ClaRNA

Doublet Group distance statistics: 37313

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Distances from reference structure (by RMSD)

2, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C2 A 0, -0.047, 0.118, 0.282, 0.350 max_d=0.350 avg_d=0.118 std_dev=0.164
C1' B 0, -0.050, 0.125, 0.301, 0.374 max_d=0.374 avg_d=0.125 std_dev=0.175
N9 B 0, -0.058, 0.144, 0.345, 0.428 max_d=0.428 avg_d=0.144 std_dev=0.201
C8 B 0, -0.069, 0.174, 0.418, 0.519 max_d=0.519 avg_d=0.174 std_dev=0.244
C4 B 0, -0.072, 0.176, 0.423, 0.526 max_d=0.526 avg_d=0.176 std_dev=0.248
N3 B 0, -0.071, 0.179, 0.429, 0.533 max_d=0.533 avg_d=0.179 std_dev=0.250
O2 A 0, -0.072, 0.189, 0.450, 0.558 max_d=0.558 avg_d=0.189 std_dev=0.261
N3 A 0, -0.078, 0.193, 0.465, 0.577 max_d=0.577 avg_d=0.193 std_dev=0.271
N7 B 0, -0.086, 0.215, 0.516, 0.641 max_d=0.641 avg_d=0.215 std_dev=0.301
C5 B 0, -0.088, 0.218, 0.523, 0.650 max_d=0.650 avg_d=0.218 std_dev=0.306
C2 B 0, -0.092, 0.228, 0.549, 0.681 max_d=0.681 avg_d=0.228 std_dev=0.320
C2' B 0, -0.097, 0.250, 0.597, 0.741 max_d=0.741 avg_d=0.250 std_dev=0.347
N1 A 0, -0.103, 0.251, 0.605, 0.752 max_d=0.752 avg_d=0.251 std_dev=0.354
N2 B 0, -0.100, 0.255, 0.609, 0.756 max_d=0.756 avg_d=0.255 std_dev=0.354
C4 A 0, -0.103, 0.253, 0.609, 0.757 max_d=0.757 avg_d=0.253 std_dev=0.356
C6 B 0, -0.108, 0.270, 0.649, 0.806 max_d=0.806 avg_d=0.270 std_dev=0.379
N1 B 0, -0.111, 0.269, 0.648, 0.805 max_d=0.805 avg_d=0.269 std_dev=0.379
C5 A 0, -0.113, 0.279, 0.670, 0.832 max_d=0.832 avg_d=0.279 std_dev=0.391
C6 A 0, -0.126, 0.309, 0.744, 0.924 max_d=0.924 avg_d=0.309 std_dev=0.435
O6 B 0, -0.127, 0.321, 0.769, 0.955 max_d=0.955 avg_d=0.321 std_dev=0.448
O2' B 0, -0.131, 0.332, 0.795, 0.987 max_d=0.987 avg_d=0.332 std_dev=0.463
O4' B 0, -0.143, 0.359, 0.860, 1.068 max_d=1.068 avg_d=0.359 std_dev=0.502
N4 A 0, -0.172, 0.428, 1.028, 1.276 max_d=1.276 avg_d=0.428 std_dev=0.600
C1' A 0, -0.178, 0.431, 1.040, 1.293 max_d=1.293 avg_d=0.431 std_dev=0.609
C4' B 0, -0.225, 0.553, 1.331, 1.653 max_d=1.653 avg_d=0.553 std_dev=0.778
C5' B 0, -0.228, 0.567, 1.361, 1.691 max_d=1.691 avg_d=0.567 std_dev=0.795
