ClaRNA

Doublet Group distance statistics: 49195

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Distances from reference structure (by RMSD)

1, 0, 0, 1, 0, 0, 0, 0, 0, 1, 1, 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, 0.003, 0.009, 0.016, 0.016 max_d=0.016 avg_d=0.009 std_dev=0.006
C5 A 0, 0.002, 0.009, 0.016, 0.020 max_d=0.020 avg_d=0.009 std_dev=0.007
C4 A 0, 0.001, 0.008, 0.016, 0.018 max_d=0.018 avg_d=0.008 std_dev=0.007
N3 A 0, 0.002, 0.009, 0.017, 0.021 max_d=0.021 avg_d=0.009 std_dev=0.007
C6 A 0, 0.003, 0.011, 0.019, 0.023 max_d=0.023 avg_d=0.011 std_dev=0.008
N1 A 0, 0.000, 0.011, 0.021, 0.028 max_d=0.028 avg_d=0.011 std_dev=0.011
C1' A 0, -0.001, 0.011, 0.024, 0.031 max_d=0.031 avg_d=0.011 std_dev=0.012
O4 A 0, 0.001, 0.020, 0.040, 0.047 max_d=0.047 avg_d=0.020 std_dev=0.019
O2 A 0, -0.001, 0.025, 0.051, 0.068 max_d=0.068 avg_d=0.025 std_dev=0.026
O4' A 0, 0.040, 0.221, 0.403, 0.485 max_d=0.485 avg_d=0.221 std_dev=0.182
C2' A 0, 0.040, 0.247, 0.453, 0.573 max_d=0.573 avg_d=0.247 std_dev=0.206
C4' A 0, 0.090, 0.357, 0.625, 0.727 max_d=0.727 avg_d=0.357 std_dev=0.267
O2' A 0, 0.024, 0.315, 0.607, 0.782 max_d=0.782 avg_d=0.315 std_dev=0.292
C3' B 0, 0.197, 0.497, 0.798, 0.750 max_d=0.750 avg_d=0.497 std_dev=0.300
C3' A 0, 0.084, 0.409, 0.734, 0.897 max_d=0.897 avg_d=0.409 std_dev=0.325
C2' B 0, 0.146, 0.603, 1.061, 1.196 max_d=1.196 avg_d=0.603 std_dev=0.458
C5' A 0, 0.130, 0.606, 1.082, 1.310 max_d=1.310 avg_d=0.606 std_dev=0.476
O3' A 0, 0.131, 0.611, 1.090, 1.315 max_d=1.315 avg_d=0.611 std_dev=0.480
O2' B 0, 0.071, 0.551, 1.032, 1.291 max_d=1.291 avg_d=0.551 std_dev=0.480
O5' A 0, 0.082, 1.196, 2.310, 2.816 max_d=2.816 avg_d=1.196 std_dev=1.114
O3' B 0, 0.212, 1.353, 2.494, 2.829 max_d=2.829 avg_d=1.353 std_dev=1.141
P A 0, 0.167, 1.374, 2.580, 3.133 max_d=3.133 avg_d=1.374 std_dev=1.206
C4' B 0, 0.240, 1.494, 2.747, 3.170 max_d=3.170 avg_d=1.494 std_dev=1.254
OP1 A 0, 0.038, 1.330, 2.622, 3.448 max_d=3.448 avg_d=1.330 std_dev=1.292
C1' B 0, 0.041, 1.342, 2.643, 3.321 max_d=3.321 avg_d=1.342 std_dev=1.301
O4' B 0, 0.291, 1.832, 3.372, 3.485 max_d=3.485 avg_d=1.832 std_dev=1.540
C5' B 0, 0.056, 1.945, 3.833, 4.994 max_d=4.994 avg_d=1.945 std_dev=1.889
O5' B 0, -0.430, 1.679, 3.788, 5.297 max_d=5.297 avg_d=1.679 std_dev=2.109
OP2 A 0, 0.204, 2.396, 4.587, 5.404 max_d=5.404 avg_d=2.396 std_dev=2.192
