PDB Chemical Component 3GP

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 3GP

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P O1P 1.491 1.480
P O2P 1.512 1.609
P O3P 1.497 1.610
P O3' 1.669 1.610
O2P HOP2 0.949 0.967
O3P HOP3 0.949 0.967
O5' C5' 1.448 1.429
O5' HO5' 0.949 0.967
C5' C4' 1.515 1.529
C5' H5'1 1.114 1.090
C5' H5'2 1.116 1.089
C4' O4' 1.461 1.444
C4' C3' 1.533 1.544
C4' H4' 1.115 1.091
O4' C1' 1.413 1.443
C3' O3' 1.405 1.428
C3' C2' 1.520 1.547
C3' H3' 1.115 1.090
C2' O2' 1.402 1.428
C2' C1' 1.521 1.543
C2' H2' 1.115 1.090
O2' HO2' 0.950 0.967
C1' N9 1.457 1.465
C1' H1' 1.116 1.090
N9 C8 1.406 1.365
N9 C4 1.387 1.368
C8 N7 1.309 1.301
C8 H8 1.103 1.080
N7 C5 1.395 1.355
C5 C6 1.424 1.415
C5 C4 1.379 1.399
C6 O6 1.221 1.220
C6 N1 1.427 1.349
N1 C2 1.344 1.363
N1 HN1 1.020 0.971
C2 N2 1.370 1.373
C2 N3 1.313 1.314
N2 HN21 1.019 0.970
N2 HN22 1.020 0.970
N3 C4 1.340 1.338

Bond Angles for 3GP

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O1P P O2P 112.6 109.5
O1P P O3P 111.1 109.5
O1P P O3' 108.3 109.4
O2P P O3P 113.5 109.5
O2P P O3' 103.4 109.5
P O2P HOP2 112.6 106.8
O3P P O3' 107.4 109.4
P O3P HOP3 111.1 106.8
P O3' C3' 152.7 106.9
C5' O5' HO5' 107.3 106.8
O5' C5' C4' 107.3 109.5
O5' C5' H5'1 113.1 109.4
O5' C5' H5'2 113.0 109.5
C4' C5' H5'1 113.0 109.5
C4' C5' H5'2 113.0 109.5
C5' C4' O4' 108.2 110.4
C5' C4' C3' 110.1 110.5
C5' C4' H4' 108.0 110.4
H5'1 C5' H5'2 97.4 109.5
O4' C4' C3' 102.8 104.8
O4' C4' H4' 114.6 110.3
C4' O4' C1' 107.9 105.3
C3' C4' H4' 112.9 110.3
C4' C3' O3' 114.1 110.5
C4' C3' C2' 103.1 104.1
C4' C3' H3' 109.5 110.5
O4' C1' C2' 108.1 105.0
O4' C1' N9 108.5 110.4
O4' C1' H1' 108.9 110.4
O3' C3' C2' 105.4 110.6
O3' C3' H3' 107.4 110.4
C2' C3' H3' 117.6 110.6
C3' C2' O2' 104.0 110.5
C3' C2' C1' 104.4 104.0
C3' C2' H2' 118.9 110.5
O2' C2' C1' 116.9 110.9
O2' C2' H2' 106.9 110.4
C2' O2' HO2' 103.9 106.8
C1' C2' H2' 106.4 110.5
C2' C1' N9 101.9 110.4
C2' C1' H1' 114.8 110.3
N9 C1' H1' 114.3 110.3
C1' N9 C8 122.8 126.2
C1' N9 C4 130.0 126.3
C8 N9 C4 106.5 107.5
N9 C8 N7 113.0 109.8
N9 C8 H8 126.6 125.1
N9 C4 C5 103.9 106.2
N9 C4 N3 126.7 134.2
N7 C8 H8 120.4 125.1
C8 N7 C5 103.2 109.4
N7 C5 C6 128.8 134.2
N7 C5 C4 113.2 107.2
C6 C5 C4 117.9 118.6
