ClaRNA

Doublet Group distance statistics: 21084

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Distances from reference structure (by RMSD)

2, 4, 22, 49, 33, 139, 80, 19, 2, 0, 10, 4, 0, 2, 0, 0, 0, 0, 0, 1,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N1 A 0, 0.158, 0.280, 0.402, 0.657 max_d=0.657 avg_d=0.280 std_dev=0.122
N1 B 0, 0.176, 0.300, 0.423, 0.734 max_d=0.734 avg_d=0.300 std_dev=0.123
C2 A 0, 0.213, 0.376, 0.540, 1.891 max_d=1.891 avg_d=0.376 std_dev=0.164
C2 B 0, 0.187, 0.373, 0.559, 1.388 max_d=1.388 avg_d=0.373 std_dev=0.186
N3 A 0, 0.324, 0.510, 0.696, 2.442 max_d=2.442 avg_d=0.510 std_dev=0.186
N3 B 0, 0.252, 0.452, 0.651, 1.820 max_d=1.820 avg_d=0.452 std_dev=0.199
C6 B 0, 0.278, 0.478, 0.678, 1.448 max_d=1.448 avg_d=0.478 std_dev=0.200
C6 A 0, 0.292, 0.501, 0.711, 1.568 max_d=1.568 avg_d=0.501 std_dev=0.210
C4 A 0, 0.406, 0.633, 0.859, 2.271 max_d=2.271 avg_d=0.633 std_dev=0.226
C4 B 0, 0.240, 0.489, 0.739, 2.355 max_d=2.355 avg_d=0.489 std_dev=0.249
C5 A 0, 0.432, 0.687, 0.942, 2.201 max_d=2.201 avg_d=0.687 std_dev=0.255
C5 B 0, 0.291, 0.572, 0.853, 2.460 max_d=2.460 avg_d=0.572 std_dev=0.281
C1' B 0, 0.376, 0.662, 0.948, 2.286 max_d=2.286 avg_d=0.662 std_dev=0.286
C1' A 0, 0.381, 0.668, 0.954, 2.234 max_d=2.234 avg_d=0.668 std_dev=0.287
O2 A 0, 0.463, 0.778, 1.093, 3.451 max_d=3.451 avg_d=0.778 std_dev=0.315
N4 A 0, 0.656, 1.029, 1.402, 3.669 max_d=3.669 avg_d=1.029 std_dev=0.373
O2 B 0, 0.358, 0.737, 1.116, 2.892 max_d=2.892 avg_d=0.737 std_dev=0.379
N4 B 0, 0.425, 0.828, 1.231, 3.773 max_d=3.773 avg_d=0.828 std_dev=0.403
C2' B 0, 0.757, 1.297, 1.838, 3.311 max_d=3.311 avg_d=1.297 std_dev=0.540
O4' A 0, 0.638, 1.245, 1.853, 2.743 max_d=2.743 avg_d=1.245 std_dev=0.608
O4' B 0, 0.499, 1.149, 1.799, 2.824 max_d=2.824 avg_d=1.149 std_dev=0.650
C3' A 0, 1.400, 2.130, 2.860, 5.454 max_d=5.454 avg_d=2.130 std_dev=0.730
O2' B 0, 0.979, 1.740, 2.501, 5.696 max_d=5.696 avg_d=1.740 std_dev=0.761
C2' A 0, 0.659, 1.421, 2.184, 3.304 max_d=3.304 avg_d=1.421 std_dev=0.762
C4' A 0, 1.201, 1.991, 2.781, 4.744 max_d=4.744 avg_d=1.991 std_dev=0.790
C5' A 0, 1.734, 2.550, 3.365, 5.482 max_d=5.482 avg_d=2.550 std_dev=0.816
C3' B 0, 0.921, 1.811, 2.700, 4.111 max_d=4.111 avg_d=1.811 std_dev=0.889
C4' B 0, 0.778, 1.763, 2.749, 3.753 max_d=3.753 avg_d=1.763 std_dev=0.985
O3' B 0, 1.611, 2.705, 3.799, 5.726 max_d=5.726 avg_d=2.705 std_dev=1.094
