ClaRNA

Doublet Group distance statistics: 53578

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Distances from reference structure (by RMSD)

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

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C2 A 0, 0.003, 0.008, 0.012, 0.017 max_d=0.017 avg_d=0.008 std_dev=0.005
C6 A 0, 0.003, 0.007, 0.012, 0.015 max_d=0.015 avg_d=0.007 std_dev=0.005
C1' A 0, 0.006, 0.013, 0.019, 0.022 max_d=0.022 avg_d=0.013 std_dev=0.006
N3 A 0, 0.006, 0.013, 0.020, 0.023 max_d=0.023 avg_d=0.013 std_dev=0.007
C5 A 0, 0.004, 0.012, 0.020, 0.028 max_d=0.028 avg_d=0.012 std_dev=0.008
N1 A 0, 0.006, 0.014, 0.022, 0.029 max_d=0.029 avg_d=0.014 std_dev=0.008
N2 A 0, 0.010, 0.019, 0.027, 0.028 max_d=0.028 avg_d=0.019 std_dev=0.009
C4 A 0, 0.007, 0.017, 0.026, 0.031 max_d=0.031 avg_d=0.017 std_dev=0.010
N9 A 0, 0.007, 0.019, 0.032, 0.041 max_d=0.041 avg_d=0.019 std_dev=0.012
O6 A 0, 0.006, 0.020, 0.034, 0.042 max_d=0.042 avg_d=0.020 std_dev=0.014
N7 A 0, 0.008, 0.026, 0.043, 0.059 max_d=0.059 avg_d=0.026 std_dev=0.017
C8 A 0, 0.010, 0.032, 0.054, 0.072 max_d=0.072 avg_d=0.032 std_dev=0.022
P B 0, 0.174, 0.432, 0.690, 0.809 max_d=0.809 avg_d=0.432 std_dev=0.258
OP1 B 0, 0.175, 0.498, 0.821, 1.174 max_d=1.174 avg_d=0.498 std_dev=0.323
O5' B 0, 0.284, 0.612, 0.941, 1.117 max_d=1.117 avg_d=0.612 std_dev=0.328
O4' A 0, -0.098, 0.347, 0.792, 1.377 max_d=1.377 avg_d=0.347 std_dev=0.445
C2' A 0, -0.104, 0.358, 0.821, 1.418 max_d=1.418 avg_d=0.358 std_dev=0.462
C4' B 0, 0.320, 0.784, 1.248, 1.459 max_d=1.459 avg_d=0.784 std_dev=0.464
OP2 B 0, 0.310, 0.795, 1.280, 1.502 max_d=1.502 avg_d=0.795 std_dev=0.485
C5' B 0, 0.345, 0.859, 1.373, 1.494 max_d=1.494 avg_d=0.859 std_dev=0.514
O4' B 0, 0.325, 0.891, 1.457, 1.876 max_d=1.876 avg_d=0.891 std_dev=0.566
C3' B 0, 0.358, 0.992, 1.625, 1.696 max_d=1.696 avg_d=0.992 std_dev=0.633
O3' B 0, 0.373, 1.042, 1.711, 1.880 max_d=1.880 avg_d=1.042 std_dev=0.669
C3' A 0, -0.126, 0.557, 1.241, 2.124 max_d=2.124 avg_d=0.557 std_dev=0.684
C4' A 0, -0.150, 0.565, 1.280, 2.186 max_d=2.186 avg_d=0.565 std_dev=0.715
O2' A 0, -0.185, 0.594, 1.374, 2.186 max_d=2.186 avg_d=0.594 std_dev=0.780
C5' A 0, -0.089, 0.832, 1.752, 2.931 max_d=2.931 avg_d=0.832 std_dev=0.921
O3' A 0, -0.200, 0.765, 1.731, 2.927 max_d=2.927 avg_d=0.765 std_dev=0.966
