ClaRNA

Doublet Group distance statistics: 50921

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Distances from reference structure (by RMSD)

1, 2, 7, 3, 8, 4, 6, 4, 2, 0, 1, 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, 0.005, 0.013, 0.021, 0.039 max_d=0.039 avg_d=0.013 std_dev=0.008
N3 A 0, 0.003, 0.012, 0.021, 0.040 max_d=0.040 avg_d=0.012 std_dev=0.009
C4 A 0, 0.008, 0.018, 0.028, 0.045 max_d=0.045 avg_d=0.018 std_dev=0.010
C6 A 0, 0.008, 0.018, 0.028, 0.045 max_d=0.045 avg_d=0.018 std_dev=0.010
N1 A 0, 0.007, 0.019, 0.030, 0.051 max_d=0.051 avg_d=0.019 std_dev=0.011
C2 A 0, 0.009, 0.022, 0.034, 0.064 max_d=0.064 avg_d=0.022 std_dev=0.013
C1' A 0, 0.010, 0.023, 0.036, 0.049 max_d=0.049 avg_d=0.023 std_dev=0.013
O2 A 0, 0.021, 0.047, 0.074, 0.130 max_d=0.130 avg_d=0.047 std_dev=0.027
O4 A 0, 0.015, 0.082, 0.149, 0.327 max_d=0.327 avg_d=0.082 std_dev=0.067
O4' A 0, 0.083, 0.207, 0.331, 0.583 max_d=0.583 avg_d=0.207 std_dev=0.124
C2' A 0, 0.069, 0.200, 0.332, 0.690 max_d=0.690 avg_d=0.200 std_dev=0.132
P B 0, 0.153, 0.360, 0.567, 0.834 max_d=0.834 avg_d=0.360 std_dev=0.207
OP2 B 0, 0.236, 0.475, 0.715, 1.195 max_d=1.195 avg_d=0.475 std_dev=0.239
C4' A 0, 0.121, 0.364, 0.607, 1.189 max_d=1.189 avg_d=0.364 std_dev=0.243
C5' A 0, 0.224, 0.512, 0.800, 1.137 max_d=1.137 avg_d=0.512 std_dev=0.288
C3' A 0, 0.028, 0.446, 0.864, 1.749 max_d=1.749 avg_d=0.446 std_dev=0.418
O2' A 0, -0.059, 0.378, 0.814, 1.782 max_d=1.782 avg_d=0.378 std_dev=0.436
OP1 B 0, 0.215, 0.685, 1.155, 2.330 max_d=2.330 avg_d=0.685 std_dev=0.470
O5' A 0, 0.011, 0.564, 1.117, 2.453 max_d=2.453 avg_d=0.564 std_dev=0.553
O5' B 0, 0.236, 0.791, 1.346, 2.375 max_d=2.375 avg_d=0.791 std_dev=0.555
P A 0, 0.116, 0.729, 1.342, 2.483 max_d=2.483 avg_d=0.729 std_dev=0.613
OP1 A 0, 0.355, 1.048, 1.741, 2.931 max_d=2.931 avg_d=1.048 std_dev=0.693
OP2 A 0, 0.276, 1.056, 1.835, 3.433 max_d=3.433 avg_d=1.056 std_dev=0.779
O3' A 0, -0.030, 0.796, 1.622, 3.289 max_d=3.289 avg_d=0.796 std_dev=0.826
C5' B 0, 0.303, 1.229, 2.155, 4.314 max_d=4.314 avg_d=1.229 std_dev=0.926
