 0.047, 0.063 max_d=0.063 avg_d=0.028 std_dev=0.019
C5 A 0, 0.014, 0.035, 0.056, 0.075 max_d=0.075 avg_d=0.035 std_dev=0.021
N3 A 0, 0.015, 0.047, 0.079, 0.118 max_d=0.118 avg_d=0.047 std_dev=0.032
N6 A 0, 0.013, 0.046, 0.079, 0.109 max_d=0.109 avg_d=0.046 std_dev=0.033
N1 A 0, 0.008, 0.041, 0.074, 0.135 max_d=0.135 avg_d=0.041 std_dev=0.033
C1' A 0, 0.015, 0.050, 0.085, 0.142 max_d=0.142 avg_d=0.050 std_dev=0.035
N9 A 0, 0.018, 0.054, 0.090, 0.137 max_d=0.137 avg_d=0.054 std_dev=0.036
C2 A 0, 0.018, 0.059, 0.101, 0.152 max_d=0.152 avg_d=0.059 std_dev=0.042
C8 A 0, 0.030, 0.078, 0.126, 0.182 max_d=0.182 avg_d=0.078 std_dev=0.048
N7 A 0, 0.025, 0.073, 0.121, 0.169 max_d=0.169 avg_d=0.073 std_dev=0.048
N1 B 0, 0.390, 0.630, 0.870, 0.946 max_d=0.946 avg_d=0.630 std_dev=0.240
C6 B 0, 0.363, 0.631, 0.898, 1.007 max_d=1.007 avg_d=0.631 std_dev=0.268
C2 B 0, 0.335, 0.625, 0.915, 1.184 max_d=1.184 avg_d=0.625 std_dev=0.290
C5 B 0, 0.325, 0.623, 0.921, 1.043 max_d=1.043 avg_d=0.623 std_dev=0.298
C1' B 0, 0.480, 0.796, 1.112, 1.151 max_d=1.151 avg_d=0.796 std_dev=0.316
C4 B 0, 0.304, 0.643, 0.983, 1.434 max_d=1.434 avg_d=0.643 std_dev=0.340
N3 B 0, 0.281, 0.630, 0.979, 1.476 max_d=1.476 avg_d=0.630 std_dev=0.349
O2 B 0, 0.330, 0.704, 1.078, 1.478 max_d=1.478 avg_d=0.704 std_dev=0.374
O4' B 0, 0.482, 0.893, 1.304, 1.414 max_d=1.414 avg_d=0.893 std_dev=0.411
C2' B 0, 0.528, 0.976, 1.424, 1.818 max_d=1.818 avg_d=0.976 std_dev=0.448
O4 B 0, 0.341, 0.790, 1.240, 1.954 max_d=1.954 avg_d=0.790 std_dev=0.450
C4' B 0, 0.498, 1.063, 1.627, 1.661 max_d=1.661 avg_d=1.063 std_dev=0.564
C3' B 0, 0.480, 1.079, 1.678, 2.116 max_d=2.116 avg_d=1.079 std_dev=0.599
C5' B 0, 0.489, 1.122, 1.755, 2.039 max_d=2.039 avg_d=1.122 std_dev=0.633
O2' B 0, 0.613, 1.489, 2.365, 3.443 max_d=3.443 avg_d=1.489 std_dev=0.876
O5' B 0, 0.166, 1.206, 2.247, 2.993 max_d=2.993 avg_d=1.206 std_dev=1.041
O3' B 0, 0.718, 1.759, 2.800, 4.178 max_d=4.178 avg_d=1.759 std_dev=1.041
O4' A 0, -0.110, 0.941, 1.993, 2.645 max_d=2.645 avg_d=0.941 std_dev=1.052
C2' A 0, -0.132, 0.983, 2.098, 2.778 max_d=2.778 avg_d=0.983 std_dev=1.115
O2' A 0, -0.081, 1.224, 2.528, 3.430 max_d=3.430 avg_d=1.224 std_dev=1.304
OP1 B 0, 0.179, 1.490, 2.801, 4.185 max_d=4.185 avg_d=1.490 std_dev=1.311
P B 0, 0.076, 1.503, 2.930, 3.691 max_d=3.691 avg_d=1.503 std_dev=1.427
C4' A 0, -0.072, 1.417, 2.906, 3.757 max_d=3.757 avg_d=1.417 std_dev=1.489
C3' A 0, -0.174, 1.536, 3.246, 4.272 max_d=4.272 avg_d=1.536 std_dev=1.710
