ClaRNA

Doublet Group distance statistics: 41163

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Distances from reference structure (by RMSD)

1, 0, 4, 4, 10, 49, 38, 6, 8, 6, 8, 7, 11, 17, 21, 11, 8, 10, 15, 107,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N1 A 0, 0.321, 0.643, 0.965, 1.692 max_d=1.692 avg_d=0.643 std_dev=0.322
N1 B 0, 0.375, 0.732, 1.089, 1.568 max_d=1.568 avg_d=0.732 std_dev=0.357
C6 A 0, 0.484, 0.967, 1.449, 2.054 max_d=2.054 avg_d=0.967 std_dev=0.483
C1' A 0, 0.344, 0.828, 1.311, 3.199 max_d=3.199 avg_d=0.828 std_dev=0.484
C2 A 0, 0.466, 1.017, 1.568, 2.501 max_d=2.501 avg_d=1.017 std_dev=0.551
C5 B 0, 0.946, 1.509, 2.071, 3.167 max_d=3.167 avg_d=1.509 std_dev=0.562
C6 B 0, 0.534, 1.134, 1.734, 2.286 max_d=2.286 avg_d=1.134 std_dev=0.600
C2' B 0, 0.668, 1.404, 2.140, 3.928 max_d=3.928 avg_d=1.404 std_dev=0.736
N3 A 0, 0.538, 1.306, 2.073, 2.763 max_d=2.763 avg_d=1.306 std_dev=0.768
C5 A 0, 0.576, 1.374, 2.173, 3.556 max_d=3.556 avg_d=1.374 std_dev=0.798
O2 A 0, 0.622, 1.453, 2.284, 3.354 max_d=3.354 avg_d=1.453 std_dev=0.831
O4' A 0, 0.547, 1.389, 2.232, 3.363 max_d=3.363 avg_d=1.389 std_dev=0.842
C4 A 0, 0.606, 1.489, 2.372, 3.995 max_d=3.995 avg_d=1.489 std_dev=0.883
C1' B 0, 0.371, 1.285, 2.199, 2.992 max_d=2.992 avg_d=1.285 std_dev=0.914
C2 B 0, 0.699, 1.616, 2.532, 3.384 max_d=3.384 avg_d=1.616 std_dev=0.916
C4 B 0, 0.965, 1.897, 2.829, 3.263 max_d=3.263 avg_d=1.897 std_dev=0.932
C2' A 0, 0.479, 1.625, 2.771, 5.203 max_d=5.203 avg_d=1.625 std_dev=1.146
O2' B 0, 0.845, 2.036, 3.226, 5.612 max_d=5.612 avg_d=2.036 std_dev=1.190
N3 B 0, 0.788, 2.065, 3.342, 3.939 max_d=3.939 avg_d=2.065 std_dev=1.277
O4 A 0, 0.684, 1.973, 3.262, 5.798 max_d=5.798 avg_d=1.973 std_dev=1.289
C4' A 0, 0.631, 2.006, 3.381, 4.908 max_d=4.908 avg_d=2.006 std_dev=1.375
O4 B 0, 1.300, 2.715, 4.130, 4.992 max_d=4.992 avg_d=2.715 std_dev=1.415
O2 B 0, 0.965, 2.433, 3.901, 5.371 max_d=5.371 avg_d=2.433 std_dev=1.468
C3' A 0, 0.571, 2.073, 3.576, 5.122 max_d=5.122 avg_d=2.073 std_dev=1.503
O2' A 0, 0.615, 2.142, 3.668, 7.555 max_d=7.555 avg_d=2.142 std_dev=1.526
C3' B 0, 0.359, 2.139, 3.919, 5.580 max_d=5.580 avg_d=2.139 std_dev=1.780
O4' B 0, 0.311, 2.166, 4.020, 5.031 max_d=5.031 avg_d=2.166 std_dev=1.855
O5' A 0, 0.543, 2.419, 4.296, 7.766 max_d=7.766 avg_d=2.419 std_dev=1.876
O3' A 0, 0.707, 2.611, 4.514, 7.066 max_d=7.066 avg_d=2.611 std_dev=1.904