C5 C6 O6 127.9 120.8
C5 C6 N1 110.7 118.4
C5 C4 N3 129.3 119.7
O6 C6 N1 121.3 120.9
C6 N1 C2 125.8 120.3
C6 N1 HN1 120.4 119.9
C2 N1 HN1 113.8 119.8
N1 C2 N2 117.5 119.1
N1 C2 N3 123.4 121.9
N2 C2 N3 119.0 119.0
C2 N2 HN21 117.4 120.0
C2 N2 HN22 109.3 120.0
C2 N3 C4 112.9 121.1
HN21 N2 HN22 109.4 120.0

Torsion Angles for 3GP

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O2P P O1P O3P 231.4 120.0
O2P P O1P O3' 113.7 240.0
O1P P O2P HOP2 180.0 300.1
O3P P O1P O3' 242.3 119.9
O1P P O3P HOP3 180.0 180.0
O1P P O3' C3' 340.9 60.0
O1P P O2P O3P 127.3 240.0
O1P P O2P O3' 243.3 120.0
O3P P O2P O3' 116.0 240.0
O2P P O3P HOP3 308.1 60.0
O2P P O3' C3' 221.3 180.0
O1P P O3P O2P 231.9 120.0
O1P P O3P O3' 118.3 240.1
O2P P O3P O3' 246.4 120.0
O3P P O2P HOP2 52.7 60.1
O3P P O3' C3' 101.0 300.0
O1P P O3' O2P 119.7 240.0
O1P P O3' O3P 239.9 120.0
O2P P O3' O3P 120.2 240.0
O3' P O2P HOP2 296.7 180.1
O3' P O3P HOP3 61.7 300.0
C4' C3' O3' P 183.6 238.6
P O3' C3' C2' 71.2 123.9
P O3' C3' H3' 305.1 1.2
HOP2 O2P P O3P 52.7 60.1
HOP2 O2P P O3' 296.7 180.1
HOP3 O3P P O3' 61.7 300.0
C4' C5' O5' H5'1 234.7 120.0
C4' C5' O5' H5'2 125.2 240.0
O5' C5' C4' O4' 239.2 61.4
O5' C5' C4' C3' 350.9 176.9
O5' C5' C4' H4' 114.6 299.2
H5'1 C5' O5' H5'2 250.5 120.0
HO5' O5' C5' C4' 180.0 180.0
HO5' O5' C5' H5'1 305.3 60.0
HO5' O5' C5' H5'2 54.8 300.0
C4' C5' O5' HO5' 180.0 180.0
O5' C5' C4' H5'1 125.3 240.0
O5' C5' C4' H5'2 234.8 120.0
H5'1 C5' C4' H5'2 109.5 240.0
O4' C4' C5' C3' 248.3 244.5
O4' C4' C5' H4' 124.6 122.2
C5' C4' O4' C1' 152.2 159.5
C3' C4' C5' H4' 236.3 237.7
C5' C4' C3' O3' 95.4 98.3
C5' C4' C3' C2' 209.2 217.1
C5' C4' C3' H3' 335.1 335.8
H5'1 C5' O5' HO5' 305.3 60.0
O5' C5' H5'1 C4' 237.9 120.0
O5' C5' H5'1 H5'2 119.0 240.0
C4' C5' H5'1 H5'2 241.1 120.0
H5'1 C5' C4' O4' 113.9 181.4
H5'1 C5' C4' C3' 225.6 296.9
H5'1 C5' C4' H4' 349.3 59.2
H5'2 C5' O5' HO5' 54.8 300.0
O5' C5' H5'2 C4' 122.1 240.0
O5' C5' H5'2 H5'1 241.0 120.0
C4' C5' H5'2 H5'1 118.9 240.0
H5'2 C5' C4' O4' 4.5 301.4
H5'2 C5' C4' C3' 116.2 56.9
H5'2 C5' C4' H4' 239.8 179.2
O4' C4' C5' H5'1 113.9 181.4
O4' C4' C5' H5'2 4.5 301.4
C5' C4' O4' C3' 116.5 119.0
C5' C4' O4' H4' 239.5 237.7
C3' C4' O4' H4' 122.9 118.7
O4' C4' C3' O3' 210.6 217.2
