ClaRNA

Doublet Group distance statistics: 48195

back

Distances from reference structure (by RMSD)

1, 0, 2, 1, 2, 1, 3, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.003, 0.006, 0.010, 0.013 max_d=0.013 avg_d=0.006 std_dev=0.004
N3 A 0, 0.002, 0.008, 0.015, 0.020 max_d=0.020 avg_d=0.008 std_dev=0.006
C4 A 0, 0.001, 0.010, 0.018, 0.031 max_d=0.031 avg_d=0.010 std_dev=0.008
C2 A 0, 0.004, 0.013, 0.022, 0.030 max_d=0.030 avg_d=0.013 std_dev=0.009
C6 A 0, 0.001, 0.010, 0.019, 0.029 max_d=0.029 avg_d=0.010 std_dev=0.009
N1 A 0, 0.000, 0.010, 0.020, 0.029 max_d=0.029 avg_d=0.010 std_dev=0.010
C1' A 0, 0.003, 0.013, 0.023, 0.029 max_d=0.029 avg_d=0.013 std_dev=0.010
N4 A 0, 0.005, 0.027, 0.049, 0.089 max_d=0.089 avg_d=0.027 std_dev=0.022
O2 A 0, 0.007, 0.034, 0.061, 0.088 max_d=0.088 avg_d=0.034 std_dev=0.027
O2' B 0, 0.155, 0.393, 0.631, 0.830 max_d=0.830 avg_d=0.393 std_dev=0.238
C2' B 0, 0.219, 0.499, 0.779, 0.990 max_d=0.990 avg_d=0.499 std_dev=0.280
O4' A 0, 0.096, 0.393, 0.690, 1.009 max_d=1.009 avg_d=0.393 std_dev=0.297
C3' B 0, 0.282, 0.636, 0.990, 1.305 max_d=1.305 avg_d=0.636 std_dev=0.354
C2' A 0, 0.100, 0.461, 0.821, 1.273 max_d=1.273 avg_d=0.461 std_dev=0.361
C4' A 0, 0.252, 0.655, 1.058, 1.162 max_d=1.162 avg_d=0.655 std_dev=0.403
O3' B 0, 0.127, 0.614, 1.102, 1.928 max_d=1.928 avg_d=0.614 std_dev=0.487
O2' A 0, 0.284, 0.910, 1.536, 2.111 max_d=2.111 avg_d=0.910 std_dev=0.626
C3' A 0, 0.322, 0.958, 1.595, 2.031 max_d=2.031 avg_d=0.958 std_dev=0.636
O5' A 0, 0.269, 0.917, 1.564, 2.147 max_d=2.147 avg_d=0.917 std_dev=0.648
C1' B 0, 0.235, 0.929, 1.623, 1.989 max_d=1.989 avg_d=0.929 std_dev=0.694
C4' B 0, 0.229, 0.934, 1.639, 1.851 max_d=1.851 avg_d=0.934 std_dev=0.705
C5' A 0, 0.112, 0.847, 1.581, 2.377 max_d=2.377 avg_d=0.847 std_dev=0.735
P A 0, 0.252, 1.119, 1.986, 2.593 max_d=2.593 avg_d=1.119 std_dev=0.867
C5' B 0, 0.325, 1.273, 2.220, 2.392 max_d=2.392 avg_d=1.273 std_dev=0.948
O4' B 0, 0.130, 1.084, 2.039, 2.483 max_d=2.483 avg_d=1.084 std_dev=0.955
O2 B 0, 0.734, 1.711, 2.687, 2.962 max_d=2.962 avg_d=1.711 std_dev=0.976
O5' B 0, 0.257, 1.244, 2.231, 2.611 max_d=2.611 avg_d=1.244 std_dev=0.987
N1 B 0, 0.451, 1.474, 2.498, 2.933 max_d=2.933 avg_d=1.474 std_dev=1.023
OP2 A 0, 0.782, 1.843, 2.904, 3.039 max_d=3.039 avg_d=1.843 std_dev=1.061
O3' A 0, 0.520, 1.664, 2.807, 3.232 max_d=3.232 avg_d=1.664 std_dev=1.144