C4' B 0, 0.063, 1.453, 2.842, 6.043 max_d=6.043 avg_d=1.453 std_dev=1.390
O4' B 0, 0.141, 1.683, 3.226, 7.297 max_d=7.297 avg_d=1.683 std_dev=1.542
C3' B 0, 0.298, 1.893, 3.488, 7.463 max_d=7.463 avg_d=1.893 std_dev=1.595
C1' B 0, 0.361, 2.227, 4.094, 9.109 max_d=9.109 avg_d=2.227 std_dev=1.866
C2' B 0, 0.926, 2.801, 4.676, 9.299 max_d=9.299 avg_d=2.801 std_dev=1.875
O3' B 0, 0.336, 2.303, 4.270, 8.791 max_d=8.791 avg_d=2.303 std_dev=1.967
N9 B 0, 0.190, 2.159, 4.128, 10.024 max_d=10.024 avg_d=2.159 std_dev=1.969
C8 B 0, 0.208, 2.211, 4.215, 10.878 max_d=10.878 avg_d=2.211 std_dev=2.003
N7 B 0, 0.097, 2.400, 4.702, 11.640 max_d=11.640 avg_d=2.400 std_dev=2.303
C4 B 0, -0.018, 2.301, 4.619, 10.508 max_d=10.508 avg_d=2.301 std_dev=2.319
O2' B 0, 1.624, 3.970, 6.316, 10.622 max_d=10.622 avg_d=3.970 std_dev=2.346
C5 B 0, 0.050, 2.472, 4.894, 11.415 max_d=11.415 avg_d=2.472 std_dev=2.422
N3 B 0, -0.129, 2.519, 5.167, 10.676 max_d=10.676 avg_d=2.519 std_dev=2.648
C6 B 0, 0.279, 2.967, 5.655, 12.207 max_d=12.207 avg_d=2.967 std_dev=2.688
N6 B 0, 0.562, 3.400, 6.238, 13.123 max_d=13.123 avg_d=3.400 std_dev=2.838
N1 B 0, 0.259, 3.172, 6.084, 12.281 max_d=12.281 avg_d=3.172 std_dev=2.913
C2 B 0, -0.021, 2.913, 5.846, 11.495 max_d=11.495 avg_d=2.913 std_dev=2.933

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 0.02 0.01 0.02 0.10 0.02 0.01 0.02 0.05 0.02 0.25 0.03 0.01 0.15 0.33 0.20 0.17
C2 0.03 0.00 0.08 0.14 0.01 0.04 0.02 0.12 0.01 0.01 0.00 0.00 0.20 0.21 0.02 0.06 0.26 0.47 0.31 0.24
C2' 0.01 0.08 0.00 0.00 0.06 0.02 0.07 0.20 0.08 0.03 0.08 0.13 0.01 0.03 0.08 0.01 0.32 0.45 0.41 0.39
C3' 0.02 0.14 0.00 0.00 0.30 0.01 0.33 0.04 0.28 0.17 0.22 0.10 0.02 0.01 0.33 0.02 0.23 0.36 0.25 0.21
C4 0.02 0.01 0.06 0.30 0.00 0.12 0.01 0.20 0.01 0.01 0.01 0.01 0.27 0.16 0.00 0.04 0.44 0.62 0.56 0.39
C4' 0.01 0.04 0.02 0.01 0.12 0.00 0.16 0.01 0.15 0.07 0.07 0.07 0.23 0.04 0.14 0.00 0.03 0.16 0.23 0.05
C5 0.02 0.02 0.07 0.33 0.01 0.16 0.00 0.22 0.00 0.01 0.01 0.02 0.25 0.21 0.01 0.06 0.48 0.63 0.56 0.41
