ClaRNA

Doublet Group distance statistics: 51777

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Distances from reference structure (by RMSD)

1, 0, 0, 0, 0, 0, 0, 0, 0, 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
C6 A 0, 0.006, 0.020, 0.034, 0.032 max_d=0.032 avg_d=0.020 std_dev=0.014
C2 A 0, 0.003, 0.019, 0.034, 0.037 max_d=0.037 avg_d=0.019 std_dev=0.015
N9 A 0, 0.007, 0.022, 0.038, 0.036 max_d=0.036 avg_d=0.022 std_dev=0.016
N1 A 0, 0.002, 0.018, 0.035, 0.039 max_d=0.039 avg_d=0.018 std_dev=0.016
C4 A 0, 0.004, 0.021, 0.039, 0.043 max_d=0.043 avg_d=0.021 std_dev=0.017
C5 A 0, 0.001, 0.019, 0.036, 0.042 max_d=0.042 avg_d=0.019 std_dev=0.018
C1' A 0, 0.004, 0.022, 0.040, 0.045 max_d=0.045 avg_d=0.022 std_dev=0.018
N3 A 0, 0.008, 0.027, 0.047, 0.047 max_d=0.047 avg_d=0.027 std_dev=0.020
N7 A 0, 0.007, 0.041, 0.075, 0.083 max_d=0.083 avg_d=0.041 std_dev=0.034
C8 A 0, 0.006, 0.040, 0.074, 0.083 max_d=0.083 avg_d=0.040 std_dev=0.034
N6 A 0, 0.013, 0.047, 0.082, 0.082 max_d=0.082 avg_d=0.047 std_dev=0.035
C6 B 0, 0.133, 0.466, 0.799, 0.759 max_d=0.759 avg_d=0.466 std_dev=0.333
C5 B 0, 0.119, 0.470, 0.822, 0.844 max_d=0.844 avg_d=0.470 std_dev=0.351
N7 B 0, 0.087, 0.453, 0.819, 0.895 max_d=0.895 avg_d=0.453 std_dev=0.366
O6 B 0, 0.112, 0.484, 0.856, 0.904 max_d=0.904 avg_d=0.484 std_dev=0.372
N1 B 0, 0.143, 0.554, 0.964, 0.984 max_d=0.984 avg_d=0.554 std_dev=0.411
C8 B 0, 0.012, 0.465, 0.918, 1.079 max_d=1.079 avg_d=0.465 std_dev=0.453
C4 B 0, 0.169, 0.624, 1.079, 1.073 max_d=1.073 avg_d=0.624 std_dev=0.455
N9 B 0, 0.130, 0.624, 1.118, 1.207 max_d=1.207 avg_d=0.624 std_dev=0.494
C2 B 0, 0.201, 0.725, 1.249, 1.220 max_d=1.220 avg_d=0.725 std_dev=0.524
N3 B 0, 0.229, 0.784, 1.338, 1.186 max_d=1.186 avg_d=0.784 std_dev=0.554
C1' B 0, 0.222, 0.839, 1.457, 1.468 max_d=1.468 avg_d=0.839 std_dev=0.618
N2 B 0, 0.223, 0.890, 1.556, 1.603 max_d=1.603 avg_d=0.890 std_dev=0.666
O4' A 0, 0.225, 1.176, 2.127, 2.329 max_d=2.329 avg_d=1.176 std_dev=0.951
C2' A 0, 0.261, 1.272, 2.283, 2.473 max_d=2.473 avg_d=1.272 std_dev=1.011
C4' A 0, 0.358, 1.694, 3.030, 3.265 max_d=3.265 avg_d=1.694 std_dev=1.336
C2' B 0, 0.596, 2.064, 3.531, 3.284 max_d=3.284 avg_d=2.064 std_dev=1.467
C3' A 0, 0.320, 1.834, 3.347, 3.707 max_d=3.707 avg_d=1.834 std_dev=1.514
O2' A 0, 0.436, 1.966, 3.496, 3.732 max_d=3.732 avg_d=1.966 std_dev=1.530
