PDB Chemical Component XG4
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 XG4
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C2 |
N1 |
1.379 |
1.363 |
| N1 |
C6 |
1.367 |
1.351 |
| N1 |
HN1 |
1.000 |
0.970 |
| N3 |
C2 |
1.340 |
1.314 |
| N2 |
C2 |
1.377 |
1.372 |
| N2 |
HN2 |
1.000 |
0.970 |
| N2 |
HN2A |
1.000 |
0.970 |
| N3 |
C4 |
1.365 |
1.337 |
| N9 |
C4 |
1.385 |
1.369 |
| C4 |
C5 |
1.416 |
1.400 |
| C5 |
N7 |
1.362 |
1.356 |
| C5 |
C6 |
1.424 |
1.414 |
| C6 |
O6 |
1.254 |
1.220 |
| C8 |
N7 |
1.319 |
1.301 |
| N9 |
C8 |
1.380 |
1.365 |
| C8 |
H8 |
1.080 |
1.080 |
| C1' |
N9 |
1.490 |
1.466 |
| O5' |
PA |
1.542 |
1.609 |
| O1A |
PA |
1.312 |
1.480 |
| PA |
O2A |
1.382 |
1.610 |
| PA |
N3A |
1.579 |
1.683 |
| O1B |
PB |
1.249 |
1.480 |
| N3A |
PB |
1.671 |
1.683 |
| PB |
O2B |
1.280 |
1.610 |
| PB |
O3B |
1.531 |
1.609 |
| O1G |
PG |
1.337 |
1.480 |
| PG |
O3B |
1.544 |
1.611 |
| PG |
O2G |
1.343 |
1.610 |
| PG |
O3G |
1.338 |
1.610 |
| O4' |
C1' |
1.331 |
1.437 |
| C1' |
C2' |
1.561 |
1.541 |
| C1' |
H1' |
1.100 |
1.090 |
| C2' |
C3' |
1.498 |
1.549 |
| C2' |
H2' |
1.100 |
1.090 |
| C2' |
H2'A |
1.100 |
1.090 |
| O2A |
HO2A |
0.950 |
0.967 |
| O2B |
HO2B |
0.950 |
0.967 |
| O2G |
HO2G |
0.950 |
0.967 |
| C4' |
C3' |
1.522 |
1.550 |
| C3' |
O3' |
1.359 |
1.429 |
| C3' |
H3' |
1.099 |
1.089 |
| O3' |
HO3' |
0.950 |
0.968 |
| N3A |
HN3A |
1.000 |
1.010 |
| O3G |
HO3G |
0.950 |
0.967 |
| O4' |
C4' |
1.372 |
1.444 |
| C4' |
C5' |
1.560 |
1.530 |
| C4' |
H4' |
1.100 |
1.090 |
| C5' |
O5' |
1.427 |
1.428 |
| C5' |
H5' |
1.099 |
1.090 |
| C5' |
H5'A |
1.100 |
1.090 |
Bond Angles for XG4
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
N1 |
C6 |
119.9 |
120.3 |
| C2 |
N1 |
HN1 |
120.0 |
119.9 |
| C6 |
N1 |
HN1 |
120.0 |
119.8 |
| N1 |
C6 |
C5 |
119.5 |
118.4 |
| N1 |
C6 |
O6 |
119.5 |
120.8 |
| HN2 |
N2 |
HN2A |
120.0 |
119.9 |
| N3 |
C4 |
C5 |
120.5 |
119.7 |
| C4 |
C5 |
N7 |
107.9 |
107.3 |
| C4 |
C5 |
C6 |
117.8 |
118.5 |
| C6 |
C5 |
N7 |
134.2 |
134.2 |
| C5 |
C6 |