C5' 0.10 0.12 0.20 0.04 0.20 0.01 0.22 0.00 0.19 0.12 0.15 0.12 0.12 0.17 0.21 0.02 0.01 0.16 0.28 0.04
C6 0.02 0.01 0.08 0.28 0.01 0.15 0.00 0.19 0.00 0.01 0.01 0.02 0.21 0.16 0.01 0.07 0.40 0.54 0.38 0.32
N1 0.01 0.01 0.03 0.17 0.01 0.07 0.01 0.12 0.01 0.00 0.01 0.02 0.16 0.11 0.02 0.03 0.27 0.45 0.26 0.23
N3 0.02 0.00 0.08 0.22 0.01 0.07 0.01 0.15 0.01 0.01 0.00 0.01 0.24 0.14 0.02 0.05 0.34 0.55 0.44 0.31
O2 0.05 0.00 0.13 0.10 0.01 0.07 0.02 0.12 0.02 0.02 0.01 0.00 0.18 0.38 0.02 0.09 0.20 0.43 0.26 0.21
O2' 0.02 0.20 0.01 0.02 0.27 0.23 0.25 0.12 0.21 0.16 0.24 0.18 0.00 0.06 0.28 0.15 0.19 0.34 0.44 0.30
O3' 0.25 0.21 0.03 0.01 0.16 0.04 0.21 0.17 0.16 0.11 0.14 0.38 0.06 0.00 0.21 0.18 0.28 0.52 0.38 0.33
O4 0.03 0.02 0.08 0.33 0.00 0.14 0.01 0.21 0.01 0.02 0.02 0.02 0.28 0.21 0.00 0.04 0.47 0.67 0.65 0.44
O4' 0.01 0.06 0.01 0.02 0.04 0.00 0.06 0.02 0.07 0.03 0.05 0.09 0.15 0.18 0.04 0.00 0.08 0.22 0.24 0.13
O5' 0.15 0.26 0.32 0.23 0.44 0.03 0.48 0.01 0.40 0.27 0.34 0.20 0.19 0.28 0.47 0.08 0.00 0.02 0.03 0.01
OP1 0.33 0.47 0.45 0.36 0.62 0.16 0.63 0.16 0.54 0.45 0.55 0.43 0.34 0.52 0.67 0.22 0.02 0.00 0.01 0.00
OP2 0.20 0.31 0.41 0.25 0.56 0.23 0.56 0.28 0.38 0.26 0.44 0.26 0.44 0.38 0.65 0.24 0.03 0.01 0.00 0.01
P 0.17 0.24 0.39 0.21 0.39 0.05 0.41 0.04 0.32 0.23 0.31 0.21 0.30 0.33 0.44 0.13 0.01 0.00 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.96 1.06 1.31 1.02 0.80 0.78 0.78 0.67 0.93 0.98 1.06 0.96 1.08 0.87 0.86 1.73 1.10 0.79 0.49 0.22 0.20 0.14
C2 0.73 0.99 1.12 0.80 0.64 0.65 0.71 0.63 0.91 0.70 0.98 0.85 1.08 0.75 0.60 1.42 0.83 0.64 0.47 0.19 0.19 0.14
C2' 1.08 1.15 1.39 1.04 0.95 0.81 0.84 0.65 0.87 1.07 1.06 1.10 0.86 0.94 1.00 1.75 1.11 0.87 0.50 0.22 0.25 0.14
C3' 1.07 1.17 1.40 1.06 0.95 0.81 0.88 0.65 0.97 1.03 1.13 1.09 1.03 0.93 0.99 1.83 1.15 0.84 0.48 0.26 0.28 0.16
C4 0.77 1.50 1.10 0.68 1.07 0.59 1.21 0.60 1.45 0.88 1.54 1.26 1.61 1.15 0.83 1.46 0.71 0.63 0.42 0.23 0.18 0.17
C4' 1.05 1.18 1.38 1.07 0.94 0.82 0.93 0.70 1.08 1.07 1.21 1.07 1.22 1.00 0.98 1.86 1.19 0.83 0.49 0.24 0.19 0.14
