PDB Chemical Component AGS

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 AGS

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
PG S1G 2.017 1.863
PG O2G 1.577 1.610
PG O3G 1.518 1.610
PG O3B 1.625 1.609
PB O1B 1.469 1.479
PB O2B 1.549 1.610
PB O3B 1.615 1.611
PB O3A 1.572 1.610
PA O1A 1.577 1.480
PA O2A 1.532 1.611
PA O3A 1.545 1.611
PA O5' 1.611 1.609
O5' C5' 1.450 1.430
C5' C4' 1.519 1.530
C4' O4' 1.443 1.437
C4' C3' 1.526 1.541
O4' C1' 1.364 1.444
C3' O3' 1.463 1.430
C3' C2' 1.542 1.548
C2' O2' 1.444 1.429
C2' C1' 1.496 1.550
C1' N9 1.448 1.465
N9 C8 1.350 1.363
N9 C4 1.352 1.373
C8 N7 1.341 1.302
N7 C5 1.390 1.355
C5 C6 1.414 1.406
C5 C4 1.372 1.404
C6 N6 1.248 1.384
C6 N1 1.364 1.329
N1 C2 1.372 1.321
C2 N3 1.305 1.316
N3 C4 1.352 1.329
O2G HOG2 0.950 0.967
O3G H21 0.950 0.967
O2B HOB2 0.950 0.967
O2A HOA2 0.950 0.967
C5' H5'1 1.100 1.089
C5' H5'2 1.100 1.090
C4' H4' 1.100 1.090
C3' H3' 1.100 1.090
O3' HO3' 0.950 0.967
C2' H2' 1.101 1.090
O2' HO2' 0.950 0.966
C1' H1' 1.100 1.090
C8 H8 1.080 1.080
N6 HN61 0.999 0.970
N6 HN62 1.000 0.970
C2 H2 1.080 1.080

Bond Angles for AGS

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
S1G PG O2G 107.2 109.4
S1G PG O3G 109.8 109.5
S1G PG O3B 111.3 109.5
O2G PG O3G 111.7 109.5
O2G PG O3B 103.4 109.4
PG O2G HOG2 109.5 114.0
O3G PG O3B 113.1 109.5
PG O3G H21 109.5 114.0
PG O3B PB 130.7 134.0
O1B PB O2B 118.2 109.5
O1B PB O3B 110.0 109.5
O1B PB O3A 108.6 109.5
O2B PB O3B 106.9 109.5
O2B PB O3A 111.7 109.5
PB O2B HOB2 109.5 114.0
O3B PB O3A 99.7 109.4
PB O3A PA 131.0 134.0
O1A PA O2A 108.7 109.5
O1A PA O3A 114.2 109.5
O1A PA O5' 107.5 109.5
O2A PA O3A 111.7 109.5
O2A PA O5' 114.6 109.5
PA O2A HOA2 109.5 114.0
O3A PA O5' 99.9 109.5
PA O5' C5' 118.6 123.0
O5' C5' C4' 108.7 109.4
O5' C5' H5'1 109.7 109.5
O5' C5' H5'2 109.7 109.5
C5' C4' O4' 109.4 109.9
C5' C4' C3' 115.5 109.8
C4' C5' H5'1 109.6 109.5
C4' C5' H5'2 109.7 109.5
C5' C4' H4' 109.4 109.9
O4' C4' C3' 102.6 107.3
C4' O4' C1' 110.3 107.0
O4' C4' H4' 110.5 109.9
C4' C3' O3' 114.1 110.5
C4' C3' C2' 97.2 104.2
C3' C4' H4' 109.3 109.9
C4' C3' H3' 107.7 110.5