OP1 A 0, 0.859, 2.008, 3.158, 3.080 max_d=3.080 avg_d=2.008 std_dev=1.150
C2 B 0, 0.698, 1.882, 3.065, 3.501 max_d=3.501 avg_d=1.882 std_dev=1.184
P B 0, 0.331, 1.598, 2.864, 3.286 max_d=3.286 avg_d=1.598 std_dev=1.267
OP1 B 0, 0.538, 1.825, 3.111, 3.296 max_d=3.296 avg_d=1.825 std_dev=1.286
C6 B 0, 0.436, 1.738, 3.040, 3.444 max_d=3.444 avg_d=1.738 std_dev=1.302
OP2 B 0, 0.562, 2.007, 3.453, 3.644 max_d=3.644 avg_d=2.007 std_dev=1.445
N3 B 0, 0.931, 2.545, 4.160, 4.684 max_d=4.684 avg_d=2.545 std_dev=1.614
C5 B 0, 0.669, 2.360, 4.052, 4.534 max_d=4.534 avg_d=2.360 std_dev=1.691
C4 B 0, 0.929, 2.775, 4.621, 5.196 max_d=5.196 avg_d=2.775 std_dev=1.846
N4 B 0, 1.195, 3.476, 5.756, 6.410 max_d=6.410 avg_d=3.476 std_dev=2.281

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 0.01 0.01 0.01 0.08 0.01 0.01 0.02 0.01 0.05 0.01 0.27 0.01 0.18 0.69 0.44 0.24
C2 0.02 0.00 0.20 0.24 0.00 0.03 0.01 0.11 0.00 0.01 0.00 0.01 0.00 0.23 0.14 0.09 0.24 1.06 0.53 0.24
C2' 0.00 0.20 0.00 0.00 0.05 0.02 0.16 0.19 0.20 0.03 0.15 0.05 0.39 0.00 0.03 0.01 0.52 0.69 0.38 0.53
C3' 0.01 0.24 0.00 0.00 0.36 0.01 0.40 0.02 0.37 0.22 0.29 0.38 0.25 0.02 0.01 0.03 0.27 0.17 0.18 0.15
C4 0.01 0.00 0.05 0.36 0.00 0.12 0.00 0.21 0.01 0.00 0.00 0.00 0.01 0.30 0.21 0.03 0.37 1.34 0.71 0.33
C4' 0.01 0.03 0.02 0.01 0.12 0.00 0.17 0.01 0.16 0.07 0.06 0.13 0.07 0.29 0.02 0.00 0.02 0.07 0.33 0.05
C5 0.01 0.01 0.16 0.40 0.00 0.17 0.00 0.24 0.00 0.01 0.00 0.01 0.01 0.34 0.34 0.06 0.40 1.35 0.70 0.34
C5' 0.08 0.11 0.19 0.02 0.21 0.01 0.24 0.00 0.21 0.13 0.15 0.23 0.09 0.12 0.23 0.01 0.01 0.14 0.39 0.03
C6 0.01 0.00 0.20 0.37 0.01 0.16 0.00 0.21 0.00 0.00 0.01 0.01 0.01 0.31 0.30 0.09 0.34 1.18 0.56 0.29
N1 0.01 0.01 0.03 0.22 0.00 0.07 0.01 0.13 0.00 0.00 0.00 0.01 0.02 0.17 0.09 0.01 0.24 0.99 0.49 0.25
N3 0.02 0.00 0.15 0.29 0.00 0.06 0.00 0.15 0.01 0.00 0.00 0.01 0.01 0.26 0.09 0.07 0.30 1.22 0.62 0.28
N4 0.01 0.01 0.05 0.38 0.00 0.13 0.01 0.23 0.01 0.01 0.01 0.00 0.01 0.33 0.26 0.03 0.41 1.42 0.79 0.36
O2 0.05 0.00 0.39 0.25 0.01 0.07 0.01 0.09 0.01 0.02 0.01 0.01 0.00 0.37 0.35 0.14 0.18 0.93 0.49 0.22
O2' 0.01 0.23 0.00 0.02 0.30 0.29 0.34 0.12 0.31 0.17 0.26 0.33 0.37 0.00 0.08 0.19 0.39 0.52 0.33 0.42
O3' 0.27 0.14 0.03 0.01 0.21 0.02 0.34 0.23 0.30 0.09 0.09 0.26 0.35 0.08 0.00 0.18 0.31 0.60 0.26 0.36