C5 0.83 1.61 1.17 0.77 1.11 0.65 1.24 0.64 1.54 0.83 1.68 1.34 1.73 1.09 0.85 1.61 0.80 0.68 0.43 0.23 0.17 0.17
C5' 1.09 1.40 1.42 1.12 1.05 0.89 1.02 0.79 1.25 1.00 1.43 1.23 1.38 0.94 1.00 1.94 1.23 0.89 0.54 0.28 0.16 0.20
C6 0.82 1.40 1.19 0.83 0.93 0.68 1.02 0.66 1.31 0.75 1.45 1.16 1.52 0.90 0.75 1.65 0.88 0.68 0.44 0.20 0.16 0.15
N1 0.82 1.13 1.20 0.88 0.75 0.70 0.80 0.66 1.03 0.77 1.14 0.96 1.22 0.79 0.70 1.61 0.93 0.69 0.47 0.19 0.18 0.14
N3 0.63 1.13 1.01 0.64 0.76 0.55 0.91 0.58 1.10 0.73 1.15 0.95 1.27 0.94 0.60 1.30 0.66 0.55 0.42 0.19 0.17 0.16
O2 0.84 0.89 1.17 0.90 0.65 0.73 0.64 0.65 0.77 0.82 0.85 0.83 0.88 0.72 0.71 1.39 0.93 0.75 0.53 0.22 0.23 0.14
O2' 1.30 1.29 1.58 1.23 1.19 0.95 1.09 0.73 1.02 1.35 1.18 1.29 0.92 1.26 1.26 1.93 1.32 1.03 0.57 0.44 0.35 0.26
O3' 1.20 1.18 1.53 1.21 1.06 0.93 1.00 0.76 1.00 1.19 1.11 1.16 1.02 1.11 1.12 1.95 1.32 0.94 0.57 0.48 0.30 0.30
O4 0.91 1.68 1.18 0.72 1.27 0.62 1.40 0.59 1.61 1.06 1.72 1.46 1.73 1.32 1.02 1.51 0.74 0.71 0.44 0.29 0.21 0.19
O4' 1.00 1.17 1.33 1.05 0.90 0.82 0.95 0.73 1.15 1.04 1.23 1.02 1.37 1.01 0.92 1.82 1.17 0.82 0.51 0.25 0.18 0.19
O5' 0.96 1.34 1.31 1.00 0.93 0.81 0.92 0.75 1.19 0.83 1.38 1.14 1.35 0.80 0.85 1.84 1.09 0.80 0.55 0.38 0.31 0.31
OP1 1.14 1.75 1.42 1.18 1.24 1.04 1.19 1.04 1.51 0.95 1.79 1.50 1.63 0.95 1.06 1.93 1.24 1.01 0.72 0.61 0.53 0.57
OP2 0.82 1.45 1.21 0.84 0.92 0.68 0.96 0.67 1.33 0.65 1.55 1.16 1.53 0.73 0.73 1.79 0.92 0.67 0.56 0.51 0.48 0.44
P 0.96 1.55 1.31 0.99 1.03 0.83 1.02 0.81 1.37 0.76 1.61 1.29 1.52 0.77 0.86 1.88 1.08 0.81 0.56 0.38 0.28 0.32

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.06 0.01 0.02 0.03 0.01 0.02 0.08 0.03 0.02 0.05 0.06 0.02 0.01 0.01 0.02 0.36 0.01 0.34 0.53 0.48 0.38
C2 0.06 0.00 0.39 0.29 0.01 0.32 0.01 0.55 0.01 0.01 0.00 0.01 0.01 0.01 0.01 0.44 0.60 0.39 0.55 0.57 0.93 0.63
C2' 0.01 0.39 0.00 0.01 0.21 0.02 0.13 0.20 0.20 0.19 0.32 0.38 0.16 0.11 0.04 0.01 0.06 0.03 0.51 0.79 0.68 0.61
C3' 0.02 0.29 0.01 0.00 0.23 0.01 0.33 0.03 0.32 0.46 0.29 0.27 0.37 0.45 0.24 0.03 0.01 0.02 0.21 0.60 0.33 0.29