O6 |
121.1 |
120.8 |
| N9 |
C8 |
H8 |
124.5 |
125.1 |
| O1A |
PA |
O2A |
117.3 |
109.5 |
| O1A |
PA |
N3A |
109.1 |
109.5 |
| O2A |
PA |
N3A |
108.9 |
109.4 |
| PA |
O2A |
HO2A |
109.5 |
114.0 |
| PA |
N3A |
PB |
132.9 |
111.0 |
| PA |
N3A |
HN3A |
102.3 |
111.0 |
| O1B |
PB |
O2B |
111.6 |
109.5 |
| O1B |
PB |
O3B |
113.4 |
109.5 |
| N3A |
PB |
O3B |
109.5 |
109.5 |
| O2B |
PB |
O3B |
108.7 |
109.5 |
| PB |
O2B |
HO2B |
109.5 |
114.0 |
| PB |
O3B |
PG |
128.9 |
134.0 |
| O1G |
PG |
O3B |
109.6 |
109.5 |
| O1G |
PG |
O2G |
113.6 |
109.5 |
| O1G |
PG |
O3G |
108.5 |
109.5 |
| O2G |
PG |
O3B |
109.8 |
109.4 |
| O3B |
PG |
O3G |
106.9 |
109.5 |
| O2G |
PG |
O3G |
108.4 |
109.4 |
| PG |
O2G |
HO2G |
109.5 |
113.9 |
| PG |
O3G |
HO3G |
109.5 |
114.1 |
| O4' |
C1' |
H1' |
108.2 |
110.0 |
| C2' |
C1' |
H1' |
114.4 |
109.9 |
| C1' |
C2' |
C3' |
105.1 |
104.2 |
| C1' |
C2' |
H2' |
111.0 |
110.5 |
| C1' |
C2' |
H2'A |
110.9 |
110.5 |
| C3' |
C2' |
H2' |
111.0 |
110.5 |
| C3' |
C2' |
H2'A |
111.0 |
110.5 |
| C2' |
C3' |
O3' |
119.0 |
110.9 |
| C2' |
C3' |
H3' |
113.4 |
110.9 |
| H2' |
C2' |
H2'A |
107.9 |
110.6 |
| C4' |
C3' |
H3' |
116.0 |
110.9 |
| O3' |
C3' |
H3' |
94.3 |
110.8 |
| C3' |
O3' |
HO3' |
109.5 |
114.0 |
| O4' |
C4' |
C5' |
110.2 |
110.6 |
| O4' |
C4' |
H4' |
108.8 |
110.7 |
| C5' |
C4' |
H4' |
109.5 |
110.5 |
| C4' |
C5' |
O5' |
116.9 |
109.5 |
| C4' |
C5' |
H5' |
107.0 |
109.5 |
| C4' |
C5' |
H5'A |
107.1 |
109.5 |
| O5' |
C5' |
H5' |
107.1 |
109.4 |
| O5' |
C5' |
H5'A |
107.0 |
109.5 |
| H5' |
C5' |
H5'A |
111.8 |
109.4 |
Torsion Angles for XG4
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C6 |
N1 |
C2 |
HN1 |
180.0 |
180.2 |
| C2 |
N1 |
C6 |
C5 |
1.6 |
0.1 |
| C2 |
N1 |
C6 |
O6 |
180.6 |
179.7 |
| C2 |
N1 |
C6 |
HN1 |
180.0 |
179.8 |
| C4 |
C5 |
C6 |
N1 |
357.9 |
359.9 |
| N1 |
C6 |
C5 |
N7 |
180.3 |
180.0 |
| C5 |
C6 |
N1 |
O6 |
180.9 |
180.4 |
| C2 |
N1 |
HN1 |
C6 |
180.0 |
180.2 |
| HN1 |
N1 |
C6 |
C5 |
181.5 |
180.3 |
| HN1 |
N1 |
C6 |
O6 |
0.6 |
359.9 |
| N3 |
C2 |