O4' C1' C2' 106.8 103.5
O4' C1' N9 112.0 110.6
O4' C1' H1' 109.3 110.6
O3' C3' C2' 120.7 110.5
O3' C3' H3' 108.5 110.4
C3' O3' HO3' 109.5 114.0
C3' C2' O2' 115.5 110.9
C3' C2' C1' 100.7 102.1
C2' C3' H3' 107.6 110.6
C3' C2' H2' 110.3 110.9
O2' C2' C1' 106.9 110.9
O2' C2' H2' 111.8 110.8
C2' O2' HO2' 109.5 114.0
C2' C1' N9 112.9 110.6
C1' C2' H2' 111.0 110.9
C2' C1' H1' 107.5 110.6
C1' N9 C8 132.0 126.3
C1' N9 C4 120.7 126.3
N9 C1' H1' 108.1 110.7
C8 N9 C4 107.1 107.4
N9 C8 N7 112.3 110.0
N9 C8 H8 123.9 125.0
N9 C4 C5 106.6 106.0
N9 C4 N3 124.3 134.9
C8 N7 C5 103.5 109.4
N7 C8 H8 123.8 125.0
N7 C5 C6 132.0 134.7
N7 C5 C4 110.0 107.2
C6 C5 C4 118.0 118.2
C5 C6 N6 127.8 120.7
C5 C6 N1 112.1 118.5
C5 C4 N3 128.9 119.1
N6 C6 N1 120.1 120.8
C6 N6 HN61 109.5 120.0
C6 N6 HN62 109.5 120.0
C6 N1 C2 125.3 121.2
N1 C2 N3 124.0 122.4
N1 C2 H2 118.0 118.8
C2 N3 C4 111.6 120.7
N3 C2 H2 118.0 118.8
H5'1 C5' H5'2 109.4 109.5
HN61 N6 HN62 109.5 120.0

Torsion Angles for AGS

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O2G PG S1G O3G 121.5 240.0
O2G PG S1G O3B 247.6 120.0
S1G PG O2G HOG2 360.0 60.0
O3G PG S1G O3B 126.1 239.9
S1G PG O3G H21 360.0 180.0
S1G PG O3B PB 83.7 299.9
S1G PG O2G O3G 239.7 120.0
S1G PG O2G O3B 117.7 240.0
O3G PG O2G O3B 238.1 120.0
O2G PG O3G H21 241.2 300.0
O2G PG O3B PB 198.5 180.0
S1G PG O3G O2G 118.8 240.1
S1G PG O3G O3B 234.9 120.0
O2G PG O3G O3B 116.1 240.0
O3G PG O2G HOG2 120.3 300.1
O3G PG O3B PB 319.4 60.0
S1G PG O3B O2G 245.2 119.9
S1G PG O3B O3G 124.3 240.0
O2G PG O3B O3G 239.0 120.0
O3B PG O2G HOG2 242.3 180.0
O3B PG O3G H21 125.1 60.0
O1B PB O3B PG 254.4 320.0
O2B PB O3B PG 24.0 80.1
PG O3B PB O3A 140.4 200.0
PG O3B PB O1B 254.4 320.0
O2B PB O1B O3B 236.8 240.0
O2B PB O1B O3A 128.6 120.0
O1B PB O2B HOB2 360.0 180.0
O3B PB O1B O3A 251.8 240.0
O1B PB O3A PA 126.5 45.0
PG O3B PB O2B 24.0 80.1
O1B PB O2B O3B 124.7 120.0
O1B PB O2B O3A 232.9 240.0
O3B PB O2B O3A 108.2 119.9
O2B PB O3A PA 354.3 285.0
O1B PB O3B O2B 230.4 240.0
O1B PB O3B O3A 114.0 120.0
O2B PB O3B O3A 243.6 240.0
O3B PB O2B HOB2 235.3 60.0
O3B PB O3A PA 241.5 165.0
O1B PB O3A O2B 132.2 120.0