O4' C4' C3' C2' 324.3 336.0
O4' C4' C3' H3' 90.3 94.7
C4' O4' C1' C2' 338.9 319.6
C4' O4' C1' N9 229.2 200.7
C4' O4' C1' H1' 104.2 78.5
P O3' C3' C4' 183.6 238.6
C3' C4' C5' H5'1 225.6 296.9
C3' C4' C5' H5'2 116.2 56.9
C5' C4' C3' O4' 244.8 241.1
C5' C4' C3' H4' 120.8 122.3
O4' C4' C3' H4' 235.9 241.3
C3' C4' O4' C1' 35.6 40.4
O3' C3' C4' C2' 246.3 241.3
O3' C3' C4' H3' 120.3 122.5
C2' C3' C4' H3' 234.1 241.3
C4' C3' C2' O2' 260.3 241.1
C4' C3' C2' C1' 23.3 0.1
C4' C3' C2' H2' 141.6 118.6
H4' C4' C5' H5'1 349.3 59.2
H4' C4' C5' H5'2 239.8 179.2
C5' C4' H4' O4' 120.7 122.3
C5' C4' H4' C3' 238.0 237.6
O4' C4' H4' C3' 117.3 115.3
H4' C4' O4' C1' 272.7 281.7
H4' C4' C3' O3' 334.7 336.0
H4' C4' C3' C2' 88.4 94.7
H4' C4' C3' H3' 214.4 213.4
C1' O4' C4' C3' 35.6 40.4
C1' O4' C4' H4' 272.7 281.7
C3' C2' C1' O4' 357.6 23.9
O2' C2' C1' O4' 111.8 142.6
O4' C1' C2' H2' 231.1 265.3
C2' C1' O4' N9 109.8 118.9
C2' C1' O4' H1' 234.8 241.1
N9 C1' O4' H1' 125.0 122.2
O4' C1' N9 C8 223.0 27.0
O4' C1' N9 C4 54.2 207.0
O3' C3' C4' H4' 334.7 336.0
C4' C3' O3' C2' 112.4 114.7
C4' C3' O3' H3' 238.5 237.4
C2' C3' O3' H3' 126.1 122.7
O3' C3' C2' O2' 20.2 359.8
O3' C3' C2' C1' 143.2 118.8
O3' C3' C2' H2' 261.5 237.3
C2' C3' C4' H4' 88.4 94.7
C4' C3' C2' O3' 240.1 241.3
C4' C3' C2' H3' 120.5 118.7
O4' C1' C2' C3' 357.6 23.9
O3' C3' C2' H3' 240.5 237.4
O2' C2' C3' C1' 237.0 241.0
O2' C2' C3' H2' 118.7 122.5
C3' C2' O2' HO2' 180.0 180.1
C1' C2' C3' H2' 241.7 241.5
C3' C2' C1' N9 111.8 142.8
C3' C2' C1' H1' 236.0 264.9
H3' C3' C4' H4' 214.4 213.4
C4' C3' H3' O3' 124.4 122.6
C4' C3' H3' C2' 242.9 245.3
O3' C3' H3' C2' 118.5 122.7
H3' C3' C2' O2' 139.8 122.5
H3' C3' C2' C1' 262.8 241.4
H3' C3' C2' H2' 21.1 360.0
O4' C1' C2' O2' 111.8 142.6
O2' C2' C3' H3' 139.8 122.5
C3' C2' O2' C1' 114.4 114.7
C3' C2' O2' H2' 233.4 237.5
C1' C2' O2' H2' 119.0 122.8
O2' C2' C1' N9 226.0 261.5
O2' C2' C1' H1' 350.1 23.7
O4' C1' C2' N9 245.8 241.1
O4' C1' C2' H1' 121.7 118.9
C1' C2' C3' H3' 262.8 241.4
C3' C2' C1' O2' 245.8 241.3
C3' C2' C1' H2' 126.5 118.5
O2' C2' C1' H2' 240.7 237.3
C1' C2' O2' HO2' 65.6 65.3
N9 C1' C2' H1' 235.9 237.8
C2' C1' N9 C8 109.1 271.5
C2' C1' N9 C4 300.3 91.5
H2' C2' C3' H3' 21.1 360.0
C3' C2' H2' O2' 117.1 122.5
C3' C2' H2' C1' 242.7 245.5