O2' B 0, 0.574, 2.160, 3.747, 3.766 max_d=3.766 avg_d=2.160 std_dev=1.587
O4' B 0, 0.707, 2.443, 4.180, 3.883 max_d=3.883 avg_d=2.443 std_dev=1.737
O3' A 0, 0.425, 2.287, 4.149, 4.561 max_d=4.561 avg_d=2.287 std_dev=1.862
C3' B 0, 0.972, 3.321, 5.669, 5.044 max_d=5.044 avg_d=3.321 std_dev=2.349
C4' B 0, 0.991, 3.421, 5.850, 5.408 max_d=5.408 avg_d=3.421 std_dev=2.429
C5' A 0, 0.394, 2.881, 5.368, 6.068 max_d=6.068 avg_d=2.881 std_dev=2.487
O3' B 0, 1.062, 3.647, 6.232, 5.682 max_d=5.682 avg_d=3.647 std_dev=2.585
O5' A 0, 0.510, 3.221, 5.931, 6.631 max_d=6.631 avg_d=3.221 std_dev=2.711
C5' B 0, 1.506, 5.143, 8.779, 7.718 max_d=7.718 avg_d=5.143 std_dev=3.636
O5' B 0, 1.509, 5.281, 9.054, 8.578 max_d=8.578 avg_d=5.281 std_dev=3.773
OP2 A 0, 0.716, 4.567, 8.419, 9.422 max_d=9.422 avg_d=4.567 std_dev=3.852
P A 0, 0.629, 4.516, 8.403, 9.489 max_d=9.489 avg_d=4.516 std_dev=3.887
P B 0, 1.361, 5.696, 10.031, 10.508 max_d=10.508 avg_d=5.696 std_dev=4.335
OP1 B 0, 1.694, 6.205, 10.715, 10.589 max_d=10.589 avg_d=6.205 std_dev=4.510
OP1 A 0, 0.374, 5.037, 9.700, 11.242 max_d=11.242 avg_d=5.037 std_dev=4.663
OP2 B 0, 0.880, 5.660, 10.441, 11.692 max_d=11.692 avg_d=5.660 std_dev=4.781

Atoms distances (summary)

atom dist matrix

Atoms distances Chain-A - Chain-A

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.03 0.00 0.01 0.02 0.01 0.02 0.04 0.03 0.00 0.03 0.03 0.03 0.01 0.00 0.00 0.17 0.00 0.17 0.05 0.26 0.18
C2 0.03 0.00 0.28 0.32 0.01 0.80 0.01 1.42 0.01 0.01 0.00 0.00 0.02 0.01 0.02 0.45 0.19 0.75 1.17 2.16 1.41 1.50
C2' 0.00 0.28 0.00 0.00 0.15 0.03 0.08 0.11 0.14 0.12 0.22 0.28 0.10 0.06 0.01 0.00 0.02 0.02 0.21 0.16 0.35 0.20
C3' 0.01 0.32 0.00 0.00 0.12 0.00 0.20 0.02 0.15 0.42 0.19 0.34 0.20 0.39 0.17 0.01 0.01 0.01 0.26 0.07 0.36 0.19
C4 0.02 0.01 0.15 0.12 0.00 0.33 0.00 0.57 0.01 0.01 0.01 0.01 0.02 0.01 0.01 0.25 0.03 0.39 0.20 0.78 0.48 0.34
C4' 0.01 0.80 0.03 0.00 0.33 0.00 0.09 0.01 0.27 0.48 0.58 0.79 0.14 0.33 0.07 0.22 0.02 0.01 0.03 0.01 0.07 0.03
C5 0.02 0.01 0.08 0.20 0.00 0.09 0.00 0.19 0.01 0.01 0.00 0.01 0.02 0.00 0.01 0.21 0.16 0.17 0.35 0.30 0.78 0.38
C5' 0.04 1.42 0.11 0.02 0.57 0.01 0.19 0.00 0.52 0.71 1.06 1.33 0.29 0.49 0.04 0.11 0.12 0.02 0.00 0.02 0.06 0.01
C6 0.03 0.01 0.14 0.15 0.01 0.27 0.01 0.52 0.00 0.01 0.00 0.01 0.01 0.01 0.02 0.28 0.14 0.34 0.11 0.84 0.63 0.30
