ClaRNA

Doublet Group distance statistics: 48684

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Distances from reference structure (by RMSD)

1, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.001, 0.009, 0.017, 0.019 max_d=0.019 avg_d=0.009 std_dev=0.008
N3 A 0, 0.003, 0.011, 0.020, 0.020 max_d=0.020 avg_d=0.011 std_dev=0.008
C2 A 0, 0.003, 0.021, 0.040, 0.045 max_d=0.045 avg_d=0.021 std_dev=0.019
N1 A 0, 0.000, 0.020, 0.041, 0.049 max_d=0.049 avg_d=0.020 std_dev=0.021
C6 A 0, -0.003, 0.019, 0.040, 0.049 max_d=0.049 avg_d=0.019 std_dev=0.022
C1' A 0, 0.001, 0.025, 0.049, 0.058 max_d=0.058 avg_d=0.025 std_dev=0.024
C4 A 0, -0.002, 0.023, 0.049, 0.059 max_d=0.059 avg_d=0.023 std_dev=0.026
O2 A 0, 0.003, 0.041, 0.079, 0.091 max_d=0.091 avg_d=0.041 std_dev=0.038
O4 A 0, 0.022, 0.146, 0.270, 0.303 max_d=0.303 avg_d=0.146 std_dev=0.124
OP2 B 0, 0.084, 0.414, 0.745, 0.809 max_d=0.809 avg_d=0.414 std_dev=0.331
O4' A 0, 0.136, 0.503, 0.871, 0.868 max_d=0.868 avg_d=0.503 std_dev=0.368
C2' A 0, 0.166, 0.568, 0.970, 0.855 max_d=0.855 avg_d=0.568 std_dev=0.402
C4' A 0, 0.178, 0.611, 1.044, 0.958 max_d=0.958 avg_d=0.611 std_dev=0.433
P B 0, 0.182, 0.629, 1.075, 0.993 max_d=0.993 avg_d=0.629 std_dev=0.446
C3' A 0, 0.202, 0.702, 1.202, 1.125 max_d=1.125 avg_d=0.702 std_dev=0.500
O5' A 0, 0.174, 0.751, 1.328, 1.404 max_d=1.404 avg_d=0.751 std_dev=0.577
O5' B 0, 0.239, 0.818, 1.397, 1.242 max_d=1.242 avg_d=0.818 std_dev=0.579
OP1 A 0, 0.212, 0.886, 1.560, 1.634 max_d=1.634 avg_d=0.886 std_dev=0.674
C5' A 0, 0.193, 0.918, 1.642, 1.771 max_d=1.771 avg_d=0.918 std_dev=0.724
O2' A 0, 0.264, 1.001, 1.738, 1.755 max_d=1.755 avg_d=1.001 std_dev=0.737
OP1 B 0, 0.290, 1.120, 1.950, 1.985 max_d=1.985 avg_d=1.120 std_dev=0.830
O3' A 0, 0.333, 1.190, 2.047, 1.985 max_d=1.985 avg_d=1.190 std_dev=0.857
O3' B 0, 0.197, 1.061, 1.925, 2.116 max_d=2.116 avg_d=1.061 std_dev=0.864
P A 0, 0.115, 1.000, 1.885, 2.151 max_d=2.151 avg_d=1.000 std_dev=0.885
C5' B 0, 0.144, 1.293, 2.443, 2.793 max_d=2.793 avg_d=1.293 std_dev=1.150
C3' B 0, 0.055, 1.449, 2.844, 3.332 max_d=3.332 avg_d=1.449 std_dev=1.395
C4' B 0, 0.070, 1.542, 3.015, 3.525 max_d=3.525 avg_d=1.542 std_dev=1.472
OP2 A 0, -0.058, 1.491, 3.039, 3.626 max_d=3.626 avg_d=1.491 std_dev=1.549
C2' B 0, -0.041, 1.935, 3.912, 4.650 max_d=4.650 avg_d=1.935 std_dev=1.977
O2' B 0, 0.067, 2.050, 4.033, 4.733 max_d=4.733 avg_d=2.050 std_dev=1.983
