PDB Chemical Component DGP

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 DGP

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P OP1 1.528 1.480
P OP2 1.462 1.610
P OP3 1.588 1.610
P O5' 1.551 1.610
OP2 HOP2 0.950 0.966
OP3 HOP3 0.950 0.967
O5' C5' 1.410 1.428
C5' C4' 1.512 1.530
C5' H5' 1.100 1.089
C5' H5'' 1.100 1.091
C4' O4' 1.405 1.445
C4' C3' 1.472 1.550
C4' H4' 1.100 1.090
O4' C1' 1.392 1.437
C3' O3' 1.441 1.429
C3' C2' 1.521 1.548
C3' H3' 1.100 1.090
O3' HO3' 0.950 0.967
C2' C1' 1.564 1.542
C2' H2' 1.100 1.090
C2' H2'' 1.100 1.091
C1' N9 1.472 1.465
C1' H1' 1.100 1.090
N9 C8 1.389 1.365
N9 C4 1.369 1.368
C8 N7 1.288 1.301
C8 H8 1.080 1.080
N7 C5 1.394 1.355
C5 C6 1.433 1.416
C5 C4 1.372 1.400
C6 O6 1.220 1.219
C6 N1 1.389 1.352
N1 C2 1.382 1.363
N1 HN1 1.000 0.969
C2 N2 1.318 1.372
C2 N3 1.325 1.314
N2 HN21 1.000 0.970
N2 HN22 0.999 0.970
N3 C4 1.373 1.339

Bond Angles for DGP

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP2 110.3 109.5
OP1 P OP3 110.3 109.5
OP1 P O5' 106.1 109.4
OP2 P OP3 113.7 109.5
OP2 P O5' 114.1 109.5
P OP2 HOP2 109.5 114.0
OP3 P O5' 101.9 109.4
P OP3 HOP3 109.5 114.0
P O5' C5' 127.6 123.0
O5' C5' C4' 104.9 109.5
O5' C5' H5' 111.0 109.5
O5' C5' H5'' 111.0 109.5
C4' C5' H5' 111.0 109.5
C4' C5' H5'' 111.0 109.4
C5' C4' O4' 113.4 110.6
C5' C4' C3' 124.6 110.6
C5' C4' H4' 93.4 110.6
H5' C5' H5'' 107.9 109.4
O4' C4' C3' 110.3 103.5
O4' C4' H4' 114.6 110.6
C4' O4' C1' 109.7 107.0
C3' C4' H4' 98.0 110.7
C4' C3' O3' 113.7 110.9
C4' C3' C2' 103.5 102.1
C4' C3' H3' 111.1 110.9
O4' C1' C2' 104.5 107.3
O4' C1' N9 116.6 109.9
O4' C1' H1' 110.0 109.9
O3' C3' C2' 110.5 110.9
O3' C3' H3' 104.2 110.8
C3' O3' HO3' 109.5 114.0
C2' C3' H3' 114.2 110.9
C3' C2' C1' 101.8 104.2
C3' C2' H2' 112.1 110.5
C3' C2' H2'' 112.1 110.5
C1' C2' H2' 112.1 110.5
C1' C2' H2'' 112.1 110.5
C2' C1' N9 114.5 109.8
C2' C1' H1' 112.4 109.9
H2' C2' H2'' 106.7 110.6
N9 C1' H1' 99.0 110.0
C1' N9 C8 124.0 126.2
C1' N9 C4 130.3 126.3
C8 N9 C4 104.8 107.5
N9 C8 N7 114.2 109.8
N9 C8 H8 122.9 125.1
N9 C4 C5 106.5 106.1
N9 C4 N3 125.6 134.2
N7 C8 H8 122.9 125.1
C8 N7 C5 104.0 109.3
N7 C5 C6 129.1 134.1
N7 C5 C4 110.4 107.3
C6 C5 C4 120.3 118.6