C8 0.00 0.01 0.12 0.42 0.01 0.48 0.01 0.71 0.01 0.00 0.01 0.01 0.02 0.00 0.00 0.25 0.28 0.36 1.30 0.90 1.59 1.38
N1 0.03 0.00 0.22 0.19 0.01 0.58 0.00 1.06 0.00 0.01 0.00 0.00 0.01 0.01 0.02 0.38 0.10 0.57 0.70 1.70 0.95 1.00
N3 0.03 0.00 0.28 0.34 0.01 0.79 0.01 1.33 0.01 0.01 0.00 0.00 0.02 0.01 0.02 0.42 0.22 0.76 1.07 1.81 1.20 1.29
N6 0.03 0.02 0.10 0.20 0.02 0.14 0.02 0.29 0.01 0.02 0.01 0.02 0.00 0.01 0.03 0.26 0.22 0.23 0.29 0.51 0.86 0.36
N7 0.01 0.01 0.06 0.39 0.01 0.33 0.00 0.49 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.22 0.31 0.18 1.14 0.68 1.62 1.27
N9 0.00 0.02 0.01 0.17 0.01 0.07 0.01 0.04 0.02 0.00 0.02 0.02 0.03 0.01 0.00 0.12 0.07 0.01 0.44 0.03 0.63 0.44
O2' 0.00 0.45 0.00 0.01 0.25 0.22 0.21 0.11 0.28 0.25 0.38 0.42 0.26 0.22 0.12 0.00 0.06 0.16 0.15 0.11 0.09 0.09
O3' 0.17 0.19 0.02 0.01 0.03 0.02 0.16 0.12 0.14 0.28 0.10 0.22 0.22 0.31 0.07 0.06 0.00 0.13 0.21 0.24 0.34 0.22
O4' 0.00 0.75 0.02 0.01 0.39 0.01 0.17 0.02 0.34 0.36 0.57 0.76 0.23 0.18 0.01 0.16 0.13 0.00 0.03 0.07 0.17 0.06
O5' 0.17 1.17 0.21 0.26 0.20 0.03 0.35 0.00 0.11 1.30 0.70 1.07 0.29 1.14 0.44 0.15 0.21 0.03 0.00 0.02 0.02 0.01
OP1 0.05 2.16 0.16 0.07 0.78 0.01 0.30 0.02 0.84 0.90 1.70 1.81 0.51 0.68 0.03 0.11 0.24 0.07 0.02 0.00 0.01 0.00
OP2 0.26 1.41 0.35 0.36 0.48 0.07 0.78 0.06 0.63 1.59 0.95 1.20 0.86 1.62 0.63 0.09 0.34 0.17 0.02 0.01 0.00 0.01
P 0.18 1.50 0.20 0.19 0.34 0.03 0.38 0.01 0.30 1.38 1.00 1.29 0.36 1.27 0.44 0.09 0.22 0.06 0.01 0.00 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.48 0.25 0.98 1.26 0.32 1.13 0.24 1.41 0.15 0.39 0.20 0.34 0.31 0.29 0.41 0.98 1.51 0.93 1.84 0.12 1.66 0.84 1.44
C2 0.38 0.28 0.79 0.84 0.28 0.88 0.24 1.15 0.16 0.39 0.22 0.36 0.27 0.32 0.36 0.83 0.96 0.80 1.33 0.12 1.14 0.54 0.83
C2' 0.67 0.66 1.06 1.58 0.61 1.45 0.48 1.77 0.42 0.50 0.50 0.76 0.71 0.43 0.61 0.86 1.88 1.18 2.19 0.32 1.95 1.28 1.77
C3' 1.42 0.92 2.01 2.56 1.06 2.33 0.78 2.61 0.54 1.00 0.60 0.97 1.18 0.78 1.18 1.86 2.97 1.83 3.03 0.31 2.70 2.02 2.53
C4 0.41 0.24 0.87 1.02 0.30 0.93 0.24 1.19 0.15 0.36 0.19 0.31 0.28 0.29 0.37 0.86 1.18 0.81 1.57 0.11 1.38 0.41 1.12
C4' 1.68 0.72 2.22 2.64 1.14 2.51 0.87 2.74 0.50 1.27 0.43 0.58 1.12 0.98 1.40 2.21 3.04 2.07 3.10 0.26 2.85 1.97 2.60