C1' B 0, 0.271, 1.336, 2.401, 2.690 max_d=2.690 avg_d=1.336 std_dev=1.065
O5' A 0, 0.256, 1.321, 2.386, 2.657 max_d=2.657 avg_d=1.321 std_dev=1.065
C8 B 0, 0.172, 1.249, 2.327, 2.795 max_d=2.795 avg_d=1.249 std_dev=1.078
N9 B 0, 0.238, 1.483, 2.729, 3.089 max_d=3.089 avg_d=1.483 std_dev=1.246
C2' B 0, 0.228, 1.509, 2.790, 3.241 max_d=3.241 avg_d=1.509 std_dev=1.281
N7 B 0, 0.088, 1.804, 3.520, 4.241 max_d=4.241 avg_d=1.804 std_dev=1.716
O2' B 0, 0.107, 1.840, 3.573, 4.335 max_d=4.335 avg_d=1.840 std_dev=1.733
P A 0, 0.203, 2.161, 4.118, 4.560 max_d=4.560 avg_d=2.161 std_dev=1.958
C4 B 0, 0.196, 2.201, 4.206, 4.669 max_d=4.669 avg_d=2.201 std_dev=2.005
C5 B 0, 0.150, 2.335, 4.520, 5.208 max_d=5.208 avg_d=2.335 std_dev=2.185
OP1 A 0, 0.306, 2.529, 4.751, 5.037 max_d=5.037 avg_d=2.529 std_dev=2.222
N3 B 0, 0.228, 2.813, 5.398, 5.797 max_d=5.797 avg_d=2.813 std_dev=2.585
OP2 A 0, 0.043, 2.699, 5.355, 6.302 max_d=6.302 avg_d=2.699 std_dev=2.656
C6 B 0, 0.133, 3.082, 6.032, 6.865 max_d=6.865 avg_d=3.082 std_dev=2.949
C2 B 0, 0.243, 3.456, 6.669, 7.164 max_d=7.164 avg_d=3.456 std_dev=3.213
N6 B 0, 0.066, 3.396, 6.726, 7.835 max_d=7.835 avg_d=3.396 std_dev=3.330
N1 B 0, 0.199, 3.604, 7.009, 7.709 max_d=7.709 avg_d=3.604 std_dev=3.405

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.02 0.00 0.03 0.01 0.01 0.01 0.06 0.01 0.01 0.02 0.02 0.02 0.00 0.00 0.01 0.29 0.00 0.35 0.01 0.13 0.65 0.29
C2 0.02 0.00 0.27 0.19 0.00 0.10 0.00 0.11 0.00 0.00 0.00 0.00 0.00 0.00 0.01 0.12 0.37 0.21 0.31 0.00 0.16 0.85 0.36
C2' 0.00 0.27 0.00 0.00 0.14 0.02 0.07 0.18 0.13 0.13 0.21 0.32 0.26 0.07 0.02 0.00 0.03 0.02 0.57 0.10 0.31 0.86 0.47
C3' 0.03 0.19 0.00 0.00 0.21 0.00 0.30 0.00 0.31 0.30 0.25 0.16 0.15 0.34 0.19 0.01 0.00 0.01 0.38 0.35 0.28 0.41 0.11
C4 0.01 0.00 0.14 0.21 0.00 0.03 0.00 0.11 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.15 0.22 0.10 0.48 0.01 0.36 1.12 0.60
C4' 0.01 0.10 0.02 0.00 0.03 0.00 0.12 0.00 0.09 0.25 0.04 0.18 0.11 0.24 0.10 0.24 0.02 0.00 0.01 0.14 0.45 0.08 0.26
C5 0.01 0.00 0.07 0.30 0.00 0.12 0.00 0.21 0.01 0.00 0.00 0.00 0.00 0.00 0.00 0.29 0.16 0.03 0.67 0.01 0.75 1.57 0.97
C5' 0.06 0.11 0.18 0.00 0.11 0.00 0.21 0.00 0.20 0.31 0.12 0.16 0.11 0.33 0.13 0.07 0.17 0.01 0.00 0.26 0.11 0.02 0.01
C6 0.01 0.00 0.13 0.31 0.00 0.09 0.01 0.20 0.00 0.01 0.00 0.00 0.00 0.01 0.01 0.27 0.20 0.07 0.64 0.00 0.75 1.57 0.95
