PDB Chemical Component SGP

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 SGP

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P S1P 1.991 1.863
P O1P 1.411 1.610
P O3' 1.540 1.631
P O2' 1.604 1.626
O1P HOP1 0.951 0.967
O5' C5' 1.427 1.429
O5' HO5' 0.950 0.967
C5' C4' 1.488 1.530
C5' H5'1 1.115 1.090
C5' H5'2 1.115 1.089
C4' O4' 1.464 1.437
C4' C3' 1.514 1.542
C4' H4' 1.115 1.090
O4' C1' 1.401 1.444
C3' O3' 1.542 1.446
C3' C2' 1.548 1.550
C3' H3' 1.115 1.090
C2' O2' 1.427 1.436
C2' C1' 1.532 1.546
C2' H2' 1.115 1.091
C1' N9 1.386 1.464
C1' H1' 1.114 1.090
N9 C8 1.347 1.365
N9 C4 1.378 1.368
C8 N7 1.316 1.301
C8 H8 1.104 1.080
N7 C5 1.389 1.355
C5 C6 1.401 1.415
C5 C4 1.384 1.399
C6 O6 1.232 1.219
C6 N1 1.372 1.351
N1 C2 1.385 1.363
N1 HN1 1.020 0.969
C2 N2 1.348 1.372
C2 N3 1.299 1.313
N2 HN21 1.019 0.970
N2 HN22 1.020 0.970
N3 C4 1.369 1.338

Bond Angles for SGP

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
S1P P O1P 112.5 112.1
S1P P O3' 118.4 110.7
S1P P O2' 106.1 110.8
O1P P O3' 105.8 110.7
O1P P O2' 115.7 110.6
P O1P HOP1 112.5 106.8
O3' P O2' 97.9 101.5
P O3' C3' 109.9 102.1
P O2' C2' 118.9 105.6
C5' O5' HO5' 117.7 106.9
O5' C5' C4' 117.7 109.5
O5' C5' H5'1 109.2 109.5
O5' C5' H5'2 109.2 109.4
C4' C5' H5'1 109.2 109.5
C4' C5' H5'2 109.3 109.4
C5' C4' O4' 119.5 109.9
C5' C4' C3' 118.7 110.0
C5' C4' H4' 91.9 109.8
H5'1 C5' H5'2 100.8 109.5
O4' C4' C3' 100.2 107.4
O4' C4' H4' 113.3 109.9
C4' O4' C1' 109.6 107.0
C3' C4' H4' 114.2 109.8
C4' C3' O3' 111.4 107.9
C4' C3' C2' 103.8 104.0
C4' C3' H3' 112.3 112.4
O4' C1' C2' 105.3 103.6
O4' C1' N9 111.2 110.6
O4' C1' H1' 121.8 110.6
O3' C3' C2' 110.6 107.3
O3' C3' H3' 105.8 112.3
C2' C3' H3' 113.1 112.5
C3' C2' O2' 100.7 109.6
C3' C2' C1' 104.0 102.3
C3' C2' H2' 116.7 112.5
O2' C2' C1' 105.4 109.8
O2' C2' H2' 115.6 111.2
C1' C2' H2' 112.8 111.0
C2' C1' N9 128.4 110.7
C2' C1' H1' 99.3 110.6
N9 C1' H1' 91.4 110.5
C1' N9 C8 126.3 126.2
C1' N9 C4 130.0 126.3
C8 N9 C4 103.5 107.5
N9 C8 N7 116.0 109.8
N9 C8 H8 123.1 125.1
N9 C4 C5 108.2 106.1
N9 C4 N3 124.6 134.2
N7 C8 H8 120.9 125.1
C8 N7 C5 103.7 109.3
N7 C5 C6 134.2 134.1
N7 C5 C4 108.6 107.3
C6 C5 C4 117.2 118.7
C5 C6 O6 129.7 120.9
C5 C6 N1 115.2 118.3