N1 B 0, 0.018, 2.281, 4.543, 5.437 max_d=5.437 avg_d=2.281 std_dev=2.263
C6 B 0, 1.007, 3.403, 5.799, 6.026 max_d=6.026 avg_d=3.403 std_dev=2.396
O2 B 0, 1.156, 3.651, 6.146, 6.859 max_d=6.859 avg_d=3.651 std_dev=2.495
C2 B 0, 0.768, 3.391, 6.015, 7.258 max_d=7.258 avg_d=3.391 std_dev=2.624
OP2 B 0, -0.515, 2.330, 5.175, 7.198 max_d=7.198 avg_d=2.330 std_dev=2.845
P B 0, -0.867, 2.352, 5.571, 7.897 max_d=7.897 avg_d=2.352 std_dev=3.219
C5 B 0, 1.098, 4.478, 7.858, 8.456 max_d=8.456 avg_d=4.478 std_dev=3.380
N3 B 0, 0.786, 4.411, 8.037, 9.583 max_d=9.583 avg_d=4.411 std_dev=3.625
OP1 B 0, -0.964, 2.978, 6.920, 9.763 max_d=9.763 avg_d=2.978 std_dev=3.942
C4 B 0, -0.046, 4.378, 8.803, 10.232 max_d=10.232 avg_d=4.378 std_dev=4.425
N4 B 0, -0.049, 5.467, 10.983, 12.703 max_d=12.703 avg_d=5.467 std_dev=5.516

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.01 0.02 0.00 0.01 0.01 0.00 0.00 0.02 0.04 0.02 0.01 0.02 0.00 0.16 0.57 0.30 0.12
C2 0.02 0.00 0.11 0.09 0.01 0.02 0.00 0.05 0.00 0.01 0.00 0.00 0.09 0.11 0.01 0.06 0.28 0.80 0.51 0.12
C2' 0.00 0.11 0.00 0.00 0.05 0.01 0.08 0.01 0.10 0.02 0.08 0.19 0.01 0.01 0.05 0.01 0.24 0.32 0.07 0.08
C3' 0.01 0.09 0.00 0.00 0.07 0.00 0.11 0.01 0.12 0.04 0.08 0.14 0.01 0.01 0.07 0.01 0.32 0.15 0.27 0.17
C4 0.02 0.01 0.05 0.07 0.00 0.04 0.00 0.06 0.00 0.02 0.00 0.00 0.03 0.10 0.00 0.01 0.54 0.80 0.67 0.20
C4' 0.00 0.02 0.01 0.00 0.04 0.00 0.05 0.00 0.05 0.02 0.03 0.03 0.04 0.03 0.04 0.00 0.01 0.19 0.14 0.07
C5 0.01 0.00 0.08 0.11 0.00 0.05 0.00 0.06 0.00 0.01 0.01 0.01 0.06 0.14 0.00 0.05 0.66 0.68 0.78 0.36
C5' 0.01 0.05 0.01 0.01 0.06 0.00 0.06 0.00 0.05 0.03 0.06 0.05 0.04 0.04 0.06 0.01 0.01 0.09 0.25 0.01
C6 0.00 0.00 0.10 0.12 0.00 0.05 0.00 0.05 0.00 0.00 0.01 0.01 0.06 0.14 0.00 0.07 0.61 0.63 0.57 0.30
N1 0.00 0.01 0.02 0.04 0.02 0.02 0.01 0.03 0.00 0.00 0.01 0.01 0.01 0.05 0.02 0.01 0.36 0.69 0.37 0.08
N3 0.02 0.00 0.08 0.08 0.00 0.03 0.01 0.06 0.01 0.01 0.00 0.01 0.07 0.10 0.01 0.04 0.39 0.85 0.57 0.09
O2 0.04 0.00 0.19 0.14 0.00 0.03 0.01 0.05 0.01 0.01 0.01 0.00 0.18 0.18 0.00 0.10 0.14 0.81 0.64 0.24
O2' 0.02 0.09 0.01 0.01 0.03 0.04 0.06 0.04 0.06 0.01 0.07 0.18 0.00 0.02 0.03 0.03 0.09 0.25 0.15 0.07
O3' 0.01 0.11 0.01 0.01 0.10 0.03 0.14 0.04 0.14 0.05 0.10 0.18 0.02 0.00 0.11 0.02 0.26 0.24 0.41 0.20
O4 0.02 0.01 0.05 0.07 0.00 0.04 0.00 0.06 0.00 0.02 0.01 0.00 0.03 0.11 0.00 0.01 0.57 0.80 0.76 0.24