O3' A 0, -0.256, 2.113, 4.483, 5.930 max_d=5.930 avg_d=2.113 std_dev=2.369
OP2 B 0, -0.187, 2.203, 4.593, 6.419 max_d=6.419 avg_d=2.203 std_dev=2.390
C5' A 0, -0.109, 2.472, 5.052, 6.706 max_d=6.706 avg_d=2.472 std_dev=2.580
O5' A 0, 0.565, 3.594, 6.624, 8.313 max_d=8.313 avg_d=3.594 std_dev=3.030
OP1 A 0, 2.013, 5.712, 9.412, 11.730 max_d=11.730 avg_d=5.712 std_dev=3.699
OP2 A 0, 2.768, 6.544, 10.321, 12.421 max_d=12.421 avg_d=6.544 std_dev=3.777
P A 0, 1.139, 4.935, 8.731, 10.944 max_d=10.944 avg_d=4.935 std_dev=3.796

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 0.07 0.01 0.02 0.03 0.01 0.04 0.08 0.04 0.03 0.06 0.06 0.04 0.05 0.02 0.03 0.21 0.01 0.31 0.33 0.36 0.32
C2 0.07 0.00 0.33 0.47 0.04 0.75 0.01 1.30 0.02 0.05 0.01 0.01 0.02 0.02 0.06 0.55 0.38 0.67 1.23 1.36 1.52 1.37
C2' 0.01 0.33 0.00 0.01 0.15 0.02 0.06 0.14 0.11 0.22 0.23 0.35 0.07 0.16 0.04 0.01 0.04 0.01 0.25 0.29 0.34 0.21
C3' 0.02 0.47 0.01 0.00 0.21 0.01 0.18 0.02 0.23 0.34 0.37 0.44 0.22 0.29 0.13 0.02 0.01 0.03 0.32 0.48 0.42 0.31
C4 0.03 0.04 0.15 0.21 0.00 0.32 0.01 0.55 0.02 0.01 0.05 0.01 0.02 0.03 0.02 0.29 0.13 0.33 0.50 0.37 0.42 0.34
C4' 0.01 0.75 0.02 0.01 0.32 0.00 0.13 0.01 0.29 0.40 0.56 0.72 0.19 0.27 0.06 0.19 0.04 0.01 0.03 0.18 0.30 0.08
C5 0.04 0.01 0.06 0.18 0.01 0.13 0.00 0.32 0.01 0.03 0.03 0.02 0.02 0.01 0.02 0.21 0.12 0.11 0.56 0.48 0.60 0.50
C5' 0.08 1.30 0.14 0.02 0.55 0.01 0.32 0.00 0.56 0.66 1.00 1.19 0.42 0.51 0.19 0.08 0.13 0.04 0.02 0.34 0.41 0.02
C6 0.04 0.02 0.11 0.23 0.02 0.29 0.01 0.56 0.00 0.04 0.01 0.03 0.01 0.03 0.03 0.29 0.18 0.26 0.55 0.40 0.53 0.41
C8 0.03 0.05 0.22 0.34 0.01 0.40 0.03 0.66 0.04 0.00 0.06 0.03 0.04 0.01 0.02 0.29 0.26 0.39 1.19 1.32 1.47 1.38
N1 0.06 0.01 0.23 0.37 0.05 0.56 0.03 1.00 0.01 0.06 0.00 0.01 0.01 0.03 0.06 0.44 0.30 0.50 0.89 0.94 1.08 0.94
N3 0.06 0.01 0.35 0.44 0.01 0.72 0.02 1.19 0.03 0.03 0.01 0.00 0.03 0.02 0.05 0.53 0.33 0.69 1.10 1.13 1.21 1.13
N6 0.04 0.02 0.07 0.22 0.02 0.19 0.02 0.42 0.01 0.04 0.01 0.03 0.00 0.04 0.03 0.25 0.18 0.15 0.57 0.47 0.64 0.49
N7 0.05 0.02 0.16 0.29 0.03 0.27 0.01 0.51 0.03 0.01 0.03 0.02 0.04 0.00 0.04 0.24 0.23 0.25 1.07 1.22 1.40 1.26
N9 0.02 0.06 0.04 0.13 0.02 0.06 0.02 0.19 0.03 0.02 0.06 0.05 0.03 0.04 0.00 0.11 0.11 0.04 0.55 0.52 0.60 0.55
O2' 0.03 0.55 0.01 0.02 0.29 0.19 0.21 0.08 0.29 0.29 0.44 0.53 0.25 0.24 0.11 0.00 0.06 0.13 0.24 0.40 0.34 0.22
O3' 0.21 0.38 0.04 0.01 0.13 0.04 0.12 0.13 0.18 0.26 0.30 0.33 0.18 0.23 0.11 0.06 0.00 0.16 0.40 0.76 0.62 0.54
