ClaRNA

Doublet Group distance statistics: 14684

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Distances from reference structure (by RMSD)

19, 97, 160, 100, 40, 23, 15, 3, 1, 4, 6, 0, 0, 0, 0, 0, 0, 2, 11, 19,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4 A 0, 0.065, 0.168, 0.271, 0.691 max_d=0.691 avg_d=0.168 std_dev=0.103
C5 A 0, 0.078, 0.276, 0.475, 1.508 max_d=1.508 avg_d=0.276 std_dev=0.199
N1 B 0, -0.024, 0.195, 0.415, 1.185 max_d=1.185 avg_d=0.195 std_dev=0.219
N3 A 0, 0.057, 0.303, 0.549, 1.342 max_d=1.342 avg_d=0.303 std_dev=0.246
C6 A 0, 0.091, 0.368, 0.645, 1.358 max_d=1.358 avg_d=0.368 std_dev=0.277
C2' A 0, 0.203, 0.570, 0.938, 1.960 max_d=1.960 avg_d=0.570 std_dev=0.367
N9 A 0, -0.076, 0.301, 0.677, 2.104 max_d=2.104 avg_d=0.301 std_dev=0.376
O6 A 0, 0.123, 0.527, 0.931, 1.917 max_d=1.917 avg_d=0.527 std_dev=0.404
N1 A 0, -0.004, 0.437, 0.878, 2.182 max_d=2.182 avg_d=0.437 std_dev=0.441
C2 A 0, 0.006, 0.448, 0.891, 2.385 max_d=2.385 avg_d=0.448 std_dev=0.442
C6 B 0, -0.038, 0.415, 0.868, 2.328 max_d=2.328 avg_d=0.415 std_dev=0.453
N7 A 0, -0.009, 0.474, 0.956, 3.232 max_d=3.232 avg_d=0.474 std_dev=0.483
C1' A 0, -0.117, 0.379, 0.875, 2.302 max_d=2.302 avg_d=0.379 std_dev=0.496
C2 B 0, -0.124, 0.394, 0.913, 2.515 max_d=2.515 avg_d=0.394 std_dev=0.519
C8 A 0, -0.111, 0.474, 1.058, 3.502 max_d=3.502 avg_d=0.474 std_dev=0.584
N3 B 0, -0.120, 0.496, 1.111, 3.200 max_d=3.200 avg_d=0.496 std_dev=0.616
C5 B 0, -0.111, 0.558, 1.226, 3.401 max_d=3.401 avg_d=0.558 std_dev=0.668
C4 B 0, -0.138, 0.534, 1.206, 3.541 max_d=3.541 avg_d=0.534 std_dev=0.672
C1' B 0, -0.266, 0.413, 1.091, 3.628 max_d=3.628 avg_d=0.413 std_dev=0.679
C3' A 0, 0.172, 0.910, 1.647, 3.538 max_d=3.538 avg_d=0.910 std_dev=0.737
N2 A 0, -0.041, 0.697, 1.434, 3.957 max_d=3.957 avg_d=0.697 std_dev=0.738
O4' B 0, -0.195, 0.560, 1.314, 4.515 max_d=4.515 avg_d=0.560 std_dev=0.755
O4' A 0, -0.190, 0.625, 1.441, 4.668 max_d=4.668 avg_d=0.625 std_dev=0.816
C4' A 0, 0.032, 0.860, 1.688, 4.919 max_d=4.919 avg_d=0.860 std_dev=0.828
O2' A 0, 0.100, 0.963, 1.826, 3.809 max_d=3.809 avg_d=0.963 std_dev=0.863
O2 B 0, -0.319, 0.682, 1.682, 4.835 max_d=4.835 avg_d=0.682 std_dev=1.001
