ClaRNA

Doublet Group distance statistics: 48066

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.000, 0.003, 0.007, 0.007 max_d=0.007 avg_d=0.003 std_dev=0.003
N3 A 0, 0.000, 0.004, 0.009, 0.009 max_d=0.009 avg_d=0.004 std_dev=0.004
N1 A 0, 0.000, 0.007, 0.015, 0.015 max_d=0.015 avg_d=0.007 std_dev=0.007
C2 A 0, 0.000, 0.011, 0.021, 0.021 max_d=0.021 avg_d=0.011 std_dev=0.011
C1' A 0, 0.000, 0.011, 0.021, 0.021 max_d=0.021 avg_d=0.011 std_dev=0.011
C6 A 0, 0.000, 0.011, 0.022, 0.022 max_d=0.022 avg_d=0.011 std_dev=0.011
C4 A 0, 0.000, 0.011, 0.022, 0.022 max_d=0.022 avg_d=0.011 std_dev=0.011
O2 A 0, 0.000, 0.029, 0.057, 0.057 max_d=0.057 avg_d=0.029 std_dev=0.029
N4 A 0, 0.000, 0.036, 0.073, 0.073 max_d=0.073 avg_d=0.036 std_dev=0.036
O4' A 0, 0.000, 0.173, 0.346, 0.346 max_d=0.346 avg_d=0.173 std_dev=0.173
C2' A 0, 0.000, 0.195, 0.391, 0.391 max_d=0.391 avg_d=0.195 std_dev=0.195
C4' A 0, 0.000, 0.278, 0.555, 0.555 max_d=0.555 avg_d=0.278 std_dev=0.278
C3' A 0, 0.000, 0.311, 0.622, 0.622 max_d=0.622 avg_d=0.311 std_dev=0.311
O2' A 0, 0.000, 0.321, 0.641, 0.641 max_d=0.641 avg_d=0.321 std_dev=0.321
OP1 B 0, 0.000, 0.328, 0.655, 0.655 max_d=0.655 avg_d=0.328 std_dev=0.328
P B 0, 0.000, 0.454, 0.908, 0.908 max_d=0.908 avg_d=0.454 std_dev=0.454
C5' A 0, 0.000, 0.478, 0.957, 0.957 max_d=0.957 avg_d=0.478 std_dev=0.478
O3' A 0, 0.000, 0.500, 0.999, 0.999 max_d=0.999 avg_d=0.500 std_dev=0.500
OP2 B 0, 0.000, 0.581, 1.162, 1.162 max_d=1.162 avg_d=0.581 std_dev=0.581
O5' B 0, 0.000, 1.039, 2.078, 2.078 max_d=2.078 avg_d=1.039 std_dev=1.039
O5' A 0, 0.000, 1.350, 2.699, 2.699 max_d=2.699 avg_d=1.350 std_dev=1.350
C5' B 0, 0.000, 1.529, 3.059, 3.059 max_d=3.059 avg_d=1.529 std_dev=1.529
OP2 A 0, 0.000, 1.909, 3.818, 3.818 max_d=3.818 avg_d=1.909 std_dev=1.909
P A 0, 0.000, 1.999, 3.999, 3.999 max_d=3.999 avg_d=1.999 std_dev=1.999
C4' B 0, 0.000, 2.472, 4.945, 4.945 max_d=4.945 avg_d=2.472 std_dev=2.472
OP1 A 0, 0.000, 2.631, 5.261, 5.261 max_d=5.261 avg_d=2.631 std_dev=2.631
O4' B 0, 0.000, 2.805, 5.611, 5.611 max_d=5.611 avg_d=2.805 std_dev=2.805
C6 B 0, 0.000, 2.840, 5.679, 5.679 max_d=5.679 avg_d=2.840 std_dev=2.840
C5 B 0, 0.000, 2.957, 5.913, 5.913 max_d=5.913 avg_d=2.957 std_dev=2.957
C3' B 0, 0.000, 3.156, 6.312, 6.312 max_d=6.312 avg_d=3.156 std_dev=3.156
N1 B 0, 0.000, 3.603, 7.206, 7.206 max_d=7.206 avg_d=3.603 std_dev=3.603