O4' 0.00 0.06 0.01 0.01 0.01 0.00 0.05 0.01 0.07 0.01 0.04 0.10 0.03 0.02 0.01 0.00 0.06 0.55 0.39 0.20
O5' 0.16 0.28 0.24 0.32 0.54 0.01 0.66 0.01 0.61 0.36 0.39 0.14 0.09 0.26 0.57 0.06 0.00 0.01 0.01 0.00
OP1 0.57 0.80 0.32 0.15 0.80 0.19 0.68 0.09 0.63 0.69 0.85 0.81 0.25 0.24 0.80 0.55 0.01 0.00 0.01 0.01
OP2 0.30 0.51 0.07 0.27 0.67 0.14 0.78 0.25 0.57 0.37 0.57 0.64 0.15 0.41 0.76 0.39 0.01 0.01 0.00 0.00
P 0.12 0.12 0.08 0.17 0.20 0.07 0.36 0.01 0.30 0.08 0.09 0.24 0.07 0.20 0.24 0.20 0.00 0.01 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.90 1.29 0.36 0.09 1.55 1.05 1.43 1.42 1.27 1.10 1.57 1.71 1.27 0.29 0.88 1.52 1.66 2.26 1.95 2.28
C2 0.71 1.51 0.37 0.15 2.41 0.99 2.14 1.29 1.62 1.25 2.14 2.81 1.11 0.34 0.78 1.26 1.43 2.14 1.63 1.97
C2' 1.00 1.39 0.37 0.35 1.41 1.38 1.35 1.96 1.31 1.13 1.58 1.50 1.58 0.15 0.62 1.72 2.16 3.00 2.46 2.89
C3' 1.01 1.11 0.40 0.27 0.90 1.26 1.12 1.81 1.25 1.04 1.06 0.81 1.44 0.20 0.53 1.69 2.11 2.62 2.34 2.76
C4 0.53 1.42 0.32 0.17 2.60 0.80 2.50 0.89 1.89 1.30 2.10 2.94 0.81 0.33 0.64 0.87 0.93 1.44 0.99 1.27
C4' 0.98 1.11 0.38 0.15 1.07 0.82 1.21 1.21 1.24 1.09 1.10 1.01 1.27 0.31 0.94 1.47 1.57 1.80 1.90 2.12
C5 0.62 1.22 0.33 0.14 1.99 0.79 1.96 0.80 1.58 1.17 1.67 2.16 0.70 0.30 0.71 0.99 0.87 1.22 0.90 1.15
C5' 0.95 1.26 0.35 0.42 1.35 0.46 1.39 0.77 1.32 1.21 1.31 1.32 1.28 0.36 1.17 1.22 1.06 0.91 1.29 1.38
C6 0.80 1.22 0.36 0.11 1.69 0.91 1.59 1.02 1.33 1.11 1.54 1.82 0.92 0.30 0.84 1.31 1.17 1.51 1.23 1.52
N1 0.80 1.36 0.37 0.12 1.91 1.00 1.72 1.27 1.40 1.15 1.79 2.14 1.12 0.31 0.83 1.39 1.44 1.99 1.61 1.94
N3 0.60 1.54 0.34 0.17 2.74 0.90 2.49 1.12 1.84 1.32 2.29 3.21 0.98 0.35 0.70 1.05 1.20 1.86 1.33 1.66
O2 0.72 1.54 0.38 0.14 2.45 1.03 2.14 1.41 1.60 1.24 2.20 2.93 1.21 0.35 0.78 1.31 1.58 2.41 1.86 2.21
O2' 1.01 1.39 0.37 0.37 1.40 1.40 1.37 2.05 1.35 1.14 1.59 1.50 1.64 0.15 0.64 1.74 2.28 3.32 2.80 3.17
O3' 1.05 1.06 0.46 0.46 0.76 1.43 1.23 2.12 1.36 1.03 0.90 0.60 1.57 0.22 0.30 1.73 2.44 3.13 2.92 3.33
O4 0.42 1.41 0.28 0.19 2.77 0.71 2.78 0.75 2.07 1.33 2.15 3.19 0.83 0.31 0.53 0.63 0.73 1.24 0.76 1.02
O4' 0.88 1.12 0.39 0.24 1.19 0.72 1.16 0.97 1.11 1.02 1.23 1.24 1.16 0.39 1.14 1.38 1.31 1.61 1.63 1.84
O5' 0.13 0.63 1.15 1.39 0.77 0.58 0.65 0.71 0.47 0.39 0.78 0.86 0.69 1.24 2.06 0.30 0.84 0.47 0.65 0.74