O4 B 0, -0.274, 0.787, 1.848, 5.623 max_d=5.623 avg_d=0.787 std_dev=1.061
O3' A 0, 0.238, 1.423, 2.608, 5.691 max_d=5.691 avg_d=1.423 std_dev=1.185
C5' A 0, -0.161, 1.064, 2.289, 7.552 max_d=7.552 avg_d=1.064 std_dev=1.225
C2' B 0, -0.556, 0.672, 1.900, 6.167 max_d=6.167 avg_d=0.672 std_dev=1.228
C4' B 0, -0.503, 0.821, 2.146, 7.327 max_d=7.327 avg_d=0.821 std_dev=1.325
O5' A 0, -0.565, 0.947, 2.459, 7.892 max_d=7.892 avg_d=0.947 std_dev=1.512
C3' B 0, -0.674, 0.842, 2.357, 7.544 max_d=7.544 avg_d=0.842 std_dev=1.516
O2' B 0, -0.643, 0.957, 2.557, 8.253 max_d=8.253 avg_d=0.957 std_dev=1.600
C5' B 0, -0.435, 1.167, 2.769, 8.992 max_d=8.992 avg_d=1.167 std_dev=1.602
O5' B 0, -0.291, 1.315, 2.921, 8.785 max_d=8.785 avg_d=1.315 std_dev=1.606
O3' B 0, -0.923, 1.110, 3.142, 10.259 max_d=10.259 avg_d=1.110 std_dev=2.033
P B 0, -0.364, 1.683, 3.730, 10.879 max_d=10.879 avg_d=1.683 std_dev=2.047
P A 0, -0.925, 1.178, 3.282, 10.827 max_d=10.827 avg_d=1.178 std_dev=2.103
OP2 B 0, -0.247, 1.940, 4.126, 11.900 max_d=11.900 avg_d=1.940 std_dev=2.187
OP1 A 0, -0.954, 1.340, 3.633, 12.423 max_d=12.423 avg_d=1.340 std_dev=2.294
OP2 A 0, -0.837, 1.498, 3.834, 11.837 max_d=11.837 avg_d=1.498 std_dev=2.336
OP1 B 0, -0.163, 2.210, 4.583, 12.296 max_d=12.296 avg_d=2.210 std_dev=2.373

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 0.04 0.01 0.02 0.02 0.01 0.01 0.08 0.02 0.02 0.04 0.05 0.04 0.01 0.01 0.02 0.33 0.01 0.20 0.02 0.20 0.33 0.22
C2 0.04 0.00 0.32 0.30 0.01 0.31 0.01 0.58 0.01 0.01 0.01 0.01 0.01 0.01 0.02 0.24 0.42 0.26 0.60 0.01 0.84 0.86 0.74
C2' 0.01 0.32 0.00 0.00 0.17 0.02 0.09 0.21 0.15 0.16 0.25 0.38 0.31 0.10 0.03 0.01 0.03 0.02 0.45 0.13 0.46 0.61 0.49
C3' 0.02 0.30 0.00 0.00 0.24 0.01 0.34 0.02 0.34 0.44 0.30 0.37 0.28 0.44 0.24 0.02 0.01 0.02 0.19 0.38 0.22 0.27 0.16
C4 0.02 0.01 0.17 0.24 0.00 0.12 0.00 0.26 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.22 0.22 0.14 0.30 0.01 0.38 0.47 0.34
C4' 0.01 0.31 0.02 0.01 0.12 0.00 0.12 0.01 0.13 0.30 0.21 0.41 0.30 0.25 0.10 0.31 0.03 0.01 0.02 0.14 0.13 0.17 0.05
C5 0.01 0.01 0.09 0.34 0.00 0.12 0.00 0.21 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.34 0.15 0.06 0.33 0.01 0.38 0.57 0.39
