ClaRNA

Doublet Group distance statistics: 49548

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Distances from reference structure (by RMSD)

1, 0, 0, 0, 0, 1, 0, 1, 1, 3, 2, 2, 7, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.002, 0.006, 0.010, 0.013 max_d=0.013 avg_d=0.006 std_dev=0.004
C4 A 0, 0.008, 0.013, 0.018, 0.021 max_d=0.021 avg_d=0.013 std_dev=0.005
C6 A 0, 0.006, 0.012, 0.018, 0.025 max_d=0.025 avg_d=0.012 std_dev=0.006
C2 A 0, 0.008, 0.014, 0.020, 0.028 max_d=0.028 avg_d=0.014 std_dev=0.006
N3 A 0, 0.004, 0.011, 0.018, 0.033 max_d=0.033 avg_d=0.011 std_dev=0.007
N1 A 0, 0.006, 0.013, 0.020, 0.027 max_d=0.027 avg_d=0.013 std_dev=0.007
C1' A 0, 0.008, 0.018, 0.028, 0.047 max_d=0.047 avg_d=0.018 std_dev=0.010
O2 A 0, 0.017, 0.032, 0.048, 0.067 max_d=0.067 avg_d=0.032 std_dev=0.016
N4 A 0, 0.021, 0.039, 0.056, 0.074 max_d=0.074 avg_d=0.039 std_dev=0.018
C5 B 0, 0.132, 0.340, 0.548, 0.780 max_d=0.780 avg_d=0.340 std_dev=0.208
C4 B 0, 0.474, 0.687, 0.899, 0.897 max_d=0.897 avg_d=0.687 std_dev=0.213
C6 B 0, 0.405, 0.649, 0.893, 1.049 max_d=1.049 avg_d=0.649 std_dev=0.244
C8 B 0, 0.345, 0.607, 0.870, 1.175 max_d=1.175 avg_d=0.607 std_dev=0.262
N7 B 0, 0.319, 0.582, 0.844, 1.098 max_d=1.098 avg_d=0.582 std_dev=0.262
N9 B 0, 0.491, 0.754, 1.016, 1.121 max_d=1.121 avg_d=0.754 std_dev=0.263
O6 B 0, 0.722, 1.067, 1.413, 1.598 max_d=1.598 avg_d=1.067 std_dev=0.346
N1 B 0, 0.476, 0.870, 1.263, 1.255 max_d=1.255 avg_d=0.870 std_dev=0.394
N3 B 0, 0.756, 1.185, 1.614, 1.627 max_d=1.627 avg_d=1.185 std_dev=0.429
C2 B 0, 0.737, 1.189, 1.642, 1.716 max_d=1.716 avg_d=1.189 std_dev=0.453
C1' B 0, 0.802, 1.284, 1.767, 1.724 max_d=1.724 avg_d=1.284 std_dev=0.482
N2 B 0, 1.054, 1.705, 2.356, 2.458 max_d=2.458 avg_d=1.705 std_dev=0.651
C2' B 0, 1.144, 1.811, 2.477, 2.593 max_d=2.593 avg_d=1.811 std_dev=0.667
C4' B 0, 1.281, 1.962, 2.644, 2.805 max_d=2.805 avg_d=1.962 std_dev=0.682
O4' A 0, 0.108, 0.902, 1.696, 2.637 max_d=2.637 avg_d=0.902 std_dev=0.794
C2' A 0, 0.122, 0.935, 1.748, 2.694 max_d=2.694 avg_d=0.935 std_dev=0.813
O4' B 0, 0.796, 1.643, 2.490, 2.808 max_d=2.808 avg_d=1.643 std_dev=0.847