O1B PB O3A O3B 244.9 240.0
O2B PB O3A O3B 112.7 120.0
O3A PB O2B HOB2 127.1 300.0
O1A PA O3A PB 300.3 320.0
O2A PA O3A PB 64.2 80.0
PB O3A PA O5' 185.9 200.0
PB O3A PA O1A 300.3 320.0
O2A PA O1A O3A 234.5 240.0
O2A PA O1A O5' 124.6 120.0
O1A PA O2A HOA2 0.0 180.0
O3A PA O1A O5' 250.1 240.0
O1A PA O5' C5' 145.1 55.0
PB O3A PA O2A 64.2 80.0
O1A PA O2A O3A 126.9 120.0
O1A PA O2A O5' 239.7 240.0
O3A PA O2A O5' 112.8 120.0
O2A PA O5' C5' 24.1 295.0
O1A PA O3A O2A 236.1 240.0
O1A PA O3A O5' 114.4 120.0
O2A PA O3A O5' 238.3 240.0
O3A PA O2A HOA2 233.1 60.0
O3A PA O5' C5' 264.5 175.0
O1A PA O5' O2A 121.0 120.0
O1A PA O5' O3A 240.5 240.0
O2A PA O5' O3A 119.6 120.0
O5' PA O2A HOA2 120.3 300.0
PA O5' C5' C4' 222.7 180.0
PA O5' C5' H5'1 342.6 300.0
PA O5' C5' H5'2 102.8 60.0
O5' C5' C4' O4' 309.9 66.5
O5' C5' C4' C3' 65.0 184.3
C4' C5' O5' H5'1 240.1 240.0
C4' C5' O5' H5'2 119.9 120.0
O5' C5' C4' H4' 188.8 305.4
H5'1 C5' O5' H5'2 239.8 240.0
O5' C5' C4' H5'1 119.9 120.0
O5' C5' C4' H5'2 240.1 240.0
O4' C4' C5' C3' 244.9 242.2
C5' C4' O4' C1' 148.3 145.9
O4' C4' C5' H4' 121.1 121.1
C5' C4' C3' O3' 70.4 119.9
C5' C4' C3' C2' 198.8 238.5
C3' C4' C5' H4' 236.2 238.9
C5' C4' C3' H3' 309.9 357.3
H5'1 C5' C4' H5'2 120.2 120.1
C5' C4' O4' C3' 123.1 119.4
O4' C4' C5' H5'1 190.0 306.5
O4' C4' C5' H5'2 69.8 186.4
C5' C4' O4' H4' 239.6 238.9
O4' C4' C3' O3' 189.3 239.3
O4' C4' C3' C2' 317.7 358.0
C3' C4' O4' H4' 116.5 119.5
O4' C4' C3' H3' 68.8 116.7
C4' O4' C1' C2' 4.6 319.9
C4' O4' C1' N9 240.4 201.4
C4' O4' C1' H1' 120.6 78.4
C5' C4' C3' O4' 241.1 240.6
C3' C4' C5' H5'1 305.1 64.3
C3' C4' C5' H5'2 184.9 304.3
C5' C4' C3' H4' 123.8 121.1
C3' C4' O4' C1' 25.1 26.5
O4' C4' C3' H4' 242.7 240.5
O3' C3' C4' C2' 231.6 241.3
O3' C3' C4' H3' 120.5 122.5
C4' C3' O3' HO3' 180.0 180.0
C4' C3' C2' O2' 289.6 220.9
C4' C3' C2' C1' 44.3 339.1
C2' C3' C4' H3' 248.9 241.2
C4' C3' C2' H2' 161.6 97.3
C1' O4' C4' C3' 25.1 26.5
C1' O4' C4' H4' 268.7 267.0
C3' C2' C1' O4' 328.1 37.0
O2' C2' C1' O4' 89.1 155.3
C2' C1' O4' N9 124.1 118.5
O4' C1' C2' H2' 211.3 278.8
C2' C1' O4' H1' 243.9 241.5
O4' C1' N9 C8 11.7 23.6