C5 C6 O6 128.1 120.8
C5 C6 N1 110.5 118.3
C5 C4 N3 127.8 119.7
O6 C6 N1 121.3 120.8
C6 N1 C2 125.3 120.3
C6 N1 HN1 117.4 119.8
C2 N1 HN1 117.3 119.8
N1 C2 N2 115.1 119.0
N1 C2 N3 124.8 121.9
N2 C2 N3 120.1 119.0
C2 N2 HN21 120.0 120.0
C2 N2 HN22 120.0 120.0
C2 N3 C4 111.2 121.1
HN21 N2 HN22 120.0 120.0

Torsion Angles for DGP

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP2 P OP1 OP3 233.7 239.9
OP2 P OP1 O5' 124.0 120.0
OP1 P OP2 HOP2 360.0 60.1
OP3 P OP1 O5' 250.3 240.0
OP1 P OP3 HOP3 0.0 180.0
OP1 P O5' C5' 325.4 305.0
OP1 P OP2 OP3 124.4 120.1
OP1 P OP2 O5' 240.7 240.0
OP3 P OP2 O5' 116.3 120.0
OP2 P OP3 HOP3 124.4 300.1
OP2 P O5' C5' 203.8 185.0
OP1 P OP3 OP2 235.6 240.0
OP1 P OP3 O5' 112.4 120.0
OP2 P OP3 O5' 236.8 240.0
OP3 P OP2 HOP2 235.6 300.0
OP3 P O5' C5' 80.9 65.0
OP1 P O5' OP2 121.6 120.0
OP1 P O5' OP3 244.6 240.0
OP2 P O5' OP3 122.9 120.0
O5' P OP2 HOP2 119.3 180.0
O5' P OP3 HOP3 247.6 60.1
P O5' C5' C4' 151.3 180.0
P O5' C5' H5' 271.3 300.0
P O5' C5' H5'' 31.4 60.0
HOP2 OP2 P OP3 235.6 300.0
HOP2 OP2 P O5' 119.3 180.0
HOP3 OP3 P O5' 247.6 60.1
C4' C5' O5' H5' 240.0 240.0
C4' C5' O5' H5'' 120.0 120.0
O5' C5' C4' O4' 167.9 66.5
O5' C5' C4' C3' 307.1 180.5
O5' C5' C4' H4' 49.2 303.6
H5' C5' O5' H5'' 240.0 240.0
O5' C5' C4' H5' 120.0 120.0
O5' C5' C4' H5'' 240.0 240.0
H5' C5' C4' H5'' 120.0 120.0
O4' C4' C5' C3' 220.8 246.0
O4' C4' C5' H4' 118.7 122.9
C5' C4' O4' C1' 153.9 158.6
C3' C4' C5' H4' 257.9 236.9
C5' C4' C3' O3' 112.3 86.3
C5' C4' C3' C2' 232.2 204.5
C5' C4' C3' H3' 355.2 322.7
O5' C5' H5' C4' 243.7 240.0
O5' C5' H5' H5'' 121.9 120.0
C4' C5' H5' H5'' 238.2 240.0
H5' C5' C4' O4' 47.9 306.5
H5' C5' C4' C3' 187.1 60.5
H5' C5' C4' H4' 289.2 183.5
O5' C5' H5'' C4' 116.3 120.0
O5' C5' H5'' H5' 238.1 240.0
C4' C5' H5'' H5' 121.9 120.0
H5'' C5' C4' O4' 287.9 186.5
H5'' C5' C4' C3' 67.1 300.5
H5'' C5' C4' H4' 169.2 63.6
O4' C4' C5' H5' 47.9 306.5
O4' C4' C5' H5'' 287.9 186.5
C5' C4' O4' C3' 145.0 118.5
C5' C4' O4' H4' 254.4 237.1
C3' C4' O4' H4' 109.4 118.6
O4' C4' C3' O3' 252.6 204.7
O4' C4' C3' C2' 12.4 323.0
O4' C4' C3' H3' 135.4 81.2
C4' O4' C1' C2' 334.2 333.4
C4' O4' C1' N9 206.8 214.0
C4' O4' C1' H1' 95.1 92.9
