ClaRNA

Doublet Group distance statistics: 22775

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C4 B 0, -0.007, 0.339, 0.686, 0.812 max_d=0.812 avg_d=0.339 std_dev=0.346
C1' B 0, -0.061, 0.437, 0.936, 1.226 max_d=1.226 avg_d=0.437 std_dev=0.499
N1 A 0, -0.110, 0.402, 0.914, 1.258 max_d=1.258 avg_d=0.402 std_dev=0.512
N9 B 0, -0.012, 0.516, 1.044, 1.221 max_d=1.221 avg_d=0.516 std_dev=0.528
C5 A 0, -0.084, 0.505, 1.095, 1.448 max_d=1.448 avg_d=0.505 std_dev=0.589
C6 A 0, 0.007, 0.699, 1.391, 1.394 max_d=1.394 avg_d=0.699 std_dev=0.692
C6 B 0, -0.100, 0.689, 1.479, 1.940 max_d=1.940 avg_d=0.689 std_dev=0.789
C5 B 0, -0.061, 0.733, 1.526, 1.922 max_d=1.922 avg_d=0.733 std_dev=0.793
N1 B 0, -0.019, 0.826, 1.671, 1.941 max_d=1.941 avg_d=0.826 std_dev=0.845
C4 A 0, -0.038, 0.852, 1.743, 2.091 max_d=2.091 avg_d=0.852 std_dev=0.891
O4' B 0, -0.009, 0.898, 1.805, 2.034 max_d=2.034 avg_d=0.898 std_dev=0.907
C1' A 0, -0.103, 0.813, 1.729, 2.241 max_d=2.241 avg_d=0.813 std_dev=0.916
N3 B 0, -0.007, 0.909, 1.826, 2.085 max_d=2.085 avg_d=0.909 std_dev=0.916
C2 A 0, -0.235, 0.781, 1.798, 2.488 max_d=2.488 avg_d=0.781 std_dev=1.017
C2' B 0, 0.013, 1.086, 2.160, 2.267 max_d=2.267 avg_d=1.086 std_dev=1.074
C2 B 0, -0.009, 1.133, 2.276, 2.565 max_d=2.565 avg_d=1.133 std_dev=1.143
N6 B 0, -0.150, 1.136, 2.422, 3.157 max_d=3.157 avg_d=1.136 std_dev=1.286
C8 B 0, -0.033, 1.270, 2.574, 3.027 max_d=3.027 avg_d=1.270 std_dev=1.304
O2' A 0, 0.006, 1.339, 2.671, 2.769 max_d=2.769 avg_d=1.339 std_dev=1.332
C3' B 0, -0.001, 1.334, 2.669, 2.956 max_d=2.956 avg_d=1.334 std_dev=1.335
C4' B 0, -0.030, 1.322, 2.674, 3.097 max_d=3.097 avg_d=1.322 std_dev=1.352
N4 A 0, -0.026, 1.340, 2.707, 3.114 max_d=3.114 avg_d=1.340 std_dev=1.367
O2' B 0, 0.016, 1.390, 2.764, 2.920 max_d=2.920 avg_d=1.390 std_dev=1.374
C2' A 0, 0.008, 1.398, 2.787, 2.789 max_d=2.789 avg_d=1.398 std_dev=1.390
N3 A 0, -0.403, 1.019, 2.440, 3.441 max_d=3.441 avg_d=1.019 std_dev=1.421
N7 B 0, -0.061, 1.425, 2.911, 3.512 max_d=3.512 avg_d=1.425 std_dev=1.486