C5' A 0, 0.824, 2.808, 4.793, 7.073 max_d=7.073 avg_d=2.808 std_dev=1.984
O3' B 0, 0.535, 2.842, 5.149, 7.524 max_d=7.524 avg_d=2.842 std_dev=2.307
C4' B 0, 0.343, 2.701, 5.060, 6.398 max_d=6.398 avg_d=2.701 std_dev=2.359
P A 0, 0.702, 3.249, 5.796, 9.919 max_d=9.919 avg_d=3.249 std_dev=2.547
OP2 A 0, 1.057, 3.702, 6.346, 10.301 max_d=10.301 avg_d=3.702 std_dev=2.644
O5' B 0, 1.896, 4.945, 7.993, 10.545 max_d=10.545 avg_d=4.945 std_dev=3.048
C5' B 0, 0.607, 3.775, 6.943, 8.608 max_d=8.608 avg_d=3.775 std_dev=3.168
OP1 A 0, 1.196, 4.557, 7.918, 11.790 max_d=11.790 avg_d=4.557 std_dev=3.361
OP2 B 0, 2.600, 6.033, 9.466, 13.813 max_d=13.813 avg_d=6.033 std_dev=3.433
P B 0, 2.435, 6.187, 9.939, 12.800 max_d=12.800 avg_d=6.187 std_dev=3.752
OP1 B 0, 2.515, 7.207, 11.899, 14.421 max_d=14.421 avg_d=7.207 std_dev=4.692

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.03 0.01 0.02 0.03 0.02 0.02 0.09 0.02 0.01 0.03 0.06 0.02 0.32 0.03 0.01 0.25 0.54 0.38 0.30
C2 0.03 0.00 0.21 0.29 0.02 0.10 0.02 0.19 0.01 0.01 0.01 0.01 0.25 0.19 0.02 0.15 0.36 0.70 0.72 0.35
C2' 0.01 0.21 0.00 0.01 0.07 0.03 0.15 0.21 0.20 0.03 0.16 0.36 0.01 0.04 0.08 0.02 0.49 0.53 0.53 0.51
C3' 0.02 0.29 0.01 0.00 0.42 0.01 0.42 0.03 0.35 0.25 0.37 0.26 0.03 0.01 0.45 0.03 0.27 0.35 0.30 0.21
C4 0.03 0.02 0.07 0.42 0.00 0.16 0.01 0.23 0.01 0.02 0.01 0.02 0.38 0.24 0.01 0.05 0.52 0.85 1.02 0.49
C4' 0.02 0.10 0.03 0.01 0.16 0.00 0.22 0.01 0.22 0.10 0.11 0.17 0.33 0.04 0.17 0.01 0.02 0.24 0.22 0.11
C5 0.02 0.02 0.15 0.42 0.01 0.22 0.00 0.30 0.01 0.02 0.01 0.02 0.42 0.29 0.01 0.12 0.59 0.88 1.02 0.58
C5' 0.09 0.19 0.21 0.03 0.23 0.01 0.30 0.00 0.28 0.13 0.20 0.30 0.14 0.22 0.25 0.02 0.01 0.25 0.31 0.02
C6 0.02 0.01 0.20 0.35 0.01 0.22 0.01 0.28 0.00 0.01 0.02 0.02 0.38 0.21 0.01 0.16 0.53 0.78 0.78 0.50
N1 0.01 0.01 0.03 0.25 0.02 0.10 0.02 0.13 0.01 0.00 0.01 0.02 0.23 0.12 0.02 0.02 0.35 0.66 0.60 0.33
N3 0.03 0.01 0.16 0.37 0.01 0.11 0.01 0.20 0.02 0.01 0.00 0.02 0.31 0.18 0.02 0.11 0.43 0.78 0.89 0.40
O2 0.06 0.01 0.36 0.26 0.02 0.17 0.02 0.30 0.02 0.02 0.02 0.00 0.32 0.34 0.03 0.25 0.40 0.72 0.72 0.43
O2' 0.02 0.25 0.01 0.03 0.38 0.33 0.42 0.14 0.38 0.23 0.31 0.32 0.00 0.07 0.40 0.23 0.35 0.38 0.53 0.40
O3' 0.32 0.19 0.04 0.01 0.24 0.04 0.29 0.22 0.21 0.12 0.18 0.34 0.07 0.00 0.29 0.23 0.36 0.66 0.50 0.41
O4 0.03 0.02 0.08 0.45 0.01 0.17 0.01 0.25 0.01 0.02 0.02 0.03 0.40 0.29 0.00 0.06 0.55 0.91 1.13 0.53