O4' 0.01 0.67 0.01 0.03 0.33 0.01 0.11 0.04 0.26 0.39 0.50 0.69 0.15 0.25 0.04 0.13 0.16 0.00 0.27 0.38 0.31 0.33
O5' 0.31 1.23 0.25 0.32 0.50 0.03 0.56 0.02 0.55 1.19 0.89 1.10 0.57 1.07 0.55 0.24 0.40 0.27 0.00 0.02 0.02 0.02
OP1 0.33 1.36 0.29 0.48 0.37 0.18 0.48 0.34 0.40 1.32 0.94 1.13 0.47 1.22 0.52 0.40 0.76 0.38 0.02 0.00 0.02 0.01
OP2 0.36 1.52 0.34 0.42 0.42 0.30 0.60 0.41 0.53 1.47 1.08 1.21 0.64 1.40 0.60 0.34 0.62 0.31 0.02 0.02 0.00 0.01
P 0.32 1.37 0.21 0.31 0.34 0.08 0.50 0.02 0.41 1.38 0.94 1.13 0.49 1.26 0.55 0.22 0.54 0.33 0.02 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.39 0.29 0.42 0.58 0.39 0.71 0.30 0.78 0.22 0.24 0.36 0.32 0.47 0.82 0.47 0.51 0.49 0.48 0.95 0.66
C2 0.36 0.31 0.30 0.31 0.29 0.46 0.19 0.46 0.30 0.25 0.38 0.39 0.36 0.41 0.45 0.50 0.76 0.68 1.88 1.04
C2' 0.70 0.73 0.76 0.74 0.80 0.75 0.77 0.90 0.74 0.72 0.77 0.70 0.86 0.73 0.84 0.70 1.30 0.96 1.69 1.54
C3' 0.72 0.85 0.91 0.88 1.17 0.82 1.25 1.10 1.13 0.90 1.00 0.70 0.83 0.85 1.24 0.72 1.69 1.59 2.26 2.16
C4 0.40 0.29 0.36 0.41 0.32 0.57 0.16 0.57 0.21 0.23 0.36 0.36 0.39 0.63 0.43 0.54 0.54 0.35 1.37 0.73
C4' 0.32 0.38 0.54 0.78 0.93 0.89 0.93 1.06 0.64 0.35 0.67 0.24 0.40 1.11 1.12 0.54 1.24 1.34 1.71 1.59
C5 0.43 0.28 0.39 0.42 0.26 0.56 0.16 0.54 0.26 0.26 0.31 0.39 0.46 0.69 0.37 0.55 0.46 0.37 1.18 0.58
C5' 0.51 0.49 0.76 1.05 1.28 1.18 1.28 1.26 0.82 0.43 0.89 0.40 0.70 1.52 1.58 0.72 1.52 1.63 2.06 1.83
C6 0.41 0.27 0.37 0.35 0.20 0.49 0.25 0.46 0.33 0.29 0.26 0.41 0.46 0.55 0.37 0.52 0.54 0.54 1.39 0.70
C8 0.44 0.33 0.47 0.62 0.33 0.73 0.23 0.74 0.22 0.27 0.36 0.39 0.57 0.99 0.40 0.56 0.39 0.39 0.68 0.38
N1 0.37 0.29 0.31 0.31 0.18 0.44 0.27 0.42 0.34 0.28 0.31 0.41 0.41 0.42 0.36 0.50 0.69 0.70 1.72 0.92
N3 0.36 0.30 0.32 0.34 0.36 0.52 0.16 0.52 0.23 0.23 0.40 0.36 0.34 0.49 0.49 0.52 0.71 0.51 1.75 0.99
N6 0.43 0.27 0.41 0.37 0.28 0.48 0.33 0.44 0.36 0.33 0.23 0.43 0.55 0.59 0.43 0.52 0.49 0.57 1.25 0.61
N7 0.46 0.31 0.47 0.55 0.30 0.66 0.19 0.64 0.23 0.27 0.34 0.40 0.57 0.91 0.38 0.57 0.36 0.34 0.77 0.36
N9 0.42 0.30 0.41 0.53 0.36 0.68 0.24 0.70 0.21 0.25 0.36 0.35 0.46 0.81 0.44 0.55 0.43 0.31 1.02 0.57
O2' 0.83 0.82 0.82 0.82 0.86 0.81 0.86 0.87 0.82 0.82 0.83 0.83 1.07 0.82 0.88 0.79 1.10 0.88 1.36 1.34
O3' 1.04 1.10 1.33 1.33 1.32 1.16 1.43 1.54 1.39 1.19 1.19 0.97 1.28 1.21 1.35 1.00 2.18 2.39 2.75 2.88
O4' 0.66 0.18 0.83 1.14 0.53 1.28 0.47 1.34 0.27 0.26 0.34 0.30 0.76 1.46 0.73 0.90 1.02 1.02 1.16 1.03