N1 |
C6 |
359.2 |
359.9 |
| N3 |
C2 |
N1 |
HN1 |
179.3 |
179.7 |
| N2 |
C2 |
N1 |
C6 |
179.8 |
180.0 |
| N2 |
C2 |
N1 |
HN1 |
359.8 |
359.8 |
| N3 |
C4 |
C5 |
N7 |
180.1 |
180.0 |
| N3 |
C4 |
C5 |
C6 |
1.9 |
0.1 |
| N1 |
C6 |
C5 |
C4 |
357.9 |
359.9 |
| C6 |
C5 |
C4 |
N7 |
181.8 |
180.1 |
| C4 |
C5 |
C6 |
O6 |
178.8 |
180.3 |
| C4 |
C5 |
N7 |
C6 |
182.2 |
180.1 |
| N7 |
C5 |
C6 |
O6 |
1.2 |
0.4 |
| C5 |
C6 |
N1 |
HN1 |
181.5 |
180.3 |
| N1 |
C6 |
C5 |
O6 |
179.1 |
179.6 |
| C4 |
C5 |
C6 |
N7 |
177.6 |
179.9 |
| O6 |
C6 |
N1 |
HN1 |
0.6 |
359.9 |
| N1 |
C6 |
O6 |
C5 |
180.9 |
180.4 |
| O6 |
C6 |
C5 |
N7 |
1.2 |
0.4 |
| C1' |
N9 |
C8 |
H8 |
0.4 |
0.1 |
| O5' |
PA |
O2A |
HO2A |
121.1 |
300.0 |
| O5' |
PA |
N3A |
HN3A |
42.0 |
303.9 |
| O2A |
PA |
O1A |
N3A |
235.6 |
240.0 |
| O1A |
PA |
O2A |
HO2A |
0.0 |
180.0 |
| O1A |
PA |
N3A |
PB |
41.7 |
300.0 |
| O1A |
PA |
N3A |
HN3A |
161.7 |
64.0 |
| O1A |
PA |
O2A |
N3A |
124.5 |
120.0 |
| O2A |
PA |
N3A |
PB |
170.9 |
60.0 |
| O2A |
PA |
N3A |
HN3A |
290.9 |
183.9 |
| O1A |
PA |
N3A |
O2A |
230.8 |
240.0 |
| N3A |
PA |
O2A |
HO2A |
235.5 |
60.0 |
| PA |
N3A |
PB |
O3B |
236.3 |
179.9 |
| PA |
N3A |
PB |
O1B |
358.8 |
300.0 |
| N3A |
PB |
O1B |
O3B |
240.0 |
240.0 |
| O2B |
PB |
O1B |
O3B |
123.2 |
120.0 |
| O1B |
PB |
O2B |
HO2B |
0.0 |
180.0 |
| O1B |
PB |
O3B |
PG |
306.7 |
60.0 |
| PA |
N3A |
PB |
HN3A |
120.0 |
123.9 |
| O1B |
PB |
N3A |
O3B |
122.5 |
120.0 |
| O2B |
PB |
N3A |
O3B |
241.9 |
240.0 |
| N3A |
PB |
O2B |
HO2B |
244.5 |
60.0 |
| N3A |
PB |
O3B |
PG |
64.4 |
180.0 |
| PA |
N3A |
PB |
O2B |
118.2 |
60.0 |
| O1B |
PB |
O2B |
O3B |
234.1 |
239.9 |
| N3A |
PB |
O2B |
O3B |
118.6 |
120.0 |
| O2B |
PB |
O3B |
PG |
181.9 |
299.9 |
| O1B |
PB |
O3B |
O2B |
124.8 |
120.0 |
| O3B |
PB |
O2B |
HO2B |
125.9 |
300.1 |
| O1G |
PG |
O3B |
PB |
1.4 |
45.0 |
| O2G |
PG |
O3B |
PB |
126.8 |
165.1 |
| PB |
O3B |
PG |
O3G |
244.1 |
285.0 |
| PB |
O3B |
PG |
O1G |
1.4 |
45.0 |
| O2G |
PG |
O1G |
O3B |
236.8 |
240.0 |
| O3B |
PG |
O1G |
O3G |