C1' B 0, 0.000, 3.680, 7.360, 7.360 max_d=7.360 avg_d=3.680 std_dev=3.680
O3' B 0, 0.000, 3.710, 7.419, 7.419 max_d=7.419 avg_d=3.710 std_dev=3.710
C4 B 0, 0.000, 3.790, 7.580, 7.580 max_d=7.580 avg_d=3.790 std_dev=3.790
C2' B 0, 0.000, 3.981, 7.963, 7.963 max_d=7.963 avg_d=3.981 std_dev=3.981
N4 B 0, 0.000, 4.017, 8.035, 8.035 max_d=8.035 avg_d=4.017 std_dev=4.017
C2 B 0, 0.000, 4.412, 8.823, 8.823 max_d=8.823 avg_d=4.412 std_dev=4.412
N3 B 0, 0.000, 4.452, 8.904, 8.904 max_d=8.904 avg_d=4.452 std_dev=4.452
O2' B 0, 0.000, 4.650, 9.299, 9.299 max_d=9.299 avg_d=4.650 std_dev=4.650
O2 B 0, 0.000, 5.127, 10.253, 10.253 max_d=10.253 avg_d=5.127 std_dev=5.127

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 0.00 0.00 0.01 0.00 0.00 0.00 0.02 0.00 0.00 0.00 0.00 0.00 0.01 0.01 0.00 0.23 0.44 0.10 0.27
C2 0.00 0.00 0.05 0.00 0.00 0.02 0.00 0.08 0.00 0.00 0.00 0.00 0.00 0.08 0.01 0.03 0.50 0.91 0.40 0.65
C2' 0.00 0.05 0.00 0.00 0.01 0.00 0.03 0.01 0.05 0.00 0.04 0.02 0.08 0.00 0.00 0.01 0.27 0.32 0.03 0.23
C3' 0.01 0.00 0.00 0.00 0.05 0.00 0.10 0.01 0.11 0.04 0.02 0.06 0.03 0.01 0.00 0.00 0.33 0.31 0.04 0.24
C4 0.00 0.00 0.01 0.05 0.00 0.05 0.00 0.13 0.00 0.00 0.00 0.00 0.00 0.04 0.07 0.01 0.77 1.35 0.73 1.02
C4' 0.00 0.02 0.00 0.00 0.05 0.00 0.06 0.00 0.06 0.03 0.03 0.06 0.00 0.03 0.02 0.00 0.00 0.12 0.10 0.01
C5 0.00 0.00 0.03 0.10 0.00 0.06 0.00 0.13 0.00 0.00 0.00 0.00 0.00 0.01 0.14 0.01 0.83 1.35 0.77 1.06
C5' 0.02 0.08 0.01 0.01 0.13 0.00 0.13 0.00 0.11 0.08 0.11 0.15 0.06 0.03 0.01 0.01 0.00 0.20 0.03 0.00
C6 0.00 0.00 0.05 0.11 0.00 0.06 0.00 0.11 0.00 0.00 0.00 0.00 0.00 0.04 0.13 0.02 0.73 1.09 0.59 0.85
N1 0.00 0.00 0.00 0.04 0.00 0.03 0.00 0.08 0.00 0.00 0.00 0.00 0.00 0.01 0.04 0.00 0.51 0.84 0.37 0.60
N3 0.00 0.00 0.04 0.02 0.00 0.03 0.00 0.11 0.00 0.00 0.00 0.00 0.00 0.08 0.02 0.02 0.64 1.15 0.57 0.85
N4 0.00 0.00 0.02 0.06 0.00 0.06 0.00 0.15 0.00 0.00 0.00 0.00 0.00 0.05 0.08 0.02 0.83 1.50 0.85 1.14
O2 0.00 0.00 0.08 0.03 0.00 0.00 0.00 0.06 0.00 0.00 0.00 0.00 0.00 0.13 0.07 0.03 0.36 0.71 0.25 0.48
O2' 0.01 0.08 0.00 0.01 0.04 0.03 0.01 0.03 0.04 0.01 0.08 0.05 0.13 0.00 0.02 0.05 0.07 0.06 0.14 0.02
O3' 0.01 0.01 0.00 0.00 0.07 0.02 0.14 0.01 0.13 0.04 0.02 0.08 0.07 0.02 0.00 0.01 0.21 0.07 0.12 0.08
O4' 0.00 0.03 0.01 0.00 0.01 0.00 0.01 0.01 0.02 0.00 0.02 0.02 0.03 0.05 0.01 0.00 0.05 0.32 0.02 0.11
