PDB Chemical Component 8DG

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 8DG

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
PG O1G 1.498 1.480
PG O2G 1.502 1.609
PG O3G 1.530 1.610
PG O3B 1.605 1.610
O2G HOG2 0.950 0.967
O3G H3G 0.950 0.967
O3B PB 1.616 1.611
PB O1B 1.475 1.481
PB O2B 1.475 1.610
PB O3A 1.585 1.610
O2B HOB2 0.950 0.967
O3A PA 1.616 1.610
PA O1A 1.493 1.480
PA O2A 1.489 1.609
PA O5' 1.591 1.610
O2A HOA2 0.950 0.968
O5' C5' 1.436 1.429
C5' C4' 1.507 1.530
C5' H5'1 1.115 1.090
C5' H5'2 1.115 1.089
C4' O4' 1.459 1.446
C4' C3' 1.547 1.550
C4' H4' 1.115 1.090
O4' C1' 1.408 1.437
C3' O3' 1.423 1.429
C3' C2' 1.503 1.548
C3' H3' 1.115 1.090
O3' H1 0.950 0.968
C2' C1' 1.486 1.541
C2' H2'1 1.115 1.089
C2' H2'2 1.115 1.089
C1' N9 1.466 1.465
C1' H1' 1.115 1.090
N9 C8 1.382 1.346
N9 C4 1.355 1.381
C8 N7 1.313 1.347
C8 O8 1.237 1.217
N7 C5 1.397 1.396
N7 HN7 1.020 0.970
C5 C6 1.426 1.403
C5 C4 1.375 1.389
C6 O6 1.232 1.221
C6 N1 1.407 1.352
N1 C2 1.383 1.362
N1 HN1 1.020 0.970
C2 N2 1.342 1.372
C2 N3 1.313 1.315
N2 HN21 1.020 0.970
N2 HN22 1.020 0.970
N3 C4 1.355 1.338

Bond Angles for 8DG

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O1G PG O2G 112.8 109.5
O1G PG O3G 109.6 109.5
O1G PG O3B 108.3 109.5
O2G PG O3G 109.6 109.5
O2G PG O3B 106.6 109.5
PG O2G HOG2 112.8 106.8
O3G PG O3B 109.8 109.4
PG O3G H3G 109.6 106.8
PG O3B PB 129.5 106.8
O3B PB O1B 110.2 109.4
O3B PB O2B 110.1 109.5
O3B PB O3A 104.1 109.5
O1B PB O2B 112.9 109.5
O1B PB O3A 108.7 109.4
O2B PB O3A 110.6 109.5
PB O2B HOB2 110.1 106.8
PB O3A PA 135.4 106.8
O3A PA O1A 107.7 109.5
O3A PA O2A 107.9 109.5
O3A PA O5' 100.9 109.5
O1A PA O2A 115.4 109.5
O1A PA O5' 111.9 109.5
O2A PA O5' 111.8 109.5
PA O2A HOA2 107.9 106.9
PA O5' C5' 123.1 106.8
O5' C5' C4' 108.0 109.5
O5' C5' H5'1 112.8 109.5
O5' C5' H5'2 112.8 109.5
C4' C5' H5'1 112.7 109.4
C4' C5' H5'2 112.8 109.4
C5' C4' O4' 113.1 110.8
C5' C4' C3' 114.5 110.6
C5' C4' H4' 101.9 110.6
H5'1 C5' H5'2 97.7 109.5
O4' C4' C3' 104.7 103.6
O4' C4' H4' 112.1 110.5
C4' O4' C1' 103.1 106.9
C3' C4' H4' 110.7 110.6
C4' C3' O3' 110.1 111.0
C4' C3' C2' 104.0 102.1
C4' C3' H3' 113.9 110.9
O4' C1' C2' 104.1 107.5