C5' 0.08 0.58 0.21 0.02 0.26 0.01 0.21 0.00 0.27 0.39 0.44 0.75 0.54 0.34 0.12 0.11 0.22 0.02 0.01 0.27 0.14 0.19 0.02
C6 0.02 0.01 0.15 0.34 0.01 0.13 0.01 0.27 0.00 0.02 0.00 0.02 0.01 0.01 0.01 0.34 0.19 0.11 0.36 0.01 0.47 0.63 0.44
C8 0.02 0.01 0.16 0.44 0.01 0.30 0.01 0.39 0.02 0.00 0.01 0.02 0.01 0.01 0.01 0.39 0.24 0.16 0.57 0.02 0.58 0.77 0.64
N1 0.04 0.01 0.25 0.30 0.01 0.21 0.01 0.44 0.00 0.01 0.00 0.01 0.01 0.01 0.02 0.28 0.29 0.20 0.48 0.01 0.68 0.74 0.59
N2 0.05 0.01 0.38 0.37 0.01 0.41 0.01 0.75 0.02 0.02 0.01 0.00 0.01 0.02 0.02 0.29 0.55 0.32 0.79 0.02 1.14 1.15 1.00
N3 0.04 0.01 0.31 0.28 0.00 0.30 0.01 0.54 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.22 0.43 0.26 0.55 0.02 0.71 0.72 0.63
N7 0.01 0.01 0.10 0.44 0.01 0.25 0.00 0.34 0.01 0.01 0.01 0.02 0.01 0.00 0.01 0.42 0.26 0.10 0.54 0.02 0.58 0.82 0.64
N9 0.01 0.02 0.03 0.24 0.01 0.10 0.01 0.12 0.01 0.01 0.02 0.02 0.01 0.01 0.00 0.22 0.12 0.02 0.26 0.02 0.25 0.41 0.29
O2' 0.02 0.24 0.01 0.02 0.22 0.31 0.34 0.11 0.34 0.39 0.28 0.29 0.22 0.42 0.22 0.00 0.06 0.22 0.33 0.39 0.34 0.67 0.41
O3' 0.33 0.42 0.03 0.01 0.22 0.03 0.15 0.22 0.19 0.24 0.29 0.55 0.43 0.26 0.12 0.06 0.00 0.23 0.29 0.21 0.48 0.40 0.34
O4' 0.01 0.26 0.02 0.02 0.14 0.01 0.06 0.02 0.11 0.16 0.20 0.32 0.26 0.10 0.02 0.22 0.23 0.00 0.11 0.09 0.16 0.23 0.16
O5' 0.20 0.60 0.45 0.19 0.30 0.02 0.33 0.01 0.36 0.57 0.48 0.79 0.55 0.54 0.26 0.33 0.29 0.11 0.00 0.40 0.02 0.02 0.01
O6 0.02 0.01 0.13 0.38 0.01 0.14 0.01 0.27 0.01 0.02 0.01 0.02 0.02 0.02 0.02 0.39 0.21 0.09 0.40 0.00 0.51 0.71 0.49
OP1 0.20 0.84 0.46 0.22 0.38 0.13 0.38 0.14 0.47 0.58 0.68 1.14 0.71 0.58 0.25 0.34 0.48 0.16 0.02 0.51 0.00 0.02 0.01
OP2 0.33 0.86 0.61 0.27 0.47 0.17 0.57 0.19 0.63 0.77 0.74 1.15 0.72 0.82 0.41 0.67 0.40 0.23 0.02 0.71 0.02 0.00 0.01
P 0.22 0.74 0.49 0.16 0.34 0.05 0.39 0.02 0.44 0.64 0.59 1.00 0.63 0.64 0.29 0.41 0.34 0.16 0.01 0.49 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.73 0.70 0.98 0.94 0.52 0.71 0.52 0.58 0.39 0.55 0.55 0.98 1.10 1.05 0.71 0.57 0.56 0.71 0.90 0.63
C2 0.65 0.47 0.70 0.81 0.62 0.81 0.79 0.93 0.79 0.61 0.48 0.51 0.76 0.83 0.71 0.74 1.05 1.27 1.26 1.16