O5' 0.97 0.58 1.15 1.43 1.19 1.54 1.33 1.53 0.96 0.67 0.76 0.68 1.13 1.88 1.47 1.16 1.76 1.87 2.49 2.13
OP1 1.22 0.64 1.57 1.84 1.37 1.86 1.60 1.85 1.18 0.82 0.78 0.86 1.68 2.44 1.74 1.36 2.21 2.50 3.12 2.64
OP2 1.67 1.09 1.95 2.09 1.61 2.17 1.79 1.97 1.40 1.23 1.11 1.29 2.14 2.58 1.96 1.77 2.21 2.06 2.85 2.36
P 1.33 0.65 1.61 1.88 1.21 1.98 1.39 1.85 0.99 0.80 0.67 0.94 1.74 2.46 1.59 1.50 2.07 2.07 2.73 2.29

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.03 0.00 0.02 0.03 0.01 0.02 0.08 0.02 0.02 0.03 0.05 0.03 0.31 0.04 0.00 0.44 0.35 0.60 0.33
C2 0.03 0.00 0.15 0.25 0.02 0.07 0.03 0.10 0.03 0.01 0.01 0.00 0.31 0.21 0.03 0.08 0.66 0.61 1.04 0.59
C2' 0.00 0.15 0.00 0.01 0.06 0.03 0.11 0.22 0.14 0.03 0.12 0.26 0.01 0.06 0.07 0.02 0.61 0.65 0.64 0.61
C3' 0.02 0.25 0.01 0.00 0.40 0.01 0.41 0.03 0.36 0.24 0.33 0.18 0.04 0.02 0.43 0.02 0.33 0.47 0.23 0.38
C4 0.03 0.02 0.06 0.40 0.00 0.17 0.01 0.19 0.01 0.02 0.01 0.02 0.37 0.29 0.01 0.04 0.87 0.83 1.60 0.88
C4' 0.01 0.07 0.03 0.01 0.17 0.00 0.20 0.01 0.18 0.09 0.11 0.06 0.33 0.04 0.18 0.01 0.02 0.21 0.24 0.07
C5 0.02 0.03 0.11 0.41 0.01 0.20 0.00 0.22 0.01 0.02 0.03 0.03 0.35 0.33 0.01 0.08 0.90 0.79 1.70 0.93
C5' 0.08 0.10 0.22 0.03 0.19 0.01 0.22 0.00 0.18 0.10 0.13 0.11 0.18 0.19 0.22 0.02 0.01 0.33 0.34 0.01
C6 0.02 0.03 0.14 0.36 0.01 0.18 0.01 0.18 0.00 0.01 0.03 0.03 0.29 0.24 0.01 0.10 0.83 0.62 1.41 0.78
N1 0.02 0.01 0.03 0.24 0.02 0.09 0.02 0.10 0.01 0.00 0.01 0.02 0.21 0.16 0.03 0.03 0.66 0.52 1.03 0.57
N3 0.03 0.01 0.12 0.33 0.01 0.11 0.03 0.13 0.03 0.01 0.00 0.01 0.36 0.22 0.03 0.06 0.77 0.74 1.32 0.73
O2 0.05 0.00 0.26 0.18 0.02 0.06 0.03 0.11 0.03 0.02 0.01 0.00 0.37 0.34 0.04 0.14 0.56 0.55 0.81 0.49
O2' 0.03 0.31 0.01 0.04 0.37 0.33 0.35 0.18 0.29 0.21 0.36 0.37 0.00 0.04 0.40 0.24 0.41 0.43 0.59 0.46
O3' 0.31 0.21 0.06 0.02 0.29 0.04 0.33 0.19 0.24 0.16 0.22 0.34 0.04 0.00 0.33 0.22 0.43 0.51 0.57 0.59
O4 0.04 0.03 0.07 0.43 0.01 0.18 0.01 0.22 0.01 0.03 0.03 0.04 0.40 0.33 0.00 0.04 0.90 0.91 1.74 0.95
O4' 0.00 0.08 0.02 0.02 0.04 0.01 0.08 0.02 0.10 0.03 0.06 0.14 0.24 0.22 0.04 0.00 0.35 0.18 0.57 0.27
O5' 0.44 0.66 0.61 0.33 0.87 0.02 0.90 0.01 0.83 0.66 0.77 0.56 0.41 0.43 0.90 0.35 0.00 0.02 0.02 0.01
OP1 0.35 0.61 0.65 0.47 0.83 0.21 0.79 0.33 0.62 0.52 0.74 0.55 0.43 0.51 0.91 0.18 0.02 0.00 0.02 0.01
OP2 0.60 1.04 0.64 0.23 1.60 0.24 1.70 0.34 1.41 1.03 1.32 0.81 0.59 0.57 1.74 0.57 0.02 0.02 0.00 0.01
P 0.33 0.59 0.61 0.38 0.88 0.07 0.93 0.01 0.78 0.57 0.73 0.49 0.46 0.59 0.95 0.27 0.01 0.01 0.01 0.00