PDB Chemical Component DAD

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 DAD

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
PG O1G 1.485 1.479
PG O2G 1.486 1.611
PG O3G 1.490 1.609
PG O3B 1.514 1.609
O2G HOG2 0.950 0.967
O3G HOG3 0.950 0.968
PB O1B 1.491 1.479
PB O2B 1.491 1.609
PB O3B 1.507 1.610
PB O3A 1.498 1.610
O2B HOB2 0.951 0.966
PA O1A 1.482 1.480
PA O2A 1.486 1.610
PA O3A 1.491 1.609
PA O5' 1.595 1.610
O2A HOA2 0.950 0.966
O5' C5' 1.423 1.428
C5' C4' 1.512 1.530
C5' H5'1 1.115 1.089
C5' H5'2 1.115 1.090
C4' O4' 1.445 1.444
C4' C3' 1.532 1.544
C4' H4' 1.115 1.090
O4' C1' 1.403 1.444
C3' C2' 1.529 1.545
C3' H3'1 1.116 1.090
C3' H3'2 1.115 1.090
C2' C1' 1.527 1.544
C2' H2'1 1.116 1.091
C2' H2'2 1.115 1.090
C1' N9 1.457 1.465
C1' H1' 1.115 1.089
N9 C8 1.368 1.363
N9 C4 1.371 1.373
C8 N7 1.308 1.301
C8 H8 1.103 1.079
N7 C5 1.388 1.355
C5 C6 1.406 1.406
C5 C4 1.376 1.405
C6 N6 1.338 1.384
C6 N1 1.355 1.328
N6 HN61 1.020 0.970
N6 HN62 1.019 0.970
N1 C2 1.338 1.320
C2 N3 1.331 1.316
C2 H2 1.104 1.080
N3 C4 1.342 1.329

Bond Angles for DAD

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O1G PG O2G 119.3 109.4
O1G PG O3G 108.0 109.5
O1G PG O3B 108.6 109.5
O2G PG O3G 108.5 109.5
O2G PG O3B 108.8 109.5
PG O2G HOG2 119.3 106.8
O3G PG O3B 102.3 109.5
PG O3G HOG3 108.0 106.8
PG O3B PB 132.3 106.8
O1B PB O2B 120.0 109.5
O1B PB O3B 108.6 109.4
O1B PB O3A 109.1 109.5
O2B PB O3B 109.2 109.4
O2B PB O3A 108.7 109.5
PB O2B HOB2 119.9 106.8
O3B PB O3A 99.4 109.5
PB O3A PA 139.5 106.8
O1A PA O2A 119.8 109.5
O1A PA O3A 108.4 109.5
O1A PA O5' 107.2 109.4
O2A PA O3A 108.6 109.5
O2A PA O5' 109.2 109.5
PA O2A HOA2 119.8 106.8
O3A PA O5' 102.2 109.5
PA O5' C5' 121.0 106.8
O5' C5' C4' 110.2 109.5
O5' C5' H5'1 111.9 109.5
O5' C5' H5'2 111.9 109.6
C4' C5' H5'1 111.9 109.4
C4' C5' H5'2 111.9 109.4
C5' C4' O4' 108.4 110.5
C5' C4' C3' 116.3 110.4
C5' C4' H4' 104.6 110.3
H5'1 C5' H5'2 98.5 109.5
O4' C4' C3' 106.3 104.9
O4' C4' H4' 114.9 110.2
C4' O4' C1' 108.6 105.2
C3' C4' H4' 106.7 110.4
C4' C3' C2' 103.7 104.0
C4' C3' H3'1 114.4 110.5
