PDB Chemical Component 6OG

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 6OG

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P OP1 1.497 1.480
P OP2 1.497 1.611
P O5' 1.597 1.609
OP2 HOP2 0.950 0.967
O5' C5' 1.421 1.429
N9 C4 1.364 1.372
N9 C8 1.369 1.365
N9 C1' 1.457 1.464
C4 N3 1.347 1.329
C4 C5 1.375 1.405
N3 C2 1.311 1.322
C2 N2 1.340 1.386
C2 N1 1.370 1.327
N2 HN21 1.000 0.970
N2 HN22 1.001 0.970
N1 C6 1.391 1.327
C6 O6 1.349 1.354
C6 C5 1.389 1.404
O6 C 1.426 1.429
C5 N7 1.382 1.356
N7 C8 1.304 1.300
C8 H8 1.080 1.080
C2' C1' 1.510 1.545
C2' C3' 1.511 1.545
C2' H2' 1.100 1.090
C2' H2'' 1.100 1.091
C5' C4' 1.505 1.530
C5' H5' 1.100 1.090
C5' H5'' 1.100 1.090
C4' O4' 1.437 1.444
C4' C3' 1.512 1.545
C4' H4' 1.100 1.090
O4' C1' 1.411 1.444
C1' H1' 1.100 1.090
C3' O3' 1.403 1.429
C3' H3' 1.100 1.090
O3' HO3' 0.950 0.967
C H1 1.100 1.090
C H2 1.100 1.090
C H3 1.100 1.090
P OP3 1.720 1.610
OP3 HOP3 0.950 0.967

Bond Angles for 6OG

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP2 119.7 109.5
OP1 P O5' 108.2 109.5
OP1 P OP3 101.3 109.5
OP2 P O5' 109.5 109.5
P OP2 HOP2 109.5 114.0
OP2 P OP3 99.7 109.4
P O5' C5' 119.7 123.0
O5' P OP3 118.7 109.5
O5' C5' C4' 110.5 109.5
O5' C5' H5' 109.1 109.5
O5' C5' H5'' 109.2 109.5
C4 N9 C8 106.5 107.4
C4 N9 C1' 125.4 126.3
N9 C4 N3 125.7 134.8
N9 C4 C5 105.5 106.0
C8 N9 C1' 128.0 126.3
N9 C8 N7 113.0 110.0
N9 C8 H8 123.5 125.0
N9 C1' C2' 115.8 110.4
N9 C1' O4' 107.7 110.4
N9 C1' H1' 105.5 110.3
N3 C4 C5 128.8 119.2
C4 N3 C2 111.8 120.5
C4 C5 C6 118.9 118.3
C4 C5 N7 110.8 107.2
N3 C2 N2 119.6 118.8
N3 C2 N1 123.5 122.3
N2 C2 N1 116.9 118.8
C2 N2 HN21 109.5 120.0
C2 N2 HN22 109.5 120.0
C2 N1 C6 125.2 121.1
HN21 N2 HN22 109.5 120.0
N1 C6 O6 120.1 120.7
N1 C6 C5 111.7 118.6
O6 C6 C5 128.2 120.7
C6 O6 C 120.2 117.0
C6 C5 N7 130.3 134.6
O6 C H1 109.5 109.5
O6 C H2 109.5 109.5
O6 C H3 109.5 109.5
C5 N7 C8 104.2 109.4
N7 C8 H8 123.5 125.0
C1' C2' C3' 101.6 104.1
C1' C2' H2' 112.2 110.5
C1' C2' H2'' 112.2 110.5
C2' C1' O4' 106.5 104.8
C2' C1' H1' 106.7 110.3
C3' C2' H2' 112.2 110.6
C3' C2' H2'' 112.2 110.5
C2' C3' C4' 103.0 104.0
C2' C3' O3' 110.5 110.5
C2' C3' H3' 112.7 110.5
H2' C2' H2'' 106.6 110.5
C4' C5' H5' 109.1 109.5
C4' C5' H5'' 109.1 109.5
C5' C4' O4' 109.3 110.4
C5' C4' C3' 112.1 110.3
C5' C4' H4' 106.4 110.3