C3' B 0, -0.260, 0.647, 1.553, 1.928 max_d=1.928 avg_d=0.647 std_dev=0.906
C3' A 0, -0.279, 0.678, 1.635, 2.031 max_d=2.031 avg_d=0.678 std_dev=0.957
C4' A 0, -0.289, 0.706, 1.702, 2.114 max_d=2.114 avg_d=0.706 std_dev=0.995
C2' A 0, -0.313, 0.761, 1.835, 2.280 max_d=2.280 avg_d=0.761 std_dev=1.074
O4' A 0, -0.342, 0.829, 2.000, 2.485 max_d=2.485 avg_d=0.829 std_dev=1.171
O3' A 0, -0.405, 0.992, 2.390, 2.969 max_d=2.969 avg_d=0.992 std_dev=1.398
O3' B 0, -0.431, 1.065, 2.561, 3.181 max_d=3.181 avg_d=1.065 std_dev=1.496
O5' B 0, -0.459, 1.128, 2.715, 3.373 max_d=3.373 avg_d=1.128 std_dev=1.587
O2' A 0, -0.572, 1.401, 3.375, 4.193 max_d=4.193 avg_d=1.401 std_dev=1.974
OP1 B 0, -0.602, 1.473, 3.549, 4.408 max_d=4.408 avg_d=1.473 std_dev=2.075
P B 0, -0.641, 1.565, 3.771, 4.685 max_d=4.685 avg_d=1.565 std_dev=2.206
C5' A 0, -0.681, 1.660, 4.000, 4.969 max_d=4.969 avg_d=1.660 std_dev=2.340
OP2 B 0, -0.796, 1.935, 4.666, 5.798 max_d=5.798 avg_d=1.935 std_dev=2.731
O5' A 0, -0.864, 2.119, 5.102, 6.337 max_d=6.337 avg_d=2.119 std_dev=2.983
OP1 A 0, -1.190, 2.901, 6.993, 8.688 max_d=8.688 avg_d=2.901 std_dev=4.092
P A 0, -1.202, 2.929, 7.059, 8.770 max_d=8.770 avg_d=2.929 std_dev=4.131
OP2 A 0, -1.316, 3.201, 7.718, 9.589 max_d=9.589 avg_d=3.201 std_dev=4.517

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 0.01 0.00 0.02 0.01 0.01 0.00 0.03 0.01 0.02 0.01 0.01 0.01 0.01 0.05 0.00 0.25 0.32 0.22 0.26
C2 0.01 0.00 0.05 0.01 0.01 0.20 0.01 0.27 0.01 0.00 0.00 0.02 0.00 0.07 0.05 0.32 0.14 0.16 0.48 0.21
C2' 0.00 0.05 0.00 0.01 0.03 0.03 0.01 0.00 0.01 0.03 0.05 0.03 0.05 0.00 0.00 0.01 0.36 0.65 0.22 0.39
C3' 0.02 0.01 0.01 0.00 0.37 0.00 0.56 0.00 0.55 0.24 0.14 0.40 0.30 0.01 0.01 0.01 0.42 0.80 0.12 0.44
C4 0.01 0.01 0.03 0.37 0.00 0.24 0.00 0.46 0.01 0.01 0.01 0.00 0.02 0.25 0.34 0.06 1.05 1.05 1.76 1.29
C4' 0.01 0.20 0.03 0.00 0.24 0.00 0.53 0.01 0.56 0.14 0.06 0.26 0.58 0.20 0.02 0.00 0.03 0.32 0.28 0.04
C5 0.00 0.01 0.01 0.56 0.00 0.53 0.00 0.96 0.00 0.01 0.00 0.01 0.02 0.43 0.45 0.33 1.59 1.57 2.27 1.86
C5' 0.03 0.27 0.00 0.00 0.46 0.01 0.96 0.00 0.95 0.26 0.06 0.52 0.89 0.17 0.05 0.01 0.01 0.39 0.42 0.01