O2' A 0, 0.866, 2.078, 3.291, 4.682 max_d=4.682 avg_d=2.078 std_dev=1.212
O3' A 0, 1.476, 2.765, 4.053, 7.727 max_d=7.727 avg_d=2.765 std_dev=1.288
O5' A 0, 2.833, 4.135, 5.436, 6.328 max_d=6.328 avg_d=4.135 std_dev=1.301
C5' B 0, 0.799, 2.220, 3.642, 4.495 max_d=4.495 avg_d=2.220 std_dev=1.421
OP1 A 0, 3.901, 5.496, 7.091, 8.549 max_d=8.549 avg_d=5.496 std_dev=1.595
P A 0, 3.626, 5.313, 7.000, 8.297 max_d=8.297 avg_d=5.313 std_dev=1.687
O5' B 0, 0.305, 2.371, 4.437, 5.887 max_d=5.887 avg_d=2.371 std_dev=2.066
OP2 A 0, 5.197, 7.313, 9.428, 9.602 max_d=9.602 avg_d=7.313 std_dev=2.116
OP1 B 0, 2.330, 4.516, 6.702, 8.600 max_d=8.600 avg_d=4.516 std_dev=2.186
P B 0, 0.679, 3.216, 5.753, 8.059 max_d=8.059 avg_d=3.216 std_dev=2.537
OP2 B 0, 1.286, 3.988, 6.689, 9.400 max_d=9.400 avg_d=3.988 std_dev=2.701

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 0.00 0.01 0.02 0.01 0.01 0.09 0.01 0.01 0.02 0.02 0.04 0.02 0.21 0.01 0.17 0.21 0.30 0.17
C2 0.02 0.00 0.16 0.18 0.01 0.05 0.01 0.15 0.01 0.01 0.00 0.02 0.01 0.10 0.16 0.12 0.32 0.38 0.48 0.32
C2' 0.00 0.16 0.00 0.00 0.07 0.02 0.13 0.15 0.16 0.03 0.13 0.08 0.29 0.00 0.02 0.01 0.23 0.37 0.35 0.23
C3' 0.01 0.18 0.00 0.00 0.25 0.00 0.26 0.02 0.23 0.15 0.22 0.27 0.18 0.02 0.01 0.02 0.33 0.48 0.29 0.30
C4 0.02 0.01 0.07 0.25 0.00 0.10 0.00 0.23 0.01 0.01 0.00 0.01 0.01 0.22 0.15 0.03 0.55 0.55 0.89 0.63
C4' 0.01 0.05 0.02 0.00 0.10 0.00 0.17 0.01 0.17 0.06 0.05 0.11 0.12 0.21 0.02 0.00 0.02 0.16 0.23 0.04
C5 0.01 0.01 0.13 0.26 0.00 0.17 0.00 0.29 0.00 0.01 0.01 0.01 0.01 0.31 0.20 0.10 0.67 0.61 1.05 0.77
C5' 0.09 0.15 0.15 0.02 0.23 0.01 0.29 0.00 0.27 0.16 0.18 0.24 0.18 0.09 0.15 0.02 0.01 0.22 0.31 0.02
C6 0.01 0.01 0.16 0.23 0.01 0.17 0.00 0.27 0.00 0.00 0.01 0.01 0.01 0.30 0.17 0.13 0.62 0.50 0.87 0.66
N1 0.01 0.01 0.03 0.15 0.01 0.06 0.01 0.16 0.00 0.00 0.01 0.02 0.02 0.13 0.10 0.01 0.37 0.34 0.53 0.37
N3 0.02 0.00 0.13 0.22 0.00 0.05 0.01 0.18 0.01 0.01 0.00 0.01 0.01 0.13 0.14 0.09 0.41 0.47 0.66 0.45
N4 0.02 0.02 0.08 0.27 0.01 0.11 0.01 0.24 0.01 0.02 0.01 0.00 0.02 0.24 0.19 0.03 0.59 0.62 1.00 0.71
O2 0.04 0.01 0.29 0.18 0.01 0.12 0.01 0.18 0.01 0.02 0.01 0.02 0.00 0.23 0.27 0.21 0.26 0.39 0.36 0.24
O2' 0.02 0.10 0.00 0.02 0.22 0.21 0.31 0.09 0.30 0.13 0.13 0.24 0.23 0.00 0.05 0.14 0.20 0.30 0.37 0.19
O3' 0.21 0.16 0.02 0.01 0.15 0.02 0.20 0.15 0.17 0.10 0.14 0.19 0.27 0.05 0.00 0.17 0.31 0.68 0.32 0.38