O2' A 0, 0.130, 1.136, 2.143, 3.201 max_d=3.201 avg_d=1.136 std_dev=1.007
C4' A 0, 0.211, 1.246, 2.280, 3.516 max_d=3.516 avg_d=1.246 std_dev=1.034
C3' B 0, 1.040, 2.122, 3.205, 3.680 max_d=3.680 avg_d=2.122 std_dev=1.083
C3' A 0, 0.277, 1.464, 2.651, 4.039 max_d=4.039 avg_d=1.464 std_dev=1.187
O2' B 0, 1.478, 2.781, 4.084, 4.443 max_d=4.443 avg_d=2.781 std_dev=1.303
C5' B 0, 1.484, 2.911, 4.338, 4.774 max_d=4.774 avg_d=2.911 std_dev=1.427
O3' A 0, 0.550, 2.036, 3.521, 5.235 max_d=5.235 avg_d=2.036 std_dev=1.486
O3' B 0, 1.436, 2.936, 4.436, 5.668 max_d=5.668 avg_d=2.936 std_dev=1.500
O5' B 0, 1.683, 3.445, 5.207, 5.718 max_d=5.718 avg_d=3.445 std_dev=1.762
C5' A 0, 0.375, 2.286, 4.198, 6.459 max_d=6.459 avg_d=2.286 std_dev=1.911
O5' A 0, -0.007, 2.423, 4.852, 7.766 max_d=7.766 avg_d=2.423 std_dev=2.430
P B 0, 1.398, 4.477, 7.557, 8.760 max_d=8.760 avg_d=4.477 std_dev=3.079
P A 0, 0.163, 3.566, 6.968, 10.732 max_d=10.732 avg_d=3.566 std_dev=3.403
OP1 B 0, 1.154, 4.599, 8.045, 9.365 max_d=9.365 avg_d=4.599 std_dev=3.445
OP2 B 0, 2.128, 5.648, 9.169, 10.499 max_d=10.499 avg_d=5.648 std_dev=3.521
OP2 A 0, 0.486, 4.109, 7.732, 11.558 max_d=11.558 avg_d=4.109 std_dev=3.623
OP1 A 0, 0.155, 3.842, 7.529, 11.686 max_d=11.686 avg_d=3.842 std_dev=3.687

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 0.02 0.01 0.01 0.02 0.01 0.03 0.01 0.01 0.01 0.15 0.20 0.34 0.24
C2 0.02 0.00 0.20 0.28 0.00 0.34 0.01 0.49 0.01 0.00 0.00 0.01 0.00 0.27 0.26 0.31 0.81 1.08 0.52 0.85
C2' 0.00 0.20 0.00 0.00 0.03 0.01 0.16 0.01 0.20 0.02 0.14 0.03 0.38 0.00 0.01 0.01 0.29 0.22 0.33 0.26
C3' 0.01 0.28 0.00 0.00 0.13 0.00 0.41 0.01 0.47 0.09 0.19 0.14 0.61 0.01 0.01 0.01 0.41 0.31 0.35 0.31
C4 0.01 0.00 0.03 0.13 0.00 0.09 0.01 0.17 0.01 0.01 0.00 0.00 0.01 0.06 0.15 0.03 0.59 0.71 1.01 0.70
C4' 0.01 0.34 0.01 0.00 0.09 0.00 0.35 0.01 0.42 0.05 0.25 0.09 0.71 0.04 0.02 0.00 0.00 0.15 0.28 0.06
C5 0.01 0.01 0.16 0.41 0.01 0.35 0.00 0.60 0.00 0.00 0.01 0.01 0.01 0.17 0.43 0.24 0.88 0.79 1.58 1.07
C5' 0.02 0.49 0.01 0.01 0.17 0.01 0.60 0.00 0.66 0.11 0.37 0.19 1.05 0.04 0.02 0.02 0.01 0.20 0.37 0.02
