ClaRNA

Doublet Group distance statistics: 54702

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Distances from reference structure (by RMSD)

1, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.000, 0.005, 0.010, 0.012 max_d=0.012 avg_d=0.005 std_dev=0.005
C6 A 0, 0.002, 0.007, 0.013, 0.012 max_d=0.012 avg_d=0.007 std_dev=0.005
N1 A 0, 0.001, 0.007, 0.012, 0.014 max_d=0.014 avg_d=0.007 std_dev=0.006
C2 A 0, 0.001, 0.007, 0.013, 0.014 max_d=0.014 avg_d=0.007 std_dev=0.006
N4 A 0, 0.002, 0.008, 0.014, 0.014 max_d=0.014 avg_d=0.008 std_dev=0.006
C4 A 0, 0.003, 0.009, 0.016, 0.016 max_d=0.016 avg_d=0.009 std_dev=0.007
O2 A 0, 0.003, 0.012, 0.022, 0.021 max_d=0.021 avg_d=0.012 std_dev=0.009
N3 A 0, 0.002, 0.014, 0.025, 0.028 max_d=0.028 avg_d=0.014 std_dev=0.011
C1' A 0, -0.001, 0.014, 0.030, 0.036 max_d=0.036 avg_d=0.014 std_dev=0.015
O4' A 0, -0.033, 0.116, 0.266, 0.328 max_d=0.328 avg_d=0.116 std_dev=0.150
C2' A 0, -0.040, 0.115, 0.269, 0.333 max_d=0.333 avg_d=0.115 std_dev=0.155
O2' A 0, -0.032, 0.141, 0.313, 0.384 max_d=0.384 avg_d=0.141 std_dev=0.173
C3' A 0, -0.068, 0.218, 0.505, 0.623 max_d=0.623 avg_d=0.218 std_dev=0.287
C4' A 0, -0.078, 0.243, 0.565, 0.698 max_d=0.698 avg_d=0.243 std_dev=0.322
O5' B 0, -0.038, 0.304, 0.646, 0.781 max_d=0.781 avg_d=0.304 std_dev=0.342
P B 0, -0.042, 0.309, 0.661, 0.802 max_d=0.802 avg_d=0.309 std_dev=0.352
O3' A 0, -0.102, 0.300, 0.702, 0.868 max_d=0.868 avg_d=0.300 std_dev=0.402
C5' A 0, -0.164, 0.454, 1.072, 1.327 max_d=1.327 avg_d=0.454 std_dev=0.618
O5' A 0, -0.192, 0.523, 1.238, 1.534 max_d=1.534 avg_d=0.523 std_dev=0.715
OP2 B 0, -0.166, 0.623, 1.412, 1.736 max_d=1.736 avg_d=0.623 std_dev=0.789
OP1 B 0, -0.189, 0.651, 1.491, 1.837 max_d=1.837 avg_d=0.651 std_dev=0.840
C5' B 0, -0.177, 0.674, 1.525, 1.874 max_d=1.874 avg_d=0.674 std_dev=0.851
P A 0, -0.425, 1.076, 2.577, 3.199 max_d=3.199 avg_d=1.076 std_dev=1.501
OP2 A 0, -0.423, 1.124, 2.672, 3.313 max_d=3.313 avg_d=1.124 std_dev=1.548
C6 B 0, -0.464, 1.372, 3.209, 3.968 max_d=3.968 avg_d=1.372 std_dev=1.837
O4' B 0, -0.479, 1.426, 3.330, 4.117 max_d=4.117 avg_d=1.426 std_dev=1.904
C4' B 0, -0.492, 1.469, 3.430, 4.240 max_d=4.240 avg_d=1.469 std_dev=1.961
OP1 A 0, -0.674, 1.661, 3.996, 4.964 max_d=4.964 avg_d=1.661 std_dev=2.335
N1 B 0, -0.630, 1.800, 4.230, 5.235 max_d=5.235 avg_d=1.800 std_dev=2.430