C3' C4' C5' H5' 187.1 60.5
C3' C4' C5' H5'' 67.1 300.5
C5' C4' C3' O4' 219.8 241.5
C5' C4' C3' H4' 99.7 123.0
O4' C4' C3' H4' 240.0 241.4
C3' C4' O4' C1' 8.9 40.1
O3' C3' C4' C2' 240.2 241.8
O3' C3' C4' H3' 117.1 123.5
C4' C3' O3' HO3' 180.0 180.0
C2' C3' C4' H3' 237.0 241.8
C4' C3' C2' C1' 333.9 20.9
C4' C3' C2' H2' 93.9 139.5
C4' C3' C2' H2'' 213.9 262.2
H4' C4' C5' H5' 289.2 183.5
H4' C4' C5' H5'' 169.2 63.6
C5' C4' H4' O4' 117.7 122.9
C5' C4' H4' C3' 234.4 237.0
O4' C4' H4' C3' 116.7 114.1
H4' C4' O4' C1' 259.5 281.5
H4' C4' C3' O3' 12.6 323.3
H4' C4' C3' C2' 132.5 81.5
H4' C4' C3' H3' 255.5 199.8
C1' O4' C4' C3' 8.9 40.1
C1' O4' C4' H4' 259.5 281.5
C3' C2' C1' O4' 32.1 2.1
O4' C1' C2' H2' 272.1 243.4
O4' C1' C2' H2'' 152.1 120.7
C2' C1' O4' N9 127.5 119.4
C2' C1' O4' H1' 239.2 240.5
N9 C1' O4' H1' 111.7 121.1
O4' C1' N9 C8 244.9 23.5
O4' C1' N9 C4 77.0 203.3
O3' C3' C4' H4' 12.6 323.3
C4' C3' O3' C2' 115.8 112.8
C4' C3' O3' H3' 238.9 236.4
C2' C3' O3' H3' 123.1 123.6
O3' C3' C2' C1' 95.9 139.1
O3' C3' C2' H2' 215.9 257.8
O3' C3' C2' H2'' 335.9 20.5
C2' C3' C4' H4' 132.5 81.5
C4' C3' C2' O3' 238.0 241.8
C4' C3' C2' H3' 120.9 118.2
O4' C1' C2' C3' 32.1 2.1
O3' C3' C2' H3' 242.9 236.4
C2' C3' O3' HO3' 64.2 67.3
C1' C2' C3' H2' 240.0 241.3
C1' C2' C3' H2'' 120.0 118.6
C3' C2' C1' N9 160.8 121.5
C3' C2' C1' H1' 272.8 242.6
H2' C2' C3' H2'' 240.0 237.3
H3' C3' C4' H4' 255.5 199.8
C4' C3' H3' O3' 122.8 123.6
C4' C3' H3' C2' 243.4 247.3
O3' C3' H3' C2' 120.6 123.7
H3' C3' O3' HO3' 301.1 303.6
H3' C3' C2' C1' 213.0 262.7
H3' C3' C2' H2' 333.0 21.3
H3' C3' C2' H2'' 93.0 144.0
HO3' O3' C3' C2' 64.2 67.3
HO3' O3' C3' H3' 301.1 303.6
O4' C1' C2' N9 231.3 240.6
O4' C1' C2' H1' 119.3 119.5
C1' C2' C3' H3' 213.0 262.7
C3' C2' C1' H2' 120.0 118.7
C3' C2' C1' H2'' 240.0 241.3
H2' C2' C1' H2'' 120.0 122.6
N9 C1' C2' H1' 248.0 238.9
C2' C1' N9 C8 122.5 265.7
C2' C1' N9 C4 314.6 85.5
H2' C2' C3' H3' 333.0 21.3
C3' C2' H2' C1' 246.2 245.2
C3' C2' H2' H2'' 123.1 122.7
C1' C2' H2' H2'' 236.9 237.4
H2' C2' C1' N9 40.8 2.8
H2' C2' C1' H1' 152.8 123.9
H2'' C2' C3' H3' 93.0 144.0
C3' C2' H2'' C1' 113.8 114.7
C3' C2' H2'' H2' 236.9 237.3
