ClaRNA

Doublet Group distance statistics: 53990

back

Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
N3 A 0, 0.002, 0.009, 0.015, 0.017 max_d=0.017 avg_d=0.009 std_dev=0.007
C5 A 0, -0.001, 0.007, 0.016, 0.019 max_d=0.019 avg_d=0.007 std_dev=0.008
C6 A 0, 0.002, 0.011, 0.020, 0.022 max_d=0.022 avg_d=0.011 std_dev=0.009
C2 A 0, 0.002, 0.012, 0.021, 0.023 max_d=0.023 avg_d=0.012 std_dev=0.009
C4 A 0, 0.003, 0.013, 0.023, 0.024 max_d=0.024 avg_d=0.013 std_dev=0.010
N1 A 0, 0.000, 0.011, 0.021, 0.025 max_d=0.025 avg_d=0.011 std_dev=0.010
C1' A 0, 0.001, 0.014, 0.028, 0.032 max_d=0.032 avg_d=0.014 std_dev=0.013
O2 A 0, 0.001, 0.028, 0.055, 0.064 max_d=0.064 avg_d=0.028 std_dev=0.027
N4 A 0, 0.001, 0.040, 0.079, 0.093 max_d=0.093 avg_d=0.040 std_dev=0.039
O2' A 0, -0.067, 0.186, 0.438, 0.543 max_d=0.543 avg_d=0.186 std_dev=0.252
C2' A 0, -0.084, 0.219, 0.521, 0.646 max_d=0.646 avg_d=0.219 std_dev=0.302
OP1 B 0, -0.087, 0.230, 0.548, 0.680 max_d=0.680 avg_d=0.230 std_dev=0.318
O4' A 0, -0.089, 0.236, 0.561, 0.696 max_d=0.696 avg_d=0.236 std_dev=0.325
OP2 B 0, -0.100, 0.272, 0.645, 0.799 max_d=0.799 avg_d=0.272 std_dev=0.372
P B 0, -0.140, 0.347, 0.835, 1.036 max_d=1.036 avg_d=0.347 std_dev=0.487
C4' A 0, -0.143, 0.368, 0.880, 1.091 max_d=1.091 avg_d=0.368 std_dev=0.511
C3' A 0, -0.150, 0.373, 0.895, 1.112 max_d=1.112 avg_d=0.373 std_dev=0.523
O3' A 0, -0.219, 0.538, 1.294, 1.608 max_d=1.608 avg_d=0.538 std_dev=0.757
O5' B 0, -0.231, 0.577, 1.385, 1.719 max_d=1.719 avg_d=0.577 std_dev=0.808
C5' B 0, -0.229, 0.587, 1.402, 1.740 max_d=1.740 avg_d=0.587 std_dev=0.815
C5' A 0, -0.234, 0.608, 1.450, 1.798 max_d=1.798 avg_d=0.608 std_dev=0.842
O3' B 0, -0.261, 0.722, 1.705, 2.112 max_d=2.112 avg_d=0.722 std_dev=0.983
OP1 A 0, -0.445, 1.137, 2.718, 3.373 max_d=3.373 avg_d=1.137 std_dev=1.582
C3' B 0, -0.463, 1.173, 2.808, 3.486 max_d=3.486 avg_d=1.173 std_dev=1.636
C4' B 0, -0.485, 1.206, 2.897, 3.597 max_d=3.597 avg_d=1.206 std_dev=1.691
O5' A 0, -0.477, 1.222, 2.921, 3.624 max_d=3.624 avg_d=1.222 std_dev=1.699
P A 0, -0.657, 1.657, 3.972, 4.931 max_d=4.931 avg_d=1.657 std_dev=2.315
O4' B 0, -0.773, 1.908, 4.588, 5.698 max_d=5.698 avg_d=1.908 std_dev=2.681
C2' B 0, -0.873, 2.173, 5.219, 6.481 max_d=6.481 avg_d=2.173 std_dev=3.046
C6 B 0, -0.925, 2.351, 5.627, 6.983 max_d=6.983 avg_d=2.351 std_dev=3.276