C6 0.01 0.01 0.01 0.55 0.01 0.56 0.00 0.95 0.00 0.00 0.01 0.01 0.00 0.43 0.39 0.42 1.48 1.41 1.85 1.63
N1 0.02 0.00 0.03 0.24 0.01 0.14 0.01 0.26 0.00 0.00 0.00 0.01 0.00 0.13 0.16 0.04 0.66 0.65 0.89 0.72
N3 0.01 0.00 0.05 0.14 0.01 0.06 0.00 0.06 0.01 0.00 0.00 0.02 0.01 0.04 0.17 0.20 0.44 0.43 0.98 0.57
N4 0.01 0.02 0.03 0.40 0.00 0.26 0.01 0.52 0.01 0.01 0.02 0.00 0.03 0.27 0.38 0.06 1.15 1.18 2.04 1.45
O2 0.01 0.00 0.05 0.30 0.02 0.58 0.02 0.89 0.00 0.00 0.01 0.03 0.00 0.34 0.16 0.64 0.56 0.50 0.34 0.56
O2' 0.01 0.07 0.00 0.01 0.25 0.20 0.43 0.17 0.43 0.13 0.04 0.27 0.34 0.00 0.07 0.18 0.34 0.66 0.07 0.36
O3' 0.05 0.05 0.00 0.01 0.34 0.02 0.45 0.05 0.39 0.16 0.17 0.38 0.16 0.07 0.00 0.01 0.37 0.97 0.03 0.44
O4' 0.00 0.32 0.01 0.01 0.06 0.00 0.33 0.01 0.42 0.04 0.20 0.06 0.64 0.18 0.01 0.00 0.05 0.13 0.05 0.05
O5' 0.25 0.14 0.36 0.42 1.05 0.03 1.59 0.01 1.48 0.66 0.44 1.15 0.56 0.34 0.37 0.05 0.00 0.00 0.01 0.01
OP1 0.32 0.16 0.65 0.80 1.05 0.32 1.57 0.39 1.41 0.65 0.43 1.18 0.50 0.66 0.97 0.13 0.00 0.00 0.00 0.00
OP2 0.22 0.48 0.22 0.12 1.76 0.28 2.27 0.42 1.85 0.89 0.98 2.04 0.34 0.07 0.03 0.05 0.01 0.00 0.00 0.00
P 0.26 0.21 0.39 0.44 1.29 0.04 1.86 0.01 1.63 0.72 0.57 1.45 0.56 0.36 0.44 0.05 0.01 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.62 0.74 0.41 0.88 0.71 0.66 0.73 0.56 0.75 0.66 0.75 0.75 0.72 0.71 0.66 0.21 0.92 0.64 1.53 0.75 1.32 1.76 1.75
C2 0.18 0.40 0.09 0.51 0.30 0.20 0.33 0.10 0.42 0.17 0.44 0.42 0.33 0.25 0.22 0.16 0.47 0.12 1.15 0.48 0.98 1.32 1.31
C2' 0.40 0.54 0.32 0.80 0.50 0.46 0.54 0.38 0.57 0.45 0.56 0.54 0.50 0.52 0.45 0.16 0.90 0.35 1.34 0.59 1.22 1.62 1.58
C3' 0.50 0.23 0.66 0.20 0.31 0.48 0.22 0.54 0.11 0.39 0.14 0.22 0.31 0.25 0.41 0.78 0.08 0.53 0.36 0.01 0.34 0.69 0.68
C4 0.16 0.20 0.16 0.20 0.00 0.15 0.03 0.26 0.21 0.23 0.27 0.25 0.08 0.15 0.13 0.44 0.11 0.26 0.81 0.33 0.66 0.94 0.91
C4' 0.39 0.05 0.73 0.30 0.16 0.42 0.06 0.51 0.07 0.27 0.05 0.04 0.16 0.11 0.29 0.88 0.20 0.34 0.33 0.19 0.20 0.67 0.66
C5 0.04 0.47 0.02 0.35 0.28 0.02 0.34 0.14 0.54 0.01 0.56 0.51 0.35 0.13 0.10 0.29 0.29 0.06 0.91 0.65 0.72 1.04 1.01
C5' 1.42 0.86 1.86 1.46 1.04 1.50 0.85 1.60 0.61 1.19 0.66 0.84 1.03 0.92 1.24 2.01 1.35 1.34 0.79 0.38 0.85 0.32 0.40
