ClaRNA

Doublet Group distance statistics: 52270

back

Distances from reference structure (by RMSD)

1, 0, 0, 2, 1, 0, 0, 2, 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
N3 A 0, 0.002, 0.006, 0.009, 0.012 max_d=0.012 avg_d=0.006 std_dev=0.003
C2 A 0, 0.003, 0.010, 0.016, 0.021 max_d=0.021 avg_d=0.010 std_dev=0.006
C6 A 0, 0.002, 0.011, 0.019, 0.026 max_d=0.026 avg_d=0.011 std_dev=0.008
C4 A 0, 0.003, 0.011, 0.020, 0.026 max_d=0.026 avg_d=0.011 std_dev=0.009
C5 A 0, -0.001, 0.009, 0.019, 0.032 max_d=0.032 avg_d=0.009 std_dev=0.010
N1 A 0, -0.001, 0.011, 0.023, 0.036 max_d=0.036 avg_d=0.011 std_dev=0.012
C1' A 0, 0.001, 0.013, 0.026, 0.039 max_d=0.039 avg_d=0.013 std_dev=0.012
O2 A 0, 0.006, 0.024, 0.041, 0.052 max_d=0.052 avg_d=0.024 std_dev=0.018
N4 A 0, 0.012, 0.031, 0.050, 0.063 max_d=0.063 avg_d=0.031 std_dev=0.019
O4' A 0, 0.017, 0.130, 0.244, 0.353 max_d=0.353 avg_d=0.130 std_dev=0.113
C2' A 0, 0.043, 0.161, 0.280, 0.340 max_d=0.340 avg_d=0.161 std_dev=0.119
OP1 B 0, 0.131, 0.363, 0.594, 0.814 max_d=0.814 avg_d=0.363 std_dev=0.231
OP2 B 0, 0.286, 0.567, 0.849, 1.032 max_d=1.032 avg_d=0.567 std_dev=0.282
C4' A 0, 0.060, 0.393, 0.726, 0.935 max_d=0.935 avg_d=0.393 std_dev=0.333
P B 0, 0.192, 0.534, 0.877, 1.021 max_d=1.021 avg_d=0.534 std_dev=0.343
C5' A 0, 0.159, 0.558, 0.956, 1.078 max_d=1.078 avg_d=0.558 std_dev=0.398
O5' A 0, 0.170, 0.730, 1.291, 1.602 max_d=1.602 avg_d=0.730 std_dev=0.560
C3' A 0, -0.020, 0.558, 1.136, 1.527 max_d=1.527 avg_d=0.558 std_dev=0.578
O2' A 0, -0.145, 0.537, 1.219, 1.731 max_d=1.731 avg_d=0.537 std_dev=0.682
O3' A 0, -0.173, 1.009, 2.190, 3.037 max_d=3.037 avg_d=1.009 std_dev=1.182
O5' B 0, -0.055, 1.185, 2.425, 3.375 max_d=3.375 avg_d=1.185 std_dev=1.240
P A 0, 0.057, 1.350, 2.644, 3.578 max_d=3.578 avg_d=1.350 std_dev=1.293
C5' B 0, -0.182, 1.524, 3.229, 4.576 max_d=4.576 avg_d=1.524 std_dev=1.706
OP2 A 0, -0.036, 1.675, 3.387, 4.687 max_d=4.687 avg_d=1.675 std_dev=1.712
OP1 A 0, -0.374, 1.927, 4.229, 5.911 max_d=5.911 avg_d=1.927 std_dev=2.302
