ClaRNA

Doublet Group distance statistics: 53554

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Distances from reference structure (by RMSD)

2, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 2, 0, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N1 A 0, 0.002, 0.006, 0.010, 0.010 max_d=0.010 avg_d=0.006 std_dev=0.004
C4 A 0, 0.001, 0.005, 0.009, 0.009 max_d=0.009 avg_d=0.005 std_dev=0.004
C6 A 0, 0.003, 0.007, 0.012, 0.013 max_d=0.013 avg_d=0.007 std_dev=0.005
N9 A 0, 0.003, 0.008, 0.012, 0.013 max_d=0.013 avg_d=0.008 std_dev=0.005
N3 A 0, 0.003, 0.008, 0.013, 0.013 max_d=0.013 avg_d=0.008 std_dev=0.005
C5 A 0, 0.001, 0.008, 0.014, 0.014 max_d=0.014 avg_d=0.008 std_dev=0.006
C1' A 0, 0.004, 0.011, 0.017, 0.017 max_d=0.017 avg_d=0.011 std_dev=0.007
C2 A 0, 0.003, 0.010, 0.017, 0.020 max_d=0.020 avg_d=0.010 std_dev=0.007
O6 A 0, 0.007, 0.019, 0.031, 0.030 max_d=0.030 avg_d=0.019 std_dev=0.012
C8 A 0, 0.002, 0.016, 0.030, 0.034 max_d=0.034 avg_d=0.016 std_dev=0.014
N7 A 0, 0.002, 0.017, 0.033, 0.035 max_d=0.035 avg_d=0.017 std_dev=0.015
N2 A 0, 0.004, 0.020, 0.036, 0.039 max_d=0.039 avg_d=0.020 std_dev=0.016
O4' A 0, 0.020, 0.379, 0.738, 0.741 max_d=0.741 avg_d=0.379 std_dev=0.359
C2' A 0, 0.010, 0.376, 0.741, 0.748 max_d=0.748 avg_d=0.376 std_dev=0.365
P B 0, 0.012, 0.517, 1.021, 1.027 max_d=1.027 avg_d=0.517 std_dev=0.504
OP1 B 0, 0.010, 0.572, 1.133, 1.134 max_d=1.134 avg_d=0.572 std_dev=0.562
O5' A 0, 0.019, 0.611, 1.204, 1.206 max_d=1.206 avg_d=0.611 std_dev=0.592
OP2 B 0, 0.010, 0.648, 1.285, 1.291 max_d=1.291 avg_d=0.648 std_dev=0.638
P A 0, 0.018, 0.679, 1.340, 1.346 max_d=1.346 avg_d=0.679 std_dev=0.661
C4' A 0, 0.016, 0.691, 1.367, 1.369 max_d=1.369 avg_d=0.691 std_dev=0.676
O2' A 0, 0.013, 0.694, 1.376, 1.389 max_d=1.389 avg_d=0.694 std_dev=0.681
OP1 A 0, 0.012, 0.729, 1.446, 1.460 max_d=1.460 avg_d=0.729 std_dev=0.717
C5' A 0, 0.016, 0.760, 1.504, 1.505 max_d=1.505 avg_d=0.760 std_dev=0.744
C3' A 0, 0.013, 0.816, 1.620, 1.628 max_d=1.628 avg_d=0.816 std_dev=0.804
O3' A 0, 0.014, 1.406, 2.798, 2.813 max_d=2.813 avg_d=1.406 std_dev=1.392
O5' B 0, 0.013, 1.672, 3.331, 3.341 max_d=3.341 avg_d=1.672 std_dev=1.659