H5' C5' H5'' 109.8 109.5
O4' C4' C3' 104.9 104.8
O4' C4' H4' 113.5 110.4
C4' O4' C1' 110.6 105.3
C3' C4' H4' 110.8 110.5
C4' C3' O3' 108.4 110.5
C4' C3' H3' 114.6 110.6
O4' C1' H1' 114.9 110.5
O3' C3' H3' 107.6 110.6
C3' O3' HO3' 109.5 114.0
H1 C H2 109.5 109.5
H1 C H3 109.5 109.5
H2 C H3 109.5 109.5
P OP3 HOP3 109.5 114.0

Torsion Angles for 6OG

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP2 P OP1 O5' 126.3 240.0
OP1 P OP2 HOP2 360.0 180.0
OP2 P OP1 OP3 251.8 120.0
OP1 P O5' C5' 10.9 305.0
O5' P OP1 OP3 125.5 240.0
OP1 P OP3 HOP3 0.0 60.0
OP1 P OP2 O5' 234.3 120.0
OP1 P OP2 OP3 109.1 240.0
OP2 P O5' C5' 238.9 65.0
O5' P OP2 OP3 234.7 120.0
OP2 P OP3 HOP3 123.2 300.0
OP1 P O5' OP2 132.0 240.0
OP1 P O5' OP3 245.5 120.1
O5' P OP2 HOP2 125.6 60.0
OP2 P O5' OP3 113.5 240.0
P O5' C5' C4' 202.4 180.0
P O5' C5' H5' 322.4 300.0
P O5' C5' H5'' 82.4 60.0
O5' P OP3 HOP3 241.9 180.0
HOP2 OP2 P O5' 125.6 60.0
HOP2 OP2 P OP3 250.9 300.0
C5' O5' P OP3 125.4 185.0
C4' C5' O5' H5' 240.0 240.0
C4' C5' O5' H5'' 120.0 120.0
O5' C5' C4' O4' 287.9 66.5
O5' C5' C4' C3' 43.8 181.8
O5' C5' C4' H4' 165.0 304.1
H5' C5' O5' H5'' 240.0 240.0
C8 N9 C4 C1' 180.7 180.3
C4 N9 C8 N7 0.4 360.0
C4 N9 C8 H8 180.4 180.0
C4 N9 C1' C2' 135.6 85.0
C4 N9 C1' O4' 254.7 200.4
C4 N9 C1' H1' 17.9 322.8
N3 C4 N9 C5 180.5 179.9
N9 C4 N3 C2 179.2 180.1
N9 C4 C5 C6 180.2 180.0
N9 C4 C5 N7 0.1 360.0
C4 N9 C8 C1' 179.3 179.7
C8 N9 C4 N3 180.2 179.9
C8 N9 C4 C5 359.7 0.1
C8 N9 C1' C2' 314.8 264.6
C8 N9 C1' O4' 73.9 20.0
C8 N9 C1' H1' 197.1 142.5
C5 N7 C8 N9 359.7 0.0
N7 C8 N9 H8 180.0 180.0
C4 N9 C1' C8 180.8 180.4
C1' N9 C4 N3 359.5 359.6
C1' N9 C4 C5 179.0 179.7
C1' N9 C8 N7 181.1 180.3
C1' N9 C8 H8 1.1 0.3
N9 C1' C2' C3' 149.9 142.8
N9 C1' C2' H2' 269.9 261.5
N9 C1' C2' H2'' 29.9 24.2
C2' C1' N9 O4' 240.9 244.6
C2' C1' N9 H1' 117.7 122.2
C4' O4' C1' N9 223.1 200.6
O4' C1' N9 H1' 236.8 237.6
N3 C4 N9 C8 180.2 179.9
N3 C4 N9 C1' 359.5 359.6
N9 C4 N3 C5 179.4 180.1
N3 C4 C5 C6 359.7 0.1
N3 C4 C5 N7 179.7 180.0
C4 N3 C2 N2 180.4 180.0
C4 N3 C2 N1 0.4 0.0
C5 C4 N9 C8 359.7 0.1
C5 C4 N9 C1' 179.0 179.7
N9 C4 C5 N3 180.5 179.9
C5 C4 N3 C2 359.8 360.0
N1 C6 C5 C4 0.5 359.9
O6 C6 C5 C4 180.5 180.0
C6 C5 C4 N7 180.1 180.0
C4 C5 N7 C8 0.1 0.0
C2 N3 C4 C5 359.8 360.0
N2 C2 N3 N1 180.0 180.0