O4' 0.01 0.15 0.02 0.03 0.05 0.01 0.12 0.02 0.16 0.02 0.11 0.25 0.23 0.23 0.06 0.00 0.18 0.52 0.36 0.28
O5' 0.25 0.36 0.49 0.27 0.52 0.02 0.59 0.01 0.53 0.35 0.43 0.40 0.35 0.36 0.55 0.18 0.00 0.02 0.03 0.01
OP1 0.54 0.70 0.53 0.35 0.85 0.24 0.88 0.25 0.78 0.66 0.78 0.72 0.38 0.66 0.91 0.52 0.02 0.00 0.02 0.01
OP2 0.38 0.72 0.53 0.30 1.02 0.22 1.02 0.31 0.78 0.60 0.89 0.72 0.53 0.50 1.13 0.36 0.03 0.02 0.00 0.01
P 0.30 0.35 0.51 0.21 0.49 0.11 0.58 0.02 0.50 0.33 0.40 0.43 0.40 0.41 0.53 0.28 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.75 1.53 0.90 0.53 1.59 0.54 1.28 0.84 1.05 1.10 1.72 1.72 1.03 0.58 1.74 0.53 0.95 1.42 1.27 1.20
C2 0.83 2.06 0.76 0.54 2.40 0.61 1.91 0.92 1.47 1.45 2.48 2.19 0.72 0.65 2.69 0.59 1.04 1.58 1.52 1.35
C2' 1.02 1.46 1.15 0.78 1.49 0.88 1.26 1.02 1.11 1.17 1.59 1.62 1.42 0.75 1.62 0.91 1.09 1.51 1.33 1.30
C3' 0.73 1.26 0.89 0.42 1.31 0.46 1.10 0.69 0.92 0.95 1.39 1.41 1.06 0.45 1.43 0.52 0.82 1.24 1.14 1.07
C4 0.95 2.41 0.69 0.56 2.98 0.73 2.42 1.05 1.83 1.73 2.98 2.46 0.64 0.74 3.35 0.68 1.17 1.75 1.76 1.51
C4' 0.62 1.05 0.88 0.56 1.06 0.52 0.91 0.80 0.78 0.79 1.14 1.21 1.09 0.62 1.15 0.48 0.88 1.30 1.15 1.11
C5 0.88 2.13 0.68 0.54 2.51 0.70 2.08 0.98 1.62 1.56 2.54 2.17 0.62 0.74 2.75 0.63 1.07 1.54 1.53 1.33
C5' 0.65 0.85 0.90 0.71 0.90 0.65 0.85 0.80 0.75 0.71 0.91 0.95 1.11 0.83 0.97 0.56 0.84 1.17 1.07 1.00
C6 0.75 1.78 0.72 0.51 1.98 0.59 1.63 0.85 1.29 1.30 2.05 1.86 0.65 0.68 2.15 0.54 0.92 1.33 1.28 1.14
N1 0.76 1.80 0.79 0.52 1.98 0.57 1.60 0.85 1.26 1.28 2.09 1.93 0.78 0.63 2.19 0.54 0.95 1.42 1.34 1.21
N3 0.90 2.32 0.71 0.55 2.83 0.68 2.27 0.99 1.71 1.64 2.86 2.40 0.62 0.70 3.21 0.64 1.12 1.71 1.69 1.47
O2 0.84 2.03 0.81 0.54 2.36 0.60 1.87 0.92 1.43 1.42 2.45 2.18 0.80 0.63 2.67 0.60 1.06 1.64 1.54 1.39
O2' 1.29 1.74 1.35 0.87 1.72 0.99 1.49 1.11 1.35 1.43 1.85 1.94 1.65 0.71 1.83 1.13 1.22 1.65 1.48 1.45
O3' 0.77 1.32 0.87 0.43 1.38 0.51 1.16 0.76 0.96 0.99 1.46 1.49 1.04 0.47 1.52 0.58 0.91 1.35 1.24 1.19
O4 1.05 2.63 0.73 0.58 3.40 0.79 2.76 1.14 2.05 1.90 3.32 2.68 0.76 0.77 3.88 0.75 1.28 1.94 1.99 1.69
O4' 0.94 1.47 1.09 0.74 1.42 0.69 1.21 0.92 1.08 1.15 1.55 1.65 1.22 0.71 1.50 0.75 1.01 1.34 1.24 1.18
O5' 0.62 0.84 0.90 0.76 0.93 0.54 0.88 0.61 0.78 0.73 0.92 0.89 0.93 0.88 1.00 0.46 0.66 0.92 0.91 0.77