O4' C1' N9 110.8 109.9
O4' C1' H1' 114.4 109.9
O3' C3' C2' 112.9 110.9
O3' C3' H3' 105.1 110.8
C3' O3' H1 110.1 106.8
C2' C3' H3' 111.1 110.9
C3' C2' C1' 100.1 104.1
C3' C2' H2'1 115.8 110.5
C3' C2' H2'2 115.8 110.5
C1' C2' H2'1 115.8 110.5
C1' C2' H2'2 115.8 110.5
C2' C1' N9 115.3 109.9
C2' C1' H1' 109.7 109.9
H2'1 C2' H2'2 94.6 110.6
N9 C1' H1' 102.9 109.9
C1' N9 C8 128.7 125.6
C1' N9 C4 125.1 125.6
C8 N9 C4 106.2 108.8
N9 C8 N7 112.8 109.5
N9 C8 O8 120.5 125.3
N9 C4 C5 106.7 106.9
N9 C4 N3 124.7 133.5
N7 C8 O8 126.7 125.3
C8 N7 C5 104.1 107.9
C8 N7 HN7 125.7 126.1
C5 N7 HN7 130.2 126.0
N7 C5 C6 131.2 134.0
N7 C5 C4 110.1 107.0
C6 C5 C4 118.7 119.0
C5 C6 O6 129.6 120.8
C5 C6 N1 111.8 118.5
C5 C4 N3 128.6 119.6
O6 C6 N1 118.5 120.7
C6 N1 C2 124.1 120.1
C6 N1 HN1 118.8 119.9
C2 N1 HN1 117.0 119.9
N1 C2 N2 116.0 119.2
N1 C2 N3 124.2 121.7
N2 C2 N3 119.9 119.1
C2 N2 HN21 109.9 120.1
C2 N2 HN22 116.0 120.0
C2 N3 C4 112.6 121.1
HN21 N2 HN22 109.9 119.9

Torsion Angles for 8DG

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O2G PG O1G O3G 122.5 120.0
O2G PG O1G O3B 242.2 240.0
O1G PG O2G HOG2 180.0 180.0
O3G PG O1G O3B 119.7 119.9
O1G PG O3G H3G 180.0 60.1
O1G PG O3B PB 36.2 320.0
O1G PG O2G O3G 237.5 240.0
O1G PG O2G O3B 118.8 120.0
O3G PG O2G O3B 241.2 240.0
O2G PG O3G H3G 55.6 300.1
O2G PG O3B PB 157.9 80.0
O1G PG O3G O2G 124.3 120.0
O1G PG O3G O3B 241.1 240.0
O2G PG O3G O3B 116.8 120.0
O3G PG O2G HOG2 302.5 300.0
O3G PG O3B PB 276.5 200.0
O1G PG O3B O2G 238.3 240.0
O1G PG O3B O3G 119.7 120.0
O2G PG O3B O3G 241.3 240.0
O3B PG O2G HOG2 61.2 59.9
O3B PG O3G H3G 298.8 180.0
PG O3B PB O1B 44.2 45.0
PG O3B PB O2B 279.1 285.0
PG O3B PB O3A 160.5 165.0
HOG2 O2G PG O3G 302.5 300.0
HOG2 O2G PG O3B 61.2 59.9
H3G O3G PG O3B 298.8 180.0
O1B PB O3B O2B 125.1 120.0
O1B PB O3B O3A 243.7 240.1
O2B PB O3B O3A 118.6 120.0
O3B PB O2B HOB2 180.0 300.0
O3B PB O3A PA 30.1 200.0
O3B PB O1B O2B 236.5 240.0
O3B PB O1B O3A 113.4 120.0
O2B PB O1B O3A 236.9 240.0
O1B PB O2B HOB2 56.5 180.0
O1B PB O3A PA 147.5 320.0
O3B PB O2B O1B 123.5 120.0
O3B PB O2B O3A 245.5 240.0
O1B PB O2B O3A 122.0 120.0
O2B PB O3A PA 271.9 80.0
O3B PB O3A O1B 242.6 240.0