OP2 A 0, 0.015, 1.719, 3.423, 3.436 max_d=3.436 avg_d=1.719 std_dev=1.704
C5' B 0, 0.011, 2.521, 5.031, 5.045 max_d=5.045 avg_d=2.521 std_dev=2.510
C4' B 0, 0.008, 3.204, 6.400, 6.415 max_d=6.415 avg_d=3.204 std_dev=3.196
O4' B 0, 0.010, 3.622, 7.233, 7.244 max_d=7.244 avg_d=3.622 std_dev=3.612
C3' B 0, 0.006, 4.238, 8.470, 8.489 max_d=8.489 avg_d=4.238 std_dev=4.232
O3' B 0, 0.013, 4.724, 9.435, 9.460 max_d=9.460 avg_d=4.724 std_dev=4.711
C1' B 0, 0.013, 4.810, 9.608, 9.620 max_d=9.620 avg_d=4.810 std_dev=4.798
C2' B 0, 0.012, 5.311, 10.610, 10.626 max_d=10.626 avg_d=5.311 std_dev=5.299
C6 B 0, 0.014, 5.525, 11.037, 11.046 max_d=11.046 avg_d=5.525 std_dev=5.511
N1 B 0, 0.014, 5.634, 11.254, 11.265 max_d=11.265 avg_d=5.634 std_dev=5.620
O2' B 0, 0.010, 6.179, 12.349, 12.358 max_d=12.358 avg_d=6.179 std_dev=6.170
C5 B 0, 0.016, 6.459, 12.901, 12.911 max_d=12.911 avg_d=6.459 std_dev=6.442
C2 B 0, 0.015, 6.677, 13.340, 13.354 max_d=13.354 avg_d=6.677 std_dev=6.662
O2 B 0, 0.015, 6.747, 13.479, 13.500 max_d=13.500 avg_d=6.747 std_dev=6.732
C4 B 0, 0.018, 7.569, 15.120, 15.129 max_d=15.129 avg_d=7.569 std_dev=7.551
N3 B 0, 0.016, 7.641, 15.266, 15.279 max_d=15.279 avg_d=7.641 std_dev=7.625
N4 B 0, 0.022, 8.618, 17.215, 17.219 max_d=17.219 avg_d=8.618 std_dev=8.596

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.01 0.00 0.00 0.00 0.00 0.01 0.07 0.01 0.01 0.01 0.01 0.01 0.01 0.00 0.00 0.28 0.00 0.14 0.02 0.33 0.01 0.05
C2 0.01 0.00 0.18 0.12 0.00 0.08 0.00 0.10 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.05 0.31 0.16 0.03 0.01 0.42 0.39 0.18
C2' 0.00 0.18 0.00 0.00 0.10 0.01 0.06 0.18 0.10 0.08 0.15 0.20 0.17 0.03 0.01 0.00 0.02 0.01 0.37 0.09 0.67 0.21 0.43
C3' 0.00 0.12 0.00 0.00 0.21 0.00 0.32 0.01 0.32 0.38 0.23 0.05 0.09 0.41 0.22 0.00 0.00 0.01 0.04 0.38 0.03 0.06 0.05
C4 0.00 0.00 0.10 0.21 0.00 0.02 0.00 0.02 0.01 0.00 0.00 0.00 0.00 0.00 0.00 0.15 0.12 0.08 0.01 0.01 0.43 0.40 0.17
C4' 0.00 0.08 0.01 0.00 0.02 0.00 0.10 0.00 0.08 0.22 0.01 0.15 0.09 0.20 0.08 0.25 0.02 0.00 0.00 0.12 0.20 0.20 0.01
C5 0.01 0.00 0.06 0.32 0.00 0.10 0.00 0.07 0.01 0.00 0.01 0.00 0.00 0.00 0.00 0.25 0.07 0.03 0.12 0.01 0.47 0.64 0.29
