PDB Chemical Component DGT
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 DGT
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| PG |
O1G |
1.582 |
1.611 |
| PG |
O2G |
1.589 |
1.610 |
| O1G |
HO1G |
0.950 |
0.967 |
| O2G |
HO2G |
0.950 |
0.968 |
| O3G |
PG |
1.587 |
1.479 |
| O3B |
PG |
1.591 |
1.611 |
| PB |
O3B |
1.595 |
1.609 |
| PB |
O1B |
1.596 |
1.610 |
| PB |
O3A |
1.602 |
1.610 |
| O1B |
HO1B |
0.950 |
0.967 |
| O2B |
PB |
1.581 |
1.480 |
| PA |
O3A |
1.609 |
1.610 |
| PA |
O1A |
1.591 |
1.610 |
| O1A |
HO1A |
0.950 |
0.966 |
| O2A |
PA |
1.594 |
1.480 |
| O5' |
PA |
1.614 |
1.609 |
| O5' |
C5' |
1.424 |
1.429 |
| C5' |
H5' |
1.100 |
1.091 |
| C5' |
H5'A |
1.100 |
1.090 |
| C4' |
C5' |
1.528 |
1.529 |
| C4' |
H4' |
1.100 |
1.090 |
| O4' |
C4' |
1.433 |
1.444 |
| C3' |
C4' |
1.522 |
1.550 |
| C3' |
O3' |
1.420 |
1.429 |
| C3' |
H3' |
1.100 |
1.091 |
| O3' |
HO3' |
0.950 |
0.967 |
| C2' |
C3' |
1.521 |
1.548 |
| C2' |
C1' |
1.530 |
1.544 |
| C2' |
H2' |
1.100 |
1.090 |
| C2' |
H2'A |
1.100 |
1.090 |
| C1' |
O4' |
1.434 |
1.438 |
| C1' |
H1' |
1.100 |
1.090 |
| N9 |
C1' |
1.498 |
1.465 |
| N9 |
C4 |
1.340 |
1.369 |
| C8 |
N9 |
1.368 |
1.365 |
| C8 |
H8 |
1.080 |
1.080 |
| N7 |
C8 |
1.383 |
1.301 |
| N7 |
C5 |
1.359 |
1.355 |
| C5 |
C6 |
1.504 |
1.415 |
| C5 |
C4 |
1.456 |
1.400 |
| C6 |
N1 |
1.349 |
1.351 |
| O6 |
C6 |
1.252 |
1.219 |
| N1 |
C2 |
1.348 |
1.363 |
| C2 |
N3 |
1.362 |
1.314 |
| C2 |
N2 |
1.354 |
1.372 |
| N2 |
HN2 |
1.000 |
0.970 |
| N2 |
HN2A |
1.000 |
0.970 |
| C4 |
N3 |
1.451 |
1.338 |
| N1 |
H16 |
1.000 |
0.970 |
Bond Angles for DGT
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O1G |
PG |
O2G |
117.1 |
109.5 |
| PG |
O1G |
HO1G |
109.5 |
114.0 |
| PG |
O2G |
HO2G |
109.5 |
114.0 |
| O1B |
PB |
O3A |
107.4 |
109.5 |
| PB |
O1B |
HO1B |
109.5 |
114.0 |
| O2B |
PB |
O3A |
111.3 |
109.5 |
| PA |
O1A |
HO1A |
109.5 |
114.0 |
| O5' |
C5' |
H5' |
108.5 |
109.5 |
| O5' |
C5' |
H5'A |
107.8 |
109.4 |
| H5' |
C5' |
H5'A |
111.8 |
109.4 |
| C4' |
C5' |
H5' |
108.5 |
109.5 |
| C4' |
C5' |
H5'A |
107.8 |
109.5 |
| O4' |
C4' |
H4' |
110.8 |
110.6 |
| C3' |
C4' |
H4' |
107.9 |
110.6 |
| O3' |
C3' |
H3' |
108.4 |
110.8 |
| C3' |
O3' |
HO3' |
109.5 |
114.0 |
| C2' |
C3' |
H3' |
110.4 |
110.9 |
| C1' |
C2' |
H2' |
110.6 |
110.6 |
| C1' |
C2' |
H2'A |
111.3 |
110.4 |
| C2' |
C1' |
H1' |
105.9 |
109.9 |
| H2' |
C2' |
H2'A |
107.0 |
110.5 |
| N9 |
C1' |
H1' |
104.4 |
110.0 |
| C8 |
N9 |
C4 |
105.2 |
107.5 |