C5 C4 N3 127.0 119.6
O6 C6 N1 115.1 120.8
C6 N1 C2 123.1 120.3
C6 N1 HN1 117.9 119.8
C2 N1 HN1 119.0 119.9
N1 C2 N2 114.8 119.0
N1 C2 N3 123.6 121.9
N2 C2 N3 121.5 119.0
C2 N2 HN21 114.8 120.0
C2 N2 HN22 110.2 120.0
C2 N3 C4 113.7 121.1
HN21 N2 HN22 110.3 120.0

Torsion Angles for SGP

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O1P P S1P O3' 236.0 235.9
O1P P S1P O2' 127.5 124.1
S1P P O1P HOP1 180.0 62.3
O3' P S1P O2' 251.4 248.2
S1P P O3' C3' 118.4 82.3
S1P P O2' C2' 224.0 264.4
S1P P O1P O3' 130.7 124.1
S1P P O1P O2' 237.8 235.8
O3' P O1P O2' 107.1 111.7
O1P P O3' C3' 245.6 207.3
O1P P O2' C2' 98.4 139.5
S1P P O3' O1P 232.7 235.1
S1P P O3' O2' 113.2 117.6
O1P P O3' O2' 240.4 242.6
O3' P O1P HOP1 49.3 298.1
O3' P O2' C2' 346.6 22.0
C4' C3' O3' P 117.6 147.2
P O3' C3' C2' 2.6 35.7
P O3' C3' H3' 239.9 271.6
S1P P O2' O1P 125.6 125.0
S1P P O2' O3' 237.4 242.4
O1P P O2' O3' 111.8 117.5
O2' P O1P HOP1 302.2 186.4
O2' P O3' C3' 5.2 324.7
C3' C2' O2' P 14.9 358.4
P O2' C2' C1' 266.9 246.8
P O2' C2' H2' 141.7 123.5
HOP1 O1P P O3' 49.3 298.1
HOP1 O1P P O2' 302.2 186.4
C4' C5' O5' H5'1 234.7 120.1
C4' C5' O5' H5'2 125.3 240.1
O5' C5' C4' O4' 268.2 61.4
O5' C5' C4' C3' 30.9 179.5
O5' C5' C4' H4' 149.9 300.4
H5'1 C5' O5' H5'2 250.6 120.0
HO5' O5' C5' C4' 180.0 180.0
HO5' O5' C5' H5'1 305.3 59.9
HO5' O5' C5' H5'2 54.7 300.0
C4' C5' O5' HO5' 180.0 180.0
O5' C5' C4' H5'1 125.3 240.0
O5' C5' C4' H5'2 234.7 119.9
H5'1 C5' C4' H5'2 109.4 240.0
O4' C4' C5' C3' 237.3 242.0
O4' C4' C5' H4' 118.3 121.0
C5' C4' O4' C1' 89.4 146.1
C3' C4' C5' H4' 241.0 239.1
C5' C4' C3' O3' 145.5 124.4
C5' C4' C3' C2' 264.6 238.2
C5' C4' C3' H3' 27.1 0.1
H5'1 C5' O5' HO5' 305.3 59.9
O5' C5' H5'1 C4' 229.9 120.0
O5' C5' H5'1 H5'2 114.9 240.0
C4' C5' H5'1 H5'2 245.0 120.0
H5'1 C5' C4' O4' 142.9 181.4
H5'1 C5' C4' C3' 265.6 299.5
H5'1 C5' C4' H4' 24.6 60.4
H5'2 C5' O5' HO5' 54.7 300.0
O5' C5' H5'2 C4' 130.1 240.0
O5' C5' H5'2 H5'1 245.1 120.0
C4' C5' H5'2 H5'1 115.0 239.9
H5'2 C5' C4' O4' 33.4 301.5
H5'2 C5' C4' C3' 156.1 59.5
H5'2 C5' C4' H4' 275.2 180.5
O4' C4' C5' H5'1 142.9 181.4
O4' C4' C5' H5'2 33.4 301.5
C5' C4' O4' C3' 131.4 119.6
C5' C4' O4' H4' 253.5 239.0
C3' C4' O4' H4' 122.0 119.4