OP2 A 0, -0.937, 2.350, 5.637, 6.998 max_d=6.998 avg_d=2.350 std_dev=3.287
C1' B 0, -1.008, 2.494, 5.995, 7.445 max_d=7.445 avg_d=2.494 std_dev=3.502
O2' B 0, -1.000, 2.534, 6.069, 7.533 max_d=7.533 avg_d=2.534 std_dev=3.535
N1 B 0, -1.127, 2.796, 6.719, 8.344 max_d=8.344 avg_d=2.796 std_dev=3.923
C5 B 0, -1.128, 2.863, 6.854, 8.507 max_d=8.507 avg_d=2.863 std_dev=3.991
C2 B 0, -1.498, 3.692, 8.883, 11.033 max_d=11.033 avg_d=3.692 std_dev=5.191
C4 B 0, -1.509, 3.765, 9.039, 11.223 max_d=11.223 avg_d=3.765 std_dev=5.274
N3 B 0, -1.669, 4.121, 9.911, 12.309 max_d=12.309 avg_d=4.121 std_dev=5.790
O2 B 0, -1.689, 4.140, 9.968, 12.383 max_d=12.383 avg_d=4.140 std_dev=5.829
N4 B 0, -1.743, 4.343, 10.430, 12.951 max_d=12.951 avg_d=4.343 std_dev=6.086

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 0.00 0.01 0.01 0.01 0.00 0.02 0.01 0.04 0.00 0.00 0.00 0.19 0.40 1.01 0.36
C2 0.02 0.00 0.05 0.03 0.01 0.07 0.01 0.08 0.00 0.00 0.00 0.01 0.00 0.04 0.04 0.12 0.24 0.64 1.42 0.50
C2' 0.00 0.05 0.00 0.00 0.01 0.00 0.05 0.00 0.07 0.00 0.04 0.01 0.08 0.00 0.01 0.00 0.24 0.32 0.49 0.12
C3' 0.01 0.03 0.00 0.00 0.06 0.00 0.07 0.00 0.05 0.03 0.04 0.07 0.01 0.00 0.00 0.00 0.31 0.22 0.01 0.10
C4 0.01 0.01 0.01 0.06 0.00 0.04 0.00 0.08 0.01 0.01 0.00 0.00 0.01 0.02 0.08 0.01 0.70 0.34 0.64 0.11
C4' 0.00 0.07 0.00 0.00 0.04 0.00 0.12 0.00 0.13 0.02 0.04 0.05 0.16 0.01 0.01 0.00 0.00 0.23 0.38 0.21
C5 0.01 0.01 0.05 0.07 0.00 0.12 0.00 0.22 0.00 0.01 0.00 0.01 0.01 0.06 0.06 0.08 0.97 0.07 0.07 0.51
C5' 0.01 0.08 0.00 0.00 0.08 0.00 0.22 0.00 0.22 0.04 0.04 0.10 0.21 0.01 0.01 0.00 0.00 0.11 0.09 0.01
C6 0.01 0.00 0.07 0.05 0.01 0.13 0.00 0.22 0.00 0.00 0.01 0.01 0.00 0.07 0.04 0.11 0.90 0.10 0.18 0.38
N1 0.00 0.00 0.00 0.03 0.01 0.02 0.01 0.04 0.00 0.00 0.00 0.01 0.01 0.01 0.03 0.00 0.45 0.41 0.92 0.18
N3 0.02 0.00 0.04 0.04 0.00 0.04 0.00 0.04 0.01 0.00 0.00 0.01 0.01 0.02 0.07 0.09 0.40 0.59 1.22 0.32
N4 0.01 0.01 0.01 0.07 0.00 0.05 0.01 0.10 0.01 0.01 0.01 0.00 0.01 0.02 0.10 0.01 0.76 0.29 0.49 0.22
O2 0.04 0.00 0.08 0.01 0.01 0.16 0.01 0.21 0.00 0.01 0.01 0.01 0.00 0.07 0.02 0.21 0.08 0.82 1.88 0.85
O2' 0.00 0.04 0.00 0.00 0.02 0.01 0.06 0.01 0.07 0.01 0.02 0.02 0.07 0.00 0.02 0.03 0.05 0.28 0.60 0.24
O3' 0.00 0.04 0.01 0.00 0.08 0.01 0.06 0.01 0.04 0.03 0.07 0.10 0.02 0.02 0.00 0.01 0.24 0.11 0.40 0.24