O2 A 0, -0.282, 1.220, 2.722, 3.688 max_d=3.688 avg_d=1.220 std_dev=1.502
O3' B 0, 0.028, 1.531, 3.034, 3.044 max_d=3.044 avg_d=1.531 std_dev=1.503
O4' A 0, -0.005, 1.689, 3.383, 3.712 max_d=3.712 avg_d=1.689 std_dev=1.694
O5' B 0, -0.207, 1.673, 3.553, 4.573 max_d=4.573 avg_d=1.673 std_dev=1.880
C5' B 0, -0.204, 1.683, 3.569, 4.594 max_d=4.594 avg_d=1.683 std_dev=1.887
C3' A 0, -0.046, 2.057, 4.160, 4.779 max_d=4.779 avg_d=2.057 std_dev=2.103
C4' A 0, -0.059, 2.256, 4.572, 5.294 max_d=5.294 avg_d=2.256 std_dev=2.316
P B 0, -0.099, 2.318, 4.734, 5.632 max_d=5.632 avg_d=2.318 std_dev=2.417
O3' A 0, 0.009, 2.500, 4.991, 4.998 max_d=4.998 avg_d=2.500 std_dev=2.491
OP1 B 0, -0.214, 2.369, 4.951, 6.228 max_d=6.228 avg_d=2.369 std_dev=2.583
C5' A 0, -0.313, 2.882, 6.076, 7.727 max_d=7.727 avg_d=2.882 std_dev=3.194
OP2 B 0, -0.049, 3.316, 6.681, 7.516 max_d=7.516 avg_d=3.316 std_dev=3.365
O5' A 0, -0.339, 3.208, 6.755, 8.582 max_d=8.582 avg_d=3.208 std_dev=3.547
P A 0, -0.653, 4.027, 8.707, 11.457 max_d=11.457 avg_d=4.027 std_dev=4.680
OP2 A 0, -1.064, 3.936, 8.937, 12.253 max_d=12.253 avg_d=3.936 std_dev=5.000
OP1 A 0, -0.432, 5.076, 10.584, 13.250 max_d=13.250 avg_d=5.076 std_dev=5.508

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 0.01 0.00 0.01 0.01 0.00 0.01 0.09 0.01 0.01 0.01 0.01 0.02 0.02 0.30 0.00 0.15 0.14 0.23 0.19
C2 0.01 0.00 0.17 0.28 0.00 0.10 0.01 0.14 0.01 0.01 0.00 0.00 0.00 0.22 0.23 0.04 0.40 0.32 0.81 0.52
C2' 0.00 0.17 0.00 0.00 0.05 0.01 0.07 0.20 0.10 0.02 0.14 0.05 0.29 0.00 0.01 0.02 0.14 0.08 0.14 0.10
C3' 0.01 0.28 0.00 0.00 0.35 0.00 0.34 0.03 0.29 0.21 0.33 0.39 0.28 0.01 0.00 0.02 0.35 0.27 0.08 0.21
C4 0.01 0.00 0.05 0.35 0.00 0.13 0.00 0.15 0.01 0.00 0.00 0.00 0.00 0.31 0.12 0.01 0.51 0.51 1.32 0.79
C4' 0.00 0.10 0.01 0.00 0.13 0.00 0.13 0.01 0.11 0.08 0.12 0.14 0.11 0.28 0.01 0.00 0.03 0.08 0.36 0.10
C5 0.01 0.01 0.07 0.34 0.00 0.13 0.00 0.12 0.00 0.00 0.00 0.01 0.01 0.29 0.15 0.03 0.48 0.52 1.31 0.79
C5' 0.09 0.14 0.20 0.03 0.15 0.01 0.12 0.00 0.08 0.10 0.16 0.17 0.16 0.08 0.20 0.03 0.01 0.26 0.44 0.01
