ClaRNA

Doublet Group distance statistics: 55057

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Distances from reference structure (by RMSD)

1, 0, 0, 0, 0, 0, 0, 0, 2, 0, 0, 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, 0.004, 0.015, 0.026, 0.023 max_d=0.023 avg_d=0.015 std_dev=0.011
C6 A 0, 0.007, 0.024, 0.041, 0.036 max_d=0.036 avg_d=0.024 std_dev=0.017
C1' A 0, 0.009, 0.030, 0.052, 0.045 max_d=0.045 avg_d=0.030 std_dev=0.021
N3 A 0, 0.012, 0.040, 0.069, 0.061 max_d=0.061 avg_d=0.040 std_dev=0.029
N1 A 0, 0.012, 0.042, 0.071, 0.063 max_d=0.063 avg_d=0.042 std_dev=0.030
C5 A 0, 0.013, 0.043, 0.074, 0.065 max_d=0.065 avg_d=0.043 std_dev=0.030
C4 A 0, 0.018, 0.060, 0.102, 0.091 max_d=0.091 avg_d=0.060 std_dev=0.042
N9 A 0, 0.019, 0.066, 0.113, 0.100 max_d=0.100 avg_d=0.066 std_dev=0.047
N6 A 0, 0.024, 0.084, 0.143, 0.127 max_d=0.127 avg_d=0.084 std_dev=0.059
N7 A 0, 0.025, 0.085, 0.145, 0.129 max_d=0.129 avg_d=0.085 std_dev=0.060
C8 A 0, 0.032, 0.110, 0.189, 0.167 max_d=0.167 avg_d=0.110 std_dev=0.078
P B 0, 0.114, 0.390, 0.665, 0.585 max_d=0.585 avg_d=0.390 std_dev=0.275
OP2 B 0, 0.119, 0.406, 0.693, 0.610 max_d=0.610 avg_d=0.406 std_dev=0.287
OP1 B 0, 0.249, 0.852, 1.454, 1.278 max_d=1.278 avg_d=0.852 std_dev=0.602
C2' A 0, 0.260, 0.886, 1.513, 1.330 max_d=1.330 avg_d=0.886 std_dev=0.627
O4' A 0, 0.280, 0.955, 1.631, 1.433 max_d=1.433 avg_d=0.955 std_dev=0.675
OP1 A 0, 0.338, 1.154, 1.970, 1.741 max_d=1.741 avg_d=1.154 std_dev=0.816
C4' A 0, 0.391, 1.335, 2.280, 2.006 max_d=2.006 avg_d=1.335 std_dev=0.944
O2' A 0, 0.453, 1.545, 2.638, 2.321 max_d=2.321 avg_d=1.545 std_dev=1.093
C3' A 0, 0.458, 1.565, 2.671, 2.348 max_d=2.348 avg_d=1.565 std_dev=1.107
O5' B 0, 0.601, 2.051, 3.502, 3.078 max_d=3.078 avg_d=2.051 std_dev=1.450
O3' A 0, 0.676, 2.309, 3.941, 3.470 max_d=3.470 avg_d=2.309 std_dev=1.633
O5' A 0, 0.754, 2.575, 4.396, 3.872 max_d=3.872 avg_d=2.575 std_dev=1.821
C5' A 0, 0.757, 2.585, 4.413, 3.884 max_d=3.884 avg_d=2.585 std_dev=1.828
P A 0, 0.759, 2.593, 4.426, 3.897 max_d=3.897 avg_d=2.593 std_dev=1.833
C5' B 0, 0.914, 3.122, 5.329, 4.685 max_d=4.685 avg_d=3.122 std_dev=2.207
OP2 A 0, 1.069, 3.649, 6.229, 5.478 max_d=5.478 avg_d=3.649 std_dev=2.580
C5 B 0, 1.272, 4.344, 7.416, 6.519 max_d=6.519 avg_d=4.344 std_dev=3.072
C6 B 0, 1.294, 4.416, 7.539, 6.627 max_d=6.627 avg_d=4.416 std_dev=3.123
O4' B 0, 1.313, 4.481, 7.650, 6.727 max_d=6.727 avg_d=4.481 std_dev=3.169
C4' B 0, 1.316, 4.492, 7.668, 6.743 max_d=6.743 avg_d=4.492 std_dev=3.176
N4 B 0, 1.634, 5.579, 9.524, 8.379 max_d=8.379 avg_d=5.579 std_dev=3.945
C4 B 0, 1.640, 5.600, 9.560, 8.408 max_d=8.408 avg_d=5.600 std_dev=3.960