C5' 0.07 0.10 0.18 0.01 0.02 0.00 0.07 0.00 0.06 0.17 0.03 0.16 0.11 0.17 0.02 0.07 0.19 0.01 0.00 0.11 0.39 0.38 0.00
C6 0.01 0.00 0.10 0.32 0.01 0.08 0.01 0.06 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.23 0.04 0.05 0.13 0.01 0.47 0.72 0.34
C8 0.01 0.00 0.08 0.38 0.00 0.22 0.00 0.17 0.01 0.00 0.01 0.00 0.00 0.00 0.00 0.30 0.25 0.11 0.15 0.02 0.48 0.56 0.24
N1 0.01 0.00 0.15 0.23 0.00 0.01 0.01 0.03 0.00 0.01 0.00 0.00 0.00 0.01 0.01 0.14 0.14 0.12 0.06 0.01 0.45 0.57 0.27
N2 0.01 0.00 0.20 0.05 0.00 0.15 0.00 0.16 0.01 0.00 0.00 0.00 0.01 0.00 0.00 0.03 0.44 0.21 0.07 0.01 0.41 0.31 0.14
N3 0.01 0.00 0.17 0.09 0.00 0.09 0.00 0.11 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.02 0.34 0.16 0.06 0.01 0.40 0.28 0.12
N7 0.01 0.00 0.03 0.41 0.00 0.20 0.00 0.17 0.01 0.00 0.01 0.00 0.00 0.00 0.00 0.32 0.26 0.07 0.20 0.02 0.50 0.78 0.35
N9 0.00 0.00 0.01 0.22 0.00 0.08 0.00 0.02 0.01 0.00 0.01 0.00 0.00 0.00 0.00 0.18 0.04 0.01 0.01 0.02 0.42 0.30 0.11
O2' 0.00 0.05 0.00 0.00 0.15 0.25 0.25 0.07 0.23 0.30 0.14 0.03 0.02 0.32 0.18 0.00 0.05 0.18 0.26 0.27 0.61 0.18 0.37
O3' 0.28 0.31 0.02 0.00 0.12 0.02 0.07 0.19 0.04 0.25 0.14 0.44 0.34 0.26 0.04 0.05 0.00 0.21 0.25 0.14 0.35 0.25 0.18
O4' 0.00 0.16 0.01 0.01 0.08 0.00 0.03 0.01 0.05 0.11 0.12 0.21 0.16 0.07 0.01 0.18 0.21 0.00 0.03 0.02 0.06 0.08 0.11
O5' 0.14 0.03 0.37 0.04 0.01 0.00 0.12 0.00 0.13 0.15 0.06 0.07 0.06 0.20 0.01 0.26 0.25 0.03 0.00 0.20 0.00 0.02 0.00
O6 0.02 0.01 0.09 0.38 0.01 0.12 0.01 0.11 0.01 0.02 0.01 0.01 0.01 0.02 0.02 0.27 0.14 0.02 0.20 0.00 0.47 0.87 0.42
OP1 0.33 0.42 0.67 0.03 0.43 0.20 0.47 0.39 0.47 0.48 0.45 0.41 0.40 0.50 0.42 0.61 0.35 0.06 0.00 0.47 0.00 0.00 0.00
OP2 0.01 0.39 0.21 0.06 0.40 0.20 0.64 0.38 0.72 0.56 0.57 0.31 0.28 0.78 0.30 0.18 0.25 0.08 0.02 0.87 0.00 0.00 0.00
P 0.05 0.18 0.43 0.05 0.17 0.01 0.29 0.00 0.34 0.24 0.27 0.14 0.12 0.35 0.11 0.37 0.18 0.11 0.00 0.42 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 3.02 4.51 2.62 1.72 5.20 1.69 4.50 1.09 3.80 3.82 5.15 5.72 4.40 2.44 1.35 2.53 1.20 0.08 0.09 0.19