O4' 0.00 0.12 0.00 0.00 0.01 0.00 0.08 0.00 0.11 0.00 0.09 0.01 0.21 0.03 0.01 0.00 0.02 0.39 1.11 0.51
O5' 0.19 0.24 0.24 0.31 0.70 0.00 0.97 0.00 0.90 0.45 0.40 0.76 0.08 0.05 0.24 0.02 0.00 0.01 0.00 0.00
OP1 0.40 0.64 0.32 0.22 0.34 0.23 0.07 0.11 0.10 0.41 0.59 0.29 0.82 0.28 0.11 0.39 0.01 0.00 0.00 0.00
OP2 1.01 1.42 0.49 0.01 0.64 0.38 0.07 0.09 0.18 0.92 1.22 0.49 1.88 0.60 0.40 1.11 0.00 0.00 0.00 0.00
P 0.36 0.50 0.12 0.10 0.11 0.21 0.51 0.01 0.38 0.18 0.32 0.22 0.85 0.24 0.24 0.51 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' 1.74 2.17 1.33 0.82 1.86 0.89 1.49 0.33 1.50 1.86 2.16 1.78 2.35 1.50 0.53 1.52 0.49 0.05 0.12 0.14
C2 1.87 2.84 1.51 0.91 2.88 0.73 2.30 0.14 2.00 2.29 3.10 3.03 2.94 1.52 0.55 1.39 0.34 0.09 0.03 0.05
C2' 1.59 1.84 1.18 0.74 1.55 0.90 1.30 0.39 1.37 1.66 1.78 1.44 1.97 1.34 0.45 1.50 0.56 0.13 0.29 0.27
C3' 0.61 0.70 0.33 0.07 0.45 0.28 0.27 0.01 0.35 0.58 0.63 0.37 0.83 0.53 0.05 0.62 0.17 0.11 0.01 0.01
C4 1.30 2.40 1.12 0.70 2.89 0.32 2.35 0.08 1.82 1.88 2.87 3.29 2.36 0.96 0.40 0.79 0.14 0.15 0.07 0.05
C4' 0.64 0.63 0.33 0.05 0.17 0.32 0.06 0.00 0.13 0.49 0.47 0.03 0.85 0.63 0.04 0.66 0.15 0.37 0.18 0.14
C5 0.98 1.86 0.85 0.56 2.31 0.22 1.95 0.08 1.49 1.48 2.23 2.60 1.78 0.71 0.33 0.57 0.12 0.16 0.07 0.05
C5' 0.01 0.12 0.21 0.35 0.59 0.10 0.76 0.26 0.54 0.21 0.30 0.74 0.09 0.08 0.35 0.07 0.12 0.64 0.44 0.36
C6 1.14 1.82 0.93 0.61 2.02 0.41 1.71 0.06 1.43 1.51 2.04 2.14 1.81 0.89 0.38 0.82 0.24 0.13 0.01 0.01
N1 1.62 2.33 1.28 0.79 2.31 0.68 1.89 0.18 1.70 1.94 2.49 2.37 2.40 1.31 0.49 1.27 0.36 0.09 0.06 0.07
N3 1.70 2.84 1.41 0.86 3.13 0.55 2.49 0.02 2.04 2.24 3.25 3.45 2.88 1.33 0.50 1.15 0.24 0.12 0.03 0.00
N4 1.14 2.35 1.02 0.64 3.01 0.17 2.42 0.17 1.79 1.80 2.92 3.56 2.27 0.80 0.34 0.58 0.06 0.19 0.13 0.10
O2 2.18 3.14 1.75 1.04 2.98 0.91 2.34 0.23 2.12 2.54 3.34 3.09 3.35 1.83 0.63 1.67 0.43 0.04 0.07 0.10
O2' 1.99 2.01 1.51 0.97 1.46 1.30 1.20 0.67 1.41 1.85 1.82 1.27 2.25 1.81 0.67 1.98 0.79 0.22 0.37 0.38
O3' 0.11 0.01 0.15 0.30 0.29 0.04 0.40 0.12 0.27 0.04 0.12 0.37 0.14 0.14 0.33 0.25 0.01 0.00 0.01 0.00
O4' 1.23 1.46 0.87 0.46 1.04 0.62 0.71 0.16 0.81 1.20 1.37 0.93 1.69 1.12 0.26 1.11 0.32 0.27 0.07 0.03
O5' 0.34 0.36 0.51 0.67 0.79 0.51 1.02 0.72 0.86 0.51 0.50 0.90 0.12 0.22 0.68 0.34 0.45 0.95 1.07 0.76
OP1 0.20 0.23 0.31 0.35 0.59 0.25 0.75 0.33 0.59 0.33 0.36 0.71 0.06 0.12 0.34 0.18 0.15 0.79 0.50 0.39