N1 B 0, 1.671, 5.705, 9.739, 8.565 max_d=8.565 avg_d=5.705 std_dev=4.034
C3' B 0, 1.689, 5.766, 9.843, 8.656 max_d=8.656 avg_d=5.766 std_dev=4.077
C1' B 0, 1.713, 5.848, 9.982, 8.780 max_d=8.780 avg_d=5.848 std_dev=4.135
O3' B 0, 1.949, 6.654, 11.360, 9.989 max_d=9.989 avg_d=6.654 std_dev=4.705
C2' B 0, 1.967, 6.716, 11.464, 10.084 max_d=10.084 avg_d=6.716 std_dev=4.749
N3 B 0, 2.016, 6.882, 11.748, 10.335 max_d=10.335 avg_d=6.882 std_dev=4.866
C2 B 0, 2.047, 6.989, 11.930, 10.494 max_d=10.494 avg_d=6.989 std_dev=4.942
O2' B 0, 2.267, 7.739, 13.212, 11.626 max_d=11.626 avg_d=7.739 std_dev=5.473
O2 B 0, 2.405, 8.210, 14.015, 12.330 max_d=12.330 avg_d=8.210 std_dev=5.805

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 0.01 0.00 0.00 0.01 0.00 0.00 0.02 0.00 0.00 0.01 0.01 0.00 0.00 0.00 0.02 0.19 0.00 0.17 0.19 0.34 0.04
C2 0.01 0.00 0.22 0.09 0.00 0.11 0.00 0.20 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.48 0.38 0.20 0.56 0.13 0.98 0.40
C2' 0.00 0.22 0.00 0.00 0.12 0.01 0.08 0.12 0.13 0.08 0.19 0.21 0.11 0.02 0.02 0.00 0.04 0.00 0.09 0.00 0.27 0.03
C3' 0.00 0.09 0.00 0.00 0.03 0.00 0.12 0.00 0.08 0.27 0.02 0.10 0.12 0.24 0.11 0.01 0.00 0.00 0.15 0.34 0.31 0.21
C4 0.01 0.00 0.12 0.03 0.00 0.09 0.00 0.14 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.31 0.20 0.11 0.46 0.16 0.83 0.31
C4' 0.00 0.11 0.01 0.00 0.09 0.00 0.11 0.00 0.13 0.07 0.13 0.08 0.14 0.10 0.06 0.14 0.00 0.00 0.00 0.02 0.05 0.01
C5 0.00 0.00 0.08 0.12 0.00 0.11 0.00 0.18 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.27 0.06 0.07 0.52 0.15 0.99 0.39
C5' 0.02 0.20 0.12 0.00 0.14 0.00 0.18 0.00 0.22 0.06 0.22 0.15 0.24 0.14 0.07 0.01 0.12 0.01 0.00 0.10 0.03 0.00
C6 0.00 0.00 0.13 0.08 0.00 0.13 0.00 0.22 0.00 0.01 0.00 0.00 0.00 0.01 0.00 0.37 0.13 0.12 0.59 0.12 1.12 0.46
C8 0.00 0.00 0.08 0.27 0.00 0.07 0.00 0.06 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.03 0.16 0.10 0.30 0.23 0.63 0.17
N1 0.01 0.00 0.19 0.02 0.00 0.13 0.00 0.22 0.00 0.01 0.00 0.00 0.01 0.01 0.00 0.45 0.28 0.17 0.60 0.11 1.10 0.46
N3 0.01 0.00 0.21 0.10 0.00 0.08 0.00 0.15 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.44 0.39 0.18 0.48 0.15 0.83 0.32
N6 0.00 0.01 0.11 0.12 0.01 0.14 0.01 0.24 0.00 0.01 0.01 0.01 0.00 0.01 0.01 0.35 0.06 0.09 0.61 0.09 1.19 0.51
N7 0.00 0.00 0.02 0.24 0.00 0.10 0.00 0.14 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.13 0.13 0.03 0.43 0.17 0.90 0.32
N9 0.00 0.00 0.02 0.11 0.00 0.06 0.00 0.07 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.12 0.07 0.01 0.33 0.19 0.60 0.18
