PDB Chemical Component GSP

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 GSP

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
PG O3B 1.659 1.610
PG S1G 1.925 1.863
PG O2G 1.507 1.610
PG O3G 1.488 1.609
O3B PB 1.590 1.610
O2G HOG2 0.950 0.967
O3G HOG3 0.950 0.967
PB O1B 1.459 1.479
PB O2B 1.522 1.609
PB O3A 1.616 1.611
O2B HOB2 0.951 0.967
PA O1A 1.469 1.480
PA O2A 1.502 1.609
PA O3A 1.631 1.609
PA O5' 1.614 1.609
O2A HOA2 0.949 0.966
O5' C5' 1.419 1.428
C5' C4' 1.483 1.530
C5' H5'1 1.115 1.090
C5' H5'2 1.114 1.090
C4' O4' 1.454 1.445
C4' C3' 1.540 1.544
C4' H4' 1.114 1.089
O4' C1' 1.446 1.444
C3' O3' 1.432 1.429
C3' C2' 1.552 1.547
C3' H3' 1.115 1.090
O3' HO3' 0.950 0.966
C2' O2' 1.408 1.429
C2' C1' 1.530 1.544
C2' H2' 1.115 1.090
O2' HO2' 0.951 0.967
C1' N9 1.477 1.464
C1' H1' 1.115 1.090
N9 C8 1.386 1.365
N9 C4 1.353 1.368
C8 N7 1.284 1.301
C8 H8 1.103 1.080
N7 C5 1.401 1.355
C5 C6 1.452 1.415
C5 C4 1.358 1.399
C6 O6 1.236 1.219
C6 N1 1.390 1.350
N1 C2 1.368 1.363
N1 HN1 1.021 0.970
C2 N2 1.315 1.372
C2 N3 1.327 1.314
N2 HN21 1.019 0.969
N2 HN22 1.021 0.969
N3 C4 1.347 1.339

Bond Angles for GSP

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O3B PG S1G 105.8 109.5
O3B PG O2G 106.1 109.5
O3B PG O3G 98.3 109.4
PG O3B PB 129.3 106.8
S1G PG O2G 120.0 109.5
S1G PG O3G 109.0 109.5
O2G PG O3G 114.9 109.5
PG O2G HOG2 106.1 106.7
PG O3G HOG3 98.3 106.8
O3B PB O1B 105.2 109.5
O3B PB O2B 114.1 109.5
O3B PB O3A 105.0 109.5
O1B PB O2B 116.5 109.5
O1B PB O3A 106.5 109.5
O2B PB O3A 108.7 109.5
PB O2B HOB2 114.1 106.8
PB O3A PA 132.0 106.8
O1A PA O2A 118.5 109.5
O1A PA O3A 104.8 109.5
O1A PA O5' 109.6 109.5
O2A PA O3A 110.4 109.4
O2A PA O5' 110.7 109.5
PA O2A HOA2 118.5 106.8
O3A PA O5' 101.4 109.5
PA O5' C5' 124.5 106.8
O5' C5' C4' 111.2 109.5
O5' C5' H5'1 111.6 109.5
O5' C5' H5'2 111.6 109.5
C4' C5' H5'1 111.6 109.4
C4' C5' H5'2 111.6 109.4
C5' C4' O4' 110.7 110.3
C5' C4' C3' 110.3 110.5
C5' C4' H4' 107.1 110.3
H5'1 C5' H5'2 98.9 109.5
O4' C4' C3' 106.2 104.8
O4' C4' H4' 111.1 110.4
C4' O4' C1' 110.4 105.3
C3' C4' H4' 111.5 110.4
C4' C3' O3' 109.8 110.5
C4' C3' C2' 103.8 104.1
C4' C3' H3' 112.9 110.5
