ClaRNA

Doublet Group distance statistics: 54755

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Distances from reference structure (by RMSD)

1, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0,

RMS Distances matrix

Distances graph

Distances from reference structure (by atoms)

Atom Chain Distances
C5 A 0, 0.000, 0.014, 0.027, 0.027 max_d=0.027 avg_d=0.014 std_dev=0.014
N3 A 0, 0.000, 0.019, 0.038, 0.038 max_d=0.038 avg_d=0.019 std_dev=0.019
C6 A 0, 0.000, 0.022, 0.045, 0.045 max_d=0.045 avg_d=0.022 std_dev=0.022
C4 A 0, 0.000, 0.025, 0.049, 0.049 max_d=0.049 avg_d=0.025 std_dev=0.025
N1 A 0, 0.000, 0.032, 0.064, 0.064 max_d=0.064 avg_d=0.032 std_dev=0.032
C2 A 0, 0.000, 0.035, 0.070, 0.070 max_d=0.070 avg_d=0.035 std_dev=0.035
C1' A 0, 0.000, 0.039, 0.079, 0.079 max_d=0.079 avg_d=0.039 std_dev=0.039
N4 A 0, 0.000, 0.059, 0.119, 0.119 max_d=0.119 avg_d=0.059 std_dev=0.059
O2 A 0, 0.000, 0.091, 0.183, 0.183 max_d=0.183 avg_d=0.091 std_dev=0.091
OP1 B 0, 0.000, 0.238, 0.476, 0.476 max_d=0.476 avg_d=0.238 std_dev=0.238
OP2 B 0, 0.000, 0.375, 0.750, 0.750 max_d=0.750 avg_d=0.375 std_dev=0.375
P B 0, 0.000, 0.591, 1.182, 1.182 max_d=1.182 avg_d=0.591 std_dev=0.591
O4' A 0, 0.000, 1.276, 2.553, 2.553 max_d=2.553 avg_d=1.276 std_dev=1.276
O5' B 0, 0.000, 1.383, 2.767, 2.767 max_d=2.767 avg_d=1.383 std_dev=1.383
C2' A 0, 0.000, 1.391, 2.781, 2.781 max_d=2.781 avg_d=1.391 std_dev=1.391
O2' A 0, 0.000, 1.589, 3.178, 3.178 max_d=3.178 avg_d=1.589 std_dev=1.589
C5' B 0, 0.000, 1.778, 3.557, 3.557 max_d=3.557 avg_d=1.778 std_dev=1.778
C4' A 0, 0.000, 1.860, 3.720, 3.720 max_d=3.720 avg_d=1.860 std_dev=1.860
C3' A 0, 0.000, 2.124, 4.248, 4.248 max_d=4.248 avg_d=2.124 std_dev=2.124