C5 0.34 0.20 0.73 0.83 0.28 0.77 0.22 1.01 0.13 0.31 0.15 0.21 0.25 0.25 0.32 0.71 0.94 0.69 1.44 0.08 1.24 0.28 1.00
C5' 2.55 1.07 3.09 3.51 1.71 3.44 1.33 3.61 0.79 1.93 0.66 0.83 1.65 1.51 2.11 3.19 3.97 2.95 3.90 0.44 3.64 2.61 3.34
C6 0.26 0.15 0.58 0.60 0.23 0.62 0.21 0.87 0.12 0.28 0.13 0.15 0.18 0.25 0.27 0.58 0.69 0.57 1.22 0.07 0.99 0.44 0.74
C8 0.40 0.22 0.83 1.02 0.29 0.90 0.22 1.16 0.12 0.31 0.15 0.24 0.30 0.24 0.35 0.80 1.18 0.78 1.70 0.08 1.51 0.63 1.33
N1 0.27 0.20 0.59 0.60 0.23 0.67 0.22 0.96 0.14 0.34 0.17 0.25 0.19 0.30 0.30 0.62 0.68 0.62 1.20 0.10 0.94 0.69 0.70
N3 0.43 0.29 0.92 1.05 0.30 0.99 0.24 1.26 0.16 0.39 0.23 0.39 0.29 0.31 0.39 0.94 1.22 0.86 1.50 0.12 1.33 0.40 1.02
N6 0.17 0.10 0.41 0.39 0.16 0.44 0.16 0.69 0.11 0.19 0.08 0.08 0.13 0.18 0.18 0.43 0.45 0.42 1.04 0.07 0.78 0.61 0.57
N7 0.34 0.21 0.72 0.85 0.27 0.77 0.21 1.00 0.12 0.28 0.14 0.21 0.28 0.22 0.31 0.69 0.98 0.68 1.53 0.06 1.34 0.39 1.15
N9 0.44 0.23 0.91 1.12 0.31 1.00 0.23 1.27 0.14 0.36 0.18 0.30 0.30 0.28 0.38 0.89 1.31 0.85 1.72 0.10 1.53 0.64 1.32
O2' 0.53 0.78 0.70 1.24 0.64 1.16 0.60 1.50 0.63 0.52 0.71 0.91 0.73 0.53 0.57 0.49 1.54 1.04 1.89 0.59 1.69 1.11 1.51
O3' 1.47 1.07 2.14 2.80 1.11 2.50 0.82 2.84 0.61 0.99 0.73 1.19 1.28 0.77 1.21 1.98 3.31 1.88 3.26 0.36 2.86 2.37 2.75
O4' 1.21 0.32 1.68 1.94 0.77 1.84 0.60 2.08 0.28 0.98 0.15 0.21 0.66 0.76 1.02 1.72 2.22 1.55 2.47 0.11 2.29 1.35 2.03
O5' 2.20 0.42 2.74 3.04 1.17 3.04 0.75 3.18 0.14 1.50 0.10 0.21 1.07 1.00 1.67 3.07 3.54 2.56 3.40 0.25 3.15 1.99 2.81
OP1 3.89 1.42 4.37 4.70 2.48 4.83 1.97 4.90 1.16 2.99 0.91 1.01 2.28 2.33 3.18 4.85 5.21 4.29 5.01 0.68 4.84 3.50 4.40
OP2 2.51 0.56 2.95 3.20 1.23 3.40 0.79 3.57 0.56 1.68 0.67 0.56 1.09 1.06 1.85 3.49 3.70 2.93 3.70 0.86 3.44 2.24 3.10
P 2.81 0.57 3.31 3.61 1.50 3.73 1.01 3.86 0.27 1.96 0.17 0.29 1.35 1.33 2.14 3.79 4.16 3.22 4.01 0.28 3.79 2.53 3.40

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N2N3N7N9O2'O3'O4'O5'O6OP1OP2P
C1' 0.00 0.02 0.00 0.01 0.01 0.01 0.00 0.04 0.01 0.02 0.02 0.02 0.02 0.01 0.00 0.02 0.08 0.00 0.19 0.00 0.48 0.85 0.10
C2 0.02 0.00 0.44 0.56 0.02 0.35 0.01 0.54 0.01 0.02 0.00 0.00 0.00 0.02 0.02 0.42 0.50 0.38 1.37 0.01 1.58 0.77 1.41
C2' 0.00 0.44 0.00 0.01 0.22 0.01 0.10 0.09 0.18 0.26 0.33 0.53 0.44 0.16 0.05 0.00 0.03 0.02 0.41 0.13 0.77 0.73 0.41