O4' C1' C2' 103.9 104.9
O4' C1' N9 108.5 110.4
O4' C1' H1' 114.3 110.4
O3' C3' C2' 109.4 110.6
O3' C3' H3' 107.6 110.5
C3' O3' HO3' 109.8 106.8
C2' C3' H3' 113.2 110.6
C3' C2' O2' 112.0 110.5
C3' C2' C1' 102.4 104.0
C3' C2' H2' 112.8 110.5
O2' C2' C1' 110.3 110.8
O2' C2' H2' 105.1 110.4
C2' O2' HO2' 112.0 106.8
C1' C2' H2' 114.4 110.4
C2' C1' N9 111.2 110.4
C2' C1' H1' 111.7 110.3
N9 C1' H1' 107.3 110.3
C1' N9 C8 129.6 126.2
C1' N9 C4 125.5 126.3
C8 N9 C4 104.4 107.4
N9 C8 N7 114.6 109.8
N9 C8 H8 126.1 125.1
N9 C4 C5 107.2 106.1
N9 C4 N3 124.7 134.2
N7 C8 H8 119.3 125.1
C8 N7 C5 102.8 109.3
N7 C5 C6 130.4 134.2
N7 C5 C4 110.4 107.3
C6 C5 C4 119.2 118.6
C5 C6 O6 130.0 120.8
C5 C6 N1 111.0 118.4
C5 C4 N3 127.7 119.7
O6 C6 N1 119.0 120.8
C6 N1 C2 124.8 120.3
C6 N1 HN1 118.5 119.9
C2 N1 HN1 116.8 119.8
N1 C2 N2 119.0 119.0
N1 C2 N3 123.7 121.9
N2 C2 N3 117.0 119.1
C2 N2 HN21 119.0 119.9
C2 N2 HN22 108.8 120.1
C2 N3 C4 112.9 121.1
HN21 N2 HN22 108.8 120.0

Torsion Angles for GSP

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
S1G PG O3B O2G 231.5 240.0
S1G PG O3B O3G 112.5 120.0
O2G PG O3B O3G 241.0 240.0
O3B PG O2G HOG2 180.0 180.0
O3B PG O3G HOG3 180.0 300.0
PG O3B PB O1B 260.1 300.0
PG O3B PB O2B 29.0 60.0
PG O3B PB O3A 147.9 180.0
O3B PG S1G O2G 119.7 120.0
O3B PG S1G O3G 255.2 240.0
S1G PG O3B PB 191.2 60.0
O2G PG S1G O3G 135.5 120.0
S1G PG O2G HOG2 299.6 300.0
S1G PG O3G HOG3 70.0 180.0
O3B PG O2G S1G 240.4 240.0
O3B PG O2G O3G 107.4 120.0
O2G PG O3B PB 319.7 180.0
S1G PG O2G O3G 227.0 240.0
O2G PG O3G HOG3 292.1 60.0
O3B PG O3G S1G 110.0 120.0
O3B PG O3G O2G 247.9 240.0
O3G PG O3B PB 78.7 300.0
S1G PG O3G O2G 137.9 120.0
O3G PG O2G HOG2 72.6 60.0
PB O3B PG S1G 191.2 60.0
PB O3B PG O2G 319.7 180.0
PB O3B PG O3G 78.7 300.0
O1B PB O3B O2B 231.1 240.0
O1B PB O3B O3A 112.2 120.0
O2B PB O3B O3A 241.1 240.0
O3B PB O2B HOB2 180.0 60.0
O3B PB O3A PA 252.6 180.0
HOG2 O2G PG O3G 72.6 60.0
O3B PB O1B O2B 127.5 120.0
O3B PB O1B O3A 248.9 240.0
O2B PB O1B O3A 121.4 120.0
O1B PB O2B HOB2 303.0 180.0
O1B PB O3A PA 141.3 60.0
O3B PB O2B O1B 237.0 240.0
O3B PB O2B O3A 116.8 120.0
O1B PB O2B O3A 239.7 240.0