C4 0.03 0.01 0.21 0.23 0.00 0.14 0.01 0.33 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.28 0.33 0.20 0.43 0.52 0.77 0.49
C4' 0.01 0.32 0.02 0.01 0.14 0.00 0.17 0.01 0.17 0.34 0.23 0.32 0.19 0.31 0.13 0.30 0.05 0.01 0.02 0.30 0.21 0.09
C5 0.02 0.01 0.13 0.33 0.01 0.17 0.00 0.38 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.35 0.22 0.10 0.52 0.68 0.96 0.64
C5' 0.08 0.55 0.20 0.03 0.33 0.01 0.38 0.00 0.43 0.48 0.49 0.51 0.47 0.50 0.23 0.10 0.20 0.03 0.01 0.27 0.26 0.03
C6 0.03 0.01 0.20 0.32 0.01 0.17 0.01 0.43 0.00 0.01 0.01 0.01 0.01 0.01 0.01 0.37 0.30 0.17 0.53 0.66 1.03 0.67
C8 0.02 0.01 0.19 0.46 0.01 0.34 0.01 0.48 0.01 0.00 0.01 0.01 0.02 0.00 0.01 0.48 0.28 0.22 0.63 0.86 0.97 0.75
N1 0.05 0.00 0.32 0.29 0.01 0.23 0.01 0.49 0.01 0.01 0.00 0.01 0.01 0.01 0.01 0.39 0.47 0.30 0.53 0.58 1.00 0.63
N3 0.06 0.01 0.38 0.27 0.01 0.32 0.01 0.51 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.42 0.60 0.39 0.51 0.52 0.80 0.55
N6 0.02 0.01 0.16 0.37 0.01 0.19 0.01 0.47 0.01 0.02 0.01 0.01 0.00 0.02 0.01 0.41 0.27 0.12 0.59 0.79 1.16 0.78
N7 0.01 0.01 0.11 0.45 0.01 0.31 0.01 0.50 0.01 0.00 0.01 0.01 0.02 0.00 0.01 0.48 0.26 0.13 0.65 0.90 1.11 0.82
N9 0.01 0.01 0.04 0.24 0.01 0.13 0.01 0.23 0.01 0.01 0.01 0.01 0.01 0.01 0.00 0.24 0.17 0.03 0.43 0.59 0.70 0.49
O2' 0.02 0.44 0.01 0.03 0.28 0.30 0.35 0.10 0.37 0.48 0.39 0.42 0.41 0.48 0.24 0.00 0.12 0.23 0.33 0.75 0.69 0.50
O3' 0.36 0.60 0.06 0.01 0.33 0.05 0.22 0.20 0.30 0.28 0.47 0.60 0.27 0.26 0.17 0.12 0.00 0.25 0.38 0.73 0.49 0.44
O4' 0.01 0.39 0.03 0.02 0.20 0.01 0.10 0.03 0.17 0.22 0.30 0.39 0.12 0.13 0.03 0.23 0.25 0.00 0.30 0.40 0.37 0.32
O5' 0.34 0.55 0.51 0.21 0.43 0.02 0.52 0.01 0.53 0.63 0.53 0.51 0.59 0.65 0.43 0.33 0.38 0.30 0.00 0.03 0.03 0.01
OP1 0.53 0.57 0.79 0.60 0.52 0.30 0.68 0.27 0.66 0.86 0.58 0.52 0.79 0.90 0.59 0.75 0.73 0.40 0.03 0.00 0.01 0.01
OP2 0.48 0.93 0.68 0.33 0.77 0.21 0.96 0.26 1.03 0.97 1.00 0.80 1.16 1.11 0.70 0.69 0.49 0.37 0.03 0.01 0.00 0.01
P 0.38 0.63 0.61 0.29 0.49 0.09 0.64 0.03 0.67 0.75 0.63 0.55 0.78 0.82 0.49 0.50 0.44 0.32 0.01 0.01 0.01 0.00