O2' 0.02 0.48 0.00 0.01 0.31 0.14 0.27 0.01 0.37 0.03 0.45 0.44 0.35 0.13 0.12 0.00 0.07 0.13 0.16 0.01 0.29 0.06
O3' 0.19 0.38 0.04 0.00 0.20 0.00 0.06 0.12 0.13 0.16 0.28 0.39 0.06 0.13 0.07 0.07 0.00 0.13 0.14 0.48 0.29 0.28
O4' 0.00 0.20 0.00 0.00 0.11 0.00 0.07 0.01 0.12 0.10 0.17 0.18 0.09 0.03 0.01 0.13 0.13 0.00 0.06 0.31 0.11 0.09
O5' 0.17 0.56 0.09 0.15 0.46 0.00 0.52 0.00 0.59 0.30 0.60 0.48 0.61 0.43 0.33 0.16 0.14 0.06 0.00 0.01 0.00 0.00
OP1 0.19 0.13 0.00 0.34 0.16 0.02 0.15 0.10 0.12 0.23 0.11 0.15 0.09 0.17 0.19 0.01 0.48 0.31 0.01 0.00 0.00 0.00
OP2 0.34 0.98 0.27 0.31 0.83 0.05 0.99 0.03 1.12 0.63 1.10 0.83 1.19 0.90 0.60 0.29 0.29 0.11 0.00 0.00 0.00 0.00
P 0.04 0.40 0.03 0.21 0.31 0.01 0.39 0.00 0.46 0.17 0.46 0.32 0.51 0.32 0.18 0.06 0.28 0.09 0.00 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 1.21 1.55 1.21 0.92 1.50 0.81 1.16 0.48 1.09 1.29 1.66 1.60 1.65 1.31 0.90 0.97 0.37 0.10 0.00 0.03
C2 1.60 1.91 1.53 1.21 1.62 1.11 1.34 0.70 1.38 1.68 1.88 1.49 2.01 1.62 1.17 1.33 0.54 0.12 0.02 0.07
C2' 1.10 1.47 1.08 0.76 1.41 0.67 1.06 0.32 0.98 1.19 1.58 1.52 1.59 1.20 0.73 0.86 0.23 0.29 0.14 0.11
C3' 1.25 1.59 1.26 0.97 1.58 0.86 1.28 0.54 1.18 1.35 1.71 1.73 1.67 1.35 0.94 1.02 0.42 0.04 0.11 0.11
C4 1.18 1.47 1.14 0.87 1.39 0.79 1.13 0.47 1.08 1.27 1.53 1.38 1.53 1.21 0.83 0.97 0.37 0.11 0.01 0.03
C4' 1.32 1.64 1.36 1.09 1.63 0.95 1.32 0.63 1.24 1.40 1.75 1.77 1.72 1.46 1.08 1.08 0.50 0.07 0.16 0.19
C5 0.88 1.04 0.83 0.62 0.98 0.59 0.84 0.33 0.82 0.93 1.06 0.93 1.08 0.87 0.57 0.75 0.28 0.10 0.02 0.01
C5' 1.34 1.59 1.40 1.15 1.61 1.02 1.37 0.72 1.29 1.41 1.69 1.74 1.64 1.47 1.13 1.13 0.60 0.21 0.29 0.31
C6 0.94 1.05 0.87 0.68 0.92 0.65 0.82 0.39 0.86 0.98 1.02 0.82 1.08 0.90 0.62 0.83 0.33 0.10 0.01 0.03
C8 0.70 0.85 0.66 0.47 0.83 0.45 0.68 0.23 0.64 0.74 0.89 0.85 0.89 0.72 0.43 0.59 0.20 0.10 0.04 0.01
N1 1.36 1.52 1.27 1.02 1.27 0.96 1.10 0.61 1.19 1.40 1.45 1.12 1.58 1.31 0.96 1.18 0.49 0.11 0.02 0.06
N3 1.51 1.89 1.46 1.14 1.70 1.03 1.35 0.64 1.34 1.61 1.94 1.64 1.99 1.57 1.11 1.23 0.49 0.11 0.01 0.05
N6 0.57 0.57 0.51 0.38 0.44 0.40 0.40 0.22 0.48 0.55 0.52 0.36 0.60 0.52 0.32 0.54 0.20 0.09 0.02 0.01
N7 0.55 0.64 0.51 0.35 0.60 0.35 0.51 0.16 0.50 0.58 0.65 0.58 0.67 0.55 0.30 0.49 0.16 0.10 0.04 0.01
N9 1.04 1.31 1.01 0.76 1.28 0.69 1.02 0.40 0.96 1.11 1.39 1.33 1.37 1.09 0.73 0.85 0.31 0.11 0.02 0.02
O2' 1.06 1.53 1.04 0.67 1.43 0.55 0.99 0.14 0.90 1.17 1.66 1.57 1.69 1.19 0.64 0.75 0.02 0.59 0.41 0.38
O3' 1.06 1.44 1.10 0.81 1.46 0.66 1.14 0.34 1.02 1.18 1.59 1.64 1.53 1.19 0.79 0.81 0.20 0.25 0.08 0.11
O4' 1.31 1.64 1.35 1.08 1.62 0.94 1.29 0.62 1.21 1.39 1.76 1.75 1.72 1.45 1.07 1.07 0.49 0.06 0.12 0.16