C2' 0.50 0.45 0.75 0.82 0.62 0.64 0.71 0.69 0.51 0.36 0.45 0.71 0.90 0.99 0.85 0.47 0.80 1.03 1.26 0.98
C3' 0.69 0.58 1.02 1.03 0.55 0.78 0.57 0.67 0.40 0.47 0.48 0.86 1.19 1.28 0.78 0.57 0.66 0.86 1.02 0.77
C4 0.32 0.34 0.41 0.50 0.38 0.41 0.51 0.50 0.40 0.27 0.31 0.54 0.45 0.49 0.49 0.33 0.63 0.83 0.99 0.74
C4' 0.97 0.80 1.31 1.27 0.51 1.01 0.46 0.77 0.39 0.68 0.59 1.12 1.51 1.52 0.73 0.81 0.57 0.62 0.73 0.50
C5 0.35 0.37 0.44 0.55 0.25 0.49 0.35 0.60 0.35 0.30 0.36 0.51 0.47 0.53 0.35 0.39 0.71 0.90 1.09 0.81
C5' 1.09 0.77 1.45 1.50 0.44 1.27 0.38 1.03 0.43 0.73 0.51 1.05 1.66 1.84 0.69 1.01 0.74 0.60 0.67 0.51
C6 0.50 0.50 0.55 0.56 0.34 0.55 0.47 0.64 0.48 0.45 0.46 0.63 0.69 0.56 0.40 0.51 0.77 1.03 1.18 0.91
C8 0.81 0.63 1.05 1.16 0.37 0.98 0.35 0.96 0.50 0.64 0.48 0.76 1.03 1.22 0.56 0.78 0.93 0.92 1.08 0.87
N1 0.71 0.56 0.79 0.82 0.51 0.80 0.67 0.86 0.70 0.64 0.47 0.63 0.91 0.85 0.59 0.74 0.94 1.16 1.20 1.03
N2 0.92 0.60 1.04 1.19 0.75 1.18 0.93 1.31 0.99 0.82 0.61 0.60 1.09 1.25 0.88 1.04 1.41 1.61 1.54 1.50
N3 0.37 0.37 0.38 0.54 0.58 0.53 0.74 0.69 0.64 0.40 0.43 0.51 0.43 0.52 0.67 0.48 0.86 1.11 1.16 1.01
N7 0.62 0.53 0.78 0.95 0.38 0.84 0.36 0.92 0.49 0.52 0.51 0.62 0.74 0.95 0.51 0.66 0.98 1.07 1.26 1.01
N9 0.61 0.55 0.81 0.85 0.38 0.66 0.42 0.61 0.36 0.45 0.41 0.76 0.85 0.90 0.57 0.52 0.62 0.71 0.91 0.64
O2' 0.49 0.52 0.65 0.67 0.83 0.57 0.96 0.74 0.72 0.45 0.58 0.78 0.88 0.80 1.05 0.51 0.95 1.28 1.59 1.26
O3' 0.60 0.63 0.92 0.91 0.71 0.64 0.70 0.55 0.45 0.43 0.63 0.91 1.14 1.20 0.96 0.45 0.63 0.99 1.10 0.87
O4' 1.05 0.91 1.33 1.26 0.55 1.03 0.50 0.80 0.51 0.80 0.68 1.20 1.48 1.41 0.71 0.89 0.61 0.60 0.69 0.50
O5' 1.15 0.76 1.49 1.66 0.41 1.44 0.36 1.28 0.56 0.81 0.51 0.96 1.59 1.98 0.62 1.15 1.00 0.79 0.84 0.74
O6 0.62 0.66 0.71 0.64 0.44 0.63 0.48 0.72 0.49 0.54 0.61 0.84 0.88 0.67 0.56 0.59 0.85 1.17 1.35 1.05
OP1 1.21 0.67 1.51 1.79 0.31 1.70 0.34 1.62 0.60 0.80 0.37 0.86 1.69 2.28 0.54 1.32 1.26 1.16 1.12 1.04
OP2 1.24 0.74 1.44 1.87 0.56 1.83 0.72 1.93 0.94 0.96 0.56 0.77 1.41 2.14 0.63 1.46 1.73 1.70 1.64 1.61
P 1.32 0.77 1.61 1.95 0.39 1.83 0.46 1.75 0.76 0.94 0.48 0.91 1.68 2.37 0.53 1.45 1.43 1.25 1.20 1.19