C6 0.01 0.01 0.10 0.29 0.01 0.11 0.00 0.08 0.00 0.00 0.01 0.01 0.01 0.23 0.11 0.04 0.40 0.38 0.95 0.62
N1 0.01 0.01 0.02 0.21 0.00 0.08 0.00 0.10 0.00 0.00 0.01 0.01 0.01 0.18 0.10 0.01 0.33 0.26 0.67 0.45
N3 0.01 0.00 0.14 0.33 0.00 0.12 0.00 0.16 0.01 0.01 0.00 0.00 0.01 0.28 0.18 0.02 0.48 0.42 1.10 0.67
N4 0.01 0.00 0.05 0.39 0.00 0.14 0.01 0.17 0.01 0.01 0.00 0.00 0.00 0.33 0.17 0.01 0.55 0.60 1.52 0.88
O2 0.02 0.00 0.29 0.28 0.00 0.11 0.01 0.16 0.01 0.01 0.01 0.00 0.00 0.17 0.41 0.06 0.36 0.30 0.63 0.42
O2' 0.02 0.22 0.00 0.01 0.31 0.28 0.29 0.08 0.23 0.18 0.28 0.33 0.17 0.00 0.01 0.18 0.27 0.27 0.11 0.20
O3' 0.30 0.23 0.01 0.00 0.12 0.01 0.15 0.20 0.11 0.10 0.18 0.17 0.41 0.01 0.00 0.20 0.39 0.38 0.05 0.27
O4' 0.00 0.04 0.02 0.02 0.01 0.00 0.03 0.03 0.04 0.01 0.02 0.01 0.06 0.18 0.20 0.00 0.11 0.22 0.14 0.14
O5' 0.15 0.40 0.14 0.35 0.51 0.03 0.48 0.01 0.40 0.33 0.48 0.55 0.36 0.27 0.39 0.11 0.00 0.01 0.01 0.01
OP1 0.14 0.32 0.08 0.27 0.51 0.08 0.52 0.26 0.38 0.26 0.42 0.60 0.30 0.27 0.38 0.22 0.01 0.00 0.02 0.01
OP2 0.23 0.81 0.14 0.08 1.32 0.36 1.31 0.44 0.95 0.67 1.10 1.52 0.63 0.11 0.05 0.14 0.01 0.02 0.00 0.01
P 0.19 0.52 0.10 0.21 0.79 0.10 0.79 0.01 0.62 0.45 0.67 0.88 0.42 0.20 0.27 0.14 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' 0.39 1.65 0.72 0.43 1.02 0.05 0.96 0.23 1.26 0.39 1.58 1.39 1.22 0.60 0.60 0.77 0.35 0.26 0.33 0.86 1.73 0.88
C2 0.48 1.92 0.46 0.36 1.22 0.30 1.20 0.56 1.53 0.57 1.86 1.62 1.52 0.83 0.75 0.48 0.35 0.31 0.68 1.04 2.19 1.29
C2' 0.25 1.65 0.75 0.42 0.87 0.32 0.78 0.50 1.13 0.19 1.54 1.35 1.07 0.34 0.41 0.84 0.29 0.06 0.63 1.08 2.02 1.19
C3' 0.08 1.39 0.44 0.05 0.59 0.39 0.45 0.51 0.80 0.27 1.25 1.10 0.71 0.09 0.09 0.56 0.35 0.33 0.73 1.26 1.99 1.20
C4 0.50 1.63 0.34 0.34 1.10 0.32 1.05 0.53 1.28 0.55 1.53 1.46 1.25 0.75 0.72 0.35 0.37 0.26 0.57 0.72 1.88 1.05
C4' 0.38 1.73 0.78 0.41 1.03 0.04 0.98 0.06 1.28 0.48 1.64 1.45 1.24 0.64 0.61 0.79 0.45 0.17 0.33 0.87 1.45 0.69
