PDB Chemical Component 0AD

The following tables include covalent bond distance, bond angle and torsion angle values for the experimental model and ideal geometries stored in the definition for this chemical component.

Bond Distances for 0AD

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P OP1 1.480 1.610
P OP2 1.477 1.480
P O5' 1.607 1.610
P OP3 1.630 1.610
OP1 HP1 0.950 0.966
O5' C5' 1.434 1.428
C5' C4' 1.525 1.531
C5' H5'1 1.100 1.090
C5' H5'2 1.100 1.090
C4' O4' 1.480 1.444
C4' C3' 1.531 1.549
C4' H4' 1.099 1.090
O4' C1' 1.418 1.437
C3' O3' 1.449 1.430
C3' C2' 1.526 1.548
C3' H3' 1.100 1.090
O3' HA 0.950 0.968
C2' C1' 1.484 1.541
C2' H2'1 1.100 1.091
C2' H2'2 1.100 1.090
C1' N9 1.442 1.466
C1' H1' 1.100 1.091
N9 C8 1.328 1.364
N9 C4 1.371 1.368
C8 N7 1.296 1.301
C8 H8 1.080 1.080
N7 C5 1.398 1.356
C5 C6 1.412 1.415
C5 C4 1.366 1.400
C6 O6 1.217 1.219
C6 N1 1.405 1.352
N1 C2 1.405 1.362
N1 H1 1.000 0.970
C2 N2 1.359 1.373
C2 N3 1.335 1.315
N2 C4A 1.474 1.466
N2 H2 1.000 0.969
C4A C5A 1.536 1.529
C4A H4A1 1.100 1.091
C4A H4A2 1.100 1.090
C5A C6A 1.504 1.530
C5A H5A1 1.101 1.090
C5A H5A2 1.100 1.091
C4 N3 1.353 1.338
C6A H17 1.100 1.090
C6A H18 1.100 1.090
C6A H19 1.100 1.090
OP3 H20 0.950 0.967

Bond Angles for 0AD

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP2 118.6 109.5
OP1 P O5' 107.0 109.5
OP1 P OP3 107.0 109.5
P OP1 HP1 109.5 114.0
OP2 P O5' 108.4 109.4
OP2 P OP3 109.9 109.5
O5' P OP3 105.1 109.5
P O5' C5' 118.8 123.0
P OP3 H20 109.5 114.0
O5' C5' C4' 110.6 109.5
O5' C5' H5'1 109.1 109.5
O5' C5' H5'2 108.8 109.5
C4' C5' H5'1 109.1 109.5
C4' C5' H5'2 108.8 109.5
C5' C4' O4' 109.6 110.6
C5' C4' C3' 111.0 110.6
C5' C4' H4' 107.9 110.5
H5'1 C5' H5'2 110.4 109.5
O4' C4' C3' 108.1 103.5
O4' C4' H4' 110.8 110.6
C4' O4' C1' 105.2 106.9
C3' C4' H4' 109.4 110.8
C4' C3' O3' 113.5 110.9
C4' C3' C2' 101.0 102.1
C4' C3' H3' 113.4 110.9
O4' C1' C2' 107.1 107.3
O4' C1' N9 120.9 109.9
O4' C1' H1' 104.6 109.9
O3' C3' C2' 112.1 110.9
O3' C3' H3' 102.6 110.8
C3' O3' HA 109.5 114.0
C2' C3' H3' 114.8 111.0
C3' C2' C1' 101.6 104.2
C3' C2' H2'1 112.2 110.5
C3' C2' H2'2 113.8 110.5
C1' C2' H2'1 112.2 110.5
C1' C2' H2'2 113.8 110.5
C2' C1' N9 113.7 109.9
C2' C1' H1' 113.4 109.9
H2'1 C2' H2'2 103.6 110.5
N9 C1' H1' 96.4 110.0
C1' N9 C8 130.8 126.3