C8 0.01 0.00 0.13 0.30 0.00 0.25 0.00 0.31 0.01 0.00 0.01 0.00 0.00 0.00 0.00 0.39 0.12 0.15 0.86 0.01 0.93 1.74 1.19
N1 0.02 0.00 0.21 0.25 0.00 0.04 0.00 0.12 0.00 0.01 0.00 0.00 0.00 0.01 0.01 0.16 0.28 0.15 0.46 0.00 0.43 1.20 0.64
N2 0.02 0.00 0.32 0.16 0.00 0.18 0.00 0.16 0.00 0.00 0.00 0.00 0.01 0.00 0.01 0.20 0.47 0.26 0.19 0.00 0.22 0.61 0.22
N3 0.02 0.00 0.26 0.15 0.00 0.11 0.00 0.11 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.13 0.38 0.21 0.28 0.01 0.14 0.75 0.30
N7 0.00 0.00 0.07 0.34 0.00 0.24 0.00 0.33 0.01 0.00 0.01 0.00 0.00 0.00 0.00 0.41 0.16 0.09 0.88 0.01 1.10 1.96 1.32
N9 0.00 0.01 0.02 0.19 0.00 0.10 0.00 0.13 0.01 0.00 0.01 0.01 0.00 0.00 0.00 0.20 0.13 0.01 0.56 0.01 0.42 1.15 0.67
O2' 0.01 0.12 0.00 0.01 0.15 0.24 0.29 0.07 0.27 0.39 0.16 0.20 0.13 0.41 0.20 0.00 0.06 0.17 0.59 0.33 0.28 0.97 0.47
O3' 0.29 0.37 0.03 0.00 0.22 0.02 0.16 0.17 0.20 0.12 0.28 0.47 0.38 0.16 0.13 0.06 0.00 0.18 0.33 0.20 0.65 0.32 0.33
O4' 0.00 0.21 0.02 0.01 0.10 0.00 0.03 0.01 0.07 0.15 0.15 0.26 0.21 0.09 0.01 0.17 0.18 0.00 0.06 0.04 0.24 0.23 0.15
O5' 0.35 0.31 0.57 0.38 0.48 0.01 0.67 0.00 0.64 0.86 0.46 0.19 0.28 0.88 0.56 0.59 0.33 0.06 0.00 0.74 0.01 0.01 0.00
O6 0.01 0.00 0.10 0.35 0.01 0.14 0.01 0.26 0.00 0.01 0.00 0.00 0.01 0.01 0.01 0.33 0.20 0.04 0.74 0.00 0.98 1.81 1.15
OP1 0.13 0.16 0.31 0.28 0.36 0.45 0.75 0.11 0.75 0.93 0.43 0.22 0.14 1.10 0.42 0.28 0.65 0.24 0.01 0.98 0.00 0.01 0.00
OP2 0.65 0.85 0.86 0.41 1.12 0.08 1.57 0.02 1.57 1.74 1.20 0.61 0.75 1.96 1.15 0.97 0.32 0.23 0.01 1.81 0.01 0.00 0.01
P 0.29 0.36 0.47 0.11 0.60 0.26 0.97 0.01 0.95 1.19 0.64 0.22 0.30 1.32 0.67 0.47 0.33 0.15 0.00 1.15 0.00 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 1.02 2.67 1.17 0.84 1.95 0.41 2.19 0.46 2.81 1.14 2.98 2.21 3.19 1.66 1.36 1.05 0.81 0.53 0.33 0.11 0.15 0.18
C2 0.71 1.87 0.80 0.68 1.55 0.34 1.92 0.38 2.23 1.25 2.16 1.56 2.53 1.81 1.15 0.56 0.62 0.39 0.36 0.12 0.22 0.15
C2' 1.14 2.79 1.31 0.98 2.04 0.50 2.25 0.37 2.87 1.23 3.08 2.32 3.22 1.71 1.46 1.21 0.96 0.61 0.36 0.32 0.38 0.25
C3' 0.95 2.63 1.09 0.70 1.78 0.31 1.88 0.46 2.53 0.85 2.87 2.15 2.79 1.24 1.18 1.07 0.68 0.44 0.31 0.13 0.21 0.13
C4 0.85 2.31 0.97 0.76 1.80 0.36 2.16 0.43 2.64 1.26 2.65 1.91 3.03 1.86 1.28 0.76 0.71 0.44 0.35 0.12 0.18 0.16
