ClaRNA

Doublet Group distance statistics: 49677

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Distances from reference structure (by RMSD)

2, 0, 0, 0, 0, 0, 0, 0, 1, 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, 0.000, 0.004, 0.008, 0.009 max_d=0.009 avg_d=0.004 std_dev=0.004
C5 A 0, -0.001, 0.005, 0.010, 0.013 max_d=0.013 avg_d=0.005 std_dev=0.005
C6 A 0, -0.002, 0.011, 0.024, 0.029 max_d=0.029 avg_d=0.011 std_dev=0.013
N1 A 0, -0.003, 0.010, 0.023, 0.028 max_d=0.028 avg_d=0.010 std_dev=0.013
C1' A 0, -0.001, 0.012, 0.025, 0.030 max_d=0.030 avg_d=0.012 std_dev=0.013
C2 A 0, 0.000, 0.013, 0.027, 0.032 max_d=0.032 avg_d=0.013 std_dev=0.014
C4 A 0, -0.004, 0.010, 0.024, 0.030 max_d=0.030 avg_d=0.010 std_dev=0.014
O2 A 0, 0.001, 0.024, 0.046, 0.054 max_d=0.054 avg_d=0.024 std_dev=0.022
N4 A 0, -0.009, 0.030, 0.070, 0.086 max_d=0.086 avg_d=0.030 std_dev=0.040
O4' A 0, -0.025, 0.078, 0.181, 0.224 max_d=0.224 avg_d=0.078 std_dev=0.103
C2' A 0, -0.027, 0.089, 0.204, 0.252 max_d=0.252 avg_d=0.089 std_dev=0.116
O2' A 0, -0.027, 0.128, 0.282, 0.345 max_d=0.345 avg_d=0.128 std_dev=0.154
C3' A 0, -0.037, 0.121, 0.279, 0.344 max_d=0.344 avg_d=0.121 std_dev=0.158
C4' A 0, -0.042, 0.136, 0.314, 0.387 max_d=0.387 avg_d=0.136 std_dev=0.178
P B 0, -0.054, 0.223, 0.499, 0.613 max_d=0.613 avg_d=0.223 std_dev=0.277
O5' A 0, -0.056, 0.225, 0.506, 0.621 max_d=0.621 avg_d=0.225 std_dev=0.281
C5' A 0, -0.066, 0.217, 0.499, 0.616 max_d=0.616 avg_d=0.217 std_dev=0.282
OP2 B 0, -0.069, 0.240, 0.548, 0.675 max_d=0.675 avg_d=0.240 std_dev=0.309
O3' A 0, -0.083, 0.229, 0.541, 0.670 max_d=0.670 avg_d=0.229 std_dev=0.312
OP1 A 0, -0.089, 0.261, 0.611, 0.756 max_d=0.756 avg_d=0.261 std_dev=0.350
P A 0, -0.089, 0.273, 0.634, 0.783 max_d=0.783 avg_d=0.273 std_dev=0.361
OP2 A 0, -0.102, 0.297, 0.696, 0.861 max_d=0.861 avg_d=0.297 std_dev=0.399
O5' B 0, -0.136, 0.418, 0.972, 1.200 max_d=1.200 avg_d=0.418 std_dev=0.554
OP1 B 0, -0.144, 0.460, 1.063, 1.312 max_d=1.312 avg_d=0.460 std_dev=0.604
C5' B 0, -0.376, 1.002, 2.381, 2.951 max_d=2.951 avg_d=1.002 std_dev=1.379