C1' N9 C4 123.1 126.2
C8 N9 C4 104.3 107.5
N9 C8 N7 117.3 109.8
N9 C8 H8 121.4 125.1
N9 C4 C5 106.5 106.1
N9 C4 N3 125.1 134.2
N7 C8 H8 121.4 125.1
C8 N7 C5 101.6 109.3
N7 C5 C6 130.0 134.1
N7 C5 C4 110.3 107.3
C6 C5 C4 119.7 118.6
C5 C6 O6 127.0 120.8
C5 C6 N1 112.4 118.3
C5 C4 N3 128.3 119.7
O6 C6 N1 120.5 120.8
C6 N1 C2 123.7 120.3
C6 N1 H1 118.2 119.8
C2 N1 H1 118.1 119.9
N1 C2 N2 118.3 119.0
N1 C2 N3 122.8 121.9
N2 C2 N3 118.8 119.1
C2 N2 C4A 119.9 120.0
C2 N2 H2 120.1 120.0
C4A N2 H2 120.0 120.0
N2 C4A C5A 112.6 109.5
N2 C4A H4A1 108.4 109.4
N2 C4A H4A2 107.8 109.5
C5A C4A H4A1 108.4 109.5
C5A C4A H4A2 107.7 109.5
C4A C5A C6A 109.2 109.5
C4A C5A H5A1 109.5 109.5
C4A C5A H5A2 109.6 109.4
H4A1 C4A H4A2 111.9 109.5
C6A C5A H5A1 109.6 109.5
C6A C5A H5A2 109.6 109.5
C5A C6A H17 109.5 109.4
C5A C6A H18 109.5 109.5
C5A C6A H19 109.5 109.5
H5A1 C5A H5A2 109.3 109.5
H17 C6A H18 109.4 109.5
H17 C6A H19 109.5 109.4
H18 C6A H19 109.5 109.5

Torsion Angles for 0AD

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP2 P OP1 O5' 237.1 240.0
OP2 P OP1 OP3 124.9 120.0
O5' P OP1 OP3 247.8 240.0
OP1 P O5' C5' 281.9 295.0
OP1 P OP3 H20 119.2 60.0
OP1 P OP2 O5' 122.2 120.0
OP1 P OP2 OP3 236.6 240.0
OP2 P OP1 HP1 306.8 180.0
O5' P OP2 OP3 114.4 120.0
OP2 P O5' C5' 50.9 55.0
OP2 P OP3 H20 349.3 300.0
OP1 P O5' OP2 231.0 240.0
OP1 P O5' OP3 113.5 120.0
O5' P OP1 HP1 69.7 300.0
OP2 P O5' OP3 242.5 240.0
O5' P OP3 H20 232.8 180.1
P O5' C5' C4' 265.9 180.0
P O5' C5' H5'1 25.9 300.0
P O5' C5' H5'2 146.4 60.0
OP1 P OP3 OP2 130.0 120.0
OP1 P OP3 O5' 246.5 240.0
OP3 P OP1 HP1 181.9 60.0
OP2 P OP3 O5' 116.5 120.0
OP3 P O5' C5' 168.4 175.0
HP1 OP1 P OP2 306.8 180.0
HP1 OP1 P O5' 69.7 300.0
HP1 OP1 P OP3 181.9 60.0
C5' O5' P OP3 168.4 175.0
C4' C5' O5' H5'1 240.0 240.0
C4' C5' O5' H5'2 119.5 120.0
O5' C5' C4' O4' 29.7 66.4
O5' C5' C4' C3' 149.1 180.5
O5' C5' C4' H4' 269.0 303.6
H5'1 C5' O5' H5'2 239.5 240.0
O5' C5' C4' H5'1 120.0 120.0
O5' C5' C4' H5'2 240.5 240.0
H5'1 C5' C4' H5'2 120.5 120.0
O4' C4' C5' C3' 240.6 245.9
O4' C4' C5' H4' 120.7 122.8
C5' C4' O4' C1' 126.6 158.6
C3' C4' C5' H4' 240.1 236.9
C5' C4' C3' O3' 139.0 86.3
C5' C4' C3' C2' 259.1 204.5
C5' C4' C3' H3' 22.5 322.8
O5' C5' H5'1 C4' 239.1 240.0
O5' C5' H5'1 H5'2 119.5 120.0
C4' C5' H5'1 H5'2 240.5 240.0
H5'1 C5' C4' O4' 269.7 306.4