O4' C4' C3' O3' 277.4 244.0
O4' C4' C3' C2' 36.5 357.8
O4' C4' C3' H3' 159.0 119.7
C4' O4' C1' C2' 29.3 320.2
C4' O4' C1' N9 246.5 201.6
C4' O4' C1' H1' 140.8 78.8
P O3' C3' C4' 117.6 147.2
C3' C4' C5' H5'1 265.6 299.5
C3' C4' C5' H5'2 156.1 59.5
C5' C4' C3' O4' 228.1 240.4
C5' C4' C3' H4' 106.7 121.0
O4' C4' C3' H4' 238.6 240.6
C3' C4' O4' C1' 317.9 26.4
O3' C3' C4' C2' 240.9 246.3
O3' C3' C4' H3' 118.4 124.4
C2' C3' C4' H3' 237.5 238.1
C4' C3' C2' O2' 230.3 223.0
C4' C3' C2' C1' 339.3 339.5
C4' C3' C2' H2' 104.3 98.7
H4' C4' C5' H5'1 24.6 60.4
H4' C4' C5' H5'2 275.2 180.5
C5' C4' H4' O4' 123.4 121.1
C5' C4' H4' C3' 237.2 238.9
O4' C4' H4' C3' 113.8 117.9
H4' C4' O4' C1' 195.9 267.1
H4' C4' C3' O3' 38.8 3.4
H4' C4' C3' C2' 157.9 117.2
H4' C4' C3' H3' 280.4 239.1
C1' O4' C4' C3' 317.9 26.4
C1' O4' C4' H4' 195.9 267.1
C3' C2' C1' O4' 355.9 36.6
O2' C2' C1' O4' 101.5 153.0
O4' C1' C2' H2' 228.5 276.4
C2' C1' O4' N9 142.8 118.6
C2' C1' O4' H1' 248.5 241.4
N9 C1' O4' H1' 105.7 122.8
O4' C1' N9 C8 18.0 26.4
O4' C1' N9 C4 202.8 206.4
C3' O3' P O2' 5.2 324.7
O3' C3' C4' H4' 38.8 3.4
C4' C3' O3' C2' 115.0 111.5
C4' C3' O3' H3' 237.8 235.6
C2' C3' O3' H3' 122.8 124.1
O3' C3' C2' O2' 349.9 337.1
O3' C3' C2' C1' 99.0 93.6
O3' C3' C2' H2' 223.9 212.8
P O2' C2' C3' 14.9 358.4
C2' C3' C4' H4' 157.9 117.2
C4' C3' C2' O3' 240.4 245.9
C4' C3' C2' H3' 121.9 121.9
O4' C1' C2' C3' 355.9 36.6
O3' C3' C2' H3' 241.6 236.0
O2' C2' C3' C1' 251.0 243.5
O2' C2' C3' H2' 126.0 124.3
C1' C2' C3' H2' 235.0 240.8
C3' C2' C1' N9 129.9 155.3
C3' C2' C1' H1' 229.2 278.1
H3' C3' C4' H4' 280.4 239.1
C4' C3' H3' O3' 121.7 121.9
C4' C3' H3' C2' 242.9 243.0
O3' C3' H3' C2' 121.2 121.1
H3' C3' C2' O2' 108.3 101.1
H3' C3' C2' C1' 217.4 217.6
H3' C3' C2' H2' 342.3 336.8
O4' C1' C2' O2' 101.5 153.0
O2' C2' C3' H3' 108.3 101.1
C3' C2' O2' C1' 108.0 111.7
C3' C2' O2' H2' 233.3 234.9
C1' C2' O2' H2' 125.3 123.3
O2' C2' C1' N9 235.5 271.6
O2' C2' C1' H1' 334.7 34.5
O4' C1' C2' N9 226.0 241.4
O4' C1' C2' H1' 126.7 118.6
C1' C2' C3' H3' 217.4 217.6
C3' C2' C1' O2' 254.4 243.6
C3' C2' C1' H2' 127.4 120.3
O2' C2' C1' H2' 233.0 236.6
N9 C1' C2' H1' 260.7 237.2
C2' C1' N9 C8 246.1 272.1
C2' C1' N9 C4 70.9 92.1
H2' C2' C3' H3' 342.3 336.8