O3B PB O3A O2B 118.2 120.1
O1B PB O3A O2B 235.6 240.0
O3A PB O2B HOB2 294.5 60.1
PB O3A PA O1A 171.5 45.0
PB O3A PA O2A 46.3 285.0
PB O3A PA O5' 288.9 165.0
HOB2 O2B PB O3A 294.5 60.1
O1A PA O3A O2A 125.3 120.0
O1A PA O3A O5' 242.6 240.0
O2A PA O3A O5' 117.4 120.0
O3A PA O2A HOA2 180.0 300.0
O3A PA O5' C5' 288.6 185.0
O3A PA O1A O2A 239.4 240.0
O3A PA O1A O5' 110.0 120.0
O2A PA O1A O5' 230.6 240.0
O1A PA O2A HOA2 59.5 180.0
O1A PA O5' C5' 42.9 305.0
O3A PA O2A O1A 120.5 120.0
O3A PA O2A O5' 250.0 240.0
O1A PA O2A O5' 129.4 120.0
O2A PA O5' C5' 174.2 65.0
O3A PA O5' O1A 245.7 240.0
O3A PA O5' O2A 114.4 120.0
O1A PA O5' O2A 228.7 240.0
O5' PA O2A HOA2 290.0 60.0
PA O5' C5' C4' 194.5 180.0
PA O5' C5' H5'1 69.2 60.0
PA O5' C5' H5'2 319.7 300.0
HOA2 O2A PA O5' 290.0 60.0
C4' C5' O5' H5'1 125.2 120.0
C4' C5' O5' H5'2 234.7 240.0
O5' C5' C4' O4' 174.7 70.7
O5' C5' C4' C3' 294.6 185.0
O5' C5' C4' H4' 54.1 307.9
H5'1 C5' O5' H5'2 109.5 120.1
O5' C5' C4' H5'1 234.7 240.0
O5' C5' C4' H5'2 125.3 120.0
H5'1 C5' C4' H5'2 250.5 240.0
O4' C4' C5' C3' 240.1 245.7
O4' C4' C5' H4' 120.6 122.8
C5' C4' O4' C1' 154.6 158.5
C3' C4' C5' H4' 240.5 237.1
C5' C4' C3' O3' 113.8 86.1
C5' C4' C3' C2' 235.1 204.3
C5' C4' C3' H3' 356.1 322.5
O5' C5' H5'1 C4' 122.6 120.0
O5' C5' H5'1 H5'2 241.3 239.9
C4' C5' H5'1 H5'2 118.7 120.0
H5'1 C5' C4' O4' 299.9 190.7
H5'1 C5' C4' C3' 59.9 305.0
H5'1 C5' C4' H4' 179.4 67.9
O5' C5' H5'2 C4' 237.4 240.0
O5' C5' H5'2 H5'1 118.7 120.1
C4' C5' H5'2 H5'1 241.3 240.0
H5'2 C5' C4' O4' 49.4 310.7
H5'2 C5' C4' C3' 169.3 65.0
H5'2 C5' C4' H4' 288.8 187.9
O4' C4' C5' H5'1 299.9 190.7
O4' C4' C5' H5'2 49.4 310.7
C5' C4' O4' C3' 125.3 118.7
C5' C4' O4' H4' 245.5 237.1
C3' C4' O4' H4' 120.1 118.4
O4' C4' C3' O3' 238.3 204.8
O4' C4' C3' C2' 359.6 323.1
O4' C4' C3' H3' 120.6 81.3
C4' O4' C1' C2' 311.8 333.7
C4' O4' C1' N9 187.3 214.2
C4' O4' C1' H1' 71.5 93.2
C3' C4' C5' H5'1 59.9 305.0
C3' C4' C5' H5'2 169.3 65.0
C5' C4' C3' O4' 235.5 241.2
C5' C4' C3' H4' 114.4 122.9
O4' C4' C3' H4' 238.9 241.6
C3' C4' O4' C1' 29.2 39.8
O3' C3' C4' C2' 238.7 241.7
O3' C3' C4' H3' 117.7 123.6
C4' C3' O3' H1 180.0 174.2
C2' C3' C4' H3' 239.0 241.8