C4' 1.07 2.79 1.20 0.80 1.89 0.56 1.98 0.73 2.68 0.92 3.05 2.28 2.95 1.30 1.28 1.19 0.78 0.64 0.53 0.27 0.29 0.39
C5 0.77 2.23 0.88 0.72 1.73 0.35 2.12 0.43 2.60 1.27 2.59 1.81 3.02 1.87 1.23 0.63 0.66 0.40 0.37 0.15 0.24 0.17
C5' 1.12 2.86 1.26 0.88 1.94 0.61 2.02 0.73 2.70 0.98 3.10 2.34 2.95 1.35 1.33 1.25 0.86 0.68 0.53 0.27 0.33 0.41
C6 0.64 1.98 0.73 0.64 1.57 0.34 1.98 0.40 2.40 1.25 2.34 1.59 2.80 1.83 1.13 0.47 0.59 0.35 0.38 0.17 0.31 0.18
C8 0.91 2.55 1.04 0.79 1.89 0.37 2.22 0.46 2.81 1.25 2.90 2.07 3.24 1.82 1.33 0.84 0.75 0.45 0.36 0.14 0.18 0.16
N1 0.60 1.80 0.69 0.62 1.47 0.33 1.87 0.37 2.21 1.23 2.13 1.46 2.56 1.78 1.07 0.43 0.56 0.35 0.38 0.15 0.31 0.17
N2 0.64 1.59 0.72 0.64 1.38 0.33 1.70 0.35 1.91 1.21 1.83 1.35 2.11 1.69 1.06 0.49 0.57 0.37 0.35 0.12 0.23 0.15
N3 0.85 2.17 0.96 0.76 1.75 0.37 2.09 0.41 2.49 1.26 2.46 1.82 2.81 1.85 1.27 0.75 0.70 0.45 0.35 0.12 0.17 0.16
N7 0.81 2.39 0.93 0.74 1.81 0.36 2.18 0.44 2.72 1.27 2.77 1.93 3.16 1.87 1.27 0.69 0.69 0.41 0.37 0.16 0.23 0.17
N9 0.94 2.53 1.07 0.80 1.90 0.39 2.21 0.45 2.79 1.23 2.87 2.08 3.20 1.80 1.34 0.90 0.76 0.48 0.35 0.12 0.16 0.16
O2' 1.24 2.87 1.44 1.13 2.13 0.64 2.33 0.43 2.95 1.31 3.15 2.41 3.28 1.78 1.55 1.34 1.13 0.72 0.44 0.24 0.34 0.19
O3' 0.97 2.41 1.02 0.69 1.58 0.68 1.59 0.90 2.19 0.74 2.58 1.97 2.34 0.95 1.07 1.07 0.67 0.73 0.76 0.53 0.44 0.59
O4' 1.13 2.84 1.24 0.88 2.02 0.61 2.20 0.73 2.89 1.11 3.14 2.35 3.25 1.57 1.41 1.18 0.84 0.70 0.55 0.31 0.35 0.45
O5' 0.89 2.43 0.96 0.64 1.64 0.52 1.77 0.78 2.38 0.85 2.68 1.97 2.66 1.22 1.11 0.94 0.64 0.53 0.49 0.18 0.25 0.28
O6 0.57 1.89 0.65 0.59 1.50 0.34 1.93 0.38 2.34 1.23 2.27 1.50 2.76 1.81 1.06 0.38 0.54 0.33 0.38 0.19 0.36 0.21
OP1 0.64 1.57 0.65 0.75 0.90 0.96 0.90 1.33 1.36 0.56 1.71 1.19 1.51 0.55 0.63 0.66 0.84 0.83 0.92 0.47 0.34 0.48
OP2 0.76 1.78 0.81 0.77 1.24 0.76 1.35 0.99 1.78 0.77 1.98 1.45 2.02 1.00 0.90 0.79 0.86 0.65 0.65 0.50 0.68 0.57
P 0.73 1.83 0.77 0.76 1.17 0.88 1.23 1.20 1.73 0.64 2.02 1.44 1.94 0.80 0.80 0.77 0.85 0.76 0.81 0.41 0.42 0.47

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.02 0.00 0.01 0.01 0.00 0.00 0.03 0.01 0.01 0.01 0.02 0.01 0.01 0.00 0.01 0.01 0.00 0.13 0.31 0.33 0.10
C2 0.02 0.00 0.33 0.38 0.00 0.10 0.00 0.15 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.22 0.49 0.13 0.47 0.22 1.18 0.62