O4' B 0, -0.083, 2.011, 4.106, 4.901 max_d=4.901 avg_d=2.011 std_dev=2.095
C1' B 0, -0.154, 2.228, 4.611, 5.531 max_d=5.531 avg_d=2.228 std_dev=2.382
C6 B 0, -0.419, 2.140, 4.700, 5.738 max_d=5.738 avg_d=2.140 std_dev=2.560
N1 B 0, -0.354, 2.379, 5.113, 6.207 max_d=6.207 avg_d=2.379 std_dev=2.733
C5 B 0, -0.584, 2.294, 5.171, 6.351 max_d=6.351 avg_d=2.294 std_dev=2.877
C2 B 0, -0.455, 2.836, 6.126, 7.449 max_d=7.449 avg_d=2.836 std_dev=3.291
C4 B 0, -0.619, 2.823, 6.265, 7.669 max_d=7.669 avg_d=2.823 std_dev=3.442
O2 B 0, -0.393, 3.064, 6.522, 7.896 max_d=7.896 avg_d=3.064 std_dev=3.457
N3 B 0, -0.574, 3.075, 6.723, 8.201 max_d=8.201 avg_d=3.075 std_dev=3.649
N4 B 0, -0.652, 3.153, 6.957, 8.505 max_d=8.505 avg_d=3.153 std_dev=3.804

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 0.01 0.00 0.03 0.02 0.01 0.02 0.07 0.02 0.01 0.01 0.02 0.02 0.33 0.04 0.00 0.24 0.06 0.34 0.26
C2 0.01 0.00 0.16 0.03 0.01 0.14 0.01 0.27 0.00 0.01 0.00 0.01 0.18 0.32 0.02 0.23 0.38 0.11 0.52 0.48
C2' 0.00 0.16 0.00 0.01 0.01 0.02 0.12 0.22 0.16 0.01 0.11 0.26 0.00 0.05 0.03 0.03 0.69 0.50 0.94 0.71
C3' 0.03 0.03 0.01 0.00 0.14 0.00 0.20 0.02 0.19 0.08 0.07 0.06 0.03 0.01 0.14 0.02 0.43 0.25 0.56 0.37
C4 0.02 0.01 0.01 0.14 0.00 0.03 0.00 0.09 0.02 0.02 0.00 0.01 0.26 0.17 0.01 0.02 0.44 0.05 0.84 0.58
C4' 0.01 0.14 0.02 0.00 0.03 0.00 0.15 0.00 0.18 0.02 0.10 0.29 0.19 0.01 0.02 0.01 0.01 0.04 0.03 0.01
C5 0.02 0.01 0.12 0.20 0.00 0.15 0.00 0.09 0.00 0.01 0.00 0.00 0.50 0.08 0.02 0.15 0.42 0.16 0.92 0.54
C5' 0.07 0.27 0.22 0.02 0.09 0.00 0.09 0.00 0.12 0.08 0.23 0.43 0.04 0.20 0.09 0.01 0.01 0.06 0.01 0.00
C6 0.02 0.00 0.16 0.19 0.02 0.18 0.00 0.12 0.00 0.00 0.01 0.01 0.52 0.09 0.03 0.20 0.38 0.15 0.81 0.46
N1 0.01 0.01 0.01 0.08 0.02 0.02 0.01 0.08 0.00 0.00 0.01 0.01 0.13 0.23 0.03 0.01 0.35 0.03 0.57 0.42
N3 0.01 0.00 0.11 0.07 0.00 0.10 0.00 0.23 0.01 0.01 0.00 0.00 0.04 0.27 0.02 0.16 0.42 0.06 0.66 0.56
O2 0.02 0.01 0.26 0.06 0.01 0.29 0.00 0.43 0.01 0.01 0.00 0.00 0.50 0.42 0.02 0.41 0.36 0.22 0.36 0.46
O2' 0.02 0.18 0.00 0.03 0.26 0.19 0.50 0.04 0.52 0.13 0.04 0.50 0.00 0.08 0.28 0.11 0.46 0.43 0.81 0.53
O3' 0.33 0.32 0.05 0.01 0.17 0.01 0.08 0.20 0.09 0.23 0.27 0.42 0.08 0.00 0.17 0.20 0.23 0.21 0.34 0.20
O4 0.04 0.02 0.03 0.14 0.01 0.02 0.02 0.09 0.03 0.03 0.02 0.02 0.28 0.17 0.00 0.03 0.45 0.07 0.88 0.61