C5 B 0, -0.646, 1.816, 4.277, 5.296 max_d=5.296 avg_d=1.816 std_dev=2.461
C1' B 0, -0.711, 2.005, 4.721, 5.845 max_d=5.845 avg_d=2.005 std_dev=2.716
C3' B 0, -0.728, 2.060, 4.847, 6.001 max_d=6.001 avg_d=2.060 std_dev=2.788
C4 B 0, -0.841, 2.342, 5.525, 6.842 max_d=6.842 avg_d=2.342 std_dev=3.183
C2 B 0, -0.844, 2.375, 5.593, 6.924 max_d=6.924 avg_d=2.375 std_dev=3.218
O3' B 0, -0.871, 2.469, 5.810, 7.192 max_d=7.192 avg_d=2.469 std_dev=3.341
N3 B 0, -0.895, 2.523, 5.940, 7.355 max_d=7.355 avg_d=2.523 std_dev=3.418
C2' B 0, -0.963, 2.639, 6.241, 7.731 max_d=7.731 avg_d=2.639 std_dev=3.602
N4 B 0, -1.065, 2.874, 6.813, 8.444 max_d=8.444 avg_d=2.874 std_dev=3.939
O2 B 0, -1.052, 2.915, 6.883, 8.524 max_d=8.524 avg_d=2.915 std_dev=3.967
O2' B 0, -1.219, 3.266, 7.750, 9.607 max_d=9.607 avg_d=3.266 std_dev=4.484

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 0.01 0.01 0.02 0.01 0.02 0.04 0.02 0.01 0.02 0.01 0.01 0.01 0.01 0.00 0.15 0.07 0.07 0.08
C2 0.02 0.00 0.03 0.14 0.00 0.06 0.00 0.19 0.00 0.00 0.00 0.01 0.00 0.08 0.14 0.01 0.37 0.37 0.43 0.20
C2' 0.01 0.03 0.00 0.00 0.01 0.01 0.05 0.03 0.05 0.01 0.02 0.01 0.08 0.00 0.01 0.01 0.10 0.38 0.20 0.09
C3' 0.01 0.14 0.00 0.00 0.12 0.00 0.06 0.02 0.03 0.08 0.15 0.14 0.16 0.00 0.00 0.01 0.06 0.53 0.24 0.20
C4 0.02 0.00 0.01 0.12 0.00 0.09 0.00 0.27 0.01 0.01 0.00 0.00 0.00 0.08 0.14 0.01 0.46 0.36 0.49 0.26
C4' 0.01 0.06 0.01 0.00 0.09 0.00 0.08 0.01 0.05 0.05 0.08 0.11 0.04 0.03 0.01 0.01 0.03 0.14 0.03 0.03
C5 0.02 0.00 0.05 0.06 0.00 0.08 0.00 0.25 0.00 0.01 0.00 0.01 0.00 0.06 0.08 0.01 0.40 0.17 0.28 0.12
C5' 0.04 0.19 0.03 0.02 0.27 0.01 0.25 0.00 0.20 0.16 0.24 0.30 0.15 0.03 0.01 0.01 0.00 0.04 0.01 0.00
C6 0.02 0.00 0.05 0.03 0.01 0.05 0.00 0.20 0.00 0.00 0.01 0.01 0.01 0.04 0.03 0.01 0.32 0.06 0.12 0.02
N1 0.01 0.00 0.01 0.08 0.01 0.05 0.01 0.16 0.00 0.00 0.01 0.01 0.00 0.04 0.07 0.01 0.31 0.18 0.23 0.05
N3 0.02 0.00 0.02 0.15 0.00 0.08 0.00 0.24 0.01 0.01 0.00 0.01 0.01 0.09 0.16 0.02 0.44 0.44 0.54 0.28
N4 0.01 0.01 0.01 0.14 0.00 0.11 0.01 0.30 0.01 0.01 0.01 0.00 0.01 0.08 0.17 0.01 0.48 0.42 0.57 0.32
O2 0.01 0.00 0.08 0.16 0.00 0.04 0.00 0.15 0.01 0.00 0.01 0.01 0.00 0.09 0.15 0.02 0.34 0.42 0.45 0.21
O2' 0.01 0.08 0.00 0.00 0.08 0.03 0.06 0.03 0.04 0.04 0.09 0.08 0.09 0.00 0.04 0.08 0.09 0.37 0.19 0.08
O3' 0.01 0.14 0.01 0.00 0.14 0.01 0.08 0.01 0.03 0.07 0.16 0.17 0.15 0.04 0.00 0.01 0.02 0.78 0.34 0.34
