ClaRNA

Doublet Group distance statistics: 12855

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Distances from reference structure (by RMSD)

48, 97, 33, 22, 48, 18, 28, 17, 6, 2, 24, 0, 3, 11, 10, 2, 1, 13, 65, 52,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4 B 0, 0.092, 0.238, 0.384, 0.681 max_d=0.681 avg_d=0.238 std_dev=0.146
N1 A 0, 0.065, 0.403, 0.741, 1.313 max_d=1.313 avg_d=0.403 std_dev=0.338
N3 B 0, 0.112, 0.498, 0.883, 1.861 max_d=1.861 avg_d=0.498 std_dev=0.385
C5 B 0, 0.075, 0.549, 1.022, 1.680 max_d=1.680 avg_d=0.549 std_dev=0.474
N9 B 0, 0.043, 0.629, 1.215, 1.950 max_d=1.950 avg_d=0.629 std_dev=0.586
C2 A 0, 0.071, 0.695, 1.319, 2.378 max_d=2.378 avg_d=0.695 std_dev=0.624
C6 A 0, 0.085, 0.714, 1.342, 2.543 max_d=2.543 avg_d=0.714 std_dev=0.629
C2 B 0, 0.145, 0.789, 1.433, 3.036 max_d=3.036 avg_d=0.789 std_dev=0.644
C6 B 0, 0.065, 0.770, 1.475, 2.294 max_d=2.294 avg_d=0.770 std_dev=0.705
N1 B 0, 0.117, 0.888, 1.659, 2.789 max_d=2.789 avg_d=0.888 std_dev=0.771
N3 A 0, 0.093, 0.925, 1.756, 3.228 max_d=3.228 avg_d=0.925 std_dev=0.831
N7 B 0, 0.146, 0.982, 1.818, 3.567 max_d=3.567 avg_d=0.982 std_dev=0.836
C8 B 0, 0.114, 0.986, 1.859, 3.618 max_d=3.618 avg_d=0.986 std_dev=0.873
C5 A 0, 0.061, 0.956, 1.851, 3.667 max_d=3.667 avg_d=0.956 std_dev=0.895
C1' B 0, 0.037, 0.948, 1.858, 2.982 max_d=2.982 avg_d=0.948 std_dev=0.911
C4 A 0, 0.068, 1.021, 1.975, 4.003 max_d=4.003 avg_d=1.021 std_dev=0.954
C1' A 0, 0.004, 1.032, 2.060, 4.059 max_d=4.059 avg_d=1.032 std_dev=1.028
N6 B 0, 0.069, 1.181, 2.292, 3.584 max_d=3.584 avg_d=1.181 std_dev=1.111
C2' B 0, 0.155, 1.350, 2.545, 4.191 max_d=4.191 avg_d=1.350 std_dev=1.195
O3' B 0, 0.449, 1.656, 2.863, 6.492 max_d=6.492 avg_d=1.656 std_dev=1.207
O2 A 0, 0.041, 1.278, 2.514, 4.564 max_d=4.564 avg_d=1.278 std_dev=1.237
C3' B 0, 0.091, 1.334, 2.577, 4.737 max_d=4.737 avg_d=1.334 std_dev=1.243
O4' B 0, 0.134, 1.409, 2.683, 4.122 max_d=4.122 avg_d=1.409 std_dev=1.274
O4' A 0, -0.034, 1.291, 2.615, 5.355 max_d=5.355 avg_d=1.291 std_dev=1.324