C4' C3' H3'2 114.4 110.5
O4' C1' C2' 110.7 104.9
O4' C1' N9 112.1 110.4
O4' C1' H1' 116.0 110.4
C2' C3' H3'1 114.4 110.5
C2' C3' H3'2 114.4 110.4
C3' C2' C1' 101.7 104.1
C3' C2' H2'1 115.2 110.5
C3' C2' H2'2 115.2 110.5
H3'1 C3' H3'2 96.0 110.6
C1' C2' H2'1 115.1 110.5
C1' C2' H2'2 115.2 110.5
C2' C1' N9 125.5 110.4
C2' C1' H1' 96.1 110.3
H2'1 C2' H2'2 95.3 110.5
N9 C1' H1' 93.9 110.4
C1' N9 C8 128.0 126.3
C1' N9 C4 125.8 126.2
C8 N9 C4 105.9 107.5
N9 C8 N7 113.8 109.9
N9 C8 H8 125.0 125.0
N9 C4 C5 105.8 106.0
N9 C4 N3 127.1 134.9
N7 C8 H8 121.2 125.0
C8 N7 C5 103.7 109.5
N7 C5 C6 132.1 134.7
N7 C5 C4 110.8 107.1
C6 C5 C4 117.1 118.1
C5 C6 N6 123.6 120.7
C5 C6 N1 117.4 118.5
C5 C4 N3 127.1 119.1
N6 C6 N1 118.8 120.8
C6 N6 HN61 123.6 120.0
C6 N6 HN62 107.2 120.0
C6 N1 C2 118.5 121.2
HN61 N6 HN62 107.3 120.0
N1 C2 N3 129.2 122.5
N1 C2 H2 115.8 118.7
N3 C2 H2 115.1 118.8
C2 N3 C4 110.6 120.6

Torsion Angles for DAD

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O2G PG O1G O3G 124.4 120.0
O2G PG O1G O3B 234.6 240.0
O1G PG O2G HOG2 180.0 300.0
O3G PG O1G O3B 110.2 120.1
O1G PG O3G HOG3 180.0 180.0
O1G PG O3B PB 245.4 60.0
O1G PG O2G O3G 235.8 240.0
O1G PG O2G O3B 125.3 120.0
O3G PG O2G O3B 249.5 240.0
O2G PG O3G HOG3 49.4 60.0
O2G PG O3B PB 16.6 180.0
O1G PG O3G O2G 130.6 120.0
O1G PG O3G O3B 245.5 240.0
O2G PG O3G O3B 114.9 120.0
O3G PG O2G HOG2 304.2 60.0
O3G PG O3B PB 131.3 300.0
O1G PG O3B O2G 228.7 240.0
O1G PG O3B O3G 114.1 120.0
O2G PG O3B O3G 245.3 240.0
O3B PG O2G HOG2 54.7 180.0
O3B PG O3G HOG3 294.5 300.0
O1B PB O3B PG 305.7 60.0
O2B PB O3B PG 173.3 300.0
PG O3B PB O3A 59.6 180.0
HOG2 O2G PG O3G 304.2 60.0
HOG2 O2G PG O3B 54.7 180.0
HOG3 O3G PG O3B 294.5 300.0
PG O3B PB O1B 305.7 60.0
O2B PB O1B O3B 126.4 119.9
O2B PB O1B O3A 233.7 240.0
O1B PB O2B HOB2 180.0 180.0
O3B PB O1B O3A 107.3 120.0
O1B PB O3A PA 330.0 300.0
PG O3B PB O2B 173.3 300.0
O1B PB O2B O3B 233.9 240.0
O1B PB O2B O3A 126.4 120.0
O3B PB O2B O3A 252.6 240.0
O2B PB O3A PA 102.5 60.0
O1B PB O3B O2B 132.4 120.0
O1B PB O3B O3A 246.1 240.0
O2B PB O3B O3A 113.7 120.0