H5'1 C5' C4' C3' 29.1 60.5
H5'1 C5' C4' H4' 149.0 183.6
O5' C5' H5'2 C4' 120.6 120.0
O5' C5' H5'2 H5'1 240.3 240.0
C4' C5' H5'2 H5'1 119.7 120.0
H5'2 C5' C4' O4' 149.2 186.4
H5'2 C5' C4' C3' 268.6 300.5
H5'2 C5' C4' H4' 28.5 63.6
O4' C4' C5' H5'1 269.7 306.4
O4' C4' C5' H5'2 149.2 186.4
C5' C4' O4' C3' 121.2 118.5
C5' C4' O4' H4' 241.0 237.2
C3' C4' O4' H4' 119.9 118.7
O4' C4' C3' O3' 259.3 204.8
O4' C4' C3' C2' 19.4 323.0
O4' C4' C3' H3' 142.8 81.3
C4' O4' C1' C2' 330.4 333.5
C4' O4' C1' N9 197.9 214.1
C4' O4' C1' H1' 91.1 92.9
C3' C4' C5' H5'1 29.1 60.5
C3' C4' C5' H5'2 268.6 300.5
C5' C4' C3' O4' 239.7 241.5
C5' C4' C3' H4' 119.0 123.0
O4' C4' C3' H4' 239.3 241.4
C3' C4' O4' C1' 5.4 40.1
O3' C3' C4' C2' 239.9 241.8
O3' C3' C4' H3' 116.5 123.5
C4' C3' O3' HA 13.5 180.0
C2' C3' C4' H3' 236.7 241.7
C4' C3' C2' C1' 324.3 20.9
C4' C3' C2' H2'1 84.3 139.6
C4' C3' C2' H2'2 201.5 262.2
H4' C4' C5' H5'1 149.0 183.6
H4' C4' C5' H5'2 28.5 63.6
C5' C4' H4' O4' 120.0 122.8
C5' C4' H4' C3' 239.1 237.0
O4' C4' H4' C3' 119.1 114.2
H4' C4' O4' C1' 245.5 281.4
H4' C4' C3' O3' 20.0 323.3
H4' C4' C3' C2' 140.2 81.5
H4' C4' C3' H3' 263.5 199.8
C1' O4' C4' C3' 5.4 40.1
C1' O4' C4' H4' 245.5 281.4
C3' C2' C1' O4' 42.1 2.0
O4' C1' C2' H2'1 282.1 243.3
O4' C1' C2' H2'2 164.8 120.7
C2' C1' O4' N9 132.5 119.4
C2' C1' O4' H1' 239.3 240.6
N9 C1' O4' H1' 106.8 121.1
O4' C1' N9 C8 100.7 23.6
O4' C1' N9 C4 263.1 203.3
O3' C3' C4' H4' 20.0 323.3
C4' C3' O3' C2' 113.6 112.7
C4' C3' O3' H3' 237.3 236.4
C2' C3' O3' H3' 123.7 123.7
O3' C3' C2' C1' 85.4 139.1
O3' C3' C2' H2'1 205.4 257.7
O3' C3' C2' H2'2 322.7 20.4
C2' C3' C4' H4' 140.2 81.5
C4' C3' C2' O3' 238.9 241.8
C4' C3' C2' H3' 122.4 118.2
O4' C1' C2' C3' 42.1 2.0
O3' C3' C2' H3' 243.5 236.4
C2' C3' O3' HA 259.9 67.3
C1' C2' C3' H2'1 240.0 241.3
C1' C2' C3' H2'2 122.8 118.7
C3' C2' C1' N9 178.3 121.5
C3' C2' C1' H1' 287.1 242.6
H2'1 C2' C3' H2'2 242.8 237.4
H3' C3' C4' H4' 263.5 199.8
C4' C3' H3' O3' 122.8 123.6
C4' C3' H3' C2' 244.6 247.2
O3' C3' H3' C2' 121.8 123.7
H3' C3' O3' HA 136.2 303.6
H3' C3' C2' C1' 202.0 262.6
H3' C3' C2' H2'1 322.0 21.3
H3' C3' C2' H2'2 79.2 143.9
HA O3' C3' C2' 259.9 67.3
HA O3' C3' H3' 136.2 303.6
O4' C1' C2' N9 223.8 240.6
O4' C1' C2' H1' 115.0 119.5
C1' C2' C3' H3' 202.0 262.6
C3' C2' C1' H2'1 120.0 118.7