O2' B 0, 0.486, 1.914, 3.342, 6.173 max_d=6.173 avg_d=1.914 std_dev=1.428
O4 A 0, 0.079, 1.602, 3.125, 6.320 max_d=6.320 avg_d=1.602 std_dev=1.523
C2' A 0, -0.156, 1.439, 3.034, 5.847 max_d=5.847 avg_d=1.439 std_dev=1.595
C4' B 0, 0.060, 1.667, 3.274, 5.356 max_d=5.356 avg_d=1.667 std_dev=1.607
C5' B 0, 0.288, 2.342, 4.397, 6.912 max_d=6.912 avg_d=2.342 std_dev=2.055
O5' B 0, 0.391, 2.458, 4.524, 7.275 max_d=7.275 avg_d=2.458 std_dev=2.067
O2' A 0, 0.192, 2.310, 4.429, 7.988 max_d=7.988 avg_d=2.310 std_dev=2.119
C4' A 0, -0.125, 2.003, 4.132, 7.385 max_d=7.385 avg_d=2.003 std_dev=2.128
C3' A 0, -0.041, 2.131, 4.302, 7.104 max_d=7.104 avg_d=2.131 std_dev=2.172
C5' A 0, -0.064, 2.457, 4.978, 9.519 max_d=9.519 avg_d=2.457 std_dev=2.521
O5' A 0, 0.099, 2.629, 5.160, 9.904 max_d=9.904 avg_d=2.629 std_dev=2.531
OP2 B 0, 0.238, 2.819, 5.400, 10.989 max_d=10.989 avg_d=2.819 std_dev=2.581
P B 0, 0.342, 3.155, 5.967, 9.657 max_d=9.657 avg_d=3.155 std_dev=2.812
O3' A 0, 0.151, 3.120, 6.090, 9.773 max_d=9.773 avg_d=3.120 std_dev=2.969
OP1 B 0, 0.746, 4.037, 7.328, 10.705 max_d=10.705 avg_d=4.037 std_dev=3.291
P A 0, 0.380, 3.738, 7.096, 11.970 max_d=11.970 avg_d=3.738 std_dev=3.358
OP2 A 0, 0.793, 4.261, 7.728, 11.438 max_d=11.438 avg_d=4.261 std_dev=3.468
OP1 A 0, 0.201, 4.423, 8.646, 14.564 max_d=14.564 avg_d=4.423 std_dev=4.222

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 0.01 0.02 0.02 0.02 0.02 0.07 0.02 0.01 0.02 0.04 0.02 0.33 0.03 0.01 0.21 0.49 0.39 0.28
C2 0.02 0.00 0.16 0.23 0.01 0.12 0.02 0.21 0.01 0.01 0.01 0.01 0.22 0.25 0.02 0.14 0.37 0.54 0.70 0.48
C2' 0.01 0.16 0.00 0.01 0.06 0.02 0.12 0.19 0.15 0.03 0.12 0.27 0.00 0.04 0.07 0.02 0.47 0.89 0.85 0.70
C3' 0.02 0.23 0.01 0.00 0.39 0.01 0.43 0.03 0.38 0.23 0.31 0.20 0.02 0.01 0.42 0.03 0.23 0.63 0.51 0.34
C4 0.02 0.01 0.06 0.39 0.00 0.16 0.01 0.26 0.01 0.02 0.01 0.02 0.36 0.20 0.01 0.04 0.60 0.73 1.25 0.80
C4' 0.02 0.12 0.02 0.01 0.16 0.00 0.25 0.01 0.25 0.09 0.11 0.23 0.30 0.03 0.17 0.01 0.02 0.29 0.33 0.11
C5 0.02 0.02 0.12 0.43 0.01 0.25 0.00 0.37 0.01 0.01 0.01 0.02 0.40 0.29 0.02 0.12 0.74 0.86 1.35 0.93