C4' B 0, 0.000, 2.816, 5.631, 5.631 max_d=5.631 avg_d=2.816 std_dev=2.816
O3' A 0, 0.000, 3.015, 6.029, 6.029 max_d=6.029 avg_d=3.015 std_dev=3.015
O4' B 0, 0.000, 3.176, 6.352, 6.352 max_d=6.352 avg_d=3.176 std_dev=3.176
C5' A 0, 0.000, 3.298, 6.595, 6.595 max_d=6.595 avg_d=3.298 std_dev=3.298
C3' B 0, 0.000, 3.910, 7.821, 7.821 max_d=7.821 avg_d=3.910 std_dev=3.910
O5' A 0, 0.000, 4.019, 8.037, 8.037 max_d=8.037 avg_d=4.019 std_dev=4.019
C1' B 0, 0.000, 4.322, 8.644, 8.644 max_d=8.644 avg_d=4.322 std_dev=4.322
O3' B 0, 0.000, 4.333, 8.667, 8.667 max_d=8.667 avg_d=4.333 std_dev=4.333
C2' B 0, 0.000, 4.791, 9.583, 9.583 max_d=9.583 avg_d=4.791 std_dev=4.791
O2' B 0, 0.000, 5.062, 10.124, 10.124 max_d=10.124 avg_d=5.062 std_dev=5.062
N9 B 0, 0.000, 5.076, 10.152, 10.152 max_d=10.152 avg_d=5.076 std_dev=5.076
C8 B 0, 0.000, 5.284, 10.568, 10.568 max_d=10.568 avg_d=5.284 std_dev=5.284
P A 0, 0.000, 5.379, 10.757, 10.757 max_d=10.757 avg_d=5.379 std_dev=5.379
OP2 A 0, 0.000, 5.557, 11.113, 11.113 max_d=11.113 avg_d=5.557 std_dev=5.557
C4 B 0, 0.000, 5.917, 11.834, 11.834 max_d=11.834 avg_d=5.917 std_dev=5.917
OP1 A 0, 0.000, 6.160, 12.320, 12.320 max_d=12.320 avg_d=6.160 std_dev=6.160
N7 B 0, 0.000, 6.176, 12.353, 12.353 max_d=12.353 avg_d=6.176 std_dev=6.176
N3 B 0, 0.000, 6.239, 12.478, 12.478 max_d=12.478 avg_d=6.239 std_dev=6.239
C5 B 0, 0.000, 6.522, 13.043, 13.043 max_d=13.043 avg_d=6.522 std_dev=6.522
C2 B 0, 0.000, 7.130, 14.260, 14.260 max_d=14.260 avg_d=7.130 std_dev=7.130
C6 B 0, 0.000, 7.456, 14.911, 14.911 max_d=14.911 avg_d=7.456 std_dev=7.456
N1 B 0, 0.000, 7.716, 15.432, 15.432 max_d=15.432 avg_d=7.716 std_dev=7.716
N6 B 0, 0.000, 8.185, 16.369, 16.369 max_d=16.369 avg_d=8.185 std_dev=8.185