OP2 0.74 0.73 0.86 0.98 1.19 0.87 1.46 1.01 1.29 0.91 0.86 1.27 0.47 0.62 0.97 0.76 0.82 1.79 1.41 1.21
P 0.56 0.55 0.68 0.79 0.95 0.69 1.17 0.82 1.02 0.70 0.67 1.03 0.33 0.45 0.78 0.57 0.58 1.26 1.16 0.89

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.01 0.00 0.03 0.01 0.00 0.00 0.01 0.01 0.00 0.01 0.01 0.03 0.01 0.00 0.00 0.11 0.85 0.29 0.34
C2 0.01 0.00 0.02 0.08 0.00 0.04 0.01 0.08 0.00 0.00 0.00 0.01 0.00 0.10 0.06 0.02 0.24 1.38 0.19 0.52
C2' 0.00 0.02 0.00 0.01 0.04 0.02 0.06 0.01 0.06 0.02 0.00 0.04 0.05 0.00 0.00 0.01 0.28 0.78 0.23 0.39
C3' 0.03 0.08 0.01 0.00 0.18 0.00 0.22 0.00 0.21 0.12 0.12 0.19 0.02 0.01 0.00 0.01 0.37 0.52 0.12 0.34
C4 0.01 0.00 0.04 0.18 0.00 0.09 0.00 0.14 0.00 0.01 0.00 0.00 0.00 0.03 0.21 0.00 0.37 1.77 0.11 0.69
C4' 0.00 0.04 0.02 0.00 0.09 0.00 0.11 0.00 0.10 0.06 0.06 0.10 0.02 0.09 0.01 0.00 0.01 0.16 0.19 0.10
C5 0.00 0.01 0.06 0.22 0.00 0.11 0.00 0.15 0.00 0.00 0.00 0.00 0.00 0.02 0.27 0.02 0.40 1.79 0.12 0.74
C5' 0.01 0.08 0.01 0.00 0.14 0.00 0.15 0.00 0.14 0.08 0.11 0.15 0.05 0.08 0.02 0.00 0.00 0.15 0.08 0.01
C6 0.01 0.00 0.06 0.21 0.00 0.10 0.00 0.14 0.00 0.00 0.00 0.01 0.00 0.04 0.24 0.03 0.34 1.51 0.19 0.66
N1 0.00 0.00 0.02 0.12 0.01 0.06 0.00 0.08 0.00 0.00 0.01 0.01 0.01 0.03 0.11 0.00 0.24 1.27 0.22 0.51
N3 0.01 0.00 0.00 0.12 0.00 0.06 0.00 0.11 0.00 0.01 0.00 0.01 0.01 0.09 0.12 0.02 0.30 1.61 0.15 0.60
N4 0.01 0.01 0.04 0.19 0.00 0.10 0.00 0.15 0.01 0.01 0.01 0.00 0.00 0.03 0.24 0.01 0.39 1.87 0.06 0.72
O2 0.03 0.00 0.05 0.02 0.00 0.02 0.00 0.05 0.00 0.01 0.01 0.00 0.00 0.16 0.04 0.04 0.16 1.21 0.20 0.42
O2' 0.01 0.10 0.00 0.01 0.03 0.09 0.02 0.08 0.04 0.03 0.09 0.03 0.16 0.00 0.05 0.08 0.02 0.44 0.17 0.15
O3' 0.00 0.06 0.00 0.00 0.21 0.01 0.27 0.02 0.24 0.11 0.12 0.24 0.04 0.05 0.00 0.01 0.29 0.19 0.04 0.20
O4' 0.00 0.02 0.01 0.01 0.00 0.00 0.02 0.00 0.03 0.00 0.02 0.01 0.04 0.08 0.01 0.00 0.09 0.52 0.32 0.19
O5' 0.11 0.24 0.28 0.37 0.37 0.01 0.40 0.00 0.34 0.24 0.30 0.39 0.16 0.02 0.29 0.09 0.00 0.01 0.01 0.00
OP1 0.85 1.38 0.78 0.52 1.77 0.16 1.79 0.15 1.51 1.27 1.61 1.87 1.21 0.44 0.19 0.52 0.01 0.00 0.01 0.00
OP2 0.29 0.19 0.23 0.12 0.11 0.19 0.12 0.08 0.19 0.22 0.15 0.06 0.20 0.17 0.04 0.32 0.01 0.01 0.00 0.00
P 0.34 0.52 0.39 0.34 0.69 0.10 0.74 0.01 0.66 0.51 0.60 0.72 0.42 0.15 0.20 0.19 0.00 0.00 0.00 0.00