O4' 0.00 0.23 0.03 0.02 0.02 0.01 0.15 0.01 0.20 0.01 0.16 0.41 0.11 0.20 0.03 0.00 0.06 0.23 0.08 0.05
O5' 0.24 0.38 0.69 0.43 0.44 0.01 0.42 0.01 0.38 0.35 0.42 0.36 0.46 0.23 0.45 0.06 0.00 0.01 0.01 0.00
OP1 0.06 0.11 0.50 0.25 0.05 0.04 0.16 0.06 0.15 0.03 0.06 0.22 0.43 0.21 0.07 0.23 0.01 0.00 0.01 0.01
OP2 0.34 0.52 0.94 0.56 0.84 0.03 0.92 0.01 0.81 0.57 0.66 0.36 0.81 0.34 0.88 0.08 0.01 0.01 0.00 0.00
P 0.26 0.48 0.71 0.37 0.58 0.01 0.54 0.00 0.46 0.42 0.56 0.46 0.53 0.20 0.61 0.05 0.00 0.01 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 1.52 1.74 1.06 0.71 1.96 0.98 1.92 0.77 1.75 1.69 1.85 2.05 1.66 1.02 0.24 1.55 0.13 0.52 0.09 0.06
C2 1.68 2.05 1.23 0.86 2.25 1.07 2.11 0.85 1.92 1.91 2.20 2.31 1.97 1.12 0.32 1.65 0.14 0.62 0.15 0.11
C2' 1.33 1.31 0.83 0.55 1.47 0.95 1.60 0.82 1.53 1.40 1.33 1.46 1.21 0.84 0.13 1.48 0.22 0.19 0.26 0.20
C3' 0.96 0.97 0.55 0.30 1.08 0.61 1.14 0.48 1.09 1.01 1.00 1.10 0.91 0.57 0.16 1.06 0.33 0.57 0.28 0.31
C4 1.51 1.64 1.09 0.80 1.57 1.03 1.55 0.85 1.60 1.63 1.62 1.44 1.59 0.96 0.26 1.56 0.14 0.63 0.21 0.12
C4' 1.10 1.27 0.76 0.46 1.38 0.66 1.31 0.48 1.21 1.20 1.34 1.46 1.24 0.74 0.10 1.13 0.28 0.72 0.27 0.38
C5 1.27 1.24 0.84 0.58 1.15 0.90 1.25 0.75 1.34 1.31 1.17 1.01 1.20 0.79 0.14 1.41 0.10 0.55 0.15 0.09
C5' 0.91 1.01 0.65 0.42 1.03 0.56 0.97 0.40 0.93 0.96 1.04 1.06 1.02 0.63 0.12 0.95 0.28 0.70 0.30 0.41
C6 1.30 1.32 0.86 0.57 1.34 0.88 1.44 0.71 1.44 1.37 1.30 1.25 1.26 0.83 0.15 1.41 0.09 0.52 0.08 0.08
N1 1.51 1.71 1.05 0.71 1.88 0.98 1.87 0.78 1.73 1.67 1.79 1.89 1.63 0.99 0.23 1.54 0.12 0.57 0.10 0.09
N3 1.69 2.04 1.27 0.91 2.11 1.10 1.97 0.88 1.87 1.91 2.13 2.07 1.97 1.12 0.35 1.66 0.15 0.64 0.19 0.12
O2 1.77 2.26 1.34 0.93 2.53 1.11 2.26 0.87 2.02 2.04 2.48 2.70 2.19 1.22 0.38 1.70 0.15 0.63 0.16 0.11
O2' 1.91 1.86 1.30 0.97 2.07 1.46 2.26 1.30 2.17 1.99 1.88 2.06 1.73 1.33 0.49 2.07 0.74 0.48 0.82 0.79
O3' 1.22 1.25 0.80 0.50 1.37 0.81 1.42 0.62 1.35 1.28 1.28 1.41 1.19 0.85 0.15 1.30 0.16 0.41 0.14 0.15
O4 1.51 1.59 1.15 0.89 1.38 1.07 1.32 0.88 1.43 1.57 1.51 1.23 1.59 0.97 0.31 1.55 0.16 0.64 0.24 0.14
O4' 1.27 1.54 0.92 0.59 1.68 0.75 1.55 0.53 1.41 1.42 1.65 1.79 1.51 0.87 0.19 1.25 0.25 0.83 0.24 0.40
O5' 1.47 1.51 1.16 0.93 1.50 1.13 1.50 0.98 1.49 1.50 1.51 1.48 1.50 1.13 0.60 1.53 0.42 0.05 0.45 0.30