243.7 |
240.0 |
| O2G |
PG |
O1G |
O3G |
120.5 |
120.0 |
| O1G |
PG |
O2G |
HO2G |
0.0 |
300.0 |
| O1G |
PG |
O3G |
HO3G |
360.0 |
180.0 |
| O1G |
PG |
O3B |
O2G |
234.6 |
240.0 |
| O1G |
PG |
O3B |
O3G |
117.3 |
120.0 |
| O2G |
PG |
O3B |
O3G |
242.7 |
240.1 |
| O3B |
PG |
O2G |
HO2G |
237.0 |
180.0 |
| O3B |
PG |
O3G |
HO3G |
118.0 |
300.1 |
| PB |
O3B |
PG |
O2G |
126.8 |
165.1 |
| O1G |
PG |
O2G |
O3B |
123.0 |
120.0 |
| O1G |
PG |
O2G |
O3G |
239.4 |
240.0 |
| O3B |
PG |
O2G |
O3G |
116.4 |
119.9 |
| O2G |
PG |
O3G |
HO3G |
236.3 |
60.0 |
| O1G |
PG |
O3G |
O3B |
242.0 |
240.0 |
| O1G |
PG |
O3G |
O2G |
123.7 |
120.1 |
| O2G |
PG |
O3G |
O3B |
118.3 |
119.9 |
| O3G |
PG |
O2G |
HO2G |
120.6 |
60.1 |
| C2' |
C1' |
O4' |
H1' |
236.9 |
240.5 |
| O4' |
C1' |
C2' |
H2' |
100.6 |
120.7 |
| O4' |
C1' |
C2' |
H2'A |
220.6 |
243.4 |
| O4' |
C1' |
C2' |
H1' |
119.1 |
119.6 |
| C3' |
C2' |
C1' |
H2' |
240.0 |
241.3 |
| C3' |
C2' |
C1' |
H2'A |
120.0 |
118.7 |
| C1' |
C2' |
C3' |
O3' |
153.8 |
139.0 |
| C1' |
C2' |
C3' |
H3' |
263.3 |
262.6 |
| H2' |
C2' |
C1' |
H2'A |
240.0 |
237.3 |
| H1' |
C1' |
C2' |
C3' |
221.5 |
242.4 |
| H1' |
C1' |
C2' |
H2' |
341.5 |
1.1 |
| H1' |
C1' |
C2' |
H2'A |
101.5 |
123.7 |
| C3' |
C2' |
C1' |
H1' |
221.5 |
242.4 |
| C1' |
C2' |
C3' |
H2' |
120.0 |
118.6 |
| C1' |
C2' |
C3' |
H2'A |
240.0 |
241.3 |
| H2' |
C2' |
C3' |
H2'A |
120.0 |
122.7 |
| C4' |
C3' |
C2' |
H3' |
123.4 |
118.2 |
| O3' |
C3' |
C2' |
H3' |
250.5 |
236.4 |
| C2' |
C3' |
O3' |
HO3' |
180.0 |
61.5 |
| H2' |
C2' |
C1' |
H1' |
341.5 |
1.1 |
| C1' |
C2' |
H2' |
C3' |
243.6 |
245.3 |
| C1' |
C2' |
H2' |
H2'A |
121.7 |
122.6 |
| C3' |
C2' |
H2' |
H2'A |
238.2 |
237.3 |
| H2' |
C2' |
C3' |
O3' |
33.8 |
20.4 |
| H2' |
C2' |
C3' |
H3' |
143.3 |
144.0 |
| H2'A |
C2' |
C1' |
H1' |
101.5 |
123.7 |
| C1' |
C2' |
H2'A |
C3' |
116.4 |
114.8 |
| C1' |
C2' |
H2'A |
H2' |
238.2 |
237.4 |
| C3' |
C2' |
H2'A |
H2' |
121.8 |
122.7 |
| H2'A |
C2' |
C3' |
O3' |
273.8 |
257.7 |
| H2'A |
C2' |
C3' |
H3' |
23.3 |