| N9 |
C4 |
C5 |
110.9 |
106.1 |
| N9 |
C4 |
N3 |
128.5 |
134.3 |
| N7 |
C8 |
H8 |
124.3 |
125.1 |
| N7 |
C5 |
C6 |
141.4 |
134.1 |
| N7 |
C5 |
C4 |
104.4 |
107.3 |
| C6 |
C5 |
C4 |
114.2 |
118.6 |
| C5 |
C6 |
N1 |
120.5 |
118.3 |
| C5 |
C4 |
N3 |
120.5 |
119.6 |
| O6 |
C6 |
N1 |
117.4 |
120.8 |
| C6 |
N1 |
C2 |
123.3 |
120.4 |
| C6 |
N1 |
H16 |
118.4 |
119.8 |
| N1 |
C2 |
N3 |
122.2 |
121.8 |
| N1 |
C2 |
N2 |
117.9 |
119.1 |
| C2 |
N1 |
H16 |
118.4 |
119.8 |
| N2 |
C2 |
N3 |
119.9 |
119.1 |
| C2 |
N2 |
HN2 |
110.4 |
120.0 |
| C2 |
N2 |
HN2A |
124.8 |
120.1 |
| HN2 |
N2 |
HN2A |
124.8 |
120.0 |
Torsion Angles for DGT
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O1G |
PG |
O2G |
HO2G |
224.6 |
60.0 |
| O2G |
PG |
O1G |
HO1G |
338.4 |
59.9 |
| HO1G |
O1G |
PG |
O2G |
338.4 |
59.9 |
| O3G |
PG |
O1G |
HO1G |
100.6 |
180.0 |
| O3G |
PG |
O2G |
HO2G |
101.0 |
300.0 |
| O3B |
PG |
O1G |
HO1G |
217.9 |
299.9 |
| O3B |
PG |
O2G |
HO2G |
342.3 |
180.0 |
| O2B |
PB |
O1B |
O3A |
124.1 |
120.0 |
| O3A |
PB |
O1B |
HO1B |
224.3 |
60.0 |
| HO1B |
O1B |
PB |
O3A |
224.3 |
60.0 |
| O1B |
PB |
O2B |
O3A |
238.0 |
240.0 |
| O2B |
PB |
O1B |
HO1B |
348.4 |
180.0 |
| O2A |
PA |
O1A |
HO1A |
352.3 |
180.0 |
| O5' |
PA |
O1A |
HO1A |
227.8 |
60.0 |
| H5' |
C5' |
O5' |
H5'A |
238.7 |
240.1 |
| C4' |
C5' |
O5' |
H5' |
240.0 |
240.0 |
| C4' |
C5' |
O5' |
H5'A |
118.7 |
120.1 |
| O5' |
C5' |
H5' |
H5'A |
118.8 |
119.9 |
| C4' |
C5' |
H5' |
H5'A |
241.2 |
240.0 |
| O5' |
C5' |
H5'A |
H5' |
240.8 |
240.1 |
| C4' |
C5' |
H5'A |
H5' |
119.2 |
120.0 |
| O5' |
C5' |
C4' |
H5' |
120.0 |
120.0 |
| O5' |
C5' |
C4' |
H5'A |
241.3 |
240.0 |
| H5' |
C5' |
C4' |
H5'A |
121.3 |
120.0 |
| H4' |
C4' |
C5' |
H5' |
47.1 |
185.7 |
| H4' |
C4' |
C5' |
H5'A |
285.8 |
65.7 |
| O4' |
C4' |
C5' |
H5' |
166.3 |
308.6 |
| O4' |
C4' |
C5' |
H5'A |
45.1 |
188.6 |
| C3' |
C4' |
O4' |
H4' |
117.9 |
118.6 |
| C3' |
C4' |
C5' |
H5' |
290.0 |
62.8 |
| C3' |
C4' |
C5' |
H5'A |
168.7 |
302.8 |
| O4' |
C4' |
C3' |
H4' |
240.3 |
241.4 |
| O3' |
C3' |
C4' |
H4' |
0.1 |
323.4 |
| C2' |
C3' |
O3' |
H3' |
121.2 |
123.6 |
| H3' |
C3' |
C4' |
H4' |
240.2 |
199.9 |
| H3' |
C3' |
O3' |
HO3' |
108.4 |
303.6 |
| HO3' |
O3' |
C3' |
H3' |
108.4 |
303.6 |
| C2' |
C3' |
C4' |
H4' |
119.2 |
81.7 |
| O3' |
C3' |
C2' |
H3' |
240.0 |
236.5 |
| C2' |
C3' |
O3' |
HO3' |
229.6 |
67.2 |
| C1' |
C2' |
C3' |
H3' |
236.7 |
262.5 |
| H2' |
C2' |
C1' |
H2'A |
118.8 |
122.6 |
| N9 |
C1' |
C2' |
H1' |
244.6 |