OP1 0.91 0.75 0.90 1.06 0.85 1.05 0.94 1.10 0.91 0.81 0.75 0.79 0.94 1.18 0.88 0.97 1.06 1.28 1.22 1.12
OP2 0.66 0.91 0.88 0.97 1.33 0.80 1.36 0.93 1.17 0.92 1.13 0.72 0.83 1.03 1.44 0.65 1.06 1.21 1.34 1.14
P 0.63 0.56 0.82 0.99 0.79 0.82 0.86 0.86 0.79 0.63 0.65 0.51 0.78 1.16 0.84 0.65 0.87 1.03 1.02 0.90

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.03 0.01 0.02 0.03 0.01 0.03 0.08 0.02 0.01 0.03 0.06 0.02 0.27 0.03 0.01 0.27 0.43 0.40 0.26
C2 0.03 0.00 0.17 0.23 0.02 0.09 0.02 0.20 0.01 0.01 0.01 0.01 0.23 0.23 0.02 0.13 0.42 0.61 0.60 0.39
C2' 0.01 0.17 0.00 0.01 0.07 0.03 0.14 0.19 0.17 0.03 0.13 0.30 0.01 0.05 0.08 0.02 0.44 0.60 0.59 0.49
C3' 0.02 0.23 0.01 0.00 0.35 0.01 0.36 0.03 0.32 0.21 0.29 0.22 0.03 0.01 0.37 0.02 0.26 0.38 0.31 0.25
C4 0.03 0.02 0.07 0.35 0.00 0.15 0.01 0.22 0.01 0.02 0.01 0.02 0.32 0.24 0.01 0.05 0.63 0.72 0.98 0.62
C4' 0.01 0.09 0.03 0.01 0.15 0.00 0.21 0.01 0.21 0.08 0.10 0.17 0.28 0.04 0.16 0.01 0.03 0.26 0.27 0.12
C5 0.03 0.02 0.14 0.36 0.01 0.21 0.00 0.30 0.01 0.01 0.01 0.02 0.35 0.27 0.01 0.12 0.74 0.77 1.07 0.74
C5' 0.08 0.20 0.19 0.03 0.22 0.01 0.30 0.00 0.28 0.13 0.20 0.31 0.12 0.20 0.24 0.02 0.02 0.26 0.31 0.03
C6 0.02 0.01 0.17 0.32 0.01 0.21 0.01 0.28 0.00 0.01 0.01 0.02 0.32 0.20 0.02 0.16 0.68 0.66 0.86 0.62
N1 0.01 0.01 0.03 0.21 0.02 0.08 0.01 0.13 0.01 0.00 0.01 0.02 0.18 0.13 0.02 0.02 0.44 0.52 0.58 0.37
N3 0.03 0.01 0.13 0.29 0.01 0.10 0.01 0.20 0.01 0.01 0.00 0.02 0.27 0.21 0.02 0.10 0.51 0.66 0.77 0.48
O2 0.06 0.01 0.30 0.22 0.02 0.17 0.02 0.31 0.02 0.02 0.02 0.00 0.30 0.37 0.03 0.23 0.39 0.70 0.56 0.44
O2' 0.02 0.23 0.01 0.03 0.32 0.28 0.35 0.12 0.32 0.18 0.27 0.30 0.00 0.09 0.35 0.19 0.32 0.56 0.62 0.44
O3' 0.27 0.23 0.05 0.01 0.24 0.04 0.27 0.20 0.20 0.13 0.21 0.37 0.09 0.00 0.27 0.20 0.31 0.56 0.42 0.36
O4 0.03 0.02 0.08 0.37 0.01 0.16 0.01 0.24 0.02 0.02 0.02 0.03 0.35 0.27 0.00 0.06 0.67 0.78 1.08 0.68
O4' 0.01 0.13 0.02 0.02 0.05 0.01 0.12 0.02 0.16 0.02 0.10 0.23 0.19 0.20 0.06 0.00 0.19 0.33 0.35 0.21
O5' 0.27 0.42 0.44 0.26 0.63 0.03 0.74 0.02 0.68 0.44 0.51 0.39 0.32 0.31 0.67 0.19 0.00 0.02 0.02 0.01
OP1 0.43 0.61 0.60 0.38 0.72 0.26 0.77 0.26 0.66 0.52 0.66 0.70 0.56 0.56 0.78 0.33 0.02 0.00 0.02 0.01
OP2 0.40 0.60 0.59 0.31 0.98 0.27 1.07 0.31 0.86 0.58 0.77 0.56 0.62 0.42 1.08 0.35 0.02 0.02 0.00 0.01
P 0.26 0.39 0.49 0.25 0.62 0.12 0.74 0.03 0.62 0.37 0.48 0.44 0.44 0.36 0.68 0.21 0.01 0.01 0.01 0.00