C4' B 0, -0.463, 1.221, 2.906, 3.603 max_d=3.603 avg_d=1.221 std_dev=1.685
O3' B 0, -0.473, 1.272, 3.017, 3.739 max_d=3.739 avg_d=1.272 std_dev=1.745
C3' B 0, -0.487, 1.278, 3.043, 3.774 max_d=3.774 avg_d=1.278 std_dev=1.765
N7 B 0, -0.485, 1.322, 3.128, 3.876 max_d=3.876 avg_d=1.322 std_dev=1.806
N6 B 0, -0.493, 1.325, 3.143, 3.896 max_d=3.896 avg_d=1.325 std_dev=1.818
O4' B 0, -0.511, 1.346, 3.203, 3.972 max_d=3.972 avg_d=1.346 std_dev=1.857
C8 B 0, -0.502, 1.376, 3.253, 4.031 max_d=4.031 avg_d=1.376 std_dev=1.878
C5 B 0, -0.518, 1.374, 3.265, 4.049 max_d=4.049 avg_d=1.374 std_dev=1.892
C6 B 0, -0.528, 1.379, 3.286, 4.075 max_d=4.075 avg_d=1.379 std_dev=1.907
N9 B 0, -0.543, 1.447, 3.437, 4.260 max_d=4.260 avg_d=1.447 std_dev=1.990
C4 B 0, -0.554, 1.455, 3.464, 4.296 max_d=4.296 avg_d=1.455 std_dev=2.009
N1 B 0, -0.578, 1.463, 3.504, 4.349 max_d=4.349 avg_d=1.463 std_dev=2.041
C1' B 0, -0.576, 1.505, 3.585, 4.447 max_d=4.447 avg_d=1.505 std_dev=2.080
C2' B 0, -0.591, 1.537, 3.665, 4.547 max_d=4.547 avg_d=1.537 std_dev=2.128
N3 B 0, -0.596, 1.532, 3.660, 4.542 max_d=4.542 avg_d=1.532 std_dev=2.128
C2 B 0, -0.604, 1.528, 3.660, 4.543 max_d=4.543 avg_d=1.528 std_dev=2.132
O2' B 0, -0.663, 1.732, 4.128, 5.120 max_d=5.120 avg_d=1.732 std_dev=2.395

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 0.00 0.00 0.01 0.00 0.02 0.00 0.00 0.00 0.00 0.01 0.01 0.01 0.00 0.07 0.08 0.03 0.04
C2 0.01 0.00 0.06 0.04 0.00 0.01 0.00 0.07 0.00 0.00 0.00 0.00 0.00 0.06 0.05 0.03 0.14 0.14 0.14 0.13
C2' 0.00 0.06 0.00 0.00 0.06 0.01 0.04 0.01 0.02 0.03 0.07 0.07 0.06 0.00 0.01 0.00 0.05 0.11 0.06 0.06
C3' 0.00 0.04 0.00 0.00 0.05 0.00 0.03 0.01 0.02 0.03 0.05 0.05 0.05 0.01 0.00 0.01 0.01 0.10 0.02 0.04
C4 0.00 0.00 0.06 0.05 0.00 0.03 0.00 0.13 0.00 0.00 0.00 0.00 0.00 0.06 0.08 0.04 0.21 0.23 0.25 0.23
C4' 0.01 0.01 0.01 0.00 0.03 0.00 0.04 0.00 0.03 0.01 0.02 0.04 0.01 0.02 0.02 0.00 0.01 0.04 0.03 0.01
C5 0.00 0.00 0.04 0.03 0.00 0.04 0.00 0.14 0.00 0.00 0.00 0.01 0.00 0.04 0.06 0.02 0.21 0.23 0.24 0.24
C5' 0.02 0.07 0.01 0.01 0.13 0.00 0.14 0.00 0.11 0.07 0.10 0.16 0.04 0.02 0.01 0.01 0.01 0.01 0.03 0.02