C3' C2' C1' H2'2 237.2 241.3
H2'1 C2' C1' H2'2 117.2 122.6
N9 C1' C2' H1' 251.2 238.9
C2' C1' N9 C8 331.1 265.8
C2' C1' N9 C4 133.5 85.4
H2'1 C2' C3' H3' 322.0 21.3
C3' C2' H2'1 C1' 246.4 245.2
C3' C2' H2'1 H2'2 123.2 122.6
C1' C2' H2'1 H2'2 236.8 237.4
H2'1 C2' C1' N9 58.3 2.8
H2'1 C2' C1' H1' 167.1 123.9
H2'2 C2' C3' H3' 79.2 143.9
C3' C2' H2'2 C1' 115.8 114.8
C3' C2' H2'2 H2'1 237.9 237.4
C1' C2' H2'2 H2'1 122.1 122.6
H2'2 C2' C1' N9 301.1 240.2
H2'2 C2' C1' H1' 49.9 1.3
O4' C1' N9 C2' 129.6 117.8
O4' C1' N9 H1' 248.7 238.9
N9 C1' C2' H2'1 58.3 2.8
N9 C1' C2' H2'2 301.1 240.2
C2' C1' N9 H1' 119.1 121.1
C8 N9 C1' C4 197.6 180.3
C1' N9 C8 N7 167.0 179.9
C1' N9 C8 H8 347.1 359.9
C1' N9 C4 C5 192.4 179.9
C1' N9 C4 N3 10.8 0.7
O4' C1' H1' C2' 243.6 242.1
O4' C1' H1' N9 124.3 121.1
H1' C1' C2' H2'1 167.1 123.9
H1' C1' C2' H2'2 49.9 1.3
C2' C1' H1' N9 240.7 238.9
H1' C1' N9 C8 212.0 144.7
H1' C1' N9 C4 14.4 324.4
C8 N9 C1' H1' 212.0 144.7
C1' N9 C8 C4 164.9 179.7
C8 N9 C4 C5 358.7 359.6
C8 N9 C4 N3 177.1 180.4
N7 C8 N9 H8 180.0 180.0
N9 C8 N7 C5 358.0 0.0
C4 N9 C1' H1' 14.4 324.4
C1' N9 C4 C8 193.7 180.3
C4 N9 C8 N7 2.2 0.2
C4 N9 C8 H8 182.2 180.2
N7 C5 C4 N9 0.2 0.4
C6 C5 C4 N9 179.0 180.2
C5 C4 N9 N3 181.6 179.2
N7 C8 N9 C4 2.2 0.2
N9 C8 N7 H8 180.0 180.0
C8 N7 C5 C6 182.3 180.0
C8 N7 C5 C4 1.0 359.8
H8 C8 N9 C4 182.2 180.2
N9 C8 H8 N7 180.0 180.0
H8 C8 N7 C5 178.0 180.0
N9 C4 C5 N7 0.2 0.4
C5 N7 C8 H8 178.0 180.0
C6 C5 N7 C4 181.4 180.2
N7 C5 C6 O6 352.6 0.0
N7 C5 C6 N1 176.8 179.9
N7 C5 C4 N3 181.9 179.7
N9 C4 C5 C6 179.0 180.2
N7 C5 C6 C4 178.5 179.7
C6 C5 C4 N3 0.7 359.5
O6 C6 C5 N1 175.7 180.1
C5 C6 N1 C2 0.9 0.1
C5 C6 N1 H1 181.0 179.9
N9 C4 C5 N3 178.4 180.7
N7 C5 C4 C6 181.2 180.2
C4 C5 C6 O6 174.1 180.3
C4 C5 C6 N1 358.3 0.2
O6 C6 C5 C4 174.1 180.3
C5 C6 O6 N1 184.6 179.9
O6 C6 N1 C2 184.9 179.9
O6 C6 N1 H1 4.9 359.8
N1 C6 C5 C4 358.3 0.2
C5 C6 N1 O6 176.0 180.1
C2 N1 C6 H1 180.0 180.1
C6 N1 C2 N2 182.7 179.9
C6 N1 C2 N3 1.0 360.0
C6 N1 C2 H1 180.0 179.9
N2 C2 N1 N3 181.7 180.0
N1 C2 N2 C4A 0.4 180.0
N1 C2 N2 H2 180.4 0.1
C6 N1 H1 C2 180.0 180.1
H1 N1 C2 N2 2.7 0.1
H1 N1 C2 N3 181.0 180.1
N2 C2 N1 H1 2.7 0.1
N1 C2 N2 N3 178.4 180.0
C4A N2 C2 H2 180.0 180.0
C2 N2 C4A C5A 213.0 180.0
C2 N2 C4A H4A1 333.0 300.0
C2 N2 C4A H4A2 94.4 60.0