O4' C1' N9 C4 198.3 203.2
N9 C1' O4' H1' 119.8 123.0
C4' C3' O3' C2' 115.2 114.8
O3' C3' C4' H4' 306.6 358.8
C4' C3' O3' H3' 239.9 237.4
O3' C3' C2' O2' 53.2 339.6
O3' C3' C2' C1' 167.9 97.8
C2' C3' O3' H3' 124.7 122.6
O3' C3' C2' H2' 285.2 216.0
C4' C3' C2' O3' 236.4 241.3
C2' C3' C4' H4' 75.0 117.5
C4' C3' C2' H3' 111.2 118.7
O4' C1' C2' C3' 328.1 37.0
O3' C3' C2' H3' 234.9 237.4
C2' C3' O3' HO3' 64.8 65.2
O2' C2' C3' C1' 245.3 241.8
O2' C2' C3' H2' 128.0 123.6
C3' C2' O2' HO2' 180.0 298.5
C3' C2' C1' N9 91.7 155.5
C1' C2' C3' H2' 242.7 241.8
C3' C2' C1' H1' 210.9 278.5
O4' C1' C2' O2' 89.1 155.3
C3' C2' O2' C1' 111.1 112.7
O2' C2' C3' H3' 178.4 102.2
C3' C2' O2' H2' 232.8 236.3
O2' C2' C1' N9 212.7 273.7
C1' C2' O2' H2' 121.7 123.6
O2' C2' C1' H1' 331.9 36.7
O4' C1' C2' N9 236.4 241.5
O4' C1' C2' H1' 117.2 118.5
C3' C2' C1' O2' 239.0 241.8
C1' C2' C3' H3' 293.1 220.4
C3' C2' C1' H2' 116.8 118.2
O2' C2' C1' H2' 237.8 236.5
C1' C2' O2' HO2' 68.9 185.8
C2' C1' N9 C8 251.0 269.5
C2' C1' N9 C4 77.6 89.2
N9 C1' C2' H1' 240.8 237.0
O4' C1' N9 C2' 120.7 114.1
O4' C1' N9 H1' 239.5 237.0
N9 C1' C2' H2' 334.9 37.3
C2' C1' N9 H1' 118.9 123.0
C8 N9 C1' C4 173.4 180.3
C1' N9 C8 N7 192.2 179.9
C1' N9 C8 H8 12.2 360.0
C1' N9 C4 C5 170.2 179.9
C1' N9 C4 N3 354.6 0.8
C1' N9 C8 C4 185.9 179.7
C8 N9 C1' H1' 132.2 146.5
C8 N9 C4 C5 355.3 359.6
C8 N9 C4 N3 179.8 180.5
N9 C8 N7 C5 354.9 0.0
N7 C8 N9 H8 180.0 180.0
C1' N9 C4 C8 174.9 180.3
C4 N9 C1' H1' 318.8 326.2
C4 N9 C8 N7 6.3 0.2
C4 N9 C8 H8 186.3 180.3
N7 C5 C4 N9 1.7 0.4
C6 C5 C4 N9 181.9 180.2
C5 C4 N9 N3 175.5 179.1
C2 N3 C4 N9 177.1 179.6
N7 C8 N9 C4 6.3 0.2
N9 C8 N7 H8 180.0 180.0
C8 N7 C5 C6 181.8 180.0
C8 N7 C5 C4 1.9 359.7
N9 C4 C5 N7 1.7 0.4
C5 N7 C8 H8 174.9 180.0
C6 C5 N7 C4 179.8 180.3
N7 C5 C6 N6 0.5 360.0
N7 C5 C6 N1 180.1 179.9
N7 C5 C4 N3 177.0 179.7
N9 C4 C5 C6 181.9 180.2
N7 C5 C6 C4 180.2 179.7
C6 C5 C4 N3 357.1 359.5
N6 C6 C5 N1 180.4 180.1
C5 C6 N6 HN61 179.6 360.0
C5 C6 N6 HN62 299.6 179.9
C5 C6 N1 C2 3.0 0.0
N9 C4 C5 N3 184.7 180.7
N7 C5 C4 C6 179.9 180.2
C4 C5 C6 N6 180.3 180.3
C4 C5 C6 N1 359.9 0.2
C2 N3 C4 C5 2.6 0.6