C2' 0.00 0.33 0.00 0.00 0.17 0.01 0.09 0.01 0.16 0.14 0.26 0.33 0.12 0.07 0.02 0.00 0.01 0.01 0.28 0.33 0.44 0.09
C3' 0.01 0.38 0.00 0.00 0.22 0.00 0.16 0.01 0.24 0.12 0.34 0.35 0.21 0.06 0.06 0.01 0.01 0.02 0.42 0.17 0.49 0.21
C4 0.01 0.00 0.17 0.22 0.00 0.08 0.00 0.13 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.09 0.26 0.07 0.43 0.23 1.05 0.58
C4' 0.00 0.10 0.01 0.00 0.08 0.00 0.09 0.01 0.10 0.08 0.11 0.09 0.11 0.09 0.05 0.04 0.01 0.00 0.01 0.47 0.07 0.22
C5 0.00 0.00 0.09 0.16 0.00 0.09 0.00 0.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.04 0.20 0.03 0.52 0.49 1.34 0.84
C5' 0.03 0.15 0.01 0.01 0.13 0.01 0.17 0.00 0.19 0.16 0.17 0.12 0.21 0.18 0.11 0.04 0.02 0.02 0.01 0.09 0.09 0.01
C6 0.01 0.00 0.16 0.24 0.00 0.10 0.00 0.19 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.09 0.31 0.06 0.57 0.55 1.50 0.93
C8 0.01 0.00 0.14 0.12 0.00 0.08 0.00 0.16 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.10 0.13 0.09 0.42 0.44 1.02 0.70
N1 0.01 0.00 0.26 0.34 0.00 0.11 0.00 0.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.17 0.44 0.10 0.54 0.40 1.41 0.81
N3 0.02 0.00 0.33 0.35 0.00 0.09 0.00 0.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.21 0.42 0.13 0.40 0.14 0.97 0.47
N6 0.01 0.00 0.12 0.21 0.00 0.11 0.00 0.21 0.00 0.01 0.00 0.00 0.00 0.01 0.00 0.06 0.27 0.03 0.61 0.74 1.68 1.08
N7 0.01 0.00 0.07 0.06 0.00 0.09 0.00 0.18 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.06 0.07 0.05 0.52 0.64 1.36 0.93
N9 0.00 0.00 0.02 0.06 0.00 0.05 0.00 0.11 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.01 0.07 0.01 0.34 0.15 0.80 0.44
O2' 0.01 0.22 0.00 0.01 0.09 0.04 0.04 0.04 0.09 0.10 0.17 0.21 0.06 0.06 0.01 0.00 0.03 0.02 0.07 0.70 0.08 0.30
O3' 0.01 0.49 0.01 0.01 0.26 0.01 0.20 0.02 0.31 0.13 0.44 0.42 0.27 0.07 0.07 0.03 0.00 0.01 0.40 0.30 0.39 0.13
O4' 0.00 0.13 0.01 0.02 0.07 0.00 0.03 0.02 0.06 0.09 0.10 0.13 0.03 0.05 0.01 0.02 0.01 0.00 0.14 0.42 0.12 0.23
O5' 0.13 0.47 0.28 0.42 0.43 0.01 0.52 0.01 0.57 0.42 0.54 0.40 0.61 0.52 0.34 0.07 0.40 0.14 0.00 0.01 0.01 0.00
OP1 0.31 0.22 0.33 0.17 0.23 0.47 0.49 0.09 0.55 0.44 0.40 0.14 0.74 0.64 0.15 0.70 0.30 0.42 0.01 0.00 0.01 0.01
OP2 0.33 1.18 0.44 0.49 1.05 0.07 1.34 0.09 1.50 1.02 1.41 0.97 1.68 1.36 0.80 0.08 0.39 0.12 0.01 0.01 0.00 0.00
P 0.10 0.62 0.09 0.21 0.58 0.22 0.84 0.01 0.93 0.70 0.81 0.47 1.08 0.93 0.44 0.30 0.13 0.23 0.00 0.01 0.00 0.00