O2B PB O3A PA 15.1 300.0
O3B PB O3A O1B 111.3 120.0
O3B PB O3A O2B 237.5 240.0
O1B PB O3A O2B 126.2 120.0
O3A PB O2B HOB2 63.2 300.0
O1A PA O3A PB 289.5 300.0
O2A PA O3A PB 58.2 60.0
PB O3A PA O5' 175.5 180.0
HOB2 O2B PB O3A 63.2 300.0
PB O3A PA O1A 289.5 300.0
O2A PA O1A O3A 236.5 240.0
O2A PA O1A O5' 128.4 120.0
O1A PA O2A HOA2 180.0 180.0
O3A PA O1A O5' 251.9 240.0
O1A PA O5' C5' 166.3 60.1
PB O3A PA O2A 58.2 60.0
O1A PA O2A O3A 120.7 120.0
O1A PA O2A O5' 232.1 240.0
O3A PA O2A O5' 111.4 120.0
O2A PA O5' C5' 33.7 300.0
O1A PA O3A O2A 231.4 240.0
O1A PA O3A O5' 114.0 120.0
O2A PA O3A O5' 242.7 240.0
O3A PA O2A HOA2 59.3 60.0
O3A PA O5' C5' 276.6 180.0
O1A PA O5' O2A 132.6 120.0
O1A PA O5' O3A 249.7 240.0
O2A PA O5' O3A 117.1 120.0
O5' PA O2A HOA2 307.8 300.0
PA O5' C5' C4' 217.4 180.0
PA O5' C5' H5'1 342.6 60.0
PA O5' C5' H5'2 92.1 300.0
HOA2 O2A PA O3A 59.3 60.0
HOA2 O2A PA O5' 307.8 300.0
C4' C5' O5' H5'1 234.8 120.0
C4' C5' O5' H5'2 125.2 240.0
O5' C5' C4' O4' 302.4 61.4
O5' C5' C4' C3' 59.6 176.9
O5' C5' C4' H4' 181.1 299.2
H5'1 C5' O5' H5'2 250.5 120.0
O5' C5' C4' H5'1 125.2 240.0
O5' C5' C4' H5'2 234.8 120.0
H5'1 C5' C4' H5'2 109.6 240.0
O4' C4' C5' C3' 242.8 244.5
O4' C4' C5' H4' 121.2 122.2
C5' C4' O4' C1' 129.5 159.5
C3' C4' C5' H4' 238.5 237.7
C5' C4' C3' O3' 136.7 98.3
C5' C4' C3' C2' 253.6 217.1
C5' C4' C3' H3' 16.6 335.8
O5' C5' H5'1 C4' 235.0 120.0
O5' C5' H5'1 H5'2 117.5 240.0
C4' C5' H5'1 H5'2 242.5 119.9
H5'1 C5' C4' O4' 177.2 181.5
H5'1 C5' C4' C3' 294.4 296.9
H5'1 C5' C4' H4' 55.9 59.3
O5' C5' H5'2 C4' 125.0 240.0
O5' C5' H5'2 H5'1 242.5 120.0
C4' C5' H5'2 H5'1 117.5 240.1
H5'2 C5' C4' O4' 67.6 301.4
H5'2 C5' C4' C3' 184.8 56.9
H5'2 C5' C4' H4' 306.4 179.2
O4' C4' C5' H5'1 177.2 181.5
O4' C4' C5' H5'2 67.6 301.4
C5' C4' O4' C3' 119.7 119.0
C5' C4' O4' H4' 241.1 237.9
C3' C4' O4' H4' 121.4 118.9
O4' C4' C3' O3' 256.7 217.2
O4' C4' C3' C2' 13.6 335.9
O4' C4' C3' H3' 136.5 94.6
C4' O4' C1' C2' 330.5 319.6
C4' O4' C1' N9 212.1 200.6
C4' O4' C1' H1' 92.4 78.4
C3' C4' C5' H5'1 294.4 296.9
C3' C4' C5' H5'2 184.8 56.9
C5' C4' C3' O4' 240.1 241.1
C5' C4' C3' H4' 118.9 122.3
O4' C4' C3' H4' 238.8 241.2