C6 0.01 0.01 0.20 0.47 0.01 0.42 0.00 0.66 0.00 0.00 0.01 0.01 0.01 0.21 0.46 0.32 0.90 0.75 1.40 1.03
N1 0.01 0.00 0.02 0.09 0.01 0.05 0.00 0.11 0.00 0.00 0.01 0.01 0.01 0.03 0.08 0.01 0.38 0.41 0.60 0.45
N3 0.02 0.00 0.14 0.19 0.00 0.25 0.01 0.37 0.01 0.01 0.00 0.01 0.01 0.22 0.17 0.23 0.78 1.11 0.60 0.85
N4 0.01 0.01 0.03 0.14 0.00 0.09 0.01 0.19 0.01 0.01 0.01 0.00 0.01 0.06 0.16 0.03 0.64 0.81 1.13 0.77
O2 0.03 0.00 0.38 0.61 0.01 0.71 0.01 1.05 0.01 0.01 0.01 0.01 0.00 0.50 0.59 0.59 1.44 1.73 1.12 1.51
O2' 0.01 0.27 0.00 0.01 0.06 0.04 0.17 0.04 0.21 0.03 0.22 0.06 0.50 0.00 0.05 0.04 0.13 0.20 0.28 0.10
O3' 0.01 0.26 0.01 0.01 0.15 0.02 0.43 0.02 0.46 0.08 0.17 0.16 0.59 0.05 0.00 0.01 0.37 0.41 0.49 0.30
O4' 0.01 0.31 0.01 0.01 0.03 0.00 0.24 0.02 0.32 0.01 0.23 0.03 0.59 0.04 0.01 0.00 0.12 0.15 0.36 0.23
O5' 0.15 0.81 0.29 0.41 0.59 0.00 0.88 0.01 0.90 0.38 0.78 0.64 1.44 0.13 0.37 0.12 0.00 0.01 0.01 0.00
OP1 0.20 1.08 0.22 0.31 0.71 0.15 0.79 0.20 0.75 0.41 1.11 0.81 1.73 0.20 0.41 0.15 0.01 0.00 0.01 0.00
OP2 0.34 0.52 0.33 0.35 1.01 0.28 1.58 0.37 1.40 0.60 0.60 1.13 1.12 0.28 0.49 0.36 0.01 0.01 0.00 0.00
P 0.24 0.85 0.26 0.31 0.70 0.06 1.07 0.02 1.03 0.45 0.85 0.77 1.51 0.10 0.30 0.23 0.00 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.30 0.20 0.79 0.38 0.17 1.11 0.16 1.75 0.17 0.22 0.17 0.24 0.22 0.23 0.21 1.10 0.66 1.31 1.50 0.23 1.31 2.02 1.59
C2 0.28 0.27 0.59 0.35 0.21 0.69 0.20 1.12 0.21 0.26 0.21 0.32 0.29 0.31 0.22 0.66 0.54 0.95 1.01 0.27 0.95 1.33 1.02
C2' 0.73 0.52 0.74 0.61 0.60 1.36 0.55 2.08 0.47 0.69 0.47 0.50 0.58 0.59 0.68 1.16 0.68 1.61 1.95 0.43 1.69 2.52 2.10
C3' 0.56 0.46 1.20 0.91 0.61 0.85 0.74 1.56 0.68 0.91 0.54 0.38 0.47 0.92 0.69 1.65 1.21 1.13 1.67 0.74 1.46 2.39 2.01
C4 0.32 0.34 0.58 0.77 0.20 0.33 0.14 0.30 0.20 0.15 0.21 0.42 0.37 0.25 0.18 0.42 0.90 0.57 0.46 0.32 1.21 0.48 0.56
C4' 0.41 0.26 1.48 0.91 0.31 0.54 0.46 1.14 0.48 0.49 0.33 0.26 0.29 0.61 0.34 2.05 1.40 0.71 1.02 0.62 1.09 1.96 1.47
C5 0.39 0.29 0.77 1.00 0.18 0.44 0.12 0.34 0.18 0.13 0.18 0.38 0.35 0.21 0.19 0.57 1.19 0.68 0.59 0.29 1.46 0.57 0.83