O4' 0.00 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.01 0.02 0.01 0.02 0.08 0.01 0.00 0.05 0.17 0.14 0.26
O5' 0.15 0.37 0.10 0.06 0.46 0.03 0.40 0.00 0.32 0.31 0.44 0.48 0.34 0.09 0.02 0.05 0.00 0.01 0.01 0.01
OP1 0.07 0.37 0.38 0.53 0.36 0.14 0.17 0.04 0.06 0.18 0.44 0.42 0.42 0.37 0.78 0.17 0.01 0.00 0.00 0.01
OP2 0.07 0.43 0.20 0.24 0.49 0.03 0.28 0.01 0.12 0.23 0.54 0.57 0.45 0.19 0.34 0.14 0.01 0.00 0.00 0.00
P 0.08 0.20 0.09 0.20 0.26 0.03 0.12 0.00 0.02 0.05 0.28 0.32 0.21 0.08 0.34 0.26 0.01 0.01 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 1.85 2.35 2.72 2.29 1.87 1.18 1.36 0.40 1.39 1.91 2.32 1.80 2.65 2.73 2.62 0.97 0.25 0.20 0.28 0.14
C2 1.36 2.09 2.11 1.86 2.13 0.75 1.69 0.21 1.45 1.67 2.30 2.28 2.18 1.88 2.10 0.55 0.18 0.11 0.33 0.22
C2' 1.69 2.09 2.56 2.15 1.57 1.04 1.09 0.24 1.16 1.68 2.03 1.49 2.42 2.65 2.56 0.84 0.15 0.22 0.47 0.21
C3' 1.74 1.87 2.65 2.27 1.16 1.22 0.76 0.37 0.98 1.56 1.67 0.96 2.24 2.85 2.77 0.96 0.26 0.45 0.34 0.04
C4 0.89 1.68 1.49 1.41 2.06 0.40 1.76 0.09 1.37 1.34 2.00 2.31 1.59 1.11 1.54 0.19 0.11 0.01 0.27 0.26
C4' 2.11 2.14 3.08 2.61 1.21 1.57 0.80 0.66 1.12 1.83 1.83 0.92 2.60 3.36 3.12 1.30 0.44 0.50 0.13 0.10
C5 1.10 1.75 1.73 1.62 1.92 0.62 1.65 0.22 1.39 1.45 1.95 2.02 1.71 1.41 1.74 0.40 0.17 0.05 0.18 0.20
C5' 2.23 1.94 3.22 2.81 0.83 1.85 0.51 0.93 1.00 1.76 1.49 0.42 2.42 3.61 3.41 1.53 0.67 0.78 0.14 0.37
C6 1.50 2.04 2.24 2.00 1.88 0.94 1.51 0.34 1.42 1.71 2.11 1.86 2.13 2.04 2.19 0.72 0.24 0.13 0.19 0.15
N1 1.58 2.18 2.37 2.07 1.98 0.96 1.54 0.32 1.43 1.77 2.27 2.01 2.34 2.22 2.33 0.75 0.23 0.15 0.27 0.17
N3 1.05 1.86 1.71 1.57 2.16 0.50 1.78 0.11 1.41 1.47 2.18 2.41 1.84 1.38 1.74 0.30 0.13 0.04 0.32 0.25
N4 0.51 1.38 1.02 1.03 2.02 0.09 1.79 0.05 1.26 1.07 1.81 2.37 1.20 0.53 1.10 0.11 0.04 0.11 0.24 0.30
O2 1.44 2.19 2.21 1.93 2.17 0.79 1.68 0.21 1.45 1.73 2.39 2.33 2.32 2.04 2.20 0.59 0.18 0.13 0.36 0.22
O2' 1.91 2.34 2.80 2.30 1.73 1.19 1.19 0.33 1.28 1.87 2.26 1.64 2.74 2.96 2.72 1.00 0.20 0.22 0.45 0.19
O3' 1.75 1.77 2.65 2.26 0.96 1.26 0.58 0.39 0.86 1.49 1.51 0.72 2.19 2.97 2.83 1.00 0.29 0.56 0.35 0.02
O4' 2.06 2.36 2.98 2.50 1.60 1.41 1.11 0.56 1.31 1.96 2.17 1.39 2.75 3.10 2.87 1.19 0.34 0.27 0.17 0.05
O5' 1.85 1.55 2.78 2.56 0.63 1.61 0.37 0.79 0.81 1.45 1.16 0.27 1.90 2.99 3.12 1.25 0.63 0.82 0.20 0.41