C5 0.35 1.10 0.64 0.42 0.75 0.13 0.70 0.22 0.85 0.39 1.03 0.99 0.82 0.50 0.50 0.72 0.34 0.23 0.16 0.42 1.33 0.55
C5' 0.63 2.01 0.90 0.56 1.31 0.27 1.26 0.23 1.56 0.75 1.92 1.73 1.52 0.94 0.89 0.87 0.66 0.38 0.41 0.75 1.08 0.44
C6 0.39 1.29 0.75 0.45 0.86 0.09 0.80 0.15 0.99 0.42 1.21 1.14 0.95 0.55 0.56 0.83 0.38 0.26 0.14 0.56 1.36 0.56
N1 0.38 1.56 0.65 0.41 0.98 0.12 0.93 0.30 1.20 0.40 1.49 1.33 1.17 0.60 0.59 0.70 0.33 0.25 0.37 0.78 1.75 0.90
N3 0.59 2.08 0.30 0.35 1.37 0.41 1.35 0.68 1.67 0.69 2.00 1.79 1.65 0.97 0.88 0.30 0.42 0.35 0.80 1.06 2.29 1.39
N4 0.68 1.84 0.11 0.33 1.33 0.48 1.25 0.69 1.47 0.73 1.72 1.71 1.42 0.94 0.92 0.09 0.52 0.30 0.74 0.76 1.95 1.16
O2 0.52 2.18 0.42 0.36 1.37 0.37 1.38 0.67 1.78 0.65 2.15 1.79 1.79 0.96 0.84 0.42 0.38 0.36 0.83 1.27 2.45 1.52
O2' 0.43 1.78 0.94 0.65 1.00 0.42 0.92 0.56 1.28 0.33 1.70 1.46 1.23 0.48 0.55 1.06 0.55 0.21 0.63 0.97 1.99 1.16
O3' 0.15 1.39 0.51 0.16 0.53 0.39 0.38 0.51 0.75 0.42 1.24 1.07 0.66 0.23 0.09 0.59 0.31 0.36 0.74 1.35 2.03 1.27
O4' 0.51 1.70 0.86 0.53 1.13 0.16 1.10 0.07 1.36 0.59 1.65 1.46 1.34 0.79 0.75 0.85 0.46 0.36 0.22 0.79 1.32 0.56
O5' 0.32 1.94 0.56 0.45 1.14 0.34 1.14 0.32 1.49 0.58 1.87 1.59 1.48 0.81 0.65 0.49 0.82 0.22 0.69 1.02 1.22 0.70
OP1 0.24 2.27 0.40 0.72 1.30 0.65 1.39 0.69 1.88 0.70 2.30 1.76 1.95 1.04 0.70 0.25 1.17 0.33 1.17 1.44 1.46 1.14
OP2 0.82 1.08 0.76 1.44 0.11 1.51 0.29 1.54 0.60 0.83 1.02 0.65 0.68 0.65 0.49 1.01 1.99 1.15 1.99 2.14 2.35 1.92
P 0.14 1.94 0.15 0.79 1.00 0.83 1.04 0.85 1.48 0.41 1.91 1.49 1.51 0.69 0.42 0.30 1.32 0.51 1.32 1.58 1.64 1.28

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 0.01 0.08 0.02 0.02 0.03 0.04 0.01 0.01 0.00 0.02 0.27 0.00 0.18 0.09 0.53 0.30
C2 0.04 0.00 0.35 0.72 0.00 0.51 0.01 0.67 0.00 0.01 0.00 0.00 0.01 0.01 0.00 0.26 0.53 0.26 0.83 0.38 1.01 0.69
C2' 0.01 0.35 0.00 0.00 0.17 0.02 0.06 0.23 0.13 0.19 0.26 0.36 0.08 0.12 0.03 0.00 0.01 0.02 0.26 0.35 0.32 0.11
C3' 0.02 0.72 0.00 0.00 0.40 0.00 0.39 0.01 0.45 0.49 0.59 0.70 0.45 0.47 0.25 0.02 0.01 0.01 0.28 0.44 0.31 0.15