C6 0.34 0.66 0.20 0.61 0.55 0.32 0.62 0.16 0.72 0.37 0.71 0.68 0.59 0.52 0.42 0.05 0.60 0.29 1.20 0.76 0.96 1.35 1.32
N1 0.38 0.61 0.24 0.67 0.53 0.39 0.57 0.26 0.64 0.40 0.64 0.62 0.55 0.50 0.44 0.00 0.66 0.34 1.29 0.68 1.08 1.48 1.45
N3 0.07 0.20 0.08 0.30 0.06 0.04 0.09 0.14 0.22 0.10 0.25 0.24 0.11 0.03 0.04 0.36 0.22 0.15 0.93 0.30 0.79 1.08 1.06
N4 0.44 0.09 0.36 0.03 0.32 0.40 0.33 0.50 0.14 0.54 0.02 0.00 0.22 0.51 0.44 0.67 0.17 0.55 0.57 0.03 0.47 0.70 0.67
O2 0.22 0.38 0.13 0.56 0.31 0.26 0.34 0.18 0.40 0.23 0.41 0.40 0.33 0.28 0.25 0.11 0.53 0.18 1.22 0.44 1.07 1.39 1.40
O2' 1.32 1.29 1.27 1.79 1.32 1.43 1.29 1.34 1.23 1.32 1.25 1.30 1.32 1.29 1.33 1.13 1.93 1.28 2.26 1.15 2.10 2.56 2.49
O3' 0.36 0.14 0.47 0.02 0.19 0.33 0.10 0.37 0.02 0.22 0.06 0.15 0.21 0.11 0.27 0.54 0.14 0.40 0.42 0.07 0.43 0.68 0.73
O4' 0.00 0.31 0.35 0.10 0.20 0.01 0.28 0.12 0.39 0.08 0.38 0.33 0.22 0.21 0.09 0.55 0.15 0.06 0.79 0.48 0.60 1.10 1.07
O5' 2.11 1.56 2.57 2.16 1.77 2.16 1.57 2.22 1.31 1.95 1.36 1.53 1.74 1.66 1.97 2.69 2.09 2.01 1.38 1.05 1.31 0.97 0.95
OP1 2.82 1.94 3.41 3.23 2.20 3.18 1.88 3.37 1.54 2.38 1.64 1.93 2.21 1.94 2.50 3.40 3.15 2.80 2.81 1.20 2.93 2.54 2.49
OP2 3.95 3.28 4.31 3.88 3.49 3.92 3.16 3.85 2.83 3.62 2.97 3.29 3.52 3.16 3.75 4.34 3.77 3.86 2.92 2.42 2.36 2.28 2.27
P 3.18 2.40 3.71 3.37 2.65 3.33 2.34 3.40 2.00 2.83 2.11 2.40 2.66 2.40 2.93 3.76 3.27 3.10 2.62 1.64 2.42 2.09 2.11

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.00 0.00 0.01 0.01 0.00 0.01 0.06 0.01 0.01 0.01 0.00 0.01 0.01 0.00 0.00 0.31 0.00 0.37 0.01 0.39 0.01 0.25
C2 0.00 0.00 0.23 0.16 0.00 0.00 0.00 0.03 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.07 0.28 0.09 0.61 0.00 0.60 0.43 0.53
C2' 0.00 0.23 0.00 0.00 0.13 0.00 0.09 0.19 0.13 0.06 0.19 0.26 0.22 0.00 0.02 0.00 0.02 0.02 0.13 0.11 0.26 0.01 0.11
C3' 0.01 0.16 0.00 0.00 0.21 0.00 0.29 0.00 0.30 0.30 0.23 0.10 0.12 0.34 0.19 0.00 0.00 0.01 0.14 0.34 0.41 0.14 0.17
C4 0.01 0.00 0.13 0.21 0.00 0.04 0.00 0.01 0.01 0.00 0.00 0.00 0.00 0.00 0.00 0.16 0.15 0.05 0.71 0.00 0.65 0.48 0.63