C5' 0.07 0.21 0.19 0.03 0.26 0.01 0.37 0.00 0.35 0.14 0.22 0.37 0.13 0.22 0.28 0.02 0.01 0.20 0.32 0.02
C6 0.02 0.01 0.15 0.38 0.01 0.25 0.01 0.35 0.00 0.01 0.02 0.02 0.36 0.23 0.02 0.16 0.67 0.74 1.03 0.77
N1 0.01 0.01 0.03 0.23 0.02 0.09 0.01 0.14 0.01 0.00 0.01 0.02 0.22 0.14 0.02 0.02 0.38 0.51 0.63 0.45
N3 0.02 0.01 0.12 0.31 0.01 0.11 0.01 0.22 0.02 0.01 0.00 0.02 0.29 0.17 0.02 0.11 0.46 0.60 0.97 0.62
O2 0.04 0.01 0.27 0.20 0.02 0.23 0.02 0.37 0.02 0.02 0.02 0.00 0.25 0.45 0.03 0.25 0.45 0.67 0.69 0.56
O2' 0.02 0.22 0.00 0.02 0.36 0.30 0.40 0.13 0.36 0.22 0.29 0.25 0.00 0.07 0.38 0.21 0.33 0.87 0.96 0.64
O3' 0.33 0.25 0.04 0.01 0.20 0.03 0.29 0.22 0.23 0.14 0.17 0.45 0.07 0.00 0.24 0.23 0.29 0.52 0.46 0.21
O4 0.03 0.02 0.07 0.42 0.01 0.17 0.02 0.28 0.02 0.02 0.02 0.03 0.38 0.24 0.00 0.05 0.64 0.81 1.43 0.89
O4' 0.01 0.14 0.02 0.03 0.04 0.01 0.12 0.02 0.16 0.02 0.11 0.25 0.21 0.23 0.05 0.00 0.12 0.26 0.23 0.17
O5' 0.21 0.37 0.47 0.23 0.60 0.02 0.74 0.01 0.67 0.38 0.46 0.45 0.33 0.29 0.64 0.12 0.00 0.02 0.02 0.01
OP1 0.49 0.54 0.89 0.63 0.73 0.29 0.86 0.20 0.74 0.51 0.60 0.67 0.87 0.52 0.81 0.26 0.02 0.00 0.02 0.01
OP2 0.39 0.70 0.85 0.51 1.25 0.33 1.35 0.32 1.03 0.63 0.97 0.69 0.96 0.46 1.43 0.23 0.02 0.02 0.00 0.01
P 0.28 0.48 0.70 0.34 0.80 0.11 0.93 0.02 0.77 0.45 0.62 0.56 0.64 0.21 0.89 0.17 0.01 0.01 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 1.16 0.98 1.42 1.51 0.52 1.62 0.45 2.04 0.69 1.27 1.11 0.65 0.94 0.98 0.96 1.69 1.54 1.42 2.29 3.31 2.26 2.85
C2 0.61 0.91 0.68 0.76 0.43 0.85 0.42 1.17 0.39 0.87 0.79 0.70 0.45 0.87 0.58 1.02 0.80 0.83 1.40 2.58 1.49 1.94
C2' 1.49 0.99 1.78 1.94 0.61 2.08 0.53 2.53 0.77 1.63 1.20 0.63 1.17 1.22 1.24 1.94 1.95 1.82 2.77 3.91 2.75 3.38
C3' 1.99 0.86 2.37 2.58 0.83 2.74 0.59 3.23 0.77 1.82 1.12 0.71 1.28 1.22 1.57 2.46 2.57 2.37 3.47 4.25 3.22 3.94
C4 0.61 0.56 0.76 0.86 0.38 0.72 0.37 0.78 0.46 0.56 0.54 0.50 0.61 0.52 0.49 1.07 0.95 0.65 0.91 1.67 1.25 1.18
C4' 1.80 0.81 2.26 2.44 0.70 2.51 0.46 2.96 0.74 1.52 1.05 0.67 1.23 0.98 1.36 2.49 2.49 2.11 3.15 3.76 2.92 3.57