C5' 0.93 0.59 2.07 1.66 0.64 0.64 0.70 0.26 0.71 0.75 0.56 0.64 0.70 0.88 0.71 2.65 2.25 0.39 0.53 0.90 0.98 1.52 1.20
C6 0.37 0.23 0.86 0.88 0.15 0.58 0.12 0.60 0.17 0.14 0.16 0.30 0.28 0.20 0.18 0.78 1.14 0.96 0.26 0.25 0.76 0.25 0.15
N1 0.31 0.23 0.77 0.52 0.17 0.77 0.15 1.14 0.18 0.20 0.17 0.28 0.25 0.24 0.19 0.85 0.78 1.11 0.88 0.25 0.68 1.17 0.82
N3 0.28 0.32 0.50 0.49 0.22 0.42 0.19 0.64 0.22 0.22 0.24 0.38 0.33 0.30 0.20 0.45 0.62 0.70 0.51 0.31 0.71 0.67 0.37
N4 0.32 0.40 0.50 0.84 0.21 0.37 0.15 0.45 0.22 0.15 0.26 0.52 0.41 0.24 0.18 0.37 0.93 0.38 0.86 0.36 1.78 1.08 1.12
O2 0.27 0.27 0.53 0.23 0.24 0.88 0.25 1.53 0.23 0.33 0.23 0.31 0.28 0.35 0.25 0.72 0.31 1.00 1.56 0.27 1.70 2.10 1.78
O2' 0.81 0.57 0.51 0.68 0.60 1.75 0.49 2.66 0.43 0.59 0.47 0.59 0.64 0.49 0.67 1.03 0.55 1.85 2.49 0.37 2.54 3.29 2.79
O3' 0.85 0.60 1.28 1.16 0.78 1.26 0.86 2.04 0.76 1.10 0.64 0.52 0.65 1.05 0.91 1.77 1.41 1.41 2.20 0.79 2.26 2.95 2.71
O4' 0.66 0.25 1.54 1.03 0.34 0.99 0.33 1.33 0.32 0.46 0.21 0.29 0.37 0.44 0.47 1.93 1.38 1.01 0.95 0.44 0.81 1.63 1.12
O5' 0.93 0.91 2.00 1.79 0.89 0.85 1.08 0.33 1.16 0.98 0.98 0.94 0.93 1.27 0.83 2.33 2.31 0.49 0.69 1.41 1.28 1.41 1.26
OP1 1.39 1.28 2.39 2.44 1.19 1.65 1.34 1.31 1.50 1.15 1.32 1.39 1.34 1.49 1.12 2.86 3.25 1.00 1.41 1.86 1.92 1.43 1.80
OP2 1.43 1.65 2.32 2.54 1.37 1.68 1.24 1.64 1.29 1.11 1.40 1.89 1.70 1.31 1.23 2.42 2.90 1.14 2.14 1.40 2.95 2.46 2.75
P 1.41 1.33 2.40 2.49 1.23 1.60 1.29 1.28 1.38 1.18 1.26 1.45 1.41 1.46 1.17 2.69 3.13 1.03 1.56 1.65 2.13 1.74 1.99

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.06 0.01 0.03 0.03 0.01 0.02 0.11 0.03 0.02 0.04 0.07 0.06 0.01 0.00 0.02 0.25 0.00 0.24 0.02 0.47 0.21 0.31
C2 0.06 0.00 0.12 0.64 0.01 0.85 0.01 1.37 0.01 0.01 0.00 0.00 0.00 0.01 0.02 0.70 0.43 0.69 1.69 0.02 2.16 2.20 1.89
C2' 0.01 0.12 0.00 0.00 0.06 0.02 0.04 0.22 0.06 0.06 0.09 0.14 0.12 0.04 0.02 0.00 0.02 0.02 0.46 0.05 0.50 0.55 0.57
C3' 0.03 0.64 0.00 0.00 0.37 0.00 0.31 0.01 0.40 0.31 0.54 0.75 0.59 0.28 0.18 0.02 0.01 0.03 0.05 0.37 0.30 0.30 0.15
C4 0.03 0.01 0.06 0.37 0.00 0.37 0.00 0.48 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.43 0.20 0.34 0.59 0.01 0.91 0.68 0.53