C2 2.17 2.95 1.81 1.19 3.01 1.36 2.65 0.86 2.42 2.58 3.14 3.09 2.96 1.51 0.87 2.02 1.11 0.03 0.05 0.14
C2' 3.18 4.76 2.87 1.88 5.57 1.76 4.77 1.12 3.99 4.01 5.49 6.24 4.65 2.80 1.56 2.57 1.08 0.09 0.35 0.01
C3' 2.98 4.57 2.70 1.74 5.43 1.61 4.65 1.02 3.85 3.83 5.33 6.17 4.45 2.59 1.41 2.39 1.06 0.03 0.27 0.06
C4 2.78 4.05 2.36 1.58 4.34 1.60 3.75 0.95 3.29 3.44 4.46 4.56 4.01 2.12 1.31 2.41 1.14 0.00 0.01 0.13
C4' 2.96 4.57 2.57 1.67 5.34 1.62 4.56 1.04 3.79 3.80 5.30 6.03 4.48 2.39 1.31 2.46 1.21 0.22 0.02 0.26
C5 2.78 4.09 2.34 1.63 4.14 1.57 3.48 0.82 3.10 3.40 4.41 4.29 4.15 2.11 1.48 2.38 1.06 0.08 0.08 0.07
C5' 2.95 4.66 2.53 1.64 5.43 1.55 4.55 0.93 3.76 3.82 5.44 6.15 4.61 2.35 1.33 2.42 1.16 0.17 0.04 0.23
C6 2.45 3.44 2.03 1.47 3.25 1.44 2.70 0.67 2.49 2.87 3.57 3.31 3.58 1.78 1.39 2.17 0.97 0.14 0.15 0.03
C8 3.08 4.74 2.66 1.82 5.15 1.68 4.27 0.93 3.66 3.88 5.36 5.56 4.75 2.50 1.64 2.53 1.11 0.05 0.04 0.10
N1 2.12 2.85 1.75 1.22 2.72 1.34 2.31 0.70 2.16 2.45 2.96 2.76 2.94 1.46 1.04 1.99 1.02 0.09 0.09 0.06
N2 1.72 2.28 1.42 0.85 2.32 1.12 2.05 0.80 1.89 2.01 2.42 2.38 2.31 1.12 0.48 1.65 1.04 0.13 0.15 0.18
N3 2.50 3.53 2.12 1.38 3.80 1.50 3.37 0.98 2.99 3.07 3.86 3.98 3.48 1.85 1.02 2.24 1.15 0.07 0.08 0.17
N7 2.97 4.54 2.53 1.77 4.67 1.61 3.83 0.81 3.35 3.67 5.01 4.92 4.64 2.36 1.68 2.43 1.03 0.10 0.10 0.06
N9 2.99 4.49 2.57 1.72 4.99 1.67 4.26 1.01 3.65 3.76 5.07 5.38 4.42 2.38 1.44 2.51 1.16 0.01 0.03 0.14
O2' 3.66 5.15 3.40 2.35 6.04 2.22 5.34 1.60 4.53 4.49 5.86 6.70 4.98 3.37 1.97 3.02 1.43 0.15 0.12 0.31
O3' 3.30 4.75 3.09 2.15 5.62 2.03 4.96 1.51 4.18 4.11 5.46 6.31 4.60 2.97 1.78 2.74 1.52 0.58 0.14 0.56
O4' 2.91 4.45 2.47 1.60 5.13 1.61 4.40 1.04 3.69 3.72 5.12 5.70 4.37 2.24 1.23 2.47 1.26 0.25 0.10 0.33
O5' 2.95 4.74 2.55 1.67 5.47 1.51 4.52 0.82 3.73 3.84 5.54 6.20 4.72 2.40 1.43 2.36 1.05 0.02 0.02 0.10
O6 2.26 3.16 1.88 1.43 2.81 1.32 2.24 0.46 2.08 2.56 3.21 2.84 3.44 1.65 1.51 1.95 0.80 0.21 0.25 0.04
OP1 3.63 5.58 3.21 2.31 6.21 2.06 5.14 1.28 4.36 4.54 6.42 6.96 5.64 3.11 2.14 2.95 1.50 0.33 0.53 0.53
OP2 2.03 3.84 1.64 0.85 4.50 0.66 3.54 0.02 2.77 2.90 4.63 5.24 3.88 1.46 0.72 1.46 0.34 0.50 0.49 0.50