N3 C2 N2 HN21 360.0 359.9
N3 C2 N2 HN22 120.0 180.0
N3 C2 N1 C6 359.9 360.0
N3 C2 N2 N1 180.0 180.0
N2 C2 N1 C6 179.8 180.0
HN21 N2 C2 HN22 240.0 179.9
N3 C2 N1 N2 180.0 180.0
N1 C2 N2 HN21 180.0 180.0
N1 C2 N2 HN22 300.0 0.0
C2 N1 C6 O6 179.6 180.0
C2 N1 C6 C5 359.7 0.1
HN21 N2 C2 N1 180.0 180.0
C2 N2 HN21 HN22 120.0 180.1
HN22 N2 C2 N1 300.0 0.0
C2 N2 HN22 HN21 240.0 179.9
C4 C5 C6 N1 0.5 359.9
O6 C6 N1 C5 180.0 180.0
N1 C6 O6 C 0.2 0.0
N1 C6 C5 N7 180.6 180.0
C4 C5 C6 O6 180.5 180.0
N1 C6 O6 C5 180.0 180.0
O6 C6 C5 N7 0.6 360.0
C6 O6 C H1 180.0 300.0
C6 O6 C H2 300.0 60.0
C6 O6 C H3 60.0 180.0
C4 C5 C6 N7 179.9 180.0
N1 C6 C5 O6 180.0 180.0
C5 C6 O6 C 180.1 180.0
C6 C5 N7 C8 180.0 180.0
C O6 C6 C5 180.1 180.0
H1 C O6 H2 240.0 240.0
H1 C O6 H3 120.0 120.0
H2 C O6 H3 240.0 240.0
N9 C8 N7 C5 359.7 0.0
C4 C5 N7 C6 180.1 180.0
C5 N7 C8 H8 179.7 180.0
N7 C8 N9 C1' 181.1 180.3
N9 C8 N7 H8 180.0 180.0
H8 C8 N9 C1' 1.1 0.3
N9 C8 H8 N7 180.0 179.9
N9 C1' C2' O4' 119.8 118.8
N9 C1' C2' H1' 243.0 237.8
C3' C2' C1' H2' 240.0 241.3
C3' C2' C1' H2'' 120.0 118.6
C1' C2' C3' C4' 323.9 0.0
C1' C2' C3' O3' 79.5 118.6
C1' C2' C3' H3' 199.9 241.4
H2' C2' C1' H2'' 240.0 237.3
C4' O4' C1' C2' 347.9 319.5
O4' C1' C2' H1' 123.2 119.0
C1' C2' C3' H2' 120.0 118.7
C1' C2' C3' H2'' 240.0 241.4
C3' C2' C1' O4' 30.1 24.0
C3' C2' C1' H1' 266.9 265.0
H2' C2' C3' H2'' 120.0 122.7
C5' C4' C3' C2' 271.3 217.2
O4' C4' C3' C2' 29.9 336.0
C2' C3' C4' H4' 152.6 94.9
C4' C3' C2' O3' 244.4 241.4
C4' C3' C2' H3' 124.0 118.7
O3' C3' C2' H3' 239.6 237.3
C2' C3' O3' HO3' 180.0 61.6
C1' C2' H2' C3' 246.3 245.3
C1' C2' H2' H2'' 123.2 122.7
H2' C2' C1' O4' 150.1 142.7
H2' C2' C1' H1' 26.9 23.7
C3' C2' H2' H2'' 236.8 237.4
H2' C2' C3' C4' 203.9 241.4
H2' C2' C3' O3' 319.5 359.9
H2' C2' C3' H3' 79.9 122.7
C1' C2' H2'' C3' 113.7 114.6
C1' C2' H2'' H2' 236.8 237.3
H2'' C2' C1' O4' 270.1 265.4
H2'' C2' C1' H1' 146.9 146.4
C3' C2' H2'' H2' 123.2 122.7
H2'' C2' C3' C4' 83.9 118.7
H2'' C2' C3' O3' 199.5 237.3
H2'' C2' C3' H3' 319.9 0.0
O5' C5' C4' H5' 120.0 120.0
O5' C5' C4' H5'' 240.0 240.0
C2' C3' C4' C5' 271.3 217.2
H5' C5' C4' H5'' 120.0 120.0
O4' C4' C5' C3' 244.2 244.6
O4' C4' C5' H4' 122.9 122.3
C5' C4' O4' C1' 109.0 159.3
C3' C4' C5' H4' 238.7 237.7
C5' C4' C3' O3' 154.2 98.6
C5' C4' C3' H3' 34.0 335.8
O5' C5' H5' C4' 239.2 240.0