C4' C3' C2' C1' 333.4 20.8
C4' C3' C2' H2'1 208.1 262.2
C4' C3' C2' H2'2 98.7 139.5
H4' C4' C5' H5'1 179.4 67.9
H4' C4' C5' H5'2 288.8 187.9
C5' C4' H4' O4' 121.3 123.0
C5' C4' H4' C3' 237.9 237.1
O4' C4' H4' C3' 116.6 114.1
H4' C4' O4' C1' 269.1 281.4
H4' C4' C3' O3' 359.4 323.2
H4' C4' C3' C2' 120.7 81.5
H4' C4' C3' H3' 241.7 199.6
C1' O4' C4' C3' 29.2 39.8
C1' O4' C4' H4' 269.1 281.4
C3' C2' C1' O4' 46.8 2.0
O4' C1' C2' H2'1 172.1 120.6
O4' C1' C2' H2'2 281.5 243.3
C2' C1' O4' N9 124.5 119.5
C2' C1' O4' H1' 240.3 240.5
N9 C1' O4' H1' 115.7 121.0
O4' C1' N9 C8 65.8 53.3
O4' C1' N9 C4 245.1 233.3
O3' C3' C4' H4' 359.4 323.2
C4' C3' O3' C2' 115.8 112.8
C4' C3' O3' H3' 237.0 236.4
C2' C3' O3' H3' 121.2 123.6
O3' C3' C2' C1' 92.8 139.1
O3' C3' C2' H2'1 327.5 20.5
O3' C3' C2' H2'2 218.0 257.8
C2' C3' C4' H4' 120.7 81.5
C4' C3' C2' O3' 240.6 241.7
C4' C3' C2' H3' 122.9 118.2
O4' C1' C2' C3' 46.8 2.0
O3' C3' C2' H3' 242.2 236.5
C2' C3' O3' H1 64.2 61.4
C1' C2' C3' H2'1 125.3 118.6
C1' C2' C3' H2'2 234.7 241.3
C3' C2' C1' N9 168.4 121.5
C3' C2' C1' H1' 284.0 242.5
H2'1 C2' C3' H2'2 109.4 122.7
H3' C3' C4' H4' 241.7 199.6
C4' C3' H3' O3' 120.6 123.7
C4' C3' H3' C2' 243.0 247.3
O3' C3' H3' C2' 122.4 123.6
H3' C3' O3' H1 303.0 297.8
H3' C3' C2' C1' 210.5 262.7
H3' C3' C2' H2'1 85.2 144.1
H3' C3' C2' H2'2 335.8 21.3
H1 O3' C3' C2' 64.2 61.4
H1 O3' C3' H3' 303.0 297.8
O4' C1' C2' N9 238.4 240.5
O4' C1' C2' H1' 122.8 119.5
C1' C2' C3' H3' 210.5 262.7
C3' C2' C1' H2'1 234.7 241.4
C3' C2' C1' H2'2 125.3 118.7
H2'1 C2' C1' H2'2 250.5 237.3
N9 C1' C2' H1' 244.4 239.0
C2' C1' N9 C8 307.9 295.3
C2' C1' N9 C4 127.2 115.3
H2'1 C2' C3' H3' 85.2 144.1
C3' C2' H2'1 C1' 116.8 114.7
C3' C2' H2'1 H2'2 238.4 237.3
C1' C2' H2'1 H2'2 121.6 122.6
H2'1 C2' C1' N9 293.6 240.1
H2'1 C2' C1' H1' 49.2 1.0
H2'2 C2' C3' H3' 335.8 21.3
C3' C2' H2'2 C1' 243.2 245.3
C3' C2' H2'2 H2'1 121.6 122.6
C1' C2' H2'2 H2'1 238.4 237.4
H2'2 C2' C1' N9 43.1 2.8
H2'2 C2' C1' H1' 158.7 123.8
O4' C1' N9 C2' 117.9 118.0
O4' C1' N9 H1' 237.3 239.0
N9 C1' C2' H2'1 293.6 240.1
N9 C1' C2' H2'2 43.1 2.8
C2' C1' N9 H1' 119.4 121.0
C8 N9 C1' C4 180.7 180.0
C1' N9 C8 N7 178.9 180.0