N9 C4 N3 C2 183.2 179.7
C5 C4 N3 C2 1.2 0.5
N3 C2 N1 H1 181.0 180.1
N1 C2 N3 N2 181.7 180.0
N3 C2 N2 C4A 182.1 360.0
N3 C2 N2 H2 2.1 180.0
C4A N2 C2 N3 182.1 360.0
C2 N2 C4A H2 180.0 180.0
C5A C4A N2 H4A1 240.0 240.0
C5A C4A N2 H4A2 118.6 120.0
N2 C4A C5A C6A 166.4 180.0
N2 C4A C5A H5A1 286.4 300.0
N2 C4A C5A H5A2 46.3 60.0
H4A1 C4A N2 H4A2 238.6 240.0
H2 N2 C2 N3 2.1 180.0
C2 N2 H2 C4A 180.0 180.0
H2 N2 C4A C5A 33.0 360.0
H2 N2 C4A H4A1 153.0 120.0
H2 N2 C4A H4A2 274.4 240.0
C5A C4A N2 H2 33.0 360.0
N2 C4A C5A H4A1 120.0 120.0
N2 C4A C5A H4A2 241.3 240.0
H4A1 C4A C5A H4A2 121.3 120.0
C6A C5A C4A H5A1 240.0 240.0
C6A C5A C4A H5A2 120.1 120.0
C4A C5A C6A H17 54.1 300.0
C4A C5A C6A H18 174.1 60.0
C4A C5A C6A H19 294.1 180.1
H5A1 C5A C4A H5A2 240.1 240.0
H4A1 C4A N2 H2 153.0 120.0
N2 C4A H4A1 C5A 237.5 240.0
N2 C4A H4A1 H4A2 118.8 120.0
C5A C4A H4A1 H4A2 241.3 240.0
H4A1 C4A C5A C6A 46.4 60.0
H4A1 C4A C5A H5A1 166.5 180.0
H4A1 C4A C5A H5A2 286.3 300.0
H4A2 C4A N2 H2 274.4 240.0
N2 C4A H4A2 C5A 121.7 120.0
N2 C4A H4A2 H4A1 240.8 240.0
C5A C4A H4A2 H4A1 119.1 120.0
H4A2 C4A C5A C6A 285.1 300.0
H4A2 C4A C5A H5A1 45.1 60.0
H4A2 C4A C5A H5A2 165.0 180.0
C6A C5A C4A H4A1 46.4 60.0
C6A C5A C4A H4A2 285.1 300.0
C4A C5A C6A H5A1 120.0 120.0
C4A C5A C6A H5A2 239.9 240.0
H5A1 C5A C6A H5A2 119.9 120.0
H17 C6A C5A H18 240.0 239.9
H17 C6A C5A H19 120.0 119.9
H18 C6A C5A H19 239.9 240.0
H5A1 C5A C4A H4A1 166.5 180.0
H5A1 C5A C4A H4A2 45.1 60.0
C4A C5A H5A1 C6A 240.2 240.0
C4A C5A H5A1 H5A2 120.1 120.0
C6A C5A H5A1 H5A2 239.9 240.0
H5A1 C5A C6A H17 294.1 179.9
H5A1 C5A C6A H18 54.1 300.0
H5A1 C5A C6A H19 174.1 60.0
H5A2 C5A C4A H4A1 286.3 300.0
H5A2 C5A C4A H4A2 165.0 180.0
C4A C5A H5A2 C6A 119.9 120.0
C4A C5A H5A2 H5A1 239.9 240.0
C6A C5A H5A2 H5A1 120.1 120.0
H5A2 C5A C6A H17 174.2 59.9
H5A2 C5A C6A H18 294.2 180.0
H5A2 C5A C6A H19 54.2 300.0
N9 C4 N3 C5 181.9 179.1
H17 C6A C5A H5A1 294.1 179.9
H17 C6A C5A H5A2 174.2 59.9
C5A C6A H17 H18 120.0 120.0
C5A C6A H17 H19 240.0 240.0
H18 C6A H17 H19 120.0 120.0
H18 C6A C5A H5A1 54.1 300.0
H18 C6A C5A H5A2 294.2 180.0
C5A C6A H18 H17 240.0 240.0
C5A C6A H18 H19 120.0 120.0
H17 C6A H18 H19 240.0 240.0
H19 C6A C5A H5A1 174.1 60.0
H19 C6A C5A H5A2 54.2 300.0
C5A C6A H19 H17 120.0 119.9
C5A C6A H19 H18 240.0 240.0
H17 C6A H19 H18 120.0 120.0