ClaRNA

Doublet Group distance statistics: 3138

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Distances from reference structure (by RMSD)

6, 49, 3, 0, 0, 1, 0, 4, 3, 4, 11, 23, 24, 40, 39, 13, 1, 4, 2, 26,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C6 A 0, 0.339, 0.700, 1.061, 1.639 max_d=1.639 avg_d=0.700 std_dev=0.361
N1 B 0, 0.160, 0.539, 0.919, 1.332 max_d=1.332 avg_d=0.539 std_dev=0.380
N1 A 0, 0.178, 0.598, 1.017, 2.061 max_d=2.061 avg_d=0.598 std_dev=0.419
C5 A 0, 0.532, 1.115, 1.697, 2.529 max_d=2.529 avg_d=1.115 std_dev=0.583
C2 A 0, 0.177, 0.811, 1.445, 2.925 max_d=2.925 avg_d=0.811 std_dev=0.634
C1' B 0, 0.380, 1.039, 1.697, 2.639 max_d=2.639 avg_d=1.039 std_dev=0.659
C6 B 0, 0.252, 0.940, 1.627, 2.702 max_d=2.702 avg_d=0.940 std_dev=0.688
C2 B 0, 0.460, 1.208, 1.956, 3.095 max_d=3.095 avg_d=1.208 std_dev=0.748
N3 A 0, 0.258, 1.019, 1.781, 3.219 max_d=3.219 avg_d=1.019 std_dev=0.762
C4 A 0, 0.471, 1.260, 2.049, 3.367 max_d=3.367 avg_d=1.260 std_dev=0.789
C1' A 0, 0.280, 1.086, 1.891, 3.639 max_d=3.639 avg_d=1.086 std_dev=0.805
C4 B 0, 0.428, 1.284, 2.140, 4.085 max_d=4.085 avg_d=1.284 std_dev=0.856
O2 A 0, 0.432, 1.296, 2.161, 4.506 max_d=4.506 avg_d=1.296 std_dev=0.864
N3 B 0, 0.488, 1.381, 2.275, 4.445 max_d=4.445 avg_d=1.381 std_dev=0.894
C5 B 0, 0.301, 1.289, 2.277, 4.584 max_d=4.584 avg_d=1.289 std_dev=0.988
O4' A 0, 0.279, 1.280, 2.281, 4.175 max_d=4.175 avg_d=1.280 std_dev=1.001
C2' B 0, 0.380, 1.487, 2.595, 5.036 max_d=5.036 avg_d=1.487 std_dev=1.108
O4 A 0, 0.654, 1.810, 2.966, 4.946 max_d=4.946 avg_d=1.810 std_dev=1.156
O4' B 0, 0.440, 1.619, 2.797, 4.287 max_d=4.287 avg_d=1.619 std_dev=1.178
C2' A 0, 0.623, 1.835, 3.046, 5.608 max_d=5.608 avg_d=1.835 std_dev=1.211
N4 B 0, 0.614, 1.889, 3.164, 5.986 max_d=5.986 avg_d=1.889 std_dev=1.275
O2 B 0, 0.726, 2.016, 3.306, 4.675 max_d=4.675 avg_d=2.016 std_dev=1.290
C3' B 0, 0.789, 2.123, 3.458, 6.649 max_d=6.649 avg_d=2.123 std_dev=1.334
C4' A 0, 0.462, 1.855, 3.247, 6.315 max_d=6.315 avg_d=1.855 std_dev=1.393
O2' B 0, 0.594, 1.989, 3.385, 5.946 max_d=5.946 avg_d=1.989 std_dev=1.395
C4' B 0, 0.648, 2.139, 3.631, 6.303 max_d=6.303 avg_d=2.139 std_dev=1.492
C5' A 0, 0.656, 2.190, 3.723, 8.067 max_d=8.067 avg_d=2.190 std_dev=1.533
O5' A 0, 0.333, 1.951, 3.570, 9.331 max_d=9.331 avg_d=1.951 std_dev=1.618
C3' A 0, 0.382, 2.001, 3.621, 7.386 max_d=7.386 avg_d=2.001 std_dev=1.619