N6 C6 C5 C4 180.3 180.3
C5 C6 N6 N1 179.6 179.9
N6 C6 N1 C2 182.6 180.0
HN61 N6 C6 HN62 240.0 180.0
N1 C6 C5 C4 359.9 0.2
C5 C6 N1 N6 180.3 180.1
N1 C6 N6 HN61 0.0 180.0
N1 C6 N6 HN62 120.0 360.0
C6 N1 C2 N3 356.6 360.0
C6 N1 C2 H2 176.6 179.9
N1 C2 N3 C4 0.5 359.7
N3 C2 N1 H2 180.0 180.0
N9 C4 N3 C2 177.1 179.6
C5 C4 N3 C2 2.6 0.6
N1 C2 N3 H2 180.0 180.0
N9 C4 N3 C5 174.5 179.0
C4 N3 C2 H2 180.5 179.7
HOG2 O2G PG O3G 120.3 300.1
HOG2 O2G PG O3B 242.3 180.0
H21 O3G PG O3B 125.1 60.0
HOB2 O2B PB O3B 235.3 60.0
HOB2 O2B PB O3A 127.1 300.0
HOA2 O2A PA O3A 233.1 60.0
HOA2 O2A PA O5' 120.3 300.0
O5' C5' H5'1 C4' 240.7 240.0
O5' C5' H5'1 H5'2 120.3 120.0
H5'1 C5' C4' O4' 190.0 306.5
H5'1 C5' C4' C3' 305.1 64.3
C4' C5' H5'1 H5'2 239.7 240.0
H5'1 C5' C4' H4' 68.9 185.4
O5' C5' H5'2 C4' 119.4 119.9
O5' C5' H5'2 H5'1 239.7 240.0
H5'2 C5' C4' O4' 69.8 186.4
H5'2 C5' C4' C3' 184.9 304.3
C4' C5' H5'2 H5'1 120.3 120.0
H5'2 C5' C4' H4' 308.7 65.3
C5' C4' H4' O4' 120.4 121.1
C5' C4' H4' C3' 232.6 239.0
H4' C4' C5' H5'1 68.9 185.4
H4' C4' C5' H5'2 308.7 65.3
O4' C4' H4' C3' 112.2 117.9
H4' C4' O4' C1' 268.7 267.0
H4' C4' C3' O3' 306.6 358.8
H4' C4' C3' C2' 75.0 117.5
H4' C4' C3' H3' 186.0 236.3
C4' C3' H3' O3' 124.0 122.6
C4' C3' H3' C2' 256.2 245.2
H3' C3' C4' H4' 186.0 236.3
O3' C3' H3' C2' 132.2 122.6
H3' C3' O3' HO3' 300.1 302.5
H3' C3' C2' O2' 178.4 102.2
H3' C3' C2' C1' 293.1 220.4
H3' C3' C2' H2' 50.4 338.6
HO3' O3' C3' C2' 64.8 65.2
HO3' O3' C3' H3' 300.1 302.5
C3' C2' H2' O2' 130.0 123.7
C3' C2' H2' C1' 249.3 247.3
H2' C2' C3' H3' 50.4 338.6
O2' C2' H2' C1' 119.3 123.6
H2' C2' O2' HO2' 307.2 62.2
H2' C2' C1' N9 334.9 37.3
H2' C2' C1' H1' 94.1 160.3
HO2' O2' C2' C1' 68.9 185.8
HO2' O2' C2' H2' 307.2 62.2
O4' C1' H1' C2' 244.4 245.9
O4' C1' H1' N9 122.2 122.9
C2' C1' H1' N9 237.8 237.0
H1' C1' C2' H2' 94.1 160.3
H1' C1' N9 C8 132.2 146.5
H1' C1' N9 C4 318.8 326.2
H8 C8 N9 C4 186.3 180.3
N9 C8 H8 N7 180.0 180.0
H8 C8 N7 C5 174.9 180.0
HN61 N6 C6 N1 0.0 180.0
C6 N6 HN61 HN62 120.0 180.0
HN62 N6 C6 N1 120.0 360.0
C6 N6 HN62 HN61 240.0 180.0
N1 C2 H2 N3 180.0 180.0
H2 C2 N3 C4 180.5 179.7