PDB Chemical Component GF2

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 GF2

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P O5' 1.616 1.609
N1 C2 1.354 1.363
C2 N3 1.331 1.314
C2 N2 1.306 1.372
C4 N3 1.368 1.338
C5 C4 1.378 1.400
C6 N1 1.381 1.351
C6 C5 1.443 1.414
O6 C6 1.231 1.219
N7 C5 1.402 1.356
N7 C8 1.308 1.301
C8 N9 1.375 1.365
N9 C4 1.377 1.368
N9 C1' 1.485 1.465
C1' O4' 1.425 1.444
OP2 P 1.487 1.610
C2' F 1.390 1.399
C2' C1' 1.528 1.545
OP1 P 1.485 1.480
C3' C2' 1.534 1.545
C3' C4' 1.536 1.545
O3' C3' 1.420 1.430
C4' O4' 1.429 1.444
C5' C4' 1.537 1.530
O5' C5' 1.422 1.429
P OP3 1.720 1.610
N1 HN1 1.000 0.971
N2 HN2 1.000 0.969
N2 HN2A 1.000 0.970
C8 H8 1.079 1.080
C1' H1' 1.100 1.090
OP2 HOP2 0.950 0.967
C2' H2' 1.100 1.089
C3' H3' 1.100 1.090
O3' HO3' 0.950 0.967
C4' H4' 1.100 1.090
C5' H5' 1.100 1.090
C5' H5'A 1.100 1.090
OP3 HOP3 0.950 0.967

Bond Angles for GF2

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP2 P O5' 108.5 109.4
OP1 P O5' 107.6 109.5
P O5' C5' 121.1 123.1
O5' P OP3 119.8 109.5
N1 C2 N3 125.0 121.9
N1 C2 N2 117.1 119.1
C2 N1 HN1 118.2 119.8
N2 C2 N3 117.8 119.0
C2 N2 HN2 120.0 120.0
C2 N2 HN2A 120.0 120.0
C6 N1 HN1 118.1 119.8
N7 C8 N9 114.3 109.8
N7 C8 H8 122.9 125.1
C8 N9 C1' 129.4 126.2
N9 C8 H8 122.8 125.1
N9 C1' O4' 110.8 110.4
N9 C1' H1' 106.8 110.3
C2' C1' O4' 106.2 104.8
C1' O4' C4' 109.0 105.3
O4' C1' H1' 111.2 110.4
OP2 P OP3 101.1 109.5
C2' C1' H1' 111.4 110.5
OP1 P OP3 102.0 109.5
C3' C2' H2' 111.7 110.7
O3' C3' C4' 113.6 110.4
C3' C4' O4' 106.4 104.8
C4' C3' H3' 115.4 110.5
C3' C4' H4' 109.2 110.4
O3' C3' H3' 101.1 110.5
O4' C4' H4' 111.7 110.4
C5' C4' H4' 103.3 110.4
O5' C5' H5' 108.3 109.4
O5' C5' H5'A 108.3 109.5
P OP3 HOP3 109.5 114.0
HN2 N2 HN2A 120.0 120.0
H5' C5' H5'A 110.6 109.5