C6 0.00 0.00 0.02 0.02 0.00 0.03 0.00 0.11 0.00 0.00 0.00 0.01 0.00 0.01 0.03 0.01 0.18 0.18 0.16 0.17
N1 0.00 0.00 0.03 0.03 0.00 0.01 0.00 0.07 0.00 0.00 0.00 0.00 0.00 0.03 0.03 0.01 0.13 0.14 0.11 0.11
N3 0.00 0.00 0.07 0.05 0.00 0.02 0.00 0.10 0.00 0.00 0.00 0.00 0.00 0.07 0.07 0.03 0.18 0.19 0.20 0.19
N4 0.00 0.00 0.07 0.05 0.00 0.04 0.01 0.16 0.01 0.00 0.00 0.00 0.00 0.07 0.09 0.05 0.23 0.26 0.29 0.27
O2 0.01 0.00 0.06 0.05 0.00 0.01 0.00 0.04 0.00 0.00 0.00 0.00 0.00 0.07 0.04 0.02 0.11 0.11 0.10 0.09
O2' 0.01 0.06 0.00 0.01 0.06 0.02 0.04 0.02 0.01 0.03 0.07 0.07 0.07 0.00 0.05 0.01 0.02 0.07 0.03 0.02
O3' 0.01 0.05 0.01 0.00 0.08 0.02 0.06 0.01 0.03 0.03 0.07 0.09 0.04 0.05 0.00 0.02 0.05 0.06 0.02 0.01
O4' 0.00 0.03 0.00 0.01 0.04 0.00 0.02 0.01 0.01 0.01 0.03 0.05 0.02 0.01 0.02 0.00 0.01 0.01 0.06 0.04
O5' 0.07 0.14 0.05 0.01 0.21 0.01 0.21 0.01 0.18 0.13 0.18 0.23 0.11 0.02 0.05 0.01 0.00 0.00 0.01 0.00
OP1 0.08 0.14 0.11 0.10 0.23 0.04 0.23 0.01 0.18 0.14 0.19 0.26 0.11 0.07 0.06 0.01 0.00 0.00 0.00 0.00
OP2 0.03 0.14 0.06 0.02 0.25 0.03 0.24 0.03 0.16 0.11 0.20 0.29 0.10 0.03 0.02 0.06 0.01 0.00 0.00 0.00
P 0.04 0.13 0.06 0.04 0.23 0.01 0.24 0.02 0.17 0.11 0.19 0.27 0.09 0.02 0.01 0.04 0.00 0.00 0.00 0.00

Atoms distances Chain-A - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 1.25 1.10 1.24 1.13 1.23 1.12 1.23 1.03 1.13 1.30 1.06 1.18 1.07 1.30 1.26 1.25 1.08 1.19 0.25 0.27 0.12 0.08
C2 1.13 0.73 1.12 1.05 0.97 1.07 0.93 1.01 0.70 1.20 0.63 0.88 0.54 1.11 1.11 1.11 1.00 1.11 0.21 0.26 0.16 0.10
C2' 1.32 1.25 1.28 1.16 1.33 1.20 1.33 1.11 1.28 1.33 1.22 1.30 1.24 1.35 1.34 1.30 1.10 1.28 0.40 0.14 0.02 0.05
C3' 1.23 1.24 1.20 1.09 1.26 1.11 1.26 1.03 1.25 1.23 1.22 1.25 1.23 1.25 1.24 1.21 1.04 1.18 0.37 0.20 0.01 0.03
C4 0.69 0.33 0.72 0.72 0.50 0.75 0.42 0.76 0.26 0.68 0.23 0.44 0.13 0.54 0.63 0.70 0.72 0.72 0.13 0.35 0.05 0.13
C4' 1.23 1.27 1.23 1.10 1.28 1.07 1.30 0.97 1.29 1.26 1.26 1.28 1.29 1.29 1.26 1.24 1.05 1.15 0.24 0.33 0.10 0.09