O4' 0.01 0.12 0.01 0.02 0.03 0.00 0.10 0.02 0.13 0.01 0.09 0.03 0.21 0.14 0.17 0.00 0.16 0.20 0.26 0.18
O5' 0.17 0.32 0.23 0.33 0.55 0.02 0.67 0.01 0.62 0.37 0.41 0.59 0.26 0.20 0.31 0.16 0.00 0.02 0.02 0.01
OP1 0.21 0.38 0.37 0.48 0.55 0.16 0.61 0.22 0.50 0.34 0.47 0.62 0.39 0.30 0.68 0.20 0.02 0.00 0.01 0.01
OP2 0.30 0.48 0.35 0.29 0.89 0.23 1.05 0.31 0.87 0.53 0.66 1.00 0.36 0.37 0.32 0.26 0.02 0.01 0.00 0.01
P 0.17 0.32 0.23 0.30 0.63 0.04 0.77 0.02 0.66 0.37 0.45 0.71 0.24 0.19 0.38 0.18 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.92 0.46 1.26 1.29 0.29 1.38 0.40 1.80 0.69 0.68 0.30 0.61 0.53 1.46 1.10 1.09 2.54 3.28 2.56 3.08
C2 0.41 0.33 0.51 0.58 0.25 0.57 0.38 0.94 0.43 0.36 0.32 0.35 0.40 0.87 0.42 0.46 1.67 2.59 1.64 2.14
C2' 1.21 0.58 1.55 1.70 0.38 1.83 0.56 2.29 0.96 0.91 0.37 0.76 0.63 1.54 1.52 1.48 3.02 3.90 3.06 3.64
C3' 1.66 0.92 2.08 2.18 0.56 2.28 0.70 2.67 1.15 1.24 0.59 0.84 1.04 2.12 2.01 1.86 3.30 3.75 3.13 3.76
C4 0.48 0.32 0.37 0.70 0.32 0.56 0.42 0.64 0.44 0.37 0.31 0.44 0.43 0.80 0.77 0.47 0.89 1.52 1.12 1.14
C4' 1.49 0.80 1.96 2.04 0.43 2.08 0.54 2.46 0.93 1.07 0.47 0.73 0.95 2.13 1.87 1.65 3.03 3.35 3.00 3.47
C5 0.54 0.53 0.60 0.61 0.41 0.55 0.49 0.75 0.49 0.46 0.49 0.46 0.67 1.18 0.66 0.43 1.08 1.56 1.30 1.32
C5' 1.60 0.92 2.12 2.20 0.51 2.14 0.58 2.39 0.88 1.12 0.57 0.77 1.15 2.37 2.11 1.68 2.77 2.76 2.65 3.00
C6 0.72 0.55 0.97 0.86 0.33 0.82 0.38 1.08 0.47 0.57 0.40 0.47 0.69 1.43 0.80 0.66 1.63 2.10 1.64 1.92
N1 0.66 0.40 0.91 0.87 0.22 0.90 0.31 1.25 0.50 0.51 0.27 0.45 0.48 1.25 0.72 0.71 1.95 2.66 1.91 2.38
N3 0.38 0.34 0.26 0.57 0.22 0.39 0.35 0.57 0.33 0.31 0.28 0.32 0.45 0.68 0.60 0.35 1.14 1.99 1.17 1.51
N4 0.90 0.46 0.87 1.23 0.45 1.09 0.54 1.03 0.69 0.67 0.41 0.65 0.55 0.90 1.34 0.95 0.78 1.16 1.21 0.83
O2 0.50 0.44 0.59 0.66 0.44 0.73 0.58 1.15 0.60 0.46 0.49 0.51 0.51 0.83 0.44 0.60 1.92 3.02 1.93 2.50
O2' 1.23 0.62 1.52 1.83 0.60 2.01 0.75 2.56 1.05 0.94 0.56 0.94 0.63 1.39 1.61 1.62 3.31 4.34 3.66 4.10
O3' 1.88 0.96 2.28 2.55 0.56 2.75 0.75 3.26 1.28 1.36 0.57 0.91 1.08 2.20 2.39 2.23 3.83 4.31 3.90 4.49
O4' 1.11 0.58 1.52 1.50 0.30 1.53 0.38 1.92 0.70 0.79 0.33 0.61 0.71 1.81 1.33 1.21 2.55 3.04 2.55 3.02
O5' 2.05 1.41 2.61 2.42 0.82 2.20 0.97 2.19 1.32 1.58 1.01 0.77 1.66 3.04 2.35 1.88 2.47 2.12 1.98 2.39