C3' C2' H2' O2' 118.2 123.4
C3' C2' H2' C1' 239.6 246.0
O2' C2' H2' C1' 121.4 122.6
H2' C2' C1' N9 2.5 35.0
H2' C2' C1' H1' 101.7 157.8
O4' C1' N9 C2' 131.9 114.3
O4' C1' N9 H1' 234.9 237.1
N9 C1' C2' H2' 2.5 35.0
C2' C1' N9 H1' 103.0 122.9
C8 N9 C1' C4 175.2 180.0
C1' N9 C8 N7 183.5 180.0
C1' N9 C8 H8 3.6 0.0
C1' N9 C4 C5 176.4 180.0
C1' N9 C4 N3 352.0 0.1
O4' C1' H1' C2' 245.4 245.8
O4' C1' H1' N9 116.1 122.9
H1' C1' C2' H2' 101.7 157.8
C2' C1' H1' N9 230.7 237.1
H1' C1' N9 C8 143.1 149.3
H1' C1' N9 C4 327.9 329.2
C8 N9 C1' H1' 143.1 149.3
C1' N9 C8 C4 183.8 180.0
C8 N9 C4 C5 0.4 360.0
C8 N9 C4 N3 176.0 180.1
N7 C8 N9 H8 180.0 180.0
N9 C8 N7 C5 0.0 0.0
C4 N9 C1' H1' 327.9 329.2
C1' N9 C4 C8 176.0 180.0
C4 N9 C8 N7 359.8 0.0
C4 N9 C8 H8 179.8 180.1
N7 C5 C4 N9 359.6 0.0
C6 C5 C4 N9 180.9 180.0
C5 C4 N9 N3 184.4 179.9
C2 N3 C4 N9 179.6 180.0
N7 C8 N9 C4 359.8 0.0
N9 C8 N7 H8 180.0 180.0
C8 N7 C5 C6 178.7 180.0
C8 N7 C5 C4 0.2 360.0
H8 C8 N9 C4 179.8 180.1
N9 C8 H8 N7 180.0 180.0
H8 C8 N7 C5 180.0 180.0
N9 C4 C5 N7 359.6 0.0
C5 N7 C8 H8 180.0 180.0
C6 C5 N7 C4 178.5 180.1
N7 C5 C6 O6 0.3 360.0
N7 C5 C6 N1 178.4 179.7
N7 C5 C4 N3 184.1 180.0
N9 C4 C5 C6 180.9 180.0
N7 C5 C6 C4 181.6 179.9
C6 C5 C4 N3 5.4 359.9
O6 C6 C5 N1 182.0 180.2
C5 C6 N1 C2 2.2 0.5
C5 C6 N1 HN1 182.2 180.0
N9 C4 C5 N3 175.5 180.1
N7 C5 C4 C6 178.8 180.1
C4 C5 C6 O6 178.7 180.0
C4 C5 C6 N1 356.7 359.8
C2 N3 C4 C5 354.5 0.1
O6 C6 C5 C4 178.7 180.0
C5 C6 O6 N1 178.0 179.8
O6 C6 N1 C2 180.6 180.3
O6 C6 N1 HN1 0.6 359.8
N1 C6 C5 C4 356.7 359.8
C5 C6 N1 O6 181.7 180.2
C2 N1 C6 HN1 180.0 180.5
C6 N1 C2 N2 178.8 179.8
C6 N1 C2 N3 357.2 359.5
C6 N1 C2 HN1 180.0 179.5
N2 C2 N1 N3 181.6 180.3
N1 C2 N2 HN21 180.0 179.8
N1 C2 N2 HN22 54.7 359.3
N1 C2 N3 C4 4.0 0.2
C6 N1 HN1 C2 180.0 180.5
HN1 N1 C2 N2 358.8 0.3
HN1 N1 C2 N3 177.2 180.0
N2 C2 N1 HN1 358.8 0.3
N1 C2 N2 N3 178.4 179.7
N2 C2 N3 C4 182.3 179.9
HN21 N2 C2 HN22 125.2 180.5
N9 C4 N3 C2 179.6 180.0
C5 C4 N3 C2 354.5 0.1
N3 C2 N1 HN1 177.2 180.0
N1 C2 N3 N2 181.7 180.3
N3 C2 N2 HN21 1.6 0.1
N3 C2 N2 HN22 236.3 179.7
HN21 N2 C2 N3 1.6 0.1
C2 N2 HN21 HN22 234.8 179.5
HN22 N2 C2 N3 236.3 179.7
C2 N2 HN22 HN21 127.8 180.5
N9 C4 N3 C5 185.2 179.9