C4' 0.00 0.00 0.00 0.00 0.04 0.00 0.08 0.00 0.07 0.13 0.03 0.03 0.00 0.13 0.06 0.25 0.01 0.00 0.00 0.09 0.26 0.37 0.07
C5 0.01 0.00 0.09 0.29 0.00 0.08 0.00 0.04 0.00 0.00 0.00 0.00 0.00 0.00 0.01 0.24 0.01 0.03 0.91 0.00 0.81 0.76 0.87
C5' 0.06 0.03 0.19 0.00 0.01 0.00 0.04 0.00 0.04 0.06 0.00 0.05 0.04 0.08 0.00 0.04 0.19 0.00 0.00 0.06 0.33 0.43 0.00
C6 0.01 0.00 0.13 0.30 0.01 0.07 0.00 0.04 0.00 0.00 0.00 0.00 0.00 0.00 0.01 0.23 0.03 0.05 0.91 0.00 0.84 0.82 0.90
C8 0.01 0.00 0.06 0.30 0.00 0.13 0.00 0.06 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.26 0.09 0.04 0.97 0.00 0.81 0.71 0.90
N1 0.01 0.00 0.19 0.23 0.00 0.03 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.16 0.16 0.08 0.77 0.00 0.73 0.65 0.73
N2 0.00 0.00 0.26 0.10 0.00 0.03 0.00 0.05 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.01 0.38 0.11 0.51 0.00 0.53 0.33 0.42
N3 0.01 0.00 0.22 0.12 0.00 0.00 0.00 0.04 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.04 0.31 0.09 0.55 0.00 0.54 0.32 0.45
N7 0.01 0.00 0.00 0.34 0.00 0.13 0.00 0.08 0.00 0.00 0.00 0.00 0.00 0.00 0.01 0.29 0.12 0.02 1.04 0.00 0.90 0.92 1.03
N9 0.00 0.00 0.02 0.19 0.00 0.06 0.01 0.00 0.01 0.00 0.00 0.00 0.00 0.01 0.00 0.18 0.11 0.01 0.70 0.01 0.62 0.39 0.59
O2' 0.00 0.07 0.00 0.00 0.16 0.25 0.24 0.04 0.23 0.26 0.16 0.01 0.04 0.29 0.18 0.00 0.01 0.16 0.18 0.27 0.37 0.06 0.17
O3' 0.31 0.28 0.02 0.00 0.15 0.01 0.01 0.19 0.03 0.09 0.16 0.38 0.31 0.12 0.11 0.01 0.00 0.21 0.12 0.04 0.65 0.19 0.22
O4' 0.00 0.09 0.02 0.01 0.05 0.00 0.03 0.00 0.05 0.04 0.08 0.11 0.09 0.02 0.01 0.16 0.21 0.00 0.33 0.04 0.36 0.25 0.15
O5' 0.37 0.61 0.13 0.14 0.71 0.00 0.91 0.00 0.91 0.97 0.77 0.51 0.55 1.04 0.70 0.18 0.12 0.33 0.00 1.00 0.02 0.01 0.00
O6 0.01 0.00 0.11 0.34 0.00 0.09 0.00 0.06 0.00 0.00 0.00 0.00 0.00 0.00 0.01 0.27 0.04 0.04 1.00 0.00 0.93 0.99 1.03
OP1 0.39 0.60 0.26 0.41 0.65 0.26 0.81 0.33 0.84 0.81 0.73 0.53 0.54 0.90 0.62 0.37 0.65 0.36 0.02 0.93 0.00 0.00 0.01
OP2 0.01 0.43 0.01 0.14 0.48 0.37 0.76 0.43 0.82 0.71 0.65 0.33 0.32 0.92 0.39 0.06 0.19 0.25 0.01 0.99 0.00 0.00 0.01
P 0.25 0.53 0.11 0.17 0.63 0.07 0.87 0.00 0.90 0.90 0.73 0.42 0.45 1.03 0.59 0.17 0.22 0.15 0.00 1.03 0.01 0.01 0.00