O5' 1.46 1.59 1.51 1.33 1.63 1.23 1.50 1.00 1.45 1.51 1.64 1.69 1.60 1.56 1.31 1.32 0.90 0.61 0.65 0.67
OP1 0.32 0.35 0.34 0.22 0.37 0.19 0.35 0.05 0.33 0.33 0.36 0.39 0.35 0.37 0.19 0.27 0.03 0.11 0.08 0.08
OP2 1.50 1.36 1.51 1.46 1.34 1.47 1.49 1.37 1.52 1.47 1.28 1.21 1.31 1.52 1.43 1.52 1.35 1.23 1.25 1.25
P 1.07 1.09 1.11 0.98 1.10 0.94 1.11 0.77 1.08 1.09 1.08 1.10 1.07 1.13 0.95 1.01 0.72 0.53 0.56 0.57

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6N1N3N4O2O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.00 0.00 0.01 0.00 0.01 0.00 0.02 0.00 0.00 0.00 0.00 0.00 0.00 0.03 0.00 0.00 0.00 0.01 0.00
C2 0.00 0.00 0.03 0.09 0.00 0.03 0.00 0.09 0.00 0.00 0.00 0.00 0.00 0.04 0.04 0.00 0.04 0.06 0.08 0.06
C2' 0.00 0.03 0.00 0.00 0.03 0.00 0.01 0.02 0.00 0.01 0.03 0.03 0.04 0.00 0.03 0.00 0.01 0.00 0.01 0.01
C3' 0.01 0.09 0.00 0.00 0.12 0.00 0.11 0.02 0.09 0.07 0.11 0.14 0.06 0.01 0.00 0.00 0.01 0.00 0.03 0.02
C4 0.00 0.00 0.03 0.12 0.00 0.08 0.00 0.18 0.00 0.00 0.00 0.00 0.00 0.04 0.11 0.01 0.13 0.17 0.19 0.16
C4' 0.01 0.03 0.00 0.00 0.08 0.00 0.10 0.00 0.09 0.05 0.05 0.09 0.00 0.02 0.00 0.00 0.00 0.00 0.00 0.00
C5 0.00 0.00 0.01 0.11 0.00 0.10 0.00 0.20 0.00 0.00 0.00 0.00 0.00 0.02 0.12 0.02 0.17 0.20 0.21 0.20
C5' 0.02 0.09 0.02 0.02 0.18 0.00 0.20 0.00 0.17 0.10 0.13 0.20 0.04 0.02 0.04 0.00 0.00 0.01 0.03 0.01
C6 0.00 0.00 0.00 0.09 0.00 0.09 0.00 0.17 0.00 0.00 0.00 0.00 0.00 0.02 0.09 0.03 0.15 0.15 0.16 0.16
N1 0.00 0.00 0.01 0.07 0.00 0.05 0.00 0.10 0.00 0.00 0.00 0.00 0.00 0.02 0.04 0.01 0.07 0.07 0.08 0.07
N3 0.00 0.00 0.03 0.11 0.00 0.05 0.00 0.13 0.00 0.00 0.00 0.00 0.00 0.05 0.08 0.00 0.08 0.11 0.13 0.10
N4 0.00 0.00 0.03 0.14 0.00 0.09 0.00 0.20 0.00 0.00 0.00 0.00 0.01 0.04 0.13 0.01 0.14 0.20 0.21 0.19
O2 0.00 0.00 0.04 0.06 0.00 0.00 0.00 0.04 0.00 0.00 0.00 0.01 0.00 0.06 0.00 0.02 0.01 0.01 0.03 0.01
O2' 0.00 0.04 0.00 0.01 0.04 0.02 0.02 0.02 0.02 0.02 0.05 0.04 0.06 0.00 0.07 0.04 0.03 0.02 0.02 0.02
O3' 0.03 0.04 0.03 0.00 0.11 0.00 0.12 0.04 0.09 0.04 0.08 0.13 0.00 0.07 0.00 0.01 0.03 0.05 0.07 0.05
O4' 0.00 0.00 0.00 0.00 0.01 0.00 0.02 0.00 0.03 0.01 0.00 0.01 0.02 0.04 0.01 0.00 0.00 0.01 0.04 0.01
O5' 0.00 0.04 0.01 0.01 0.13 0.00 0.17 0.00 0.15 0.07 0.08 0.14 0.01 0.03 0.03 0.00 0.00 0.00 0.01 0.00
OP1 0.00 0.06 0.00 0.00 0.17 0.00 0.20 0.01 0.15 0.07 0.11 0.20 0.01 0.02 0.05 0.01 0.00 0.00 0.01 0.00
OP2 0.01 0.08 0.01 0.03 0.19 0.00 0.21 0.03 0.16 0.08 0.13 0.21 0.03 0.02 0.07 0.04 0.01 0.01 0.00 0.00
P 0.00 0.06 0.01 0.02 0.16 0.00 0.20 0.01 0.16 0.07 0.10 0.19 0.01 0.02 0.05 0.01 0.00 0.00 0.00 0.00