O5' 0.23 0.50 0.27 0.33 0.77 0.00 0.83 0.00 0.73 0.51 0.64 0.83 0.36 0.07 0.21 0.05 0.00 0.01 0.01 0.00
OP1 0.44 0.91 0.32 0.31 1.35 0.12 1.35 0.20 1.09 0.84 1.15 1.50 0.71 0.06 0.07 0.32 0.01 0.00 0.01 0.00
OP2 0.10 0.40 0.03 0.04 0.73 0.10 0.77 0.03 0.59 0.37 0.57 0.85 0.25 0.14 0.12 0.02 0.01 0.01 0.00 0.01
P 0.27 0.65 0.23 0.24 1.02 0.01 1.06 0.00 0.85 0.60 0.85 1.14 0.48 0.02 0.08 0.11 0.00 0.00 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 1.46 1.35 2.02 1.88 0.80 1.27 0.62 0.73 0.85 1.23 1.14 0.61 1.63 2.22 2.35 1.04 0.61 0.08 0.38 0.27
C2 0.95 0.80 1.50 1.48 0.33 0.91 0.22 0.53 0.44 0.74 0.60 0.14 1.01 1.61 1.93 0.62 0.49 0.10 0.35 0.22
C2' 1.55 1.41 2.14 2.02 0.83 1.42 0.65 0.90 0.89 1.29 1.18 0.62 1.71 2.37 2.54 1.15 0.64 0.15 0.39 0.30
C3' 1.85 1.75 2.41 2.24 1.16 1.65 0.96 1.06 1.18 1.60 1.53 0.97 2.06 2.67 2.74 1.42 0.75 0.19 0.48 0.39
C4 0.66 0.52 1.13 1.19 0.17 0.69 0.09 0.40 0.28 0.50 0.36 0.02 0.67 1.17 1.55 0.40 0.43 0.08 0.34 0.21
C4' 1.98 1.95 2.53 2.25 1.35 1.62 1.10 0.96 1.31 1.76 1.74 1.17 2.28 2.80 2.69 1.49 0.76 0.11 0.48 0.37
C5 1.01 0.89 1.46 1.49 0.52 0.95 0.42 0.58 0.60 0.84 0.73 0.37 1.05 1.50 1.84 0.71 0.54 0.06 0.37 0.27
C5' 2.26 2.29 2.77 2.40 1.70 1.77 1.42 1.05 1.60 2.06 2.09 1.54 2.62 3.05 2.78 1.73 0.86 0.13 0.58 0.46
C6 1.29 1.18 1.79 1.75 0.72 1.16 0.58 0.69 0.78 1.10 0.99 0.56 1.39 1.89 2.17 0.93 0.60 0.06 0.38 0.28
N1 1.24 1.11 1.78 1.71 0.62 1.12 0.48 0.65 0.69 1.02 0.91 0.44 1.34 1.91 2.16 0.87 0.57 0.08 0.38 0.26
N3 0.68 0.51 1.20 1.24 0.10 0.71 0.02 0.41 0.24 0.48 0.33 0.08 0.68 1.26 1.65 0.40 0.42 0.10 0.32 0.20
N4 0.30 0.15 0.73 0.84 0.13 0.39 0.17 0.22 0.00 0.16 0.02 0.25 0.26 0.73 1.15 0.09 0.30 0.06 0.29 0.15
O2 0.94 0.77 1.51 1.48 0.27 0.91 0.16 0.52 0.40 0.71 0.55 0.06 1.00 1.65 1.95 0.60 0.48 0.11 0.34 0.21
O2' 1.61 1.48 2.22 2.06 0.84 1.45 0.65 0.90 0.91 1.33 1.23 0.62 1.81 2.49 2.59 1.19 0.64 0.15 0.37 0.29
O3' 2.03 1.92 2.58 2.38 1.30 1.82 1.07 1.23 1.31 1.76 1.68 1.10 2.26 2.89 2.88 1.60 0.83 0.28 0.53 0.46
O4' 1.69 1.66 2.23 1.99 1.11 1.35 0.88 0.73 1.08 1.49 1.46 0.93 1.96 2.44 2.41 1.21 0.64 0.01 0.40 0.28
O5' 2.89 2.83 3.34 3.04 2.27 2.47 2.04 1.78 2.25 2.67 2.62 2.08 3.11 3.55 3.39 2.43 1.65 0.95 1.31 1.27
OP1 3.94 4.09 4.32 3.79 3.58 3.16 3.30 2.39 3.44 3.86 3.94 3.43 4.34 4.36 3.75 3.34 2.45 1.54 2.16 2.03