C3' C4' O4' C1' 9.8 40.5
O3' C3' C4' C2' 243.1 241.3
O3' C3' C4' H3' 120.1 122.6
C4' C3' O3' HO3' 180.0 180.0
C2' C3' C4' H3' 237.0 241.3
C4' C3' C2' O2' 211.5 241.2
C4' C3' C2' C1' 329.7 0.1
C4' C3' C2' H2' 93.1 118.6
H4' C4' C5' H5'1 55.9 59.3
H4' C4' C5' H5'2 306.4 179.2
C5' C4' H4' O4' 121.0 122.2
C5' C4' H4' C3' 239.2 237.6
O4' C4' H4' C3' 118.3 115.4
H4' C4' O4' C1' 248.4 281.6
H4' C4' C3' O3' 17.8 336.0
H4' C4' C3' C2' 134.7 94.8
H4' C4' C3' H3' 257.7 213.5
C1' O4' C4' C3' 9.8 40.5
C1' O4' C4' H4' 248.4 281.6
C3' C2' C1' O4' 36.4 23.8
O2' C2' C1' O4' 155.9 142.6
O4' C1' C2' H2' 274.1 265.3
C2' C1' O4' N9 118.4 118.9
C2' C1' O4' H1' 238.1 241.2
N9 C1' O4' H1' 119.6 122.2
O4' C1' N9 C8 56.4 27.1
O4' C1' N9 C4 245.6 207.0
O3' C3' C4' H4' 17.8 336.0
C4' C3' O3' C2' 113.3 114.7
C4' C3' O3' H3' 236.7 237.4
C2' C3' O3' H3' 123.4 122.7
O3' C3' C2' O2' 328.7 359.9
O3' C3' C2' C1' 86.9 118.8
O3' C3' C2' H2' 210.3 237.3
C2' C3' C4' H4' 134.7 94.8
C4' C3' C2' O3' 242.8 241.3
C4' C3' C2' H3' 122.8 118.6
O4' C1' C2' C3' 36.4 23.8
O3' C3' C2' H3' 240.0 237.3
C2' C3' O3' HO3' 66.6 65.3
O2' C2' C3' C1' 241.8 241.0
O2' C2' C3' H2' 118.4 122.5
C3' C2' O2' HO2' 180.0 298.6
C1' C2' C3' H2' 236.6 241.5
C3' C2' C1' N9 153.0 142.8
C3' C2' C1' H1' 272.8 265.0
H3' C3' C4' H4' 257.7 213.5
C4' C3' H3' O3' 121.4 122.6
C4' C3' H3' C2' 242.4 245.3
O3' C3' H3' C2' 121.0 122.7
H3' C3' O3' HO3' 303.3 302.6
H3' C3' C2' O2' 88.7 122.5
H3' C3' C2' C1' 206.9 241.5
H3' C3' C2' H2' 330.3 0.0
HO3' O3' C3' C2' 66.6 65.3
HO3' O3' C3' H3' 303.3 302.6
O4' C1' C2' O2' 155.9 142.6
O2' C2' C3' H3' 88.7 122.5
C3' C2' O2' C1' 113.4 114.7
C3' C2' O2' H2' 237.2 237.4
C1' C2' O2' H2' 123.8 122.7
O2' C2' C1' N9 272.4 261.5
O2' C2' C1' H1' 32.2 23.7
O4' C1' C2' N9 243.5 241.1
O4' C1' C2' H1' 123.7 118.9
C1' C2' C3' H3' 206.9 241.5
C3' C2' C1' O2' 240.6 241.3
C3' C2' C1' H2' 122.3 118.6
O2' C2' C1' H2' 241.7 237.3
C1' C2' O2' HO2' 66.6 183.9
N9 C1' C2' H1' 240.2 237.8
C2' C1' N9 C8 302.8 271.5
C2' C1' N9 C4 131.9 91.4
H2' C2' C3' H3' 330.3 0.0
C3' C2' H2' O2' 122.3 122.6
C3' C2' H2' C1' 243.5 245.5
O2' C2' H2' C1' 121.2 122.9
H2' C2' O2' HO2' 302.8 61.1