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3O2O2'O3'O4O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.01 0.02 0.01 0.02 0.04 0.02 0.01 0.02 0.04 0.02 0.13 0.02 0.01 0.13 0.37 0.27 0.15
C2 0.02 0.00 0.11 0.12 0.01 0.04 0.01 0.09 0.01 0.01 0.00 0.01 0.11 0.13 0.01 0.06 0.21 0.56 0.51 0.24
C2' 0.00 0.11 0.00 0.00 0.06 0.01 0.09 0.08 0.10 0.03 0.09 0.19 0.00 0.02 0.07 0.01 0.22 0.28 0.33 0.25
C3' 0.01 0.12 0.00 0.00 0.18 0.01 0.20 0.02 0.18 0.11 0.15 0.14 0.02 0.01 0.20 0.02 0.16 0.21 0.20 0.14
C4 0.02 0.01 0.06 0.18 0.00 0.08 0.01 0.15 0.01 0.01 0.01 0.01 0.16 0.14 0.01 0.04 0.30 0.75 0.77 0.36
C4' 0.01 0.04 0.01 0.01 0.08 0.00 0.11 0.01 0.11 0.05 0.05 0.06 0.14 0.03 0.09 0.00 0.02 0.16 0.22 0.05
C5 0.02 0.01 0.09 0.20 0.01 0.11 0.00 0.17 0.00 0.01 0.01 0.02 0.18 0.18 0.01 0.06 0.32 0.75 0.77 0.37
C5' 0.04 0.09 0.08 0.02 0.15 0.01 0.17 0.00 0.15 0.09 0.12 0.09 0.07 0.10 0.17 0.02 0.01 0.21 0.32 0.02
C6 0.02 0.01 0.10 0.18 0.01 0.11 0.00 0.15 0.00 0.01 0.01 0.02 0.16 0.16 0.01 0.07 0.28 0.63 0.59 0.30
N1 0.01 0.01 0.03 0.11 0.01 0.05 0.01 0.09 0.01 0.00 0.01 0.01 0.09 0.08 0.02 0.02 0.20 0.52 0.45 0.22
N3 0.02 0.00 0.09 0.15 0.01 0.05 0.01 0.12 0.01 0.01 0.00 0.01 0.13 0.12 0.01 0.05 0.26 0.67 0.65 0.30
O2 0.04 0.01 0.19 0.14 0.01 0.06 0.02 0.09 0.02 0.01 0.01 0.00 0.17 0.22 0.02 0.09 0.18 0.50 0.43 0.20
O2' 0.02 0.11 0.00 0.02 0.16 0.14 0.18 0.07 0.16 0.09 0.13 0.17 0.00 0.05 0.17 0.10 0.15 0.25 0.33 0.21
O3' 0.13 0.13 0.02 0.01 0.14 0.03 0.18 0.10 0.16 0.08 0.12 0.22 0.05 0.00 0.17 0.09 0.19 0.41 0.29 0.21
O4 0.02 0.01 0.07 0.20 0.01 0.09 0.01 0.17 0.01 0.02 0.01 0.02 0.17 0.17 0.00 0.04 0.32 0.81 0.85 0.40
O4' 0.01 0.06 0.01 0.02 0.04 0.00 0.06 0.02 0.07 0.02 0.05 0.09 0.10 0.09 0.04 0.00 0.10 0.36 0.24 0.14
O5' 0.13 0.21 0.22 0.16 0.30 0.02 0.32 0.01 0.28 0.20 0.26 0.18 0.15 0.19 0.32 0.10 0.00 0.02 0.02 0.01
OP1 0.37 0.56 0.28 0.21 0.75 0.16 0.75 0.21 0.63 0.52 0.67 0.50 0.25 0.41 0.81 0.36 0.02 0.00 0.01 0.01
OP2 0.27 0.51 0.33 0.20 0.77 0.22 0.77 0.32 0.59 0.45 0.65 0.43 0.33 0.29 0.85 0.24 0.02 0.01 0.00 0.01
P 0.15 0.24 0.25 0.14 0.36 0.05 0.37 0.02 0.30 0.22 0.30 0.20 0.21 0.21 0.40 0.14 0.01 0.01 0.01 0.00