C5 0.68 0.45 0.72 0.71 0.57 0.71 0.52 0.72 0.41 0.68 0.38 0.53 0.32 0.61 0.65 0.70 0.71 0.69 0.13 0.38 0.02 0.12
C5' 1.06 1.16 1.07 0.95 1.13 0.90 1.15 0.80 1.17 1.08 1.17 1.14 1.19 1.13 1.09 1.07 0.92 0.96 0.11 0.49 0.17 0.21
C6 0.87 0.67 0.89 0.85 0.79 0.85 0.77 0.82 0.66 0.90 0.62 0.75 0.58 0.85 0.86 0.88 0.84 0.86 0.17 0.35 0.06 0.11
N1 1.08 0.83 1.08 1.01 0.99 1.01 0.97 0.95 0.83 1.13 0.76 0.93 0.73 1.09 1.07 1.07 0.97 1.05 0.21 0.30 0.11 0.10
N3 0.92 0.45 0.93 0.91 0.69 0.94 0.60 0.93 0.37 0.95 0.33 0.60 0.20 0.79 0.87 0.92 0.88 0.95 0.16 0.28 0.14 0.12
N4 0.45 0.09 0.50 0.53 0.23 0.57 0.14 0.61 0.01 0.39 0.00 0.20 0.11 0.23 0.37 0.49 0.56 0.51 0.07 0.39 0.02 0.14
O2 1.33 0.90 1.31 1.21 1.19 1.22 1.15 1.11 0.88 1.42 0.78 1.07 0.68 1.36 1.33 1.32 1.13 1.29 0.23 0.19 0.20 0.09
O2' 1.52 1.52 1.46 1.30 1.56 1.33 1.57 1.20 1.56 1.51 1.51 1.55 1.55 1.54 1.54 1.51 1.22 1.45 0.45 0.09 0.03 0.08
O3' 1.32 1.40 1.27 1.15 1.38 1.19 1.37 1.10 1.39 1.29 1.40 1.40 1.39 1.32 1.33 1.31 1.09 1.28 0.47 0.11 0.07 0.12
O4' 1.19 1.12 1.20 1.09 1.20 1.05 1.21 0.95 1.16 1.24 1.10 1.17 1.13 1.26 1.22 1.21 1.04 1.11 0.18 0.35 0.14 0.13
O5' 0.79 0.88 0.82 0.73 0.86 0.68 0.87 0.61 0.89 0.82 0.89 0.86 0.90 0.85 0.82 0.81 0.72 0.72 0.01 0.59 0.22 0.29
OP1 0.65 0.83 0.70 0.63 0.76 0.55 0.78 0.49 0.84 0.67 0.86 0.79 0.87 0.72 0.69 0.68 0.62 0.56 0.06 0.68 0.23 0.35
OP2 0.39 0.51 0.47 0.43 0.46 0.34 0.48 0.31 0.52 0.42 0.52 0.48 0.54 0.46 0.43 0.42 0.45 0.32 0.18 0.77 0.26 0.43
P 0.63 0.76 0.69 0.62 0.71 0.53 0.74 0.47 0.78 0.66 0.78 0.73 0.80 0.70 0.67 0.66 0.62 0.54 0.10 0.71 0.25 0.37

Atoms distances Chain-B - Chain-B

Atom C1'C2C2'C3'C4C4'C5C5'C6C8N1N3N6N7N9O2'O3'O4'O5'OP1OP2P
C1' 0.00 0.01 0.00 0.00 0.00 0.00 0.00 0.01 0.01 0.00 0.01 0.01 0.00 0.00 0.00 0.00 0.00 0.00 0.19 0.31 0.16 0.36
C2 0.01 0.00 0.22 0.31 0.01 0.12 0.01 0.13 0.00 0.01 0.00 0.00 0.01 0.01 0.01 0.10 0.40 0.05 0.57 0.65 0.73 0.73
C2' 0.00 0.22 0.00 0.00 0.12 0.01 0.07 0.01 0.12 0.08 0.18 0.22 0.09 0.03 0.01 0.00 0.01 0.01 0.31 0.23 0.18 0.35
C3' 0.00 0.31 0.00 0.00 0.18 0.00 0.13 0.01 0.20 0.09 0.28 0.28 0.18 0.01 0.04 0.02 0.00 0.00 0.39 0.20 0.10 0.31