O3B PB O2B HOB2 306.2 300.0
O3B PB O3A PA 216.5 180.0
O1B PB O3A O2B 227.5 240.0
O1B PB O3A O3B 113.5 120.0
O2B PB O3A O3B 246.0 240.0
O3A PB O2B HOB2 53.6 60.0
O1A PA O3A PB 199.9 60.0
O2A PA O3A PB 68.3 300.0
PB O3A PA O5' 312.9 180.0
HOB2 O2B PB O3B 306.2 300.0
HOB2 O2B PB O3A 53.6 60.0
PB O3A PA O1A 199.9 60.0
O2A PA O1A O3A 125.3 120.0
O2A PA O1A O5' 235.0 240.0
O1A PA O2A HOA2 180.0 180.0
O3A PA O1A O5' 109.6 120.0
O1A PA O5' C5' 261.7 300.0
PB O3A PA O2A 68.3 300.0
O1A PA O2A O3A 234.7 240.0
O1A PA O2A O5' 124.0 120.0
O3A PA O2A O5' 249.3 240.0
O2A PA O5' C5' 32.9 60.0
O1A PA O3A O2A 131.7 120.0
O1A PA O3A O5' 247.0 240.0
O2A PA O3A O5' 115.4 120.0
O3A PA O2A HOA2 305.3 300.0
O3A PA O5' C5' 147.8 180.0
O1A PA O5' O2A 228.8 240.0
O1A PA O5' O3A 113.9 120.0
O2A PA O5' O3A 245.1 240.0
O5' PA O2A HOA2 56.0 60.0
PA O5' C5' C4' 84.3 180.0
PA O5' C5' H5'1 209.6 60.0
PA O5' C5' H5'2 319.1 299.9
HOA2 O2A PA O3A 305.3 300.0
HOA2 O2A PA O5' 56.0 60.0
C4' C5' O5' H5'1 234.8 119.9
C4' C5' O5' H5'2 125.2 240.0
O5' C5' C4' O4' 190.9 295.6
O5' C5' C4' C3' 71.4 180.0
O5' C5' C4' H4' 314.0 57.7
H5'1 C5' O5' H5'2 250.5 120.1
O5' C5' C4' H5'1 125.3 240.0
O5' C5' C4' H5'2 234.8 120.1
H5'1 C5' C4' H5'2 109.5 240.1
O4' C4' C5' C3' 119.6 115.6
O4' C4' C5' H4' 236.9 237.9
C5' C4' O4' C1' 215.8 200.6
C3' C4' C5' H4' 117.4 122.2
C5' C4' C3' C2' 149.9 143.0
C5' C4' C3' H3'1 275.2 24.3
C5' C4' C3' H3'2 24.6 261.5
O5' C5' H5'1 C4' 235.7 120.0
O5' C5' H5'1 H5'2 117.9 239.9
C4' C5' H5'1 H5'2 242.2 119.9
H5'1 C5' C4' O4' 65.7 55.6
H5'1 C5' C4' C3' 306.1 300.0
H5'1 C5' C4' H4' 188.7 177.7
O5' C5' H5'2 C4' 124.3 240.0
O5' C5' H5'2 H5'1 242.1 120.1
C4' C5' H5'2 H5'1 117.8 240.1
H5'2 C5' C4' O4' 316.2 175.5
H5'2 C5' C4' C3' 196.6 59.9
H5'2 C5' C4' H4' 79.2 297.7
O4' C4' C5' H5'1 65.7 55.6
O4' C4' C5' H5'2 316.2 175.5
C5' C4' O4' C3' 234.3 241.0
C5' C4' O4' H4' 116.6 122.2
C3' C4' O4' H4' 242.3 241.2
O4' C4' C3' C2' 29.3 23.9
O4' C4' C3' H3'1 154.5 265.2
O4' C4' C3' H3'2 263.9 142.5
C4' O4' C1' C2' 0.1 40.3
C4' O4' C1' N9 145.7 159.2
C4' O4' C1' H1' 252.0 281.5
C3' C4' C5' H5'1 306.1 300.0