OP1 1.03 0.16 1.99 2.07 1.03 1.42 1.09 0.80 0.37 0.28 0.44 1.55 0.59 2.51 3.07 0.76 0.52 0.97 0.22 0.41
OP2 0.53 0.04 1.29 1.49 0.63 0.83 0.74 0.41 0.34 0.09 0.28 0.88 0.27 1.45 2.14 0.25 0.35 0.93 0.23 0.38
P 1.27 0.64 2.20 2.30 0.33 1.51 0.47 0.86 0.09 0.69 0.18 0.73 0.99 2.50 3.16 0.91 0.60 0.92 0.21 0.42

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.04 0.00 0.01 0.03 0.00 0.02 0.01 0.01 0.01 0.04 0.04 0.07 0.01 0.01 0.00 0.00 0.99 0.20 0.29
C2 0.04 0.00 0.15 0.19 0.00 0.08 0.01 0.05 0.01 0.01 0.00 0.00 0.01 0.09 0.22 0.01 0.12 0.56 0.84 0.11
C2' 0.00 0.15 0.00 0.00 0.07 0.01 0.01 0.01 0.05 0.03 0.13 0.08 0.25 0.00 0.01 0.01 0.26 0.76 0.35 0.07
C3' 0.01 0.19 0.00 0.00 0.13 0.00 0.04 0.01 0.01 0.07 0.19 0.14 0.26 0.00 0.00 0.00 0.41 0.36 0.40 0.15
C4 0.03 0.00 0.07 0.13 0.00 0.06 0.00 0.04 0.01 0.02 0.01 0.00 0.02 0.05 0.17 0.01 0.23 0.06 1.43 0.56
C4' 0.00 0.08 0.01 0.00 0.06 0.00 0.02 0.00 0.01 0.03 0.07 0.06 0.12 0.05 0.01 0.00 0.00 0.83 0.16 0.31
C5 0.02 0.01 0.01 0.04 0.00 0.02 0.00 0.01 0.00 0.01 0.01 0.01 0.02 0.01 0.05 0.03 0.25 0.22 1.46 0.64
C5' 0.01 0.05 0.01 0.01 0.04 0.00 0.01 0.00 0.00 0.02 0.05 0.04 0.08 0.05 0.00 0.00 0.00 0.18 0.12 0.00
C6 0.01 0.01 0.05 0.01 0.01 0.01 0.00 0.00 0.00 0.00 0.01 0.01 0.01 0.02 0.00 0.04 0.19 0.11 1.05 0.38
N1 0.01 0.01 0.03 0.07 0.02 0.03 0.01 0.02 0.00 0.00 0.01 0.02 0.01 0.01 0.07 0.01 0.11 0.55 0.71 0.07
N3 0.04 0.00 0.13 0.19 0.01 0.07 0.01 0.05 0.01 0.01 0.00 0.00 0.03 0.08 0.23 0.01 0.18 0.27 1.17 0.34
N4 0.04 0.00 0.08 0.14 0.00 0.06 0.01 0.04 0.01 0.02 0.00 0.00 0.03 0.05 0.19 0.02 0.25 0.26 1.63 0.70
O2 0.07 0.01 0.25 0.26 0.02 0.12 0.02 0.08 0.01 0.01 0.03 0.03 0.00 0.18 0.30 0.01 0.05 0.85 0.61 0.10
O2' 0.01 0.09 0.00 0.00 0.05 0.05 0.01 0.05 0.02 0.01 0.08 0.05 0.18 0.00 0.02 0.04 0.07 1.22 0.10 0.44
O3' 0.01 0.22 0.01 0.00 0.17 0.01 0.05 0.00 0.00 0.07 0.23 0.19 0.30 0.02 0.00 0.01 0.46 0.25 0.27 0.17
O4' 0.00 0.01 0.01 0.00 0.01 0.00 0.03 0.00 0.04 0.01 0.01 0.02 0.01 0.04 0.01 0.00 0.23 1.14 0.16 0.53
O5' 0.00 0.12 0.26 0.41 0.23 0.00 0.25 0.00 0.19 0.11 0.18 0.25 0.05 0.07 0.46 0.23 0.00 0.01 0.00 0.00
OP1 0.99 0.56 0.76 0.36 0.06 0.83 0.22 0.18 0.11 0.55 0.27 0.26 0.85 1.22 0.25 1.14 0.01 0.00 0.01 0.01
OP2 0.20 0.84 0.35 0.40 1.43 0.16 1.46 0.12 1.05 0.71 1.17 1.63 0.61 0.10 0.27 0.16 0.00 0.01 0.00 0.00
P 0.29 0.11 0.07 0.15 0.56 0.31 0.64 0.00 0.38 0.07 0.34 0.70 0.10 0.44 0.17 0.53 0.00 0.01 0.00 0.00