C4' 0.01 0.85 0.02 0.00 0.37 0.00 0.15 0.01 0.32 0.45 0.62 1.08 0.82 0.29 0.05 0.30 0.03 0.00 0.01 0.22 0.25 0.25 0.04
C5 0.02 0.01 0.04 0.31 0.00 0.15 0.00 0.18 0.00 0.01 0.01 0.01 0.01 0.00 0.01 0.37 0.15 0.12 0.30 0.01 0.78 0.47 0.19
C5' 0.11 1.37 0.22 0.01 0.48 0.01 0.18 0.00 0.43 0.86 0.98 1.84 1.24 0.64 0.18 0.08 0.24 0.02 0.01 0.29 0.32 0.34 0.01
C6 0.03 0.01 0.06 0.40 0.01 0.32 0.00 0.43 0.00 0.01 0.00 0.02 0.01 0.01 0.01 0.48 0.22 0.26 0.58 0.00 1.06 0.85 0.53
C8 0.02 0.01 0.06 0.31 0.01 0.45 0.01 0.86 0.01 0.00 0.01 0.02 0.01 0.00 0.00 0.20 0.24 0.37 1.11 0.02 1.36 1.29 1.28
N1 0.04 0.00 0.09 0.54 0.01 0.62 0.01 0.98 0.00 0.01 0.00 0.01 0.00 0.01 0.01 0.63 0.34 0.50 1.24 0.02 1.75 1.70 1.38
N2 0.07 0.00 0.14 0.75 0.01 1.08 0.01 1.84 0.02 0.02 0.01 0.00 0.01 0.02 0.02 0.80 0.55 0.83 2.26 0.03 2.89 3.15 2.67
N3 0.06 0.00 0.12 0.59 0.00 0.82 0.01 1.24 0.01 0.01 0.00 0.01 0.00 0.01 0.01 0.63 0.39 0.71 1.50 0.01 1.75 1.75 1.55
N7 0.01 0.01 0.04 0.28 0.01 0.29 0.00 0.64 0.01 0.00 0.01 0.02 0.01 0.00 0.01 0.23 0.20 0.22 0.85 0.02 1.23 1.11 1.04
N9 0.00 0.02 0.02 0.18 0.01 0.05 0.01 0.18 0.01 0.00 0.01 0.02 0.01 0.01 0.00 0.18 0.11 0.01 0.31 0.01 0.64 0.33 0.38
O2' 0.02 0.70 0.00 0.02 0.43 0.30 0.37 0.08 0.48 0.20 0.63 0.80 0.63 0.23 0.18 0.00 0.02 0.19 0.34 0.45 0.43 0.47 0.50
O3' 0.25 0.43 0.02 0.01 0.20 0.03 0.15 0.24 0.22 0.24 0.34 0.55 0.39 0.20 0.11 0.02 0.00 0.18 0.27 0.21 0.70 0.21 0.38
O4' 0.00 0.69 0.02 0.03 0.34 0.00 0.12 0.02 0.26 0.37 0.50 0.83 0.71 0.22 0.01 0.19 0.18 0.00 0.05 0.17 0.38 0.05 0.12
O5' 0.24 1.69 0.46 0.05 0.59 0.01 0.30 0.01 0.58 1.11 1.24 2.26 1.50 0.85 0.31 0.34 0.27 0.05 0.00 0.43 0.02 0.02 0.00
O6 0.02 0.02 0.05 0.37 0.01 0.22 0.01 0.29 0.00 0.02 0.02 0.03 0.01 0.02 0.01 0.45 0.21 0.17 0.43 0.00 0.96 0.74 0.31
OP1 0.47 2.16 0.50 0.30 0.91 0.25 0.78 0.32 1.06 1.36 1.75 2.89 1.75 1.23 0.64 0.43 0.70 0.38 0.02 0.96 0.00 0.01 0.00
OP2 0.21 2.20 0.55 0.30 0.68 0.25 0.47 0.34 0.85 1.29 1.70 3.15 1.75 1.11 0.33 0.47 0.21 0.05 0.02 0.74 0.01 0.00 0.01
P 0.31 1.89 0.57 0.15 0.53 0.04 0.19 0.01 0.53 1.28 1.38 2.67 1.55 1.04 0.38 0.50 0.38 0.12 0.00 0.31 0.00 0.01 0.00