O2' A 0, 1.043, 2.791, 4.539, 7.024 max_d=7.024 avg_d=2.791 std_dev=1.748
O3' B 0, 1.051, 2.867, 4.683, 9.127 max_d=9.127 avg_d=2.867 std_dev=1.816
O3' A 0, 0.753, 2.698, 4.642, 8.271 max_d=8.271 avg_d=2.698 std_dev=1.944
O5' B 0, 1.051, 3.116, 5.181, 8.221 max_d=8.221 avg_d=3.116 std_dev=2.065
C5' B 0, 0.943, 3.012, 5.081, 8.254 max_d=8.254 avg_d=3.012 std_dev=2.069
P A 0, 0.320, 2.394, 4.467, 11.654 max_d=11.654 avg_d=2.394 std_dev=2.073
OP1 A 0, 0.120, 2.386, 4.652, 10.999 max_d=10.999 avg_d=2.386 std_dev=2.266
OP2 A 0, 0.997, 3.602, 6.206, 12.983 max_d=12.983 avg_d=3.602 std_dev=2.604
P B 0, 1.314, 4.036, 6.759, 10.739 max_d=10.739 avg_d=4.036 std_dev=2.722
OP2 B 0, 1.124, 3.981, 6.837, 11.419 max_d=11.419 avg_d=3.981 std_dev=2.857
OP1 B 0, 1.595, 4.805, 8.015, 13.166 max_d=13.166 avg_d=4.805 std_dev=3.210

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 0.03 0.01 0.02 0.03 0.01 0.02 0.10 0.02 0.01 0.02 0.04 0.03 0.35 0.03 0.01 0.31 0.42 0.65 0.31
C2 0.03 0.00 0.20 0.26 0.01 0.11 0.01 0.21 0.01 0.01 0.01 0.01 0.25 0.24 0.02 0.17 0.32 0.67 0.73 0.34
C2' 0.01 0.20 0.00 0.01 0.09 0.02 0.20 0.23 0.23 0.05 0.14 0.37 0.01 0.05 0.11 0.02 0.53 0.65 0.73 0.60
C3' 0.02 0.26 0.01 0.00 0.36 0.01 0.36 0.04 0.31 0.22 0.32 0.22 0.02 0.01 0.39 0.02 0.19 0.30 0.52 0.24
C4 0.03 0.01 0.09 0.36 0.00 0.15 0.01 0.22 0.01 0.02 0.01 0.02 0.43 0.22 0.01 0.04 0.41 0.91 1.01 0.50
C4' 0.01 0.11 0.02 0.01 0.15 0.00 0.20 0.01 0.20 0.09 0.12 0.18 0.31 0.03 0.16 0.01 0.02 0.30 0.40 0.10
C5 0.02 0.01 0.20 0.36 0.01 0.20 0.00 0.25 0.01 0.01 0.01 0.02 0.47 0.26 0.01 0.13 0.48 0.93 1.08 0.58
C5' 0.10 0.21 0.23 0.04 0.22 0.01 0.25 0.00 0.23 0.13 0.22 0.30 0.09 0.22 0.24 0.02 0.01 0.42 0.37 0.02
C6 0.02 0.01 0.23 0.31 0.01 0.20 0.01 0.23 0.00 0.01 0.01 0.02 0.42 0.21 0.02 0.17 0.46 0.76 0.95 0.51
N1 0.01 0.01 0.05 0.22 0.02 0.09 0.01 0.13 0.01 0.00 0.01 0.02 0.24 0.18 0.02 0.02 0.34 0.60 0.75 0.35
N3 0.02 0.01 0.14 0.32 0.01 0.12 0.01 0.22 0.01 0.01 0.00 0.01 0.34 0.19 0.01 0.12 0.35 0.80 0.85 0.40
O2 0.04 0.01 0.37 0.22 0.02 0.18 0.02 0.30 0.02 0.02 0.01 0.00 0.32 0.37 0.02 0.29 0.34 0.64 0.68 0.36
O2' 0.03 0.25 0.01 0.02 0.43 0.31 0.47 0.09 0.42 0.24 0.34 0.32 0.00 0.08 0.48 0.21 0.37 0.61 0.78 0.52
O3' 0.35 0.24 0.05 0.01 0.22 0.03 0.26 0.22 0.21 0.18 0.19 0.37 0.08 0.00 0.25 0.24 0.32 0.54 0.62 0.35
O4 0.03 0.02 0.11 0.39 0.01 0.16 0.01 0.24 0.02 0.02 0.01 0.02 0.48 0.25 0.00 0.05 0.42 0.99 1.08 0.54