C2' B 0, -0.064, 2.548, 5.161, 7.129 max_d=7.129 avg_d=2.548 std_dev=2.612
C4' B 0, -0.465, 2.153, 4.771, 6.775 max_d=6.775 avg_d=2.153 std_dev=2.618
C3' B 0, -0.253, 2.367, 4.986, 6.989 max_d=6.989 avg_d=2.367 std_dev=2.620
O2' B 0, 0.015, 2.943, 5.871, 8.105 max_d=8.105 avg_d=2.943 std_dev=2.928
O4' B 0, -0.624, 2.652, 5.929, 8.395 max_d=8.395 avg_d=2.652 std_dev=3.276
C8 B 0, -0.230, 3.222, 6.674, 9.190 max_d=9.190 avg_d=3.222 std_dev=3.452
C1' B 0, -0.493, 2.985, 6.462, 9.076 max_d=9.076 avg_d=2.985 std_dev=3.478
O3' B 0, -0.560, 3.042, 6.644, 9.383 max_d=9.383 avg_d=3.042 std_dev=3.602
N9 B 0, -0.493, 3.312, 7.117, 9.945 max_d=9.945 avg_d=3.312 std_dev=3.805
N7 B 0, -0.430, 3.858, 8.145, 11.260 max_d=11.260 avg_d=3.858 std_dev=4.287
C4 B 0, -0.855, 3.992, 8.840, 12.449 max_d=12.449 avg_d=3.992 std_dev=4.847
C5 B 0, -0.792, 4.269, 9.329, 13.059 max_d=13.059 avg_d=4.269 std_dev=5.061
N3 B 0, -1.233, 4.438, 10.109, 14.359 max_d=14.359 avg_d=4.438 std_dev=5.671
C6 B 0, -1.137, 4.998, 11.132, 15.663 max_d=15.663 avg_d=4.998 std_dev=6.135
C2 B 0, -1.506, 5.051, 11.609, 16.510 max_d=16.510 avg_d=5.051 std_dev=6.558
N6 B 0, -1.163, 5.472, 12.108, 16.975 max_d=16.975 avg_d=5.472 std_dev=6.635
N1 B 0, -1.482, 5.324, 12.129, 17.188 max_d=17.188 avg_d=5.324 std_dev=6.805

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 0.02 0.02 0.03 0.02 0.07 0.02 0.01 0.01 0.02 0.02 0.01 0.29 0.01 0.19 0.31 0.19 0.09
C2 0.01 0.00 0.05 0.10 0.01 0.01 0.01 0.05 0.00 0.00 0.00 0.01 0.00 0.33 0.31 0.03 0.08 0.90 0.24 0.35
C2' 0.00 0.05 0.00 0.00 0.04 0.00 0.09 0.18 0.09 0.02 0.03 0.05 0.10 0.00 0.02 0.04 0.44 0.37 0.43 0.43
C3' 0.02 0.10 0.00 0.00 0.29 0.01 0.38 0.03 0.35 0.18 0.18 0.31 0.08 0.01 0.01 0.03 0.05 0.29 0.07 0.13
C4 0.02 0.01 0.04 0.29 0.00 0.13 0.00 0.19 0.00 0.01 0.00 0.00 0.01 0.46 0.05 0.01 0.25 1.50 0.25 0.64
C4' 0.03 0.01 0.00 0.01 0.13 0.00 0.19 0.01 0.19 0.07 0.06 0.14 0.10 0.27 0.02 0.00 0.05 0.14 0.36 0.05
C5 0.02 0.01 0.09 0.38 0.00 0.19 0.00 0.25 0.00 0.01 0.01 0.00 0.01 0.41 0.20 0.02 0.31 1.59 0.22 0.68