C1' C2' H2'' H2' 123.1 122.6
H2'' C2' C1' N9 280.8 240.2
H2'' C2' C1' H1' 32.8 1.2
O4' C1' N9 C2' 122.4 117.8
O4' C1' N9 H1' 242.1 238.9
N9 C1' C2' H2' 40.8 2.8
N9 C1' C2' H2'' 280.8 240.2
C2' C1' N9 H1' 119.7 121.0
C8 N9 C1' C4 167.9 180.2
C1' N9 C8 N7 186.1 180.0
C1' N9 C8 H8 6.1 360.0
C1' N9 C4 C5 171.0 179.9
C1' N9 C4 N3 348.7 0.6
O4' C1' H1' C2' 244.0 242.1
O4' C1' H1' N9 122.7 121.1
H1' C1' C2' H2' 152.8 123.9
H1' C1' C2' H2'' 32.8 1.2
C2' C1' H1' N9 238.7 239.0
H1' C1' N9 C8 2.8 144.6
H1' C1' N9 C4 194.9 324.4
C8 N9 C1' H1' 2.8 144.6
C1' N9 C8 C4 189.5 179.8
C8 N9 C4 C5 1.4 359.7
C8 N9 C4 N3 179.1 180.4
N7 C8 N9 H8 180.0 180.0
N9 C8 N7 C5 3.8 0.0
C4 N9 C1' H1' 194.9 324.4
C1' N9 C4 C8 169.6 180.2
C4 N9 C8 N7 356.6 0.2
C4 N9 C8 H8 176.6 180.2
N7 C5 C4 N9 0.8 0.3
C6 C5 C4 N9 177.0 180.1
C5 C4 N9 N3 182.3 179.3
C2 N3 C4 N9 182.4 179.7
N7 C8 N9 C4 356.6 0.2
N9 C8 N7 H8 180.0 180.0
C8 N7 C5 C6 181.4 180.0
C8 N7 C5 C4 357.2 359.8
H8 C8 N9 C4 176.6 180.2
N9 C8 H8 N7 180.0 180.0
H8 C8 N7 C5 183.8 180.0
N9 C4 C5 N7 0.8 0.3
C5 N7 C8 H8 183.8 180.0
C6 C5 N7 C4 184.2 180.2
N7 C5 C6 O6 353.7 0.0
N7 C5 C6 N1 176.2 180.0
N7 C5 C4 N3 183.2 179.7
N9 C4 C5 C6 177.0 180.1
N7 C5 C6 C4 175.4 179.8
C6 C5 C4 N3 359.4 359.6
O6 C6 C5 N1 177.5 180.0
C5 C6 N1 C2 0.0 360.0
C5 C6 N1 HN1 180.0 180.0
N9 C4 C5 N3 177.6 180.6
N7 C5 C4 C6 183.8 180.2
C4 C5 C6 O6 178.2 180.2
C4 C5 C6 N1 0.8 0.2
C2 N3 C4 C5 359.6 0.4
O6 C6 C5 C4 178.2 180.2
C5 C6 O6 N1 182.8 180.0
O6 C6 N1 C2 182.3 180.0
O6 C6 N1 HN1 2.3 0.0
N1 C6 C5 C4 0.8 0.2
C5 C6 N1 O6 177.7 180.0
C2 N1 C6 HN1 180.0 180.0
C6 N1 C2 N2 177.7 180.0
C6 N1 C2 N3 358.9 0.0
C6 N1 C2 HN1 180.0 180.0
N2 C2 N1 N3 178.8 180.0
N1 C2 N2 HN21 181.1 0.0
N1 C2 N2 HN22 1.1 180.0
N1 C2 N3 C4 1.2 359.8
C6 N1 HN1 C2 180.0 180.0
HN1 N1 C2 N2 357.7 360.0
HN1 N1 C2 N3 178.9 180.0
N2 C2 N1 HN1 357.7 360.0
N1 C2 N2 N3 181.1 180.0
N2 C2 N3 C4 182.5 179.8
HN21 N2 C2 HN22 180.0 180.0
N9 C4 N3 C2 182.4 179.7
C5 C4 N3 C2 359.6 0.4
N3 C2 N1 HN1 178.9 180.0
N1 C2 N3 N2 178.8 180.0
N3 C2 N2 HN21 0.0 180.1
N3 C2 N2 HN22 180.0 0.0
HN21 N2 C2 N3 0.0 180.1
C2 N2 HN21 HN22 180.0 180.0
HN22 N2 C2 N3 180.0 0.0
C2 N2 HN22 HN21 180.0 180.0
N9 C4 N3 C5 182.8 179.2