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 0.05 0.01 0.01 0.02 0.00 0.02 0.02 0.00 0.01 0.03 0.02 0.09 0.00 0.02 0.00 0.36 0.35 0.05 0.22
C2 0.05 0.00 0.09 0.17 0.01 0.28 0.02 0.43 0.01 0.01 0.00 0.01 0.00 0.20 0.11 0.27 0.20 0.04 0.17 0.16
C2' 0.01 0.09 0.00 0.01 0.03 0.00 0.01 0.01 0.03 0.02 0.07 0.02 0.16 0.00 0.02 0.01 0.17 0.44 0.08 0.15
C3' 0.01 0.17 0.01 0.00 0.09 0.00 0.30 0.00 0.35 0.07 0.10 0.09 0.37 0.01 0.01 0.00 0.07 0.48 0.05 0.15
C4 0.02 0.01 0.03 0.09 0.00 0.09 0.00 0.17 0.02 0.01 0.01 0.00 0.01 0.00 0.10 0.03 0.97 0.93 1.31 1.11
C4' 0.00 0.28 0.00 0.00 0.09 0.00 0.38 0.00 0.44 0.06 0.19 0.09 0.60 0.01 0.01 0.00 0.00 0.17 0.45 0.09
C5 0.02 0.02 0.01 0.30 0.00 0.38 0.00 0.65 0.00 0.02 0.00 0.01 0.02 0.15 0.28 0.26 1.47 1.53 1.79 1.65
C5' 0.02 0.43 0.01 0.00 0.17 0.00 0.65 0.00 0.71 0.11 0.29 0.17 0.96 0.01 0.01 0.00 0.00 0.12 0.30 0.00
C6 0.00 0.01 0.03 0.35 0.02 0.44 0.00 0.71 0.00 0.01 0.01 0.02 0.02 0.18 0.30 0.33 1.43 1.43 1.43 1.47
N1 0.01 0.01 0.02 0.07 0.01 0.06 0.02 0.11 0.01 0.00 0.00 0.01 0.02 0.00 0.07 0.02 0.69 0.62 0.54 0.64
N3 0.03 0.00 0.07 0.10 0.01 0.19 0.00 0.29 0.01 0.00 0.00 0.01 0.01 0.14 0.07 0.18 0.42 0.27 0.60 0.46
N4 0.02 0.01 0.02 0.09 0.00 0.09 0.01 0.17 0.02 0.01 0.01 0.00 0.00 0.00 0.10 0.03 1.01 1.00 1.52 1.23
O2 0.09 0.00 0.16 0.37 0.01 0.60 0.02 0.96 0.02 0.02 0.01 0.00 0.00 0.40 0.28 0.51 0.42 0.67 0.54 0.53
O2' 0.00 0.20 0.00 0.01 0.00 0.01 0.15 0.01 0.18 0.00 0.14 0.00 0.40 0.00 0.02 0.03 0.05 0.26 0.51 0.15
O3' 0.02 0.11 0.02 0.01 0.10 0.01 0.28 0.01 0.30 0.07 0.07 0.10 0.28 0.02 0.00 0.01 0.25 0.43 0.27 0.09
O4' 0.00 0.27 0.01 0.00 0.03 0.00 0.26 0.00 0.33 0.02 0.18 0.03 0.51 0.03 0.01 0.00 0.30 0.16 0.28 0.09
O5' 0.36 0.20 0.17 0.07 0.97 0.00 1.47 0.00 1.43 0.69 0.42 1.01 0.42 0.05 0.25 0.30 0.00 0.00 0.01 0.00
OP1 0.35 0.04 0.44 0.48 0.93 0.17 1.53 0.12 1.43 0.62 0.27 1.00 0.67 0.26 0.43 0.16 0.00 0.00 0.00 0.01
OP2 0.05 0.17 0.08 0.05 1.31 0.45 1.79 0.30 1.43 0.54 0.60 1.52 0.54 0.51 0.27 0.28 0.01 0.00 0.00 0.00
P 0.22 0.16 0.15 0.15 1.11 0.09 1.65 0.00 1.47 0.64 0.46 1.23 0.53 0.15 0.09 0.09 0.00 0.01 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 1.41 3.14 2.14 1.99 1.85 1.23 1.31 0.73 1.75 0.39 2.66 2.77 1.29 0.38 1.24 2.24 2.34 0.96 0.53 0.08 0.15 0.12