C1' N9 C8 O8 359.1 0.0
C1' N9 C4 C5 181.2 180.0
C1' N9 C4 N3 0.9 360.0
O4' C1' H1' C2' 243.5 242.0
O4' C1' H1' N9 120.2 121.0
H1' C1' C2' H2'1 49.2 1.0
H1' C1' C2' H2'2 158.7 123.8
C2' C1' H1' N9 236.7 239.0
H1' C1' N9 C8 188.5 174.3
H1' C1' N9 C4 7.8 354.3
C8 N9 C1' H1' 188.5 174.3
C1' N9 C8 C4 179.4 180.0
C8 N9 C4 C5 0.6 0.0
C8 N9 C4 N3 180.3 180.0
N7 C8 N9 O8 179.8 180.0
N9 C8 N7 C5 0.1 0.0
N9 C8 N7 HN7 180.1 180.0
C4 N9 C1' H1' 7.8 354.3
C1' N9 C4 C8 180.6 180.0
C4 N9 C8 N7 359.5 360.0
C4 N9 C8 O8 179.7 180.0
N7 C5 C4 N9 359.4 0.0
C6 C5 C4 N9 179.2 180.0
C5 C4 N9 N3 180.3 180.0
C2 N3 C4 N9 180.3 180.0
N7 C8 N9 C4 359.5 360.0
N9 C8 N7 O8 180.2 180.0
C5 N7 C8 HN7 180.0 180.0
C8 N7 C5 C6 180.5 180.0
C8 N7 C5 C4 0.3 360.0
O8 C8 N9 C4 179.7 180.0
N9 C8 O8 N7 179.8 180.0
O8 C8 N7 C5 179.9 180.0
O8 C8 N7 HN7 359.9 360.0
N9 C4 C5 N7 359.4 0.0
C5 N7 C8 O8 179.9 180.0
C8 N7 C5 HN7 180.0 180.0
C6 C5 N7 C4 180.2 180.0
N7 C5 C6 O6 0.3 360.0
N7 C5 C6 N1 180.3 179.7
N7 C5 C4 N3 179.7 180.0
HN7 N7 C8 O8 359.9 360.0
C8 N7 HN7 C5 180.0 180.0
HN7 N7 C5 C6 0.5 0.0
HN7 N7 C5 C4 180.3 180.0
N9 C4 C5 C6 179.2 180.0
C6 C5 N7 HN7 0.5 0.0
N7 C5 C6 C4 179.7 180.0
C6 C5 C4 N3 359.5 360.0
O6 C6 C5 N1 180.0 180.2
C5 C6 N1 C2 359.7 0.5
C5 C6 N1 HN1 179.7 180.0
N9 C4 C5 N3 179.7 180.0
C4 C5 N7 HN7 180.3 180.0
N7 C5 C4 C6 180.2 180.0
C4 C5 C6 O6 180.6 180.0
C4 C5 C6 N1 0.6 359.8
C2 N3 C4 C5 359.9 0.0
O6 C6 C5 C4 180.6 180.0
C5 C6 O6 N1 180.0 179.8
O6 C6 N1 C2 179.8 180.3
O6 C6 N1 HN1 359.8 359.8
N1 C6 C5 C4 0.6 359.8
C5 C6 N1 O6 180.0 180.2
C2 N1 C6 HN1 180.0 180.5
C6 N1 C2 N2 179.8 179.7
C6 N1 C2 N3 359.7 359.5
C6 N1 C2 HN1 180.0 179.5
N2 C2 N1 N3 180.1 180.2
N1 C2 N2 HN21 54.7 179.8
N1 C2 N2 HN22 180.0 359.5
N1 C2 N3 C4 0.4 0.2
C6 N1 HN1 C2 180.0 180.5
HN1 N1 C2 N2 359.8 0.2
HN1 N1 C2 N3 179.7 180.0
N2 C2 N1 HN1 359.8 0.2
N1 C2 N2 N3 180.0 179.8
N2 C2 N3 C4 180.4 180.0
HN21 N2 C2 HN22 234.7 180.3
N9 C4 N3 C2 180.3 180.0
C5 C4 N3 C2 359.9 0.0
N3 C2 N1 HN1 179.7 180.0
N1 C2 N3 N2 180.1 180.2
N3 C2 N2 HN21 234.8 0.0
N3 C2 N2 HN22 0.1 179.7
HN21 N2 C2 N3 234.8 0.0
C2 N2 HN21 HN22 128.8 179.7
HN22 N2 C2 N3 0.1 179.7
C2 N2 HN22 HN21 234.7 180.3
N9 C4 N3 C5 180.3 180.0