O5' C5' H5' H5'' 119.6 120.0
C4' C5' H5' H5'' 240.4 240.0
H5' C5' C4' O4' 167.9 306.5
H5' C5' C4' C3' 283.8 61.8
H5' C5' C4' H4' 45.0 184.2
O5' C5' H5'' C4' 120.8 120.0
O5' C5' H5'' H5' 240.4 240.0
C4' C5' H5'' H5' 119.6 120.0
H5'' C5' C4' O4' 47.9 186.5
H5'' C5' C4' C3' 163.8 301.8
H5'' C5' C4' H4' 285.0 64.1
N9 C1' O4' C4' 223.1 200.6
C2' C1' O4' C4' 347.9 319.5
C2' C3' C4' O4' 29.9 336.0
O4' C4' C5' H5' 167.9 306.5
O4' C4' C5' H5'' 47.9 186.5
C5' C4' O4' C3' 120.4 118.8
C5' C4' O4' H4' 241.4 237.7
C3' C4' O4' H4' 121.1 119.0
O4' C4' C3' O3' 272.8 217.4
O4' C4' C3' H3' 152.6 94.6
C4' O4' C1' H1' 105.8 78.3
C4' C3' C2' H2' 203.9 241.4
C4' C3' C2' H2'' 83.9 118.7
C2' C3' C4' O3' 117.1 118.6
C2' C3' C4' H3' 237.3 241.3
C3' C4' C5' H5' 283.8 61.8
C3' C4' C5' H5'' 163.8 301.8
C5' C4' C3' O4' 241.5 241.2
C5' C4' C3' H4' 118.7 122.2
O4' C4' C3' H4' 237.2 241.0
C3' C4' O4' C1' 348.7 40.6
O3' C3' C4' H3' 120.2 122.8
C4' C3' O3' HO3' 292.1 176.1
H4' C4' C5' H5' 45.0 184.2
H4' C4' C5' H5'' 285.0 64.1
C5' C4' H4' O4' 120.3 122.3
C5' C4' H4' C3' 237.9 237.8
O4' C4' H4' C3' 117.7 115.5
H4' C4' O4' C1' 227.6 281.6
H4' C4' C3' O3' 35.6 336.3
H4' C4' C3' H3' 275.4 213.6
N9 C1' O4' C2' 235.1 241.2
N9 C1' O4' H1' 117.2 122.3
O4' C1' C2' C3' 30.1 24.0
O4' C1' C2' H2' 150.1 142.7
O4' C1' C2' H2'' 270.1 265.4
C2' C1' O4' H1' 242.1 241.1
C1' O4' C4' C3' 348.7 40.6
C1' O4' C4' H4' 227.6 281.6
N9 C1' H1' C2' 123.7 122.2
N9 C1' H1' O4' 241.5 237.7
H1' C1' C2' C3' 266.9 265.0
H1' C1' C2' H2' 26.9 23.7
H1' C1' C2' H2'' 146.9 146.4
C2' C1' H1' O4' 117.8 115.5
O3' C3' C2' H2' 319.5 359.9
O3' C3' C2' H2'' 199.5 237.3
C2' C3' O3' C4' 247.9 245.4
C2' C3' O3' H3' 123.4 122.7
O3' C3' C4' H4' 35.6 336.3
C4' C3' O3' H3' 235.5 237.3
H3' C3' C2' H2' 79.9 122.7
H3' C3' C2' H2'' 319.9 0.0
C2' C3' H3' C4' 117.3 114.6
C2' C3' H3' O3' 237.9 237.3
H3' C3' C4' H4' 275.4 213.6
C4' C3' H3' O3' 120.6 122.7
H3' C3' O3' HO3' 56.6 298.9
HO3' O3' C3' H3' 56.6 298.9
O6 C H1 H2 120.0 120.0
O6 C H1 H3 240.0 240.0
H2 C H1 H3 120.0 120.0
O6 C H2 H1 240.0 240.0
O6 C H2 H3 120.0 120.0
H1 C H2 H3 240.0 240.0
O6 C H3 H1 120.0 120.0
O6 C H3 H2 240.0 240.0
H1 C H3 H2 120.0 120.0
OP1 P OP3 OP2 236.8 120.0
OP1 P OP3 O5' 118.1 240.0
OP2 P OP3 O5' 241.3 120.0
OP3 P OP2 HOP2 250.9 300.0
OP3 P O5' C5' 125.4 185.0