C3' 0.01 0.56 0.01 0.00 0.29 0.00 0.27 0.02 0.32 0.33 0.44 0.70 0.53 0.31 0.17 0.01 0.02 0.01 0.40 0.31 0.83 0.41 0.40
C4 0.01 0.02 0.22 0.29 0.00 0.10 0.00 0.11 0.00 0.00 0.01 0.01 0.01 0.01 0.00 0.13 0.23 0.20 0.69 0.00 0.96 0.42 0.58
C4' 0.01 0.35 0.01 0.00 0.10 0.00 0.06 0.00 0.05 0.31 0.21 0.48 0.34 0.26 0.08 0.16 0.03 0.01 0.01 0.06 0.43 0.52 0.11
C5 0.00 0.01 0.10 0.27 0.00 0.06 0.00 0.13 0.00 0.00 0.01 0.01 0.01 0.00 0.00 0.08 0.25 0.10 0.47 0.00 0.77 0.72 0.36
C5' 0.04 0.54 0.09 0.02 0.11 0.00 0.13 0.00 0.03 0.54 0.32 0.77 0.50 0.47 0.16 0.07 0.12 0.02 0.01 0.10 0.36 0.34 0.00
C6 0.01 0.01 0.18 0.32 0.00 0.05 0.00 0.03 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.09 0.32 0.17 0.72 0.00 1.05 0.38 0.71
C8 0.02 0.02 0.26 0.33 0.00 0.31 0.00 0.54 0.01 0.00 0.01 0.02 0.01 0.00 0.00 0.38 0.31 0.19 0.40 0.00 0.08 1.68 0.60
N1 0.02 0.00 0.33 0.44 0.01 0.21 0.01 0.32 0.00 0.01 0.00 0.00 0.00 0.01 0.02 0.26 0.42 0.30 1.13 0.01 1.43 0.51 1.20
N2 0.02 0.00 0.53 0.70 0.01 0.48 0.01 0.77 0.01 0.02 0.00 0.00 0.00 0.02 0.02 0.58 0.65 0.45 1.69 0.01 1.84 1.27 1.77
N3 0.02 0.00 0.44 0.53 0.01 0.34 0.01 0.50 0.01 0.01 0.00 0.00 0.00 0.01 0.01 0.42 0.44 0.37 1.22 0.01 1.39 0.49 1.16
N7 0.01 0.02 0.16 0.31 0.01 0.26 0.00 0.47 0.01 0.00 0.01 0.02 0.01 0.00 0.00 0.31 0.30 0.09 0.27 0.00 0.26 1.45 0.35
N9 0.00 0.02 0.05 0.17 0.00 0.08 0.00 0.16 0.01 0.00 0.02 0.02 0.01 0.00 0.00 0.10 0.14 0.02 0.25 0.00 0.50 0.97 0.08
O2' 0.02 0.42 0.00 0.01 0.13 0.16 0.08 0.07 0.09 0.38 0.26 0.58 0.42 0.31 0.10 0.00 0.03 0.12 0.19 0.09 0.69 0.82 0.39
O3' 0.08 0.50 0.03 0.02 0.23 0.03 0.25 0.12 0.32 0.31 0.42 0.65 0.44 0.30 0.14 0.03 0.00 0.06 0.28 0.33 0.82 0.26 0.34
O4' 0.00 0.38 0.02 0.01 0.20 0.01 0.10 0.02 0.17 0.19 0.30 0.45 0.37 0.09 0.02 0.12 0.06 0.00 0.03 0.13 0.43 0.88 0.30
O5' 0.19 1.37 0.41 0.40 0.69 0.01 0.47 0.01 0.72 0.40 1.13 1.69 1.22 0.27 0.25 0.19 0.28 0.03 0.00 0.59 0.01 0.02 0.01
O6 0.00 0.01 0.13 0.31 0.00 0.06 0.00 0.10 0.00 0.00 0.01 0.01 0.01 0.00 0.00 0.09 0.33 0.13 0.59 0.00 0.94 0.49 0.59
OP1 0.48 1.58 0.77 0.83 0.96 0.43 0.77 0.36 1.05 0.08 1.43 1.84 1.39 0.26 0.50 0.69 0.82 0.43 0.01 0.94 0.00 0.01 0.00
OP2 0.85 0.77 0.73 0.41 0.42 0.52 0.72 0.34 0.38 1.68 0.51 1.27 0.49 1.45 0.97 0.82 0.26 0.88 0.02 0.49 0.01 0.00 0.00
P 0.10 1.41 0.41 0.40 0.58 0.11 0.36 0.00 0.71 0.60 1.20 1.77 1.16 0.35 0.08 0.39 0.34 0.30 0.01 0.59 0.00 0.00 0.00