C3' C4' C5' H5'2 196.6 59.9
C5' C4' C3' O4' 120.7 119.1
C5' C4' C3' H4' 243.8 237.8
O4' C4' C3' H4' 123.1 118.8
C3' C4' O4' C1' 341.5 319.7
C2' C3' C4' H3'1 234.8 118.6
C2' C3' C4' H3'2 125.3 241.4
C4' C3' C2' C1' 332.4 0.0
C4' C3' C2' H2'1 97.6 241.4
C4' C3' C2' H2'2 207.1 118.7
H3'1 C3' C4' H3'2 250.6 122.8
H4' C4' C5' H5'1 188.7 177.7
H4' C4' C5' H5'2 79.2 297.7
C5' C4' H4' O4' 241.3 237.7
C5' C4' H4' C3' 123.8 122.2
O4' C4' H4' C3' 242.5 244.5
H4' C4' O4' C1' 99.2 78.5
H4' C4' C3' C2' 266.2 265.1
H4' C4' C3' H3'1 31.4 146.5
H4' C4' C3' H3'2 140.9 23.7
C1' O4' C4' C3' 341.5 319.7
C1' O4' C4' H4' 99.2 78.5
C3' C2' C1' O4' 18.0 336.1
O4' C1' C2' H2'1 252.7 94.8
O4' C1' C2' H2'2 143.2 217.4
C2' C1' O4' N9 214.4 241.1
C2' C1' O4' H1' 108.1 118.8
N9 C1' O4' H1' 253.7 237.8
O4' C1' N9 C8 274.4 332.9
O4' C1' N9 C4 101.1 153.0
C2' C3' C4' H4' 266.2 265.1
C4' C3' C2' H3'1 125.3 241.4
C4' C3' C2' H3'2 234.7 118.6
O4' C1' C2' C3' 18.0 336.1
H3'1 C3' C2' H3'2 109.5 237.3
C1' C2' C3' H2'1 234.8 118.6
C1' C2' C3' H2'2 125.3 241.3
C3' C2' C1' N9 238.0 217.2
C3' C2' C1' H1' 138.7 95.0
H2'1 C2' C3' H2'2 250.5 122.7
H3'1 C3' C4' H4' 31.4 146.5
C4' C3' H3'1 C2' 240.6 114.6
C4' C3' H3'1 H3'2 120.3 237.2
C2' C3' H3'1 H3'2 239.7 122.6
H3'1 C3' C2' C1' 207.1 118.6
H3'1 C3' C2' H2'1 332.3 360.0
H3'1 C3' C2' H2'2 81.8 237.3
H3'2 C3' C4' H4' 140.9 23.7
C4' C3' H3'2 C2' 119.4 245.4
C4' C3' H3'2 H3'1 239.7 122.7
C2' C3' H3'2 H3'1 120.3 237.3
H3'2 C3' C2' C1' 97.7 241.4
H3'2 C3' C2' H2'1 222.9 122.7
H3'2 C3' C2' H2'2 332.4 0.1
O4' C1' C2' N9 139.9 118.9
O4' C1' C2' H1' 239.2 241.2
C1' C2' C3' H3'1 207.1 118.6
C1' C2' C3' H3'2 97.7 241.4
C3' C2' C1' H2'1 125.2 241.4
C3' C2' C1' H2'2 234.7 118.7
H2'1 C2' C1' H2'2 109.5 237.3
N9 C1' C2' H1' 99.3 122.3
C2' C1' N9 C8 53.8 88.4
C2' C1' N9 C4 240.6 268.5
H2'1 C2' C3' H3'1 332.3 360.0
H2'1 C2' C3' H3'2 222.9 122.7
C3' C2' H2'1 C1' 242.1 114.7
C3' C2' H2'1 H2'2 121.0 237.3
C1' C2' H2'1 H2'2 238.9 122.7
H2'1 C2' C1' N9 112.8 335.9
H2'1 C2' C1' H1' 13.5 213.6
H2'2 C2' C3' H3'1 81.8 237.3
H2'2 C2' C3' H3'2 332.4 0.1