C4 0.00 0.01 0.12 0.18 0.00 0.07 0.00 0.08 0.00 0.00 0.01 0.00 0.00 0.00 0.00 0.04 0.20 0.02 0.53 0.63 0.61 0.70
C4' 0.00 0.12 0.01 0.00 0.07 0.00 0.06 0.00 0.08 0.04 0.11 0.11 0.07 0.00 0.02 0.06 0.01 0.00 0.01 0.08 0.17 0.08
C5 0.00 0.01 0.07 0.13 0.00 0.06 0.00 0.06 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.02 0.16 0.02 0.63 0.77 0.77 0.84
C5' 0.01 0.13 0.01 0.01 0.08 0.00 0.06 0.00 0.10 0.04 0.13 0.11 0.09 0.00 0.02 0.06 0.02 0.01 0.00 0.11 0.35 0.01
C6 0.01 0.00 0.12 0.20 0.00 0.08 0.00 0.10 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.04 0.25 0.03 0.67 0.82 0.88 0.88
C8 0.00 0.01 0.08 0.09 0.00 0.04 0.00 0.04 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.05 0.10 0.03 0.50 0.68 0.50 0.74
N1 0.01 0.00 0.18 0.28 0.01 0.11 0.00 0.13 0.00 0.00 0.00 0.00 0.01 0.00 0.01 0.08 0.36 0.04 0.65 0.76 0.85 0.83
N3 0.01 0.00 0.22 0.28 0.00 0.11 0.00 0.11 0.00 0.00 0.00 0.00 0.01 0.00 0.01 0.10 0.34 0.04 0.50 0.56 0.60 0.65
N6 0.00 0.01 0.09 0.18 0.00 0.07 0.00 0.09 0.00 0.00 0.01 0.01 0.00 0.00 0.00 0.03 0.22 0.02 0.71 0.91 0.97 0.95
N7 0.00 0.01 0.03 0.01 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.03 0.01 0.01 0.61 0.82 0.75 0.88
N9 0.00 0.01 0.01 0.04 0.00 0.02 0.00 0.02 0.00 0.00 0.01 0.01 0.00 0.00 0.00 0.00 0.03 0.00 0.43 0.54 0.42 0.61
O2' 0.00 0.10 0.00 0.02 0.04 0.06 0.02 0.06 0.04 0.05 0.08 0.10 0.03 0.03 0.00 0.00 0.03 0.04 0.16 0.12 0.08 0.23
O3' 0.00 0.40 0.01 0.00 0.20 0.01 0.16 0.02 0.25 0.10 0.36 0.34 0.22 0.01 0.03 0.03 0.00 0.01 0.31 0.02 0.01 0.18
O4' 0.00 0.05 0.01 0.00 0.02 0.00 0.02 0.01 0.03 0.03 0.04 0.04 0.02 0.01 0.00 0.04 0.01 0.00 0.02 0.23 0.06 0.19
O5' 0.19 0.57 0.31 0.39 0.53 0.01 0.63 0.00 0.67 0.50 0.65 0.50 0.71 0.61 0.43 0.16 0.31 0.02 0.00 0.02 0.01 0.00
OP1 0.31 0.65 0.23 0.20 0.63 0.08 0.77 0.11 0.82 0.68 0.76 0.56 0.91 0.82 0.54 0.12 0.02 0.23 0.02 0.00 0.00 0.00
OP2 0.16 0.73 0.18 0.10 0.61 0.17 0.77 0.35 0.88 0.50 0.85 0.60 0.97 0.75 0.42 0.08 0.01 0.06 0.01 0.00 0.00 0.00
P 0.36 0.73 0.35 0.31 0.70 0.08 0.84 0.01 0.88 0.74 0.83 0.65 0.95 0.88 0.61 0.23 0.18 0.19 0.00 0.00 0.00 0.00