C5' 0.07 0.05 0.18 0.03 0.19 0.01 0.25 0.00 0.21 0.08 0.11 0.22 0.08 0.09 0.19 0.03 0.02 0.28 0.39 0.03
C6 0.02 0.00 0.09 0.35 0.00 0.19 0.00 0.21 0.00 0.01 0.00 0.01 0.01 0.32 0.18 0.03 0.22 1.23 0.21 0.52
N1 0.01 0.00 0.02 0.18 0.01 0.07 0.01 0.08 0.01 0.00 0.00 0.01 0.01 0.25 0.12 0.01 0.07 0.84 0.22 0.33
N3 0.01 0.00 0.03 0.18 0.00 0.06 0.01 0.11 0.00 0.00 0.00 0.01 0.01 0.42 0.20 0.02 0.15 1.22 0.26 0.51
N4 0.02 0.01 0.05 0.31 0.00 0.14 0.00 0.22 0.01 0.01 0.01 0.00 0.01 0.49 0.07 0.01 0.30 1.68 0.26 0.72
O2 0.02 0.00 0.10 0.08 0.01 0.10 0.01 0.08 0.01 0.01 0.01 0.01 0.00 0.25 0.57 0.05 0.12 0.63 0.23 0.22
O2' 0.01 0.33 0.00 0.01 0.46 0.27 0.41 0.09 0.32 0.25 0.42 0.49 0.25 0.00 0.05 0.18 0.30 0.46 0.34 0.37
O3' 0.29 0.31 0.02 0.01 0.05 0.02 0.20 0.19 0.18 0.12 0.20 0.07 0.57 0.05 0.00 0.12 0.21 0.23 0.21 0.09
O4' 0.01 0.03 0.04 0.03 0.01 0.00 0.02 0.03 0.03 0.01 0.02 0.01 0.05 0.18 0.12 0.00 0.13 0.35 0.45 0.19
O5' 0.19 0.08 0.44 0.05 0.25 0.05 0.31 0.02 0.22 0.07 0.15 0.30 0.12 0.30 0.21 0.13 0.00 0.02 0.02 0.00
OP1 0.31 0.90 0.37 0.29 1.50 0.14 1.59 0.28 1.23 0.84 1.22 1.68 0.63 0.46 0.23 0.35 0.02 0.00 0.01 0.00
OP2 0.19 0.24 0.43 0.07 0.25 0.36 0.22 0.39 0.21 0.22 0.26 0.26 0.23 0.34 0.21 0.45 0.02 0.01 0.00 0.01
P 0.09 0.35 0.43 0.13 0.64 0.05 0.68 0.03 0.52 0.33 0.51 0.72 0.22 0.37 0.09 0.19 0.00 0.00 0.01 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 2.42 3.61 1.52 1.35 2.91 1.77 2.64 0.99 2.93 1.91 3.40 3.43 2.71 2.03 2.45 1.53 1.84 2.51 0.76 0.12 0.18 0.22
C2 2.03 2.65 1.32 1.43 2.10 1.78 1.69 0.95 1.85 1.18 2.32 2.62 1.53 1.13 1.80 1.35 2.07 2.21 0.77 0.15 0.22 0.21
C2' 2.05 3.32 1.18 0.96 2.62 1.36 2.43 0.68 2.75 1.70 3.17 3.09 2.59 1.87 2.15 1.19 1.37 2.12 0.52 0.11 0.17 0.13
C3' 2.66 4.11 1.72 1.39 3.42 1.87 3.33 1.26 3.68 2.54 4.06 3.83 3.59 2.79 2.90 1.67 1.68 2.74 1.06 0.59 0.58 0.66
C4 1.53 1.75 0.95 1.19 1.40 1.57 1.02 0.86 1.09 0.70 1.45 1.79 0.80 0.58 1.24 0.92 1.73 1.80 0.72 0.16 0.22 0.21
C4' 2.83 4.52 1.80 1.41 3.72 1.91 3.62 1.25 4.03 2.72 4.46 4.18 3.94 3.02 3.12 1.76 1.70 2.87 0.98 0.35 0.36 0.49