238.8 |
| H2' |
C2' |
C3' |
H3' |
356.7 |
21.4 |
| C1' |
C2' |
H2' |
H2'A |
238.6 |
237.4 |
| H2' |
C2' |
C1' |
H1' |
120.1 |
123.9 |
| H2'A |
C2' |
C3' |
H3' |
115.4 |
144.0 |
| C1' |
C2' |
H2'A |
H2' |
120.9 |
122.7 |
| H2'A |
C2' |
C1' |
H1' |
1.4 |
1.3 |
| C1' |
O4' |
C4' |
H4' |
244.0 |
281.4 |
| H1' |
C1' |
C2' |
H2' |
120.1 |
123.9 |
| H1' |
C1' |
C2' |
H2'A |
1.4 |
1.3 |
| N9 |
C1' |
C2' |
H2' |
4.7 |
2.7 |
| N9 |
C1' |
C2' |
H2'A |
245.9 |
240.1 |
| C2' |
C1' |
N9 |
H1' |
116.3 |
121.1 |
| C4 |
N9 |
C1' |
H1' |
31.7 |
323.9 |
| N7 |
C5 |
C4 |
N9 |
359.6 |
0.3 |
| C6 |
C5 |
C4 |
N9 |
179.6 |
180.2 |
| C5 |
C4 |
N9 |
N3 |
180.8 |
179.1 |
| C8 |
N9 |
C1' |
H1' |
210.2 |
144.2 |
| C8 |
N9 |
C4 |
C5 |
0.6 |
359.6 |
| C8 |
N9 |
C4 |
N3 |
179.8 |
180.5 |
| H8 |
C8 |
N9 |
C4 |
179.3 |
180.2 |
| N7 |
C8 |
N9 |
C4 |
359.4 |
0.2 |
| N9 |
C4 |
C5 |
N7 |
359.6 |
0.3 |
| C5 |
N7 |
C8 |
H8 |
180.5 |
180.0 |
| C6 |
C5 |
N7 |
C4 |
180.1 |
180.2 |
| N7 |
C5 |
C6 |
N1 |
179.7 |
180.1 |
| N7 |
C5 |
C4 |
N3 |
180.3 |
179.6 |
| N9 |
C4 |
C5 |
C6 |
179.6 |
180.2 |
| N7 |
C5 |
C6 |
C4 |
179.9 |
179.8 |
| C6 |
C5 |
C4 |
N3 |
0.3 |
359.5 |
| O6 |
C6 |
C5 |
N1 |
180.1 |
180.0 |
| C5 |
C6 |
N1 |
C2 |
359.8 |
360.0 |
| C5 |
C6 |
N1 |
H16 |
179.8 |
180.0 |
| N9 |
C4 |
C5 |
N3 |
179.3 |
180.7 |
| N7 |
C5 |
C4 |
C6 |
180.1 |
180.2 |
| C4 |
C5 |
C6 |
N1 |
359.9 |
0.3 |
| N1 |
C6 |
C5 |
C4 |
359.9 |
0.3 |
| C6 |
N1 |
C2 |
N3 |
0.4 |
0.0 |
| C6 |
N1 |
C2 |
N2 |
180.3 |
180.0 |
| C2 |
N1 |
C6 |
H16 |
180.0 |
179.9 |
| O6 |
C6 |
C5 |
C4 |
179.9 |
180.3 |
| C5 |
C6 |
O6 |
N1 |
179.9 |
180.0 |
| O6 |
C6 |
N1 |
C2 |
179.7 |
180.0 |
| O6 |
C6 |
N1 |
H16 |
359.8 |
0.1 |
| C6 |
N1 |
C2 |
H16 |
180.0 |
180.1 |
| N2 |
C2 |
N1 |
N3 |
179.9 |
180.0 |
| N1 |
C2 |
N2 |
HN2 |
0.1 |
359.9 |
| N1 |
C2 |
N2 |
HN2A |
180.1 |
180.0 |
| N9 |
C4 |
N3 |
C2 |
180.8 |
179.6 |
| C5 |
C4 |
N3 |
C2 |
359.9 |
0.5 |
| N1 |
C2 |
N3 |
N2 |
179.9 |
180.0 |
| N3 |
C2 |
N1 |
H16 |
180.4 |
179.9 |
| N3 |
C2 |
N2 |
HN2 |
180.0 |
180.0 |
| N3 |
C2 |
N2 |
HN2A |
359.9 |
0.1 |
| N1 |
C2 |
N2 |
N3 |
180.1 |
180.0 |
| N2 |
C2 |
N1 |
H16 |
0.3 |
360.0 |
| HN2 |
N2 |
C2 |
HN2A |
180.0 |
179.9 |
| HN2 |
N2 |
C2 |
N3 |
180.0 |
180.0 |
| C2 |
N2 |
HN2 |
HN2A |
180.0 |
180.1 |
| HN2A |
N2 |
C2 |
N3 |
359.9 |
0.1 |
| C2 |
N2 |
HN2A |
HN2 |
180.0 |
179.9 |
| N9 |
C4 |
N3 |
C5 |
180.8 |
179.1 |
| C6 |
N1 |
H16 |
C2 |
180.0 |
179.9 |
| H16 |
N1 |
C2 |
N3 |
180.4 |
179.9 |
| H16 |
N1 |
C2 |
N2 |
0.3 |
360.0 |