H2' C2' C1' N9 30.6 24.2
H2' C2' C1' H1' 150.4 146.4
HO2' O2' C2' C1' 66.6 183.9
HO2' O2' C2' H2' 302.8 61.1
O4' C1' N9 C2' 113.7 115.6
O4' C1' N9 H1' 236.1 237.8
N9 C1' C2' H2' 30.6 24.2
C2' C1' N9 H1' 122.4 122.2
C8 N9 C1' C4 170.9 180.1
C1' N9 C8 N7 182.0 180.0
C1' N9 C8 H8 2.1 360.0
C1' N9 C4 C5 173.8 180.0
C1' N9 C4 N3 0.6 0.1
O4' C1' H1' C2' 242.4 244.5
O4' C1' H1' N9 120.3 122.2
H1' C1' C2' H2' 150.4 146.4
C2' C1' H1' N9 237.9 237.8
H1' C1' N9 C8 180.4 149.3
H1' C1' N9 C4 9.5 329.2
C8 N9 C1' H1' 180.4 149.3
C1' N9 C8 C4 187.7 179.9
C8 N9 C4 C5 1.1 359.9
C8 N9 C4 N3 187.9 180.0
N7 C8 N9 H8 179.9 180.1
N9 C8 N7 C5 7.3 359.9
C4 N9 C1' H1' 9.5 329.2
C1' N9 C4 C8 172.7 180.1
C4 N9 C8 N7 354.4 0.1
C4 N9 C8 H8 174.4 180.0
N7 C5 C4 N9 3.2 0.1
C6 C5 C4 N9 183.6 180.0
C5 C4 N9 N3 173.2 179.9
C2 N3 C4 N9 180.5 179.9
N7 C8 N9 C4 354.4 0.1
N9 C8 N7 H8 180.1 179.9
C8 N7 C5 C6 173.2 180.0
C8 N7 C5 C4 353.6 0.0
H8 C8 N9 C4 174.4 180.0
N9 C8 H8 N7 179.9 180.1
H8 C8 N7 C5 187.3 180.0
N9 C4 C5 N7 3.2 0.1
C5 N7 C8 H8 187.3 180.0
C6 C5 N7 C4 179.5 180.0
N7 C5 C6 O6 355.1 0.0
N7 C5 C6 N1 176.4 179.7
N7 C5 C4 N3 176.1 180.0
N9 C4 C5 C6 183.6 180.0
N7 C5 C6 C4 180.5 180.0
C6 C5 C4 N3 356.5 360.0
O6 C6 C5 N1 178.7 180.3
C5 C6 N1 C2 6.1 0.6
C5 C6 N1 HN1 186.1 180.0
N9 C4 C5 N3 187.1 180.1
N7 C5 C4 C6 179.6 180.0
C4 C5 C6 O6 174.6 180.1
C4 C5 C6 N1 355.9 359.7
C2 N3 C4 C5 8.8 0.0
O6 C6 C5 C4 174.6 180.1
C5 C6 O6 N1 181.4 179.7
O6 C6 N1 C2 187.2 180.3
O6 C6 N1 HN1 7.2 359.7
N1 C6 C5 C4 355.9 359.7
C5 C6 N1 O6 178.8 180.3
C2 N1 C6 HN1 180.0 180.6
C6 N1 C2 N2 185.8 179.7
C6 N1 C2 N3 359.3 359.4
C6 N1 C2 HN1 180.0 179.4
N2 C2 N1 N3 186.6 180.3
N1 C2 N2 HN21 180.0 179.8
N1 C2 N2 HN22 54.7 359.4
N1 C2 N3 C4 353.4 0.3
C6 N1 HN1 C2 180.0 180.6
HN1 N1 C2 N2 5.8 0.3
HN1 N1 C2 N3 179.2 180.0
N2 C2 N1 HN1 5.8 0.3
N1 C2 N2 N3 173.9 179.7
N2 C2 N3 C4 167.0 180.0
HN21 N2 C2 HN22 125.2 180.4
N9 C4 N3 C2 180.5 179.9
C5 C4 N3 C2 8.8 0.0
N3 C2 N1 HN1 179.2 180.0
N1 C2 N3 N2 186.5 180.3
N3 C2 N2 HN21 6.1 0.1
N3 C2 N2 HN22 240.9 179.7
HN21 N2 C2 N3 6.1 0.1
C2 N2 HN21 HN22 234.8 179.6
HN22 N2 C2 N3 240.9 179.7
C2 N2 HN22 HN21 131.0 180.4
N9 C4 N3 C5 171.8 179.9