C5 1.71 2.12 1.00 1.05 1.79 1.55 1.52 0.91 1.63 1.15 1.92 2.11 1.42 1.13 1.59 0.92 1.44 2.00 0.71 0.12 0.19 0.23
C5' 2.96 4.85 1.89 1.35 4.07 1.88 4.10 1.33 4.56 3.12 4.91 4.45 4.54 3.53 3.42 1.82 1.50 2.95 1.05 0.43 0.45 0.61
C6 2.06 2.80 1.23 1.14 2.35 1.64 2.11 0.96 2.28 1.60 2.61 2.72 2.09 1.65 2.04 1.16 1.53 2.29 0.73 0.12 0.19 0.24
N1 2.19 3.03 1.37 1.32 2.47 1.75 2.15 0.98 2.36 1.57 2.78 2.94 2.11 1.61 2.11 1.36 1.84 2.36 0.76 0.13 0.19 0.22
N3 1.72 2.04 1.12 1.37 1.60 1.68 1.15 0.89 1.25 0.77 1.68 2.08 0.90 0.64 1.39 1.14 2.02 1.94 0.75 0.17 0.24 0.21
N4 1.08 1.05 0.66 1.05 0.78 1.35 0.37 0.73 0.39 0.18 0.72 1.14 0.14 0.11 0.70 0.64 1.59 1.37 0.66 0.20 0.25 0.21
O2 2.12 2.83 1.41 1.53 2.21 1.82 1.75 0.96 1.94 1.20 2.46 2.78 1.59 1.15 1.87 1.48 2.23 2.26 0.78 0.16 0.24 0.21
O2' 1.83 3.21 1.00 0.79 2.40 1.09 2.16 0.34 2.51 1.37 3.01 2.95 2.32 1.54 1.89 1.10 1.29 1.83 0.16 0.39 0.38 0.35
O3' 2.63 4.21 1.67 1.34 3.45 1.82 3.37 1.21 3.78 2.53 4.18 3.87 3.71 2.81 2.89 1.62 1.64 2.69 0.96 0.51 0.43 0.55
O4' 2.72 4.17 1.71 1.41 3.41 1.88 3.20 1.14 3.55 2.37 4.01 3.92 3.37 2.58 2.87 1.69 1.81 2.77 0.85 0.13 0.17 0.29
O5' 2.80 4.42 1.79 1.24 3.84 1.78 3.92 1.32 4.29 3.09 4.52 4.08 4.30 3.47 3.29 1.68 1.30 2.83 1.08 0.54 0.58 0.71
OP1 4.14 5.18 3.26 2.64 4.98 3.17 5.10 2.87 5.28 4.60 5.32 4.98 5.29 4.86 4.65 3.06 2.46 4.20 2.68 2.08 2.25 2.35
OP2 2.99 4.90 2.01 1.22 4.30 1.56 4.38 1.06 4.76 3.39 5.00 4.55 4.72 3.84 3.62 2.01 1.19 2.74 0.87 0.27 0.44 0.48
P 3.34 4.92 2.36 1.67 4.49 2.16 4.65 1.78 4.96 3.86 5.09 4.61 4.99 4.26 3.96 2.23 1.57 3.29 1.56 0.95 1.09 1.20

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 0.01 0.01 0.02 0.01 0.02 0.01 0.02 0.01 0.01 0.00 0.01 0.03 0.01 0.52 0.20 0.77 0.47
C2 0.02 0.00 0.10 0.06 0.01 0.04 0.01 0.07 0.00 0.01 0.00 0.00 0.00 0.01 0.00 0.20 0.08 0.08 0.76 0.29 1.34 0.79
C2' 0.00 0.10 0.00 0.00 0.05 0.01 0.03 0.03 0.06 0.06 0.08 0.10 0.05 0.04 0.01 0.00 0.02 0.00 0.43 0.47 0.76 0.51
C3' 0.01 0.06 0.00 0.00 0.02 0.00 0.02 0.01 0.03 0.06 0.04 0.06 0.03 0.05 0.01 0.01 0.01 0.01 0.05 0.18 0.08 0.06