C3' C2' H2'2 C1' 118.0 245.3
C3' C2' H2'2 H2'1 239.0 122.7
C1' C2' H2'2 H2'1 121.0 237.4
H2'2 C2' C1' N9 3.3 98.5
H2'2 C2' C1' H1' 264.0 336.3
O4' C1' N9 C2' 220.5 244.5
O4' C1' N9 H1' 120.2 122.3
N9 C1' C2' H2'1 112.8 335.9
N9 C1' C2' H2'2 3.3 98.5
C2' C1' N9 H1' 259.7 237.7
C8 N9 C1' C4 173.3 179.9
C1' N9 C8 N7 185.5 180.0
C1' N9 C8 H8 5.5 0.0
C1' N9 C4 C5 175.3 180.2
C1' N9 C4 N3 353.9 359.9
O4' C1' H1' C2' 116.6 115.4
O4' C1' H1' N9 243.0 237.7
H1' C1' C2' H2'1 13.5 213.6
H1' C1' C2' H2'2 264.0 336.3
C2' C1' H1' N9 126.4 122.3
H1' C1' N9 C8 154.2 210.7
H1' C1' N9 C4 340.9 30.8
C8 N9 C1' H1' 154.2 210.7
C1' N9 C8 C4 185.7 180.1
C8 N9 C4 C5 0.8 0.3
C8 N9 C4 N3 179.4 180.0
N7 C8 N9 H8 180.0 180.0
N9 C8 N7 C5 359.4 359.8
C4 N9 C1' H1' 340.9 30.8
C1' N9 C4 C8 174.5 179.9
C4 N9 C8 N7 359.8 359.9
C4 N9 C8 H8 179.8 179.9
N7 C5 C4 N9 358.8 359.6
C6 C5 C4 N9 180.7 180.3
C5 C4 N9 N3 181.4 180.3
C2 N3 C4 N9 180.4 180.0
N7 C8 N9 C4 359.8 359.9
N9 C8 N7 H8 180.0 180.0
C8 N7 C5 C6 178.8 179.4
C8 N7 C5 C4 1.1 0.4
H8 C8 N9 C4 179.8 179.9
N9 C8 H8 N7 180.0 180.0
H8 C8 N7 C5 179.4 179.8
N9 C4 C5 N7 358.8 359.6
C5 N7 C8 H8 179.4 179.8
C6 C5 N7 C4 177.6 179.0
N7 C5 C6 N6 3.0 0.7
N7 C5 C6 N1 179.5 180.5
N7 C5 C4 N3 180.2 179.8
N9 C4 C5 C6 180.7 180.3
N7 C5 C6 C4 182.5 181.0
C6 C5 C4 N3 2.1 0.6
N6 C6 C5 N1 183.5 180.2
C5 C6 N6 HN61 180.1 179.7
C5 C6 N6 HN62 54.7 359.4
C5 C6 N1 C2 3.3 0.2
N9 C4 C5 N3 178.6 179.7
N7 C5 C4 C6 178.0 179.2
C4 C5 C6 N6 180.6 179.7
C4 C5 C6 N1 357.0 359.5
C2 N3 C4 C5 358.7 359.7
N6 C6 C5 C4 180.6 179.7
C5 C6 N6 N1 176.4 179.8
N6 C6 N1 C2 179.9 180.0
HN61 N6 C6 HN62 125.3 180.2
N1 C6 C5 C4 357.0 359.5
C5 C6 N1 N6 183.4 180.2
N1 C6 N6 HN61 3.6 359.9
N1 C6 N6 HN62 238.3 179.7
C6 N1 C2 N3 357.1 0.0
C6 N1 C2 H2 177.1 180.1
HN61 N6 C6 N1 3.6 359.9
C6 N6 HN61 HN62 234.7 179.8
HN62 N6 C6 N1 238.3 179.7
C6 N6 HN62 HN61 134.6 180.2
N3 C2 N1 H2 180.0 180.0
N1 C2 N3 C4 1.7 360.0
N9 C4 N3 C2 180.4 180.0
C5 C4 N3 C2 358.7 359.7
N1 C2 N3 H2 180.0 180.0
N1 C2 H2 N3 180.0 180.0
H2 C2 N3 C4 181.7 180.0
N9 C4 N3 C5 181.7 180.4
C4 N3 C2 H2 181.7 180.0