P 2.68 4.57 2.27 1.40 5.30 1.18 4.30 0.48 3.48 3.60 5.41 6.08 4.57 2.13 1.20 2.05 0.75 0.28 0.20 0.17

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.10 0.00 0.00 0.00 0.01 0.01 0.02 0.28 0.00 0.08 0.11 0.03 0.07
C2 0.00 0.00 0.21 0.20 0.00 0.02 0.00 0.15 0.00 0.00 0.00 0.01 0.00 0.01 0.12 0.13 0.07 0.08 0.33 0.11
C2' 0.00 0.21 0.00 0.00 0.08 0.01 0.06 0.20 0.13 0.04 0.19 0.09 0.32 0.00 0.01 0.01 0.13 0.30 0.04 0.05
C3' 0.01 0.20 0.00 0.00 0.32 0.00 0.31 0.03 0.25 0.18 0.27 0.36 0.11 0.00 0.01 0.03 0.33 0.59 0.03 0.21
C4 0.00 0.00 0.08 0.32 0.00 0.06 0.00 0.11 0.00 0.00 0.00 0.00 0.01 0.23 0.12 0.03 0.31 0.03 0.95 0.42
C4' 0.00 0.02 0.01 0.00 0.06 0.00 0.11 0.01 0.12 0.04 0.01 0.07 0.08 0.27 0.03 0.00 0.01 0.23 0.36 0.06
C5 0.00 0.00 0.06 0.31 0.00 0.11 0.00 0.06 0.00 0.00 0.00 0.00 0.00 0.35 0.17 0.07 0.46 0.19 1.15 0.57
C5' 0.10 0.15 0.20 0.03 0.11 0.01 0.06 0.00 0.05 0.10 0.14 0.10 0.17 0.08 0.17 0.02 0.00 0.35 0.25 0.00
C6 0.00 0.00 0.13 0.25 0.00 0.12 0.00 0.05 0.00 0.00 0.00 0.00 0.01 0.34 0.10 0.11 0.44 0.23 0.90 0.50
N1 0.00 0.00 0.04 0.18 0.00 0.04 0.00 0.10 0.00 0.00 0.00 0.00 0.01 0.14 0.08 0.01 0.20 0.07 0.43 0.23
N3 0.00 0.00 0.19 0.27 0.00 0.01 0.00 0.14 0.00 0.00 0.00 0.01 0.00 0.08 0.01 0.11 0.15 0.09 0.60 0.22
N4 0.01 0.01 0.09 0.36 0.00 0.07 0.00 0.10 0.00 0.00 0.01 0.00 0.01 0.24 0.18 0.03 0.34 0.02 1.12 0.48
O2 0.01 0.00 0.32 0.11 0.01 0.08 0.00 0.17 0.01 0.01 0.00 0.01 0.00 0.23 0.28 0.20 0.08 0.19 0.01 0.07
O2' 0.02 0.01 0.00 0.00 0.23 0.27 0.35 0.08 0.34 0.14 0.08 0.24 0.23 0.00 0.01 0.15 0.28 0.56 0.01 0.20
O3' 0.28 0.12 0.01 0.01 0.12 0.03 0.17 0.17 0.10 0.08 0.01 0.18 0.28 0.01 0.00 0.20 0.36 0.88 0.08 0.32
O4' 0.00 0.13 0.01 0.03 0.03 0.00 0.07 0.02 0.11 0.01 0.11 0.03 0.20 0.15 0.20 0.00 0.00 0.02 0.07 0.02
O5' 0.08 0.07 0.13 0.33 0.31 0.01 0.46 0.00 0.44 0.20 0.15 0.34 0.08 0.28 0.36 0.00 0.00 0.01 0.00 0.00
OP1 0.11 0.08 0.30 0.59 0.03 0.23 0.19 0.35 0.23 0.07 0.09 0.02 0.19 0.56 0.88 0.02 0.01 0.00 0.00 0.00
OP2 0.03 0.33 0.04 0.03 0.95 0.36 1.15 0.25 0.90 0.43 0.60 1.12 0.01 0.01 0.08 0.07 0.00 0.00 0.00 0.00
P 0.07 0.11 0.05 0.21 0.42 0.06 0.57 0.00 0.50 0.23 0.22 0.48 0.07 0.20 0.32 0.02 0.00 0.00 0.00 0.00