O4' 0.01 0.17 0.02 0.02 0.04 0.01 0.13 0.02 0.17 0.02 0.12 0.29 0.21 0.24 0.05 0.00 0.19 0.32 0.72 0.30
O5' 0.31 0.32 0.53 0.19 0.41 0.02 0.48 0.01 0.46 0.34 0.35 0.34 0.37 0.32 0.42 0.19 0.00 0.03 0.03 0.01
OP1 0.42 0.67 0.65 0.30 0.91 0.30 0.93 0.42 0.76 0.60 0.80 0.64 0.61 0.54 0.99 0.32 0.03 0.00 0.02 0.01
OP2 0.65 0.73 0.73 0.52 1.01 0.40 1.08 0.37 0.95 0.75 0.85 0.68 0.78 0.62 1.08 0.72 0.03 0.02 0.00 0.01
P 0.31 0.34 0.60 0.24 0.50 0.10 0.58 0.02 0.51 0.35 0.40 0.36 0.52 0.35 0.54 0.30 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' 0.87 1.68 0.76 0.75 1.82 1.03 1.57 1.41 1.27 1.20 1.93 2.06 1.94 0.93 1.02 0.96 1.30 1.88 1.53 1.57
C2 0.83 1.66 0.54 0.46 2.03 0.78 1.88 1.10 1.52 1.26 1.99 2.30 1.84 0.70 0.89 0.87 0.98 1.47 1.26 1.20
C2' 1.31 1.99 1.18 1.11 2.13 1.39 1.89 1.73 1.62 1.58 2.23 2.35 2.19 1.29 1.16 1.39 1.71 2.26 1.95 1.98
C3' 1.14 1.84 1.10 1.09 1.99 1.29 1.73 1.70 1.47 1.43 2.09 2.21 2.02 1.15 1.30 1.22 1.68 2.29 1.96 2.00
C4 0.91 1.51 0.60 0.49 1.84 0.81 1.79 1.08 1.54 1.27 1.77 2.02 1.60 0.78 0.91 1.03 1.02 1.28 1.25 1.17
C4' 1.04 1.69 1.02 1.09 1.75 1.31 1.49 1.75 1.27 1.28 1.89 1.94 1.92 1.10 1.32 1.21 1.66 2.25 1.89 1.97
C5 0.72 1.29 0.48 0.41 1.38 0.85 1.28 1.14 1.10 0.98 1.44 1.50 1.52 0.73 0.86 0.98 0.99 1.32 1.08 1.13
C5' 1.23 1.69 1.21 1.28 1.67 1.51 1.48 1.96 1.34 1.38 1.82 1.80 1.90 1.25 1.44 1.45 1.88 2.44 2.08 2.19
C6 0.77 1.41 0.62 0.58 1.43 0.96 1.25 1.28 1.05 1.01 1.55 1.57 1.69 0.82 0.91 0.96 1.11 1.56 1.22 1.30
N1 0.79 1.58 0.61 0.57 1.73 0.90 1.54 1.24 1.25 1.13 1.82 1.95 1.83 0.79 0.93 0.90 1.09 1.61 1.28 1.32
N3 0.91 1.65 0.58 0.47 2.10 0.77 2.02 1.06 1.68 1.35 2.00 2.36 1.75 0.74 0.89 0.95 0.99 1.36 1.31 1.19
O2 0.86 1.76 0.57 0.48 2.24 0.77 2.07 1.09 1.65 1.35 2.16 2.58 1.91 0.71 0.91 0.85 0.99 1.52 1.33 1.24
O2' 1.56 2.31 1.43 1.32 2.47 1.55 2.21 1.86 1.90 1.86 2.57 2.72 2.51 1.54 1.31 1.58 1.92 2.48 2.23 2.21
O3' 1.26 1.98 1.21 1.22 2.17 1.38 1.89 1.81 1.61 1.56 2.27 2.43 2.17 1.23 1.42 1.32 1.85 2.53 2.24 2.25
O4 1.16 1.66 0.85 0.73 2.08 0.92 2.06 1.18 1.82 1.53 1.94 2.24 1.60 1.03 1.00 1.21 1.23 1.36 1.52 1.37
O4' 0.83 1.59 0.81 0.87 1.63 1.12 1.36 1.54 1.12 1.11 1.80 1.83 1.86 0.96 1.18 1.00 1.38 1.95 1.55 1.65
O5' 1.21 1.56 1.26 1.31 1.48 1.50 1.30 1.91 1.21 1.29 1.64 1.57 1.77 1.37 1.50 1.40 1.76 2.33 1.89 2.04