O4' 0.01 0.09 0.01 0.03 0.03 0.00 0.06 0.01 0.09 0.01 0.07 0.03 0.14 0.19 0.18 0.00 0.11 0.44 0.53 0.20
O5' 0.18 0.24 0.52 0.27 0.37 0.02 0.40 0.01 0.34 0.24 0.30 0.41 0.18 0.39 0.31 0.11 0.00 0.03 0.02 0.00
OP1 0.69 1.06 0.69 0.17 1.34 0.07 1.35 0.14 1.18 0.99 1.22 1.42 0.93 0.52 0.60 0.44 0.03 0.00 0.01 0.00
OP2 0.44 0.53 0.38 0.18 0.71 0.33 0.70 0.39 0.56 0.49 0.62 0.79 0.49 0.33 0.26 0.53 0.02 0.01 0.00 0.00
P 0.24 0.24 0.53 0.15 0.33 0.05 0.34 0.03 0.29 0.25 0.28 0.36 0.22 0.42 0.36 0.20 0.00 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.46 0.84 0.17 0.28 1.08 0.49 0.95 0.60 0.78 0.70 1.04 1.22 0.76 0.20 0.46 0.54 0.50 0.69 0.70 0.58
C2 0.59 0.83 0.23 0.34 1.00 0.61 0.93 0.74 0.82 0.75 0.96 1.09 0.76 0.17 0.48 0.70 0.65 0.84 0.91 0.75
C2' 0.31 0.73 0.11 0.25 1.00 0.44 0.88 0.57 0.69 0.57 0.95 1.17 0.67 0.26 0.48 0.42 0.47 0.70 0.67 0.56
C3' 0.62 0.82 0.41 0.52 1.11 0.76 1.03 0.86 0.87 0.74 1.02 1.29 0.72 0.51 0.61 0.79 0.78 0.93 0.82 0.85
C4 0.60 0.81 0.25 0.32 0.91 0.56 0.86 0.64 0.78 0.75 0.89 0.96 0.75 0.17 0.42 0.67 0.58 0.69 0.78 0.64
C4' 0.36 0.75 0.16 0.26 1.07 0.46 0.92 0.53 0.70 0.59 1.00 1.26 0.66 0.34 0.50 0.47 0.43 0.57 0.47 0.47
C5 0.47 0.82 0.19 0.24 0.95 0.41 0.85 0.46 0.73 0.69 0.94 1.02 0.77 0.22 0.39 0.49 0.41 0.50 0.54 0.44
C5' 0.20 0.66 0.34 0.38 1.02 0.37 0.84 0.36 0.58 0.46 0.94 1.25 0.58 0.55 0.65 0.24 0.37 0.39 0.17 0.31
C6 0.44 0.83 0.17 0.24 1.02 0.41 0.90 0.47 0.74 0.68 1.00 1.13 0.77 0.23 0.41 0.46 0.40 0.53 0.54 0.44
N1 0.50 0.84 0.19 0.28 1.04 0.51 0.93 0.61 0.78 0.71 1.00 1.15 0.77 0.20 0.45 0.57 0.52 0.68 0.72 0.59
N3 0.64 0.82 0.26 0.36 0.95 0.64 0.91 0.77 0.83 0.77 0.91 1.01 0.75 0.16 0.46 0.76 0.70 0.85 0.96 0.79
N4 0.68 0.78 0.30 0.35 0.85 0.61 0.83 0.68 0.79 0.76 0.82 0.87 0.72 0.14 0.39 0.75 0.64 0.70 0.84 0.69
O2 0.61 0.83 0.23 0.36 1.02 0.65 0.96 0.81 0.85 0.77 0.97 1.11 0.76 0.16 0.50 0.75 0.72 0.94 1.03 0.85
O2' 0.33 0.78 0.27 0.26 1.00 0.25 0.86 0.37 0.67 0.59 0.97 1.15 0.76 0.33 0.50 0.23 0.26 0.50 0.67 0.35
O3' 0.67 0.91 0.42 0.48 1.18 0.73 1.09 0.83 0.92 0.81 1.11 1.36 0.84 0.48 0.57 0.82 0.79 0.90 0.85 0.86
O4' 0.43 0.87 0.14 0.22 1.15 0.42 1.00 0.50 0.79 0.70 1.11 1.32 0.77 0.24 0.45 0.49 0.39 0.53 0.53 0.44
O5' 0.33 0.53 0.46 0.51 0.83 0.58 0.65 0.56 0.42 0.36 0.78 1.05 0.50 0.68 0.72 0.42 0.60 0.60 0.29 0.56
OP1 1.47 1.54 1.67 1.64 1.68 1.46 1.59 1.40 1.50 1.49 1.63 1.82 1.55 1.74 1.76 1.36 1.55 1.44 1.53 1.50