O2' C2' H2' C1' 125.6 123.0
H2' C2' O2' HO2' 306.6 302.6
H2' C2' C1' N9 345.3 24.2
H2' C2' C1' H1' 109.4 146.4
HO2' O2' C2' C1' 65.6 65.3
HO2' O2' C2' H2' 306.6 302.6
O4' C1' N9 C2' 113.9 115.6
O4' C1' N9 H1' 238.3 237.7
N9 C1' C2' H2' 345.3 24.2
C2' C1' N9 H1' 124.4 122.2
C8 N9 C1' C4 168.8 180.0
C1' N9 C8 N7 186.8 180.0
C1' N9 C8 H8 6.8 0.0
C1' N9 C4 C5 172.4 180.0
C1' N9 C4 N3 349.2 0.1
O4' C1' H1' C2' 238.8 244.4
O4' C1' H1' N9 121.5 122.2
H1' C1' C2' H2' 109.4 146.4
C2' C1' H1' N9 242.7 237.8
H1' C1' N9 C8 344.7 149.3
H1' C1' N9 C4 175.9 329.3
C8 N9 C1' H1' 344.7 149.3
C1' N9 C8 C4 188.9 180.0
C8 N9 C4 C5 2.2 360.0
C8 N9 C4 N3 179.0 180.1
N7 C8 N9 H8 180.0 180.0
N9 C8 N7 C5 1.0 360.0
C4 N9 C1' H1' 175.9 329.3
C1' N9 C4 C8 170.2 180.0
C4 N9 C8 N7 357.9 0.0
C4 N9 C8 H8 177.9 180.1
N7 C5 C4 N9 358.2 0.0
C6 C5 C4 N9 175.7 180.0
C5 C4 N9 N3 183.3 179.9
C2 N3 C4 N9 182.3 179.9
N7 C8 N9 C4 357.9 0.0
N9 C8 N7 H8 180.0 180.0
C8 N7 C5 C6 183.4 180.0
C8 N7 C5 C4 0.6 360.0
H8 C8 N9 C4 177.9 180.1
N9 C8 H8 N7 180.0 180.0
H8 C8 N7 C5 180.9 180.0
N9 C4 C5 N7 358.2 0.0
C5 N7 C8 H8 180.9 180.0
C6 C5 N7 C4 182.9 180.0
N7 C5 C6 O6 355.3 0.0
N7 C5 C6 N1 179.8 179.7
N7 C5 C4 N3 181.6 179.9
N9 C4 C5 C6 175.7 180.0
N7 C5 C6 C4 177.0 180.0
C6 C5 C4 N3 359.0 359.9
O6 C6 C5 N1 175.6 180.3
C5 C6 N1 C2 357.8 0.6
C5 C6 N1 HN1 177.8 180.0
N9 C4 C5 N3 176.6 180.1
N7 C5 C4 C6 182.5 180.0
C4 C5 C6 O6 178.3 180.0
C4 C5 C6 N1 2.7 359.8
C2 N3 C4 C5 358.2 0.1
O6 C6 C5 C4 178.3 180.0
C5 C6 O6 N1 184.8 179.7
O6 C6 N1 C2 181.8 180.3
O6 C6 N1 HN1 1.8 359.7
N1 C6 C5 C4 2.7 359.8
C5 C6 N1 O6 175.9 180.3
C2 N1 C6 HN1 180.0 180.6
C6 N1 C2 N2 183.2 179.7
C6 N1 C2 N3 359.5 359.4
C6 N1 C2 HN1 180.0 179.4
N2 C2 N1 N3 183.7 180.4
N1 C2 N2 HN21 180.0 179.7
N1 C2 N2 HN22 54.7 359.4
N1 C2 N3 C4 2.5 0.3
C6 N1 HN1 C2 180.0 180.6
HN1 N1 C2 N2 3.2 0.3
HN1 N1 C2 N3 179.5 180.0
N2 C2 N1 HN1 3.2 0.3
N1 C2 N2 N3 176.5 179.6
N2 C2 N3 C4 178.8 179.9
HN21 N2 C2 HN22 125.3 180.3
N9 C4 N3 C2 182.3 179.9
C5 C4 N3 C2 358.2 0.1
N3 C2 N1 HN1 179.5 180.0
N1 C2 N3 N2 183.8 180.4
N3 C2 N2 HN21 3.6 0.1
N3 C2 N2 HN22 238.2 179.7
HN21 N2 C2 N3 3.6 0.1
C2 N2 HN21 HN22 234.7 179.7
HN22 N2 C2 N3 238.2 179.7
C2 N2 HN22 HN21 129.9 180.3
N9 C4 N3 C5 184.1 179.9