C4 0.01 0.01 0.05 0.02 0.00 0.03 0.00 0.07 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.10 0.04 0.05 0.81 0.37 1.39 0.85
C4' 0.01 0.04 0.01 0.00 0.03 0.00 0.05 0.01 0.05 0.06 0.05 0.04 0.07 0.06 0.03 0.01 0.01 0.00 0.01 0.18 0.06 0.08
C5 0.01 0.01 0.03 0.02 0.00 0.05 0.00 0.10 0.00 0.00 0.01 0.01 0.01 0.00 0.00 0.07 0.03 0.05 0.97 0.55 1.75 1.08
C5' 0.02 0.07 0.03 0.01 0.07 0.01 0.10 0.00 0.11 0.10 0.10 0.05 0.14 0.12 0.06 0.02 0.03 0.02 0.01 0.03 0.01 0.01
C6 0.01 0.00 0.06 0.03 0.01 0.05 0.00 0.11 0.00 0.01 0.00 0.00 0.00 0.01 0.01 0.12 0.04 0.06 0.97 0.55 1.82 1.11
C8 0.02 0.01 0.06 0.06 0.00 0.06 0.00 0.10 0.01 0.00 0.01 0.00 0.01 0.00 0.00 0.07 0.05 0.03 1.00 0.63 1.71 1.09
N1 0.01 0.00 0.08 0.04 0.01 0.05 0.01 0.10 0.00 0.01 0.00 0.01 0.01 0.01 0.01 0.17 0.06 0.08 0.88 0.42 1.62 0.98
N3 0.02 0.00 0.10 0.06 0.00 0.04 0.01 0.05 0.00 0.00 0.01 0.00 0.00 0.01 0.00 0.18 0.07 0.07 0.68 0.23 1.16 0.69
N6 0.01 0.00 0.05 0.03 0.01 0.07 0.01 0.14 0.00 0.01 0.01 0.00 0.00 0.01 0.01 0.10 0.04 0.06 1.05 0.67 2.04 1.25
N7 0.01 0.01 0.04 0.05 0.00 0.06 0.00 0.12 0.01 0.00 0.01 0.01 0.01 0.00 0.01 0.04 0.04 0.03 1.06 0.70 1.96 1.23
N9 0.00 0.00 0.01 0.01 0.00 0.03 0.00 0.06 0.01 0.00 0.01 0.00 0.01 0.01 0.00 0.02 0.03 0.02 0.79 0.39 1.28 0.80
O2' 0.01 0.20 0.00 0.01 0.10 0.01 0.07 0.02 0.12 0.07 0.17 0.18 0.10 0.04 0.02 0.00 0.04 0.01 0.38 0.54 0.80 0.53
O3' 0.03 0.08 0.02 0.01 0.04 0.01 0.03 0.03 0.04 0.05 0.06 0.07 0.04 0.04 0.03 0.04 0.00 0.02 0.19 0.10 0.28 0.19
O4' 0.01 0.08 0.00 0.01 0.05 0.00 0.05 0.02 0.06 0.03 0.08 0.07 0.06 0.03 0.02 0.01 0.02 0.00 0.36 0.20 0.41 0.22
O5' 0.52 0.76 0.43 0.05 0.81 0.01 0.97 0.01 0.97 1.00 0.88 0.68 1.05 1.06 0.79 0.38 0.19 0.36 0.00 0.01 0.01 0.01
OP1 0.20 0.29 0.47 0.18 0.37 0.18 0.55 0.03 0.55 0.63 0.42 0.23 0.67 0.70 0.39 0.54 0.10 0.20 0.01 0.00 0.01 0.00
OP2 0.77 1.34 0.76 0.08 1.39 0.06 1.75 0.01 1.82 1.71 1.62 1.16 2.04 1.96 1.28 0.80 0.28 0.41 0.01 0.01 0.00 0.00
P 0.47 0.79 0.51 0.06 0.85 0.08 1.08 0.01 1.11 1.09 0.98 0.69 1.25 1.23 0.80 0.53 0.19 0.22 0.01 0.00 0.00 0.00