OP1 0.51 0.55 0.32 0.15 0.50 0.25 0.45 0.12 0.46 0.51 0.55 0.51 0.57 0.29 0.08 0.55 0.39 0.72 0.36 0.50
OP2 1.93 1.86 1.66 1.49 1.75 1.69 1.79 1.60 1.86 1.90 1.80 1.66 1.88 1.62 1.19 2.04 1.18 0.82 1.29 1.12
P 1.43 1.41 1.20 1.03 1.33 1.18 1.32 1.06 1.36 1.41 1.37 1.27 1.43 1.16 0.76 1.50 0.54 0.17 0.58 0.43

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.01 0.00 0.02 0.01 0.01 0.00 0.02 0.00 0.00 0.01 0.01 0.01 0.00 0.01 0.00 0.19 0.14 0.25 0.09
C2 0.01 0.00 0.06 0.01 0.00 0.02 0.00 0.10 0.01 0.01 0.00 0.01 0.00 0.12 0.01 0.02 0.56 0.44 0.24 0.44
C2' 0.00 0.06 0.00 0.01 0.05 0.00 0.12 0.01 0.13 0.04 0.02 0.06 0.17 0.00 0.01 0.01 0.30 0.28 0.11 0.20
C3' 0.02 0.01 0.01 0.00 0.19 0.00 0.29 0.01 0.29 0.12 0.07 0.20 0.14 0.03 0.01 0.01 0.38 0.36 0.07 0.27
C4 0.01 0.00 0.05 0.19 0.00 0.14 0.00 0.28 0.00 0.00 0.00 0.00 0.01 0.04 0.22 0.02 0.88 0.77 0.64 0.78
C4' 0.01 0.02 0.00 0.00 0.14 0.00 0.21 0.00 0.21 0.08 0.06 0.15 0.07 0.04 0.02 0.00 0.01 0.09 0.38 0.05
C5 0.00 0.00 0.12 0.29 0.00 0.21 0.00 0.37 0.00 0.00 0.00 0.01 0.01 0.03 0.34 0.02 0.94 0.80 0.64 0.82
C5' 0.02 0.10 0.01 0.01 0.28 0.00 0.37 0.00 0.34 0.16 0.17 0.31 0.04 0.03 0.03 0.00 0.00 0.12 0.41 0.00
C6 0.00 0.01 0.13 0.29 0.00 0.21 0.00 0.34 0.00 0.00 0.00 0.01 0.01 0.05 0.31 0.02 0.79 0.62 0.33 0.61
N1 0.00 0.01 0.04 0.12 0.00 0.08 0.00 0.16 0.00 0.00 0.00 0.01 0.01 0.02 0.12 0.01 0.54 0.41 0.15 0.38
N3 0.01 0.00 0.02 0.07 0.00 0.06 0.00 0.17 0.00 0.00 0.00 0.01 0.00 0.10 0.07 0.01 0.72 0.61 0.46 0.62
N4 0.01 0.01 0.06 0.20 0.00 0.15 0.01 0.31 0.01 0.01 0.01 0.00 0.01 0.04 0.24 0.02 0.95 0.87 0.80 0.89
O2 0.01 0.00 0.17 0.14 0.01 0.07 0.01 0.04 0.01 0.01 0.00 0.01 0.00 0.21 0.19 0.02 0.40 0.31 0.14 0.30
O2' 0.00 0.12 0.00 0.03 0.04 0.04 0.03 0.03 0.05 0.02 0.10 0.04 0.21 0.00 0.01 0.07 0.10 0.17 0.20 0.07
O3' 0.01 0.01 0.01 0.01 0.22 0.02 0.34 0.03 0.31 0.12 0.07 0.24 0.19 0.01 0.00 0.01 0.28 0.38 0.05 0.26
O4' 0.00 0.02 0.01 0.01 0.02 0.00 0.02 0.00 0.02 0.01 0.01 0.02 0.02 0.07 0.01 0.00 0.03 0.02 0.51 0.15
O5' 0.19 0.56 0.30 0.38 0.88 0.01 0.94 0.00 0.79 0.54 0.72 0.95 0.40 0.10 0.28 0.03 0.00 0.02 0.02 0.00
OP1 0.14 0.44 0.28 0.36 0.77 0.09 0.80 0.12 0.62 0.41 0.61 0.87 0.31 0.17 0.38 0.02 0.02 0.00 0.02 0.00
OP2 0.25 0.24 0.11 0.07 0.64 0.38 0.64 0.41 0.33 0.15 0.46 0.80 0.14 0.20 0.05 0.51 0.02 0.02 0.00 0.01
P 0.09 0.44 0.20 0.27 0.78 0.05 0.82 0.00 0.61 0.38 0.62 0.89 0.30 0.07 0.26 0.15 0.00 0.00 0.01 0.00