OP2 3.69 3.72 4.09 3.53 3.08 3.00 2.76 2.15 2.95 3.47 3.50 2.91 4.08 4.47 3.67 3.11 1.91 1.02 1.51 1.45
P 3.58 3.57 3.99 3.58 3.02 2.99 2.76 2.21 2.95 3.39 3.37 2.84 3.85 4.16 3.77 3.06 2.11 1.27 1.75 1.68

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.01 0.00 0.01 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.00 0.01 0.01 0.01 0.00 0.09 0.09 0.37 0.12
C2 0.01 0.00 0.06 0.11 0.00 0.04 0.00 0.07 0.00 0.00 0.00 0.00 0.00 0.01 0.13 0.02 0.20 0.03 0.38 0.10
C2' 0.00 0.06 0.00 0.00 0.02 0.00 0.01 0.01 0.03 0.01 0.05 0.02 0.09 0.00 0.01 0.00 0.21 0.34 0.11 0.11
C3' 0.01 0.11 0.00 0.00 0.10 0.00 0.05 0.01 0.02 0.06 0.12 0.10 0.12 0.01 0.01 0.00 0.30 0.48 0.00 0.25
C4 0.00 0.00 0.02 0.10 0.00 0.06 0.00 0.12 0.00 0.00 0.00 0.00 0.00 0.02 0.11 0.01 0.28 0.07 0.37 0.09
C4' 0.00 0.04 0.00 0.00 0.06 0.00 0.06 0.00 0.05 0.04 0.05 0.07 0.02 0.02 0.01 0.00 0.01 0.20 0.30 0.04
C5 0.00 0.00 0.01 0.05 0.00 0.06 0.00 0.12 0.00 0.00 0.00 0.00 0.00 0.03 0.06 0.03 0.29 0.09 0.39 0.08
C5' 0.01 0.07 0.01 0.01 0.12 0.00 0.12 0.00 0.10 0.07 0.10 0.13 0.05 0.02 0.01 0.00 0.01 0.18 0.33 0.01
C6 0.00 0.00 0.03 0.02 0.00 0.05 0.00 0.10 0.00 0.00 0.00 0.00 0.00 0.03 0.03 0.04 0.26 0.03 0.41 0.10
N1 0.00 0.00 0.01 0.06 0.00 0.04 0.00 0.07 0.00 0.00 0.00 0.00 0.00 0.02 0.07 0.01 0.20 0.03 0.39 0.10
N3 0.00 0.00 0.05 0.12 0.00 0.05 0.00 0.10 0.00 0.00 0.00 0.00 0.00 0.02 0.14 0.01 0.24 0.02 0.37 0.09
N4 0.00 0.00 0.02 0.10 0.00 0.07 0.00 0.13 0.00 0.00 0.00 0.00 0.00 0.02 0.13 0.01 0.29 0.11 0.35 0.08
O2 0.01 0.00 0.09 0.12 0.00 0.02 0.00 0.05 0.00 0.00 0.00 0.00 0.00 0.00 0.15 0.04 0.16 0.08 0.36 0.10
O2' 0.01 0.01 0.00 0.01 0.02 0.02 0.03 0.02 0.03 0.02 0.02 0.02 0.00 0.00 0.02 0.02 0.04 0.28 0.18 0.00
O3' 0.01 0.13 0.01 0.01 0.11 0.01 0.06 0.01 0.03 0.07 0.14 0.13 0.15 0.02 0.00 0.01 0.27 0.65 0.15 0.36
O4' 0.00 0.02 0.00 0.00 0.01 0.00 0.03 0.00 0.04 0.01 0.01 0.01 0.04 0.02 0.01 0.00 0.07 0.03 0.51 0.25
O5' 0.09 0.20 0.21 0.30 0.28 0.01 0.29 0.01 0.26 0.20 0.24 0.29 0.16 0.04 0.27 0.07 0.00 0.00 0.00 0.00
OP1 0.09 0.03 0.34 0.48 0.07 0.20 0.09 0.18 0.03 0.03 0.02 0.11 0.08 0.28 0.65 0.03 0.00 0.00 0.00 0.00
OP2 0.37 0.38 0.11 0.00 0.37 0.30 0.39 0.33 0.41 0.39 0.37 0.35 0.36 0.18 0.15 0.51 0.00 0.00 0.00 0.00
P 0.12 0.10 0.11 0.25 0.09 0.04 0.08 0.01 0.10 0.10 0.09 0.08 0.10 0.00 0.36 0.25 0.00 0.00 0.00 0.00