21.3 |
| HO2A |
O2A |
PA |
N3A |
235.5 |
60.0 |
| HO2B |
O2B |
PB |
O3B |
125.9 |
300.1 |
| HO2G |
O2G |
PG |
O3B |
237.0 |
180.0 |
| HO2G |
O2G |
PG |
O3G |
120.6 |
60.1 |
| C4' |
C3' |
C2' |
H2' |
266.8 |
262.2 |
| C4' |
C3' |
C2' |
H2'A |
146.7 |
139.5 |
| C2' |
C3' |
C4' |
H3' |
238.5 |
241.8 |
| O3' |
C3' |
C4' |
H3' |
109.8 |
123.6 |
| C4' |
C3' |
O3' |
HO3' |
298.2 |
174.2 |
| O3' |
C3' |
C2' |
H2' |
33.8 |
20.4 |
| O3' |
C3' |
C2' |
H2'A |
273.8 |
257.7 |
| C2' |
C3' |
O3' |
H3' |
119.8 |
123.6 |
| C4' |
C3' |
O3' |
H3' |
238.0 |
236.3 |
| H3' |
C3' |
C2' |
H2' |
143.3 |
144.0 |
| H3' |
C3' |
C2' |
H2'A |
23.3 |
21.3 |
| C2' |
C3' |
H3' |
O3' |
235.8 |
236.4 |
| H3' |
C3' |
O3' |
HO3' |
60.2 |
297.9 |
| HO3' |
O3' |
C3' |
H3' |
60.2 |
297.9 |
| PA |
N3A |
HN3A |
PB |
220.5 |
236.0 |
| HN3A |
N3A |
PB |
O3B |
116.3 |
56.0 |
| C4' |
O4' |
C1' |
H1' |
124.6 |
93.0 |
| O4' |
C4' |
C3' |
H3' |
94.0 |
81.2 |
| C5' |
C4' |
O4' |
H4' |
240.0 |
237.1 |
| O4' |
C4' |
C5' |
O5' |
311.7 |
70.9 |
| O4' |
C4' |
C5' |
H5' |
71.7 |
190.9 |
| O4' |
C4' |
C5' |
H5'A |
191.7 |
310.9 |
| C5' |
C4' |
C3' |
H3' |
333.6 |
322.6 |
| O4' |
C4' |
C5' |
H4' |
119.6 |
123.0 |
| O5' |
C5' |
C4' |
H5' |
240.0 |
240.0 |
| O5' |
C5' |
C4' |
H5'A |
120.0 |
120.0 |
| H5' |
C5' |
C4' |
H5'A |
240.0 |
240.0 |
| H4' |
C4' |
C3' |
H3' |
213.6 |
199.8 |
| O4' |
C4' |
H4' |
C5' |
239.6 |
237.0 |
| H4' |
C4' |
C5' |
O5' |
192.0 |
307.9 |
| H4' |
C4' |
C5' |
H5' |
312.0 |
67.9 |
| H4' |
C4' |
C5' |
H5'A |
72.1 |
187.9 |
| O5' |
C5' |
C4' |
H4' |
192.0 |
307.9 |
| C4' |
C5' |
O5' |
H5' |
120.0 |
120.0 |
| C4' |
C5' |
O5' |
H5'A |
240.0 |
240.0 |
| H5' |
C5' |
O5' |
H5'A |
120.0 |
120.0 |
| H5' |
C5' |
C4' |
H4' |
312.0 |
67.9 |
| C4' |
C5' |
H5' |
O5' |
233.9 |
240.0 |
| C4' |
C5' |
H5' |
H5'A |
116.9 |
120.0 |
| O5' |
C5' |
H5' |
H5'A |
243.1 |
240.0 |
| H5'A |
C5' |
C4' |
H4' |
72.1 |
187.9 |
| C4' |
C5' |
H5'A |
O5' |
126.1 |
120.0 |
| C4' |
C5' |
H5'A |
H5' |
243.1 |
240.0 |
| O5' |
C5' |
H5'A |
H5' |
116.9 |
120.0 |