C2 1.17 3.02 1.72 1.58 1.70 0.97 1.25 0.54 1.74 0.28 2.64 2.57 1.36 0.34 1.06 1.75 1.80 0.82 0.55 0.03 0.05 0.25
C2' 1.10 2.82 1.92 1.79 1.54 0.95 1.01 0.44 1.46 0.06 2.36 2.47 1.04 0.08 0.92 2.06 2.25 0.61 0.14 0.50 0.41 0.28
C3' 1.90 3.34 2.75 2.62 2.19 1.77 1.59 1.21 1.95 0.75 2.80 3.10 1.46 0.70 1.64 2.94 3.14 1.40 0.83 0.06 0.25 0.33
C4 0.68 2.30 1.09 1.03 1.13 0.58 0.69 0.27 1.13 0.18 1.93 1.94 0.78 0.13 0.55 1.09 1.19 0.46 0.40 0.02 0.00 0.26
C4' 2.59 3.86 3.44 3.23 2.81 2.40 2.17 1.78 2.44 1.41 3.27 3.70 1.89 1.30 2.30 3.65 3.68 2.07 1.41 0.60 0.63 0.84
C5 0.67 2.16 1.16 1.17 1.02 0.66 0.52 0.36 0.91 0.32 1.70 1.87 0.52 0.32 0.47 1.19 1.41 0.45 0.38 0.04 0.04 0.21
C5' 3.46 4.33 4.33 4.13 3.48 3.31 2.77 2.63 2.93 2.16 3.68 4.33 2.32 1.96 3.08 4.58 4.62 2.96 2.20 1.28 1.33 1.55
C6 0.97 2.51 1.59 1.58 1.32 0.94 0.77 0.56 1.15 0.10 2.00 2.22 0.70 0.12 0.75 1.64 1.89 0.67 0.45 0.06 0.09 0.16
N1 1.21 2.94 1.84 1.75 1.66 1.07 1.14 0.63 1.58 0.21 2.47 2.57 1.14 0.22 1.04 1.89 2.04 0.84 0.53 0.05 0.09 0.19
N3 0.92 2.70 1.36 1.26 1.44 0.74 1.02 0.38 1.51 0.09 2.36 2.27 1.16 0.16 0.82 1.37 1.42 0.64 0.48 0.03 0.02 0.27
N4 0.42 1.95 0.71 0.66 0.86 0.31 0.48 0.08 0.90 0.35 1.63 1.60 0.61 0.28 0.31 0.70 0.74 0.27 0.31 0.01 0.04 0.29
O2 1.34 3.27 1.90 1.71 1.92 1.07 1.50 0.60 2.03 0.50 2.94 2.79 1.67 0.59 1.27 1.95 1.93 0.94 0.60 0.03 0.06 0.25
O2' 0.81 2.56 1.68 1.52 1.27 0.65 0.77 0.14 1.25 0.19 2.14 2.18 0.85 0.16 0.65 1.84 2.01 0.29 0.20 0.76 0.73 0.61
O3' 1.82 3.21 2.73 2.59 2.09 1.70 1.50 1.13 1.85 0.67 2.69 2.98 1.38 0.62 1.55 2.99 3.19 1.29 0.66 0.11 0.15 0.14
O4' 2.34 3.85 3.08 2.87 2.68 2.11 2.08 1.53 2.41 1.26 3.28 3.59 1.87 1.18 2.12 3.20 3.20 1.86 1.30 0.55 0.47 0.78
O5' 3.90 4.75 4.74 4.75 3.90 3.94 3.16 3.38 3.31 2.56 4.08 4.77 2.69 2.35 3.50 4.89 5.24 3.51 2.96 2.10 2.21 2.37
OP1 4.34 4.60 5.18 5.23 3.96 4.59 3.17 4.05 3.19 2.80 3.90 4.75 2.51 2.45 3.74 5.59 6.02 4.03 3.44 2.66 2.79 2.87
OP2 3.98 4.26 4.70 5.00 3.63 4.51 2.82 4.25 2.83 2.45 3.55 4.41 2.15 2.10 3.40 4.89 5.59 3.88 3.76 3.24 3.31 3.37
P 4.32 4.66 5.14 5.31 4.01 4.63 3.22 4.14 3.25 2.81 3.96 4.81 2.58 2.48 3.76 5.40 6.02 4.06 3.58 2.82 2.89 3.01