OP1 0.82 1.58 0.34 1.00 1.47 0.43 1.17 0.81 1.00 1.17 1.67 1.52 1.76 0.31 1.76 0.68 0.74 0.70 0.83 0.55
OP2 0.70 0.24 1.83 2.33 0.17 1.55 0.42 1.75 0.60 0.37 0.36 0.33 0.55 1.99 2.81 0.64 1.77 1.68 1.48 1.39
P 0.15 0.85 1.15 1.74 0.92 1.05 0.64 1.20 0.44 0.44 1.06 1.05 0.96 1.22 2.48 0.32 1.08 0.95 0.72 0.68

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.01 0.01 0.01 0.01 0.02 0.06 0.03 0.00 0.02 0.01 0.04 0.01 0.31 0.00 0.14 0.56 0.11 0.15
C2 0.02 0.00 0.11 0.10 0.01 0.26 0.00 0.51 0.00 0.00 0.01 0.01 0.00 0.18 0.17 0.33 0.70 1.57 0.42 0.90
C2' 0.01 0.11 0.00 0.00 0.04 0.01 0.06 0.18 0.09 0.01 0.10 0.05 0.19 0.00 0.01 0.02 0.35 0.51 0.23 0.37
C3' 0.01 0.10 0.00 0.00 0.36 0.01 0.50 0.01 0.47 0.21 0.19 0.40 0.24 0.02 0.01 0.03 0.11 0.10 0.14 0.11
C4 0.01 0.01 0.04 0.36 0.00 0.14 0.00 0.18 0.00 0.01 0.00 0.00 0.00 0.37 0.10 0.02 0.27 0.87 0.85 0.26
C4' 0.01 0.26 0.01 0.01 0.14 0.00 0.40 0.00 0.45 0.08 0.15 0.15 0.60 0.29 0.02 0.00 0.02 0.12 0.17 0.01
C5 0.02 0.00 0.06 0.50 0.00 0.40 0.00 0.63 0.00 0.00 0.01 0.00 0.01 0.55 0.18 0.25 0.82 0.62 1.57 0.87
C5' 0.06 0.51 0.18 0.01 0.18 0.00 0.63 0.00 0.67 0.09 0.36 0.20 1.09 0.11 0.21 0.01 0.01 0.18 0.35 0.02
C6 0.03 0.00 0.09 0.47 0.00 0.45 0.00 0.67 0.00 0.00 0.00 0.00 0.01 0.53 0.16 0.34 0.85 0.57 1.40 0.87
N1 0.00 0.00 0.01 0.21 0.01 0.08 0.00 0.09 0.00 0.00 0.00 0.01 0.00 0.22 0.10 0.01 0.16 0.72 0.41 0.18
N3 0.02 0.01 0.10 0.19 0.00 0.15 0.01 0.36 0.00 0.00 0.00 0.01 0.01 0.21 0.10 0.23 0.51 1.51 0.29 0.75
N4 0.01 0.01 0.05 0.40 0.00 0.15 0.00 0.20 0.00 0.01 0.01 0.00 0.01 0.39 0.16 0.02 0.29 0.90 0.98 0.29
O2 0.04 0.00 0.19 0.24 0.00 0.60 0.01 1.09 0.01 0.00 0.01 0.01 0.00 0.40 0.33 0.61 1.43 2.35 1.29 1.75
O2' 0.01 0.18 0.00 0.02 0.37 0.29 0.55 0.11 0.53 0.22 0.21 0.39 0.40 0.00 0.03 0.18 0.22 0.29 0.18 0.23
O3' 0.31 0.17 0.01 0.01 0.10 0.02 0.18 0.21 0.16 0.10 0.10 0.16 0.33 0.03 0.00 0.19 0.30 0.41 0.25 0.32
O4' 0.00 0.33 0.02 0.03 0.02 0.00 0.25 0.01 0.34 0.01 0.23 0.02 0.61 0.18 0.19 0.00 0.05 0.47 0.07 0.08
O5' 0.14 0.70 0.35 0.11 0.27 0.02 0.82 0.01 0.85 0.16 0.51 0.29 1.43 0.22 0.30 0.05 0.00 0.01 0.02 0.01
OP1 0.56 1.57 0.51 0.10 0.87 0.12 0.62 0.18 0.57 0.72 1.51 0.90 2.35 0.29 0.41 0.47 0.01 0.00 0.01 0.01
OP2 0.11 0.42 0.23 0.14 0.85 0.17 1.57 0.35 1.40 0.41 0.29 0.98 1.29 0.18 0.25 0.07 0.02 0.01 0.00 0.00
P 0.15 0.90 0.37 0.11 0.26 0.01 0.87 0.02 0.87 0.18 0.75 0.29 1.75 0.23 0.32 0.08 0.01 0.01 0.00 0.00