OP1 1.63 1.61 1.68 2.02 1.63 2.41 1.68 2.92 1.70 1.61 1.63 1.65 1.69 1.60 2.01 2.15 2.76 3.37 2.87 3.06
OP2 1.32 1.42 1.64 1.63 1.36 1.67 1.32 2.08 1.32 1.32 1.44 1.38 1.55 1.76 1.80 1.47 1.89 2.35 1.96 2.12
P 1.24 1.38 1.40 1.55 1.30 1.75 1.23 2.21 1.21 1.23 1.41 1.34 1.56 1.47 1.71 1.54 2.03 2.60 2.13 2.31

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.03 0.01 0.02 0.03 0.01 0.02 0.07 0.02 0.01 0.03 0.03 0.06 0.02 0.30 0.01 0.18 0.26 0.26 0.17
C2 0.03 0.00 0.17 0.20 0.02 0.23 0.02 0.41 0.01 0.01 0.01 0.03 0.01 0.26 0.20 0.24 0.54 0.68 0.77 0.65
C2' 0.01 0.17 0.00 0.01 0.06 0.02 0.12 0.18 0.16 0.03 0.13 0.07 0.30 0.01 0.04 0.03 0.43 0.40 0.52 0.43
C3' 0.02 0.20 0.01 0.00 0.33 0.01 0.47 0.03 0.46 0.21 0.23 0.35 0.36 0.03 0.01 0.02 0.24 0.30 0.22 0.21
C4 0.03 0.02 0.06 0.33 0.00 0.16 0.01 0.27 0.01 0.02 0.01 0.01 0.03 0.40 0.15 0.05 0.46 0.69 0.68 0.49
C4' 0.01 0.23 0.02 0.01 0.16 0.00 0.37 0.01 0.41 0.10 0.17 0.17 0.52 0.28 0.03 0.01 0.02 0.14 0.19 0.05
C5 0.02 0.02 0.12 0.47 0.01 0.37 0.00 0.62 0.01 0.01 0.01 0.02 0.03 0.41 0.24 0.20 0.91 1.11 1.20 1.02
C5' 0.07 0.41 0.18 0.03 0.27 0.01 0.62 0.00 0.65 0.15 0.32 0.31 0.89 0.10 0.20 0.02 0.01 0.16 0.27 0.02
C6 0.02 0.01 0.16 0.46 0.01 0.41 0.01 0.65 0.00 0.00 0.01 0.02 0.02 0.34 0.22 0.27 0.92 1.03 1.07 0.97
N1 0.01 0.01 0.03 0.21 0.02 0.10 0.01 0.15 0.00 0.00 0.02 0.02 0.02 0.22 0.13 0.02 0.29 0.42 0.38 0.27
N3 0.03 0.01 0.13 0.23 0.01 0.17 0.01 0.32 0.01 0.02 0.00 0.02 0.02 0.34 0.15 0.17 0.45 0.65 0.71 0.55
N4 0.03 0.03 0.07 0.35 0.01 0.17 0.02 0.31 0.02 0.02 0.02 0.00 0.04 0.45 0.18 0.06 0.50 0.77 0.77 0.55
O2 0.06 0.01 0.30 0.36 0.03 0.52 0.03 0.89 0.02 0.02 0.02 0.04 0.00 0.30 0.37 0.45 1.16 1.28 1.48 1.35
O2' 0.02 0.26 0.01 0.03 0.40 0.28 0.41 0.10 0.34 0.22 0.34 0.45 0.30 0.00 0.05 0.19 0.31 0.33 0.57 0.36
O3' 0.30 0.20 0.04 0.01 0.15 0.03 0.24 0.20 0.22 0.13 0.15 0.18 0.37 0.05 0.00 0.20 0.30 0.59 0.42 0.39
O4' 0.01 0.24 0.03 0.02 0.05 0.01 0.20 0.02 0.27 0.02 0.17 0.06 0.45 0.19 0.20 0.00 0.11 0.23 0.22 0.14
O5' 0.18 0.54 0.43 0.24 0.46 0.02 0.91 0.01 0.92 0.29 0.45 0.50 1.16 0.31 0.30 0.11 0.00 0.02 0.02 0.01
OP1 0.26 0.68 0.40 0.30 0.69 0.14 1.11 0.16 1.03 0.42 0.65 0.77 1.28 0.33 0.59 0.23 0.02 0.00 0.01 0.01
OP2 0.26 0.77 0.52 0.22 0.68 0.19 1.20 0.27 1.07 0.38 0.71 0.77 1.48 0.57 0.42 0.22 0.02 0.01 0.00 0.01
P 0.17 0.65 0.43 0.21 0.49 0.05 1.02 0.02 0.97 0.27 0.55 0.55 1.35 0.36 0.39 0.14 0.01 0.01 0.01 0.00