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 0.02 0.01 0.01 0.01 0.01 0.02 0.02 0.02 0.01 0.00 0.00 0.01 0.00 0.02 0.02 0.00 0.03
C2 0.02 0.00 0.05 0.31 0.01 0.34 0.01 0.49 0.01 0.02 0.00 0.00 0.01 0.01 0.02 0.09 0.26 0.29 0.93 1.02 0.99 1.15
C2' 0.00 0.05 0.00 0.00 0.02 0.00 0.01 0.00 0.02 0.01 0.04 0.06 0.02 0.01 0.00 0.00 0.01 0.00 0.15 0.01 0.33 0.21
C3' 0.01 0.31 0.00 0.00 0.07 0.00 0.04 0.00 0.04 0.24 0.18 0.32 0.03 0.21 0.08 0.00 0.00 0.01 0.23 0.00 0.49 0.29
C4 0.01 0.01 0.02 0.07 0.00 0.12 0.00 0.13 0.00 0.01 0.01 0.01 0.01 0.00 0.01 0.01 0.05 0.15 0.41 0.45 0.22 0.47
C4' 0.02 0.34 0.00 0.00 0.12 0.00 0.01 0.01 0.09 0.24 0.24 0.34 0.03 0.18 0.04 0.03 0.01 0.01 0.01 0.11 0.20 0.03
C5 0.01 0.01 0.01 0.04 0.00 0.01 0.00 0.05 0.00 0.01 0.01 0.00 0.00 0.00 0.01 0.04 0.06 0.07 0.21 0.30 0.17 0.23
C5' 0.01 0.49 0.00 0.00 0.13 0.01 0.05 0.00 0.09 0.42 0.33 0.46 0.02 0.35 0.11 0.02 0.01 0.01 0.01 0.11 0.16 0.01
C6 0.01 0.01 0.02 0.04 0.00 0.09 0.00 0.09 0.00 0.01 0.01 0.00 0.00 0.00 0.01 0.01 0.00 0.13 0.44 0.56 0.12 0.52
C8 0.01 0.02 0.01 0.24 0.01 0.24 0.01 0.42 0.01 0.00 0.02 0.02 0.01 0.00 0.00 0.11 0.21 0.15 0.41 0.31 0.87 0.49
N1 0.02 0.00 0.04 0.18 0.01 0.24 0.01 0.33 0.01 0.02 0.00 0.00 0.01 0.01 0.02 0.04 0.14 0.23 0.76 0.89 0.66 0.95
N3 0.02 0.00 0.06 0.32 0.01 0.34 0.00 0.46 0.00 0.02 0.00 0.00 0.00 0.01 0.02 0.10 0.26 0.28 0.83 0.85 0.86 0.98
N6 0.02 0.01 0.02 0.03 0.01 0.03 0.00 0.02 0.00 0.01 0.01 0.00 0.00 0.00 0.01 0.04 0.06 0.09 0.31 0.46 0.14 0.36
N7 0.01 0.01 0.01 0.21 0.00 0.18 0.00 0.35 0.00 0.00 0.01 0.01 0.00 0.00 0.00 0.09 0.20 0.08 0.24 0.14 0.81 0.32
N9 0.00 0.02 0.00 0.08 0.01 0.04 0.01 0.11 0.01 0.00 0.02 0.02 0.01 0.00 0.00 0.04 0.07 0.00 0.02 0.06 0.21 0.01
O2' 0.00 0.09 0.00 0.00 0.01 0.03 0.04 0.02 0.01 0.11 0.04 0.10 0.04 0.09 0.04 0.00 0.05 0.07 0.02 0.15 0.33 0.08
O3' 0.01 0.26 0.01 0.00 0.05 0.01 0.06 0.01 0.00 0.21 0.14 0.26 0.06 0.20 0.07 0.05 0.00 0.01 0.22 0.10 0.71 0.32
O4' 0.00 0.29 0.00 0.01 0.15 0.01 0.07 0.01 0.13 0.15 0.23 0.28 0.09 0.08 0.00 0.07 0.01 0.00 0.05 0.00 0.07 0.05
O5' 0.02 0.93 0.15 0.23 0.41 0.01 0.21 0.01 0.44 0.41 0.76 0.83 0.31 0.24 0.02 0.02 0.22 0.05 0.00 0.01 0.01 0.01
OP1 0.02 1.02 0.01 0.00 0.45 0.11 0.30 0.11 0.56 0.31 0.89 0.85 0.46 0.14 0.06 0.15 0.10 0.00 0.01 0.00 0.01 0.01
OP2 0.00 0.99 0.33 0.49 0.22 0.20 0.17 0.16 0.12 0.87 0.66 0.86 0.14 0.81 0.21 0.33 0.71 0.07 0.01 0.01 0.00 0.00
P 0.03 1.15 0.21 0.29 0.47 0.03 0.23 0.01 0.52 0.49 0.95 0.98 0.36 0.32 0.01 0.08 0.32 0.05 0.01 0.01 0.00 0.00