C4 0.02 0.00 0.17 0.40 0.00 0.22 0.00 0.22 0.01 0.01 0.00 0.00 0.01 0.00 0.00 0.24 0.13 0.13 0.50 0.10 0.90 0.54
C4' 0.01 0.51 0.02 0.00 0.22 0.00 0.19 0.01 0.22 0.46 0.37 0.51 0.23 0.39 0.14 0.25 0.02 0.00 0.01 0.34 0.43 0.05
C5 0.01 0.01 0.06 0.39 0.00 0.19 0.00 0.29 0.00 0.01 0.01 0.01 0.00 0.00 0.00 0.30 0.17 0.03 0.43 0.16 1.20 0.71
C5' 0.08 0.67 0.23 0.01 0.22 0.01 0.29 0.00 0.28 0.75 0.47 0.63 0.36 0.67 0.22 0.03 0.18 0.01 0.01 0.37 0.33 0.01
C6 0.02 0.00 0.13 0.45 0.01 0.22 0.00 0.28 0.00 0.01 0.00 0.00 0.00 0.01 0.00 0.34 0.18 0.09 0.54 0.15 1.25 0.72
C8 0.02 0.01 0.19 0.49 0.01 0.46 0.01 0.75 0.01 0.00 0.01 0.01 0.02 0.00 0.00 0.22 0.46 0.19 0.46 0.42 1.26 0.91
N1 0.03 0.00 0.26 0.59 0.00 0.37 0.01 0.47 0.00 0.01 0.00 0.00 0.01 0.01 0.00 0.32 0.35 0.19 0.72 0.26 1.11 0.68
N3 0.04 0.00 0.36 0.70 0.00 0.51 0.01 0.63 0.00 0.01 0.00 0.00 0.01 0.01 0.00 0.21 0.51 0.27 0.77 0.35 0.93 0.62
N6 0.01 0.01 0.08 0.45 0.01 0.23 0.00 0.36 0.00 0.02 0.01 0.01 0.00 0.02 0.00 0.36 0.24 0.03 0.52 0.25 1.48 0.84
N7 0.01 0.01 0.12 0.47 0.00 0.39 0.00 0.67 0.01 0.00 0.01 0.01 0.02 0.00 0.01 0.29 0.42 0.12 0.48 0.42 1.49 0.97
N9 0.00 0.00 0.03 0.25 0.00 0.14 0.00 0.22 0.00 0.00 0.00 0.00 0.00 0.01 0.00 0.18 0.14 0.01 0.26 0.10 0.80 0.52
O2' 0.02 0.26 0.00 0.02 0.24 0.25 0.30 0.03 0.34 0.22 0.32 0.21 0.36 0.29 0.18 0.00 0.02 0.22 0.02 0.08 0.64 0.21
O3' 0.27 0.53 0.01 0.01 0.13 0.02 0.17 0.18 0.18 0.46 0.35 0.51 0.24 0.42 0.14 0.02 0.00 0.21 0.17 0.40 0.59 0.15
O4' 0.00 0.26 0.02 0.01 0.13 0.00 0.03 0.01 0.09 0.19 0.19 0.27 0.03 0.12 0.01 0.22 0.21 0.00 0.34 0.06 0.61 0.39
O5' 0.18 0.83 0.26 0.28 0.50 0.01 0.43 0.01 0.54 0.46 0.72 0.77 0.52 0.48 0.26 0.02 0.17 0.34 0.00 0.01 0.01 0.01
OP1 0.09 0.38 0.35 0.44 0.10 0.34 0.16 0.37 0.15 0.42 0.26 0.35 0.25 0.42 0.10 0.08 0.40 0.06 0.01 0.00 0.00 0.00
OP2 0.53 1.01 0.32 0.31 0.90 0.43 1.20 0.33 1.25 1.26 1.11 0.93 1.48 1.49 0.80 0.64 0.59 0.61 0.01 0.00 0.00 0.00
P 0.30 0.69 0.11 0.15 0.54 0.05 0.71 0.01 0.72 0.91 0.68 0.62 0.84 0.97 0.52 0.21 0.15 0.39 0.01 0.00 0.00 0.00