Torsion Angles for GF2

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP2 P O5' OP3 115.2 120.0
OP1 P O5' OP3 244.4 240.0
P O5' C5' H5' 56.8 60.0
P O5' C5' H5'A 296.8 300.1
O5' P OP3 HOP3 241.4 180.0
N2 C2 N1 N3 181.9 180.1
N1 C2 N2 HN2 178.2 359.9
N1 C2 N2 HN2A 358.2 180.0
C6 N1 C2 HN1 180.0 180.2
N1 C2 N3 N2 181.9 180.1
N3 C2 N1 HN1 178.4 180.0
N3 C2 N2 HN2 0.0 180.0
N3 C2 N2 HN2A 180.0 0.0
N1 C2 N2 N3 178.2 179.9
N2 C2 N1 HN1 0.4 0.0
HN2 N2 C2 HN2A 180.0 180.0
C2 N1 C6 HN1 180.0 179.8
C5 C6 N1 HN1 181.4 179.8
O6 C6 N1 HN1 1.0 0.2
N7 C8 N9 C1' 180.9 180.0
N9 C8 N7 H8 180.0 180.1
N7 C8 N9 H8 180.0 179.9
C8 N9 C1' O4' 14.0 23.6
C8 N9 C1' H1' 135.2 145.8
C1' N9 C8 H8 0.9 0.0
C2' C1' N9 O4' 242.6 244.6
N9 C1' O4' C4' 246.4 200.6
O4' C1' N9 H1' 238.7 237.8
C2' C1' N9 H1' 121.3 122.3
N9 C1' O4' H1' 118.6 122.2
C2' C1' O4' H1' 238.7 241.0
C3' C4' O4' C1' 20.3 40.5
C1' O4' C4' H4' 261.3 281.6
OP1 P OP2 O5' 237.1 240.0
OP2 P O5' C5' 43.0 295.0
O5' P OP2 OP3 233.1 240.0
OP1 P OP2 OP3 110.2 120.0
OP2 P OP3 HOP3 122.4 60.0
N9 C1' C2' O4' 120.2 118.9
N9 C1' C2' H1' 241.4 237.8
C2' C1' O4' C4' 6.5 319.5
O4' C1' C2' H1' 121.2 118.9
OP2 P OP1 O5' 123.3 120.0
OP1 P O5' C5' 172.2 55.0
O5' P OP1 OP3 126.9 120.0
OP2 P OP1 OP3 250.3 240.0
OP1 P OP3 HOP3 360.0 300.0
C3' C2' C1' O4' 329.6 24.0
C3' C2' C1' H1' 208.4 265.1
C1' O4' C4' C3' 20.3 40.5
C4' C3' C2' H2' 164.8 118.7
O3' C3' C4' H3' 116.1 122.6
O4' C4' C3' H4' 239.3 241.1
C5' C4' C3' H4' 115.1 122.3
O3' C3' C2' H2' 285.1 237.3
O3' C3' C4' O4' 202.1 217.3
C4' C3' O3' H3' 235.8 237.4
O3' C3' C4' H4' 322.9 336.2
C4' O4' C1' H1' 127.8 78.4
O4' C4' C3' H3' 86.0 94.7
C3' C4' O4' H4' 119.1 118.9
C5' C4' O4' H4' 244.7 237.7
P O5' C5' C4' 176.8 180.0
C5' C4' C3' H3' 321.8 335.9
C3' C4' C5' H4' 241.5 237.7
O4' C4' C5' H4' 120.3 122.3
C5' O5' P OP3 287.8 175.0
O5' C5' C4' H4' 180.7 307.3
H5' C5' O5' H5'A 120.0 120.0
OP2 P OP3 O5' 241.0 240.0
OP1 P OP3 O5' 118.6 120.0
OP3 P O5' C5' 287.8 175.0
HN1 N1 C2 N3 178.4 180.0
HN1 N1 C2 N2 0.4 0.0
HN2 N2 C2 N3 0.0 180.0
C2 N2 HN2 HN2A 180.0 180.0
HN2A N2 C2 N3 180.0 0.0
C2 N2 HN2A HN2 180.0 180.0
N7 C8 H8 N9 180.0 180.1
H8 C8 N9 C1' 0.9 0.0
N9 C1' H1' O4' 239.0 237.7
C2' C1' H1' O4' 118.2 115.5
H1' C1' O4' C4' 127.8 78.4
HOP2 OP2 P O5' 122.9 300.0
HOP2 OP2 P OP3 249.8 60.0
H2' C2' C1' O4' 207.8 265.2
H2' C2' C1' H1' 86.6 146.3
H3' C3' C2' H2' 41.2 0.0
O3' C3' H3' C4' 237.0 237.4
H3' C3' C4' O4' 86.0 94.7
H3' C3' C4' H4' 206.7 213.6
HO3' O3' C3' C4' 291.3 176.1
HO3' O3' C3' H3' 55.6 298.7
C3' C4' H4' O4' 242.6 244.6
H4' C4' C3' H3' 206.7 213.6
H5' C5' C4' H4' 300.7 67.3
O5' C5' H5' H5'A 241.4 240.0
H5'A C5' C4' H4' 60.7 187.3
O5' C5' H5'A H5' 118.6 119.9