OP2 0.85 0.93 0.78 0.80 1.21 0.90 1.15 0.92 1.02 0.91 1.10 1.36 0.80 0.86 0.82 0.92 0.85 0.90 0.79 0.87
P 0.37 0.72 0.52 0.50 1.05 0.40 0.87 0.32 0.63 0.54 0.99 1.28 0.66 0.68 0.67 0.28 0.50 0.37 0.40 0.45

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.01 0.00 0.01 0.01 0.00 0.01 0.01 0.01 0.01 0.02 0.02 0.02 0.01 0.03 0.00 0.26 0.14 0.12 0.23
C2 0.01 0.00 0.09 0.11 0.01 0.04 0.01 0.04 0.01 0.01 0.01 0.01 0.01 0.06 0.13 0.02 0.43 0.22 0.54 0.46
C2' 0.00 0.09 0.00 0.00 0.07 0.01 0.08 0.01 0.08 0.04 0.08 0.08 0.14 0.00 0.03 0.01 0.14 0.15 0.07 0.13
C3' 0.01 0.11 0.00 0.00 0.12 0.00 0.14 0.02 0.13 0.07 0.12 0.14 0.14 0.02 0.01 0.02 0.08 0.16 0.07 0.09
C4 0.01 0.01 0.07 0.12 0.00 0.05 0.00 0.07 0.01 0.01 0.00 0.00 0.01 0.04 0.16 0.02 0.62 0.33 0.98 0.73
C4' 0.00 0.04 0.01 0.00 0.05 0.00 0.06 0.00 0.06 0.03 0.05 0.06 0.04 0.05 0.02 0.00 0.01 0.08 0.24 0.03
C5 0.01 0.01 0.08 0.14 0.00 0.06 0.00 0.08 0.00 0.01 0.00 0.01 0.01 0.04 0.17 0.03 0.68 0.36 1.02 0.78
C5' 0.01 0.04 0.01 0.02 0.07 0.00 0.08 0.00 0.07 0.03 0.05 0.08 0.04 0.05 0.03 0.01 0.01 0.10 0.20 0.01
C6 0.01 0.01 0.08 0.13 0.01 0.06 0.00 0.07 0.00 0.00 0.01 0.01 0.01 0.05 0.15 0.04 0.62 0.30 0.76 0.65
N1 0.01 0.01 0.04 0.07 0.01 0.03 0.01 0.03 0.00 0.00 0.01 0.01 0.01 0.02 0.09 0.01 0.45 0.22 0.48 0.46
N3 0.02 0.01 0.08 0.12 0.00 0.05 0.00 0.05 0.01 0.01 0.00 0.01 0.01 0.06 0.15 0.02 0.52 0.27 0.77 0.59
N4 0.02 0.01 0.08 0.14 0.00 0.06 0.01 0.08 0.01 0.01 0.01 0.00 0.02 0.05 0.19 0.02 0.65 0.37 1.13 0.80
O2 0.02 0.01 0.14 0.14 0.01 0.04 0.01 0.04 0.01 0.01 0.01 0.02 0.00 0.11 0.17 0.04 0.31 0.17 0.36 0.33
O2' 0.01 0.06 0.00 0.02 0.04 0.05 0.04 0.05 0.05 0.02 0.06 0.05 0.11 0.00 0.03 0.03 0.03 0.12 0.21 0.04
O3' 0.03 0.13 0.03 0.01 0.16 0.02 0.17 0.03 0.15 0.09 0.15 0.19 0.17 0.03 0.00 0.02 0.18 0.15 0.20 0.15
O4' 0.00 0.02 0.01 0.02 0.02 0.00 0.03 0.01 0.04 0.01 0.02 0.02 0.04 0.03 0.02 0.00 0.23 0.13 0.08 0.18
O5' 0.26 0.43 0.14 0.08 0.62 0.01 0.68 0.01 0.62 0.45 0.52 0.65 0.31 0.03 0.18 0.23 0.00 0.03 0.01 0.01
OP1 0.14 0.22 0.15 0.16 0.33 0.08 0.36 0.10 0.30 0.22 0.27 0.37 0.17 0.12 0.15 0.13 0.03 0.00 0.01 0.00
OP2 0.12 0.54 0.07 0.07 0.98 0.24 1.02 0.20 0.76 0.48 0.77 1.13 0.36 0.21 0.20 0.08 0.01 0.01 0.00 0.01
P 0.23 0.46 0.13 0.09 0.73 0.03 0.78 0.01 0.65 0.46 0.59 0.80 0.33 0.04 0.15 0.18 0.01 0.00 0.01 0.00