C5 0.78 0.68 0.91 0.82 0.48 0.74 0.41 0.80 0.59 0.56 0.68 0.64 0.76 0.50 0.58 1.50 1.00 0.72 0.98 1.69 1.20 1.24
C5' 2.02 0.82 2.60 2.78 0.84 2.72 0.51 3.01 0.83 1.40 1.02 0.86 1.39 0.82 1.44 2.94 2.93 2.23 3.08 3.30 2.58 3.22
C6 1.03 0.70 1.26 1.14 0.50 1.11 0.35 1.26 0.65 0.81 0.81 0.60 0.91 0.53 0.79 1.77 1.24 1.03 1.45 2.20 1.35 1.76
N1 0.87 0.83 1.05 1.04 0.41 1.12 0.34 1.44 0.54 0.98 0.90 0.56 0.69 0.78 0.74 1.43 1.08 1.04 1.68 2.69 1.63 2.16
N3 0.61 0.70 0.73 0.81 0.42 0.73 0.38 0.87 0.34 0.64 0.51 0.65 0.59 0.68 0.51 1.00 0.88 0.71 1.02 2.06 1.22 1.43
O2 0.76 1.14 0.79 0.94 0.59 1.06 0.60 1.42 0.56 1.03 0.95 0.93 0.69 1.09 0.70 1.04 0.98 1.02 1.63 2.93 1.78 2.24
O2' 1.45 1.49 1.68 1.91 0.97 2.06 1.08 2.58 1.32 1.73 1.69 1.08 1.60 1.54 1.31 1.75 1.91 1.78 2.82 4.09 3.07 3.56
O3' 2.14 0.92 2.49 2.86 0.82 3.17 0.60 3.86 0.83 1.95 1.22 0.69 1.37 1.31 1.66 2.45 2.81 2.70 4.08 4.95 4.12 4.80
O4 0.98 0.66 1.26 1.43 0.54 1.22 0.52 1.22 0.69 0.83 0.79 0.57 0.92 0.69 0.80 1.28 1.48 1.02 1.24 1.60 1.61 1.30
O4' 1.37 0.88 1.74 1.82 0.58 1.88 0.43 2.27 0.70 1.24 1.03 0.66 1.03 0.85 1.06 2.07 1.88 1.60 2.49 3.25 2.35 2.95
O5' 2.21 1.00 2.85 2.93 1.09 2.72 0.73 2.78 0.97 1.39 1.08 1.17 1.50 0.85 1.59 3.29 3.12 2.26 2.72 2.75 1.90 2.60
OP1 2.51 1.20 3.28 3.56 1.23 3.25 0.91 3.20 1.25 1.38 1.29 1.41 1.92 0.96 1.70 3.79 3.98 2.59 2.85 2.52 1.82 2.44
OP2 2.31 1.53 3.03 2.98 1.44 2.58 1.19 2.35 1.39 1.41 1.45 1.68 1.85 1.22 1.69 3.72 3.34 2.13 2.05 1.90 1.43 1.69
P 2.39 1.18 3.11 3.23 1.24 2.90 0.90 2.78 1.13 1.37 1.18 1.41 1.69 0.96 1.67 3.68 3.60 2.37 2.49 2.28 1.54 2.14

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.04 0.01 0.02 0.02 0.01 0.02 0.08 0.03 0.02 0.04 0.04 0.03 0.02 0.01 0.02 0.37 0.01 0.22 0.87 0.24 0.34
C2 0.04 0.00 0.31 0.31 0.01 0.34 0.01 0.58 0.01 0.01 0.00 0.01 0.01 0.01 0.02 0.45 0.47 0.34 0.57 1.30 0.90 0.69
C2' 0.01 0.31 0.00 0.01 0.16 0.02 0.09 0.22 0.15 0.19 0.24 0.31 0.12 0.13 0.04 0.00 0.05 0.03 0.49 0.71 0.51 0.54
C3' 0.02 0.31 0.01 0.00 0.24 0.01 0.32 0.02 0.33 0.40 0.31 0.29 0.37 0.41 0.22 0.02 0.01 0.02 0.20 0.26 0.33 0.16