OP1 2.32 1.63 2.90 2.93 1.10 2.57 1.28 2.38 1.53 1.78 1.23 1.09 1.93 3.32 3.06 2.14 2.21 1.40 1.53 1.78
OP2 2.36 1.86 2.85 2.52 1.20 2.12 1.32 1.75 1.58 1.89 1.46 1.05 2.22 3.55 2.65 2.00 1.58 1.06 1.23 1.25
P 2.18 1.58 2.74 2.54 0.96 2.18 1.11 1.96 1.40 1.69 1.17 0.87 1.90 3.29 2.60 1.91 1.94 1.28 1.40 1.63

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.01 0.02 0.01 0.02 0.09 0.02 0.01 0.02 0.02 0.03 0.02 0.29 0.00 0.40 0.82 0.41 0.38
C2 0.02 0.00 0.24 0.23 0.01 0.17 0.01 0.27 0.01 0.01 0.01 0.01 0.01 0.30 0.16 0.26 0.43 1.12 0.66 0.45
C2' 0.00 0.24 0.00 0.00 0.07 0.01 0.13 0.19 0.19 0.04 0.19 0.08 0.39 0.00 0.03 0.02 0.64 0.77 0.44 0.60
C3' 0.01 0.23 0.00 0.00 0.34 0.01 0.34 0.02 0.29 0.20 0.29 0.37 0.18 0.02 0.01 0.02 0.34 0.58 0.31 0.31
C4 0.02 0.01 0.07 0.34 0.00 0.14 0.00 0.28 0.01 0.01 0.00 0.00 0.01 0.29 0.15 0.05 0.75 1.71 0.79 0.96
C4' 0.01 0.17 0.01 0.01 0.14 0.00 0.27 0.01 0.29 0.08 0.14 0.15 0.34 0.26 0.03 0.00 0.01 0.33 0.39 0.13
C5 0.02 0.01 0.13 0.34 0.00 0.27 0.00 0.42 0.00 0.01 0.01 0.01 0.02 0.44 0.19 0.20 0.99 1.96 1.02 1.28
C5' 0.09 0.27 0.19 0.02 0.28 0.01 0.42 0.00 0.42 0.16 0.27 0.31 0.45 0.10 0.20 0.02 0.01 0.18 0.38 0.02
C6 0.02 0.01 0.19 0.29 0.01 0.29 0.00 0.42 0.00 0.00 0.01 0.01 0.01 0.46 0.14 0.27 0.97 1.74 0.90 1.17
N1 0.01 0.01 0.04 0.20 0.01 0.08 0.01 0.16 0.00 0.00 0.01 0.01 0.01 0.17 0.11 0.02 0.59 1.21 0.52 0.64
N3 0.02 0.01 0.19 0.29 0.00 0.14 0.01 0.27 0.01 0.01 0.00 0.01 0.01 0.28 0.12 0.20 0.53 1.37 0.72 0.63
N4 0.02 0.01 0.08 0.37 0.00 0.15 0.01 0.31 0.01 0.01 0.01 0.00 0.02 0.31 0.19 0.06 0.77 1.83 0.88 1.04
O2 0.03 0.01 0.39 0.18 0.01 0.34 0.02 0.45 0.01 0.01 0.01 0.02 0.00 0.55 0.29 0.46 0.35 0.87 0.93 0.40
O2' 0.02 0.30 0.00 0.02 0.29 0.26 0.44 0.10 0.46 0.17 0.28 0.31 0.55 0.00 0.05 0.18 0.52 0.76 0.54 0.57
O3' 0.29 0.16 0.03 0.01 0.15 0.03 0.19 0.20 0.14 0.11 0.12 0.19 0.29 0.05 0.00 0.21 0.20 0.69 0.34 0.29
O4' 0.00 0.26 0.02 0.02 0.05 0.00 0.20 0.02 0.27 0.02 0.20 0.06 0.46 0.18 0.21 0.00 0.25 0.70 0.60 0.36
O5' 0.40 0.43 0.64 0.34 0.75 0.01 0.99 0.01 0.97 0.59 0.53 0.77 0.35 0.52 0.20 0.25 0.00 0.02 0.02 0.01
OP1 0.82 1.12 0.77 0.58 1.71 0.33 1.96 0.18 1.74 1.21 1.37 1.83 0.87 0.76 0.69 0.70 0.02 0.00 0.01 0.01
OP2 0.41 0.66 0.44 0.31 0.79 0.39 1.02 0.38 0.90 0.52 0.72 0.88 0.93 0.54 0.34 0.60 0.02 0.01 0.00 0.01
P 0.38 0.45 0.60 0.31 0.96 0.13 1.28 0.02 1.17 0.64 0.63 1.04 0.40 0.57 0.29 0.36 0.01 0.01 0.01 0.00