C4 0.02 0.01 0.16 0.24 0.00 0.15 0.00 0.24 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.30 0.28 0.17 0.28 1.22 0.57 0.41
C4' 0.01 0.34 0.02 0.01 0.15 0.00 0.12 0.01 0.15 0.27 0.25 0.33 0.14 0.22 0.09 0.32 0.04 0.01 0.02 0.22 0.23 0.08
C5 0.02 0.01 0.09 0.32 0.00 0.12 0.00 0.19 0.01 0.01 0.01 0.01 0.01 0.00 0.01 0.36 0.18 0.07 0.37 1.44 0.80 0.54
C5' 0.08 0.58 0.22 0.02 0.24 0.01 0.19 0.00 0.26 0.41 0.44 0.54 0.24 0.34 0.13 0.12 0.23 0.02 0.01 0.22 0.40 0.02
C6 0.03 0.01 0.15 0.33 0.01 0.15 0.01 0.26 0.00 0.02 0.00 0.01 0.00 0.01 0.02 0.39 0.23 0.14 0.36 1.43 0.87 0.51
C8 0.02 0.01 0.19 0.40 0.01 0.27 0.01 0.41 0.02 0.00 0.02 0.01 0.03 0.00 0.01 0.42 0.23 0.20 0.67 1.62 0.93 0.88
N1 0.04 0.00 0.24 0.31 0.01 0.25 0.01 0.44 0.00 0.02 0.00 0.01 0.01 0.01 0.02 0.41 0.35 0.26 0.44 1.36 0.88 0.56
N3 0.04 0.01 0.31 0.29 0.00 0.33 0.01 0.54 0.01 0.01 0.01 0.00 0.01 0.01 0.01 0.42 0.48 0.34 0.52 1.18 0.75 0.61
N6 0.03 0.01 0.12 0.37 0.01 0.14 0.01 0.24 0.00 0.03 0.01 0.01 0.00 0.03 0.02 0.42 0.22 0.10 0.42 1.54 1.02 0.61
N7 0.02 0.01 0.13 0.41 0.01 0.22 0.00 0.34 0.01 0.00 0.01 0.01 0.03 0.00 0.01 0.44 0.24 0.12 0.63 1.69 1.07 0.87
N9 0.01 0.02 0.04 0.22 0.01 0.09 0.01 0.13 0.02 0.01 0.02 0.01 0.02 0.01 0.00 0.23 0.18 0.02 0.32 1.21 0.49 0.48
O2' 0.02 0.45 0.00 0.02 0.30 0.32 0.36 0.12 0.39 0.42 0.41 0.42 0.42 0.44 0.23 0.00 0.08 0.21 0.39 0.59 0.54 0.47
O3' 0.37 0.47 0.05 0.01 0.28 0.04 0.18 0.23 0.23 0.23 0.35 0.48 0.22 0.24 0.18 0.08 0.00 0.26 0.30 0.55 0.47 0.37
O4' 0.01 0.34 0.03 0.02 0.17 0.01 0.07 0.02 0.14 0.20 0.26 0.34 0.10 0.12 0.02 0.21 0.26 0.00 0.15 0.73 0.24 0.27
O5' 0.22 0.57 0.49 0.20 0.28 0.02 0.37 0.01 0.36 0.67 0.44 0.52 0.42 0.63 0.32 0.39 0.30 0.15 0.00 0.02 0.02 0.01
OP1 0.87 1.30 0.71 0.26 1.22 0.22 1.44 0.22 1.43 1.62 1.36 1.18 1.54 1.69 1.21 0.59 0.55 0.73 0.02 0.00 0.02 0.01
OP2 0.24 0.90 0.51 0.33 0.57 0.23 0.80 0.40 0.87 0.93 0.88 0.75 1.02 1.07 0.49 0.54 0.47 0.24 0.02 0.02 0.00 0.01
P 0.34 0.69 0.54 0.16 0.41 0.08 0.54 0.02 0.51 0.88 0.56 0.61 0.61 0.87 0.48 0.47 0.37 0.27 0.01 0.01 0.01 0.00