PDB Chemical Component HGV
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 HGV
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C2 |
N1 |
1.335 |
1.320 |
| C2 |
N3 |
1.310 |
1.317 |
| N1 |
C6 |
1.333 |
1.329 |
| N3 |
C4 |
1.369 |
1.329 |
| C6 |
N6 |
1.386 |
1.384 |
| C6 |
C5 |
1.406 |
1.404 |
| C4 |
C5 |
1.401 |
1.405 |
| C4 |
N9 |
1.371 |
1.373 |
| C2' |
C1' |
1.596 |
1.541 |
| C2' |
C3' |
1.577 |
1.550 |
| C1' |
N9 |
1.451 |
1.464 |
| C1' |
O4' |
1.307 |
1.438 |
| C5 |
N7 |
1.368 |
1.356 |
| N9 |
C8 |
1.328 |
1.364 |
| O3' |
C3' |
1.484 |
1.429 |
| C3' |
C4' |
1.342 |
1.550 |
| O4' |
C4' |
1.675 |
1.444 |
| N7 |
C8 |
1.337 |
1.301 |
| C4' |
C5' |
1.481 |
1.530 |
| O2B |
PB |
1.540 |
1.480 |
| C5' |
O5' |
1.452 |
1.430 |
| O5' |
PA |
1.601 |
1.609 |
| PB |
O3A |
1.600 |
1.610 |
| PB |
O1B |
1.519 |
1.610 |
| PB |
C3B |
1.837 |
1.823 |
| O3A |
PA |
1.606 |
1.610 |
| C3B |
C4B |
1.502 |
1.530 |
| C3B |
PG |
1.855 |
1.823 |
| PA |
O2A |
1.497 |
1.480 |
| PA |
O1A |
1.499 |
1.610 |
| O3G |
PG |
1.513 |
1.479 |
| PG |
O1G |
1.567 |
1.610 |
| PG |
O2G |
1.546 |
1.611 |
| O1A |
H1 |
0.950 |
0.966 |
| O1B |
H2 |
0.950 |
0.968 |
| C3B |
H3 |
1.100 |
1.091 |
| C4B |
H4 |
1.100 |
1.090 |
| C4B |
H5 |
1.100 |
1.090 |
| C4B |
H6 |
1.100 |
1.089 |
| O1G |
H7 |
0.950 |
0.967 |
| O2G |
H8 |
0.950 |
0.967 |
| C5' |
H9 |
1.100 |
1.089 |
| C5' |
H10 |
1.100 |
1.090 |
| C4' |
H11 |
1.100 |
1.089 |
| C1' |
H12 |
1.100 |
1.090 |
| C2 |
H13 |
1.080 |
1.080 |
| N6 |
H14 |
1.000 |
0.970 |
| N6 |
H15 |
1.000 |
0.970 |
| C8 |
H16 |
1.080 |
1.080 |
| C2' |
H17 |
1.100 |
1.090 |
| C2' |
H18 |
1.100 |
1.090 |
| C3' |
H19 |
1.100 |
1.090 |
| O3' |
H20 |
0.949 |
0.966 |
Bond Angles for HGV
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
N1 |
C6 |
122.4 |
121.2 |
| N1 |
C2 |
H13 |
119.2 |
118.8 |
| N1 |
C6 |
N6 |
121.9 |
120.8 |
| N1 |
C6 |
C5 |
118.4 |
118.4 |
| N3 |
C4 |
C5 |
119.7 |
119.1 |
| N6 |
C6 |
C5 |
119.7 |
120.8 |
| C6 |
N6 |
H14 |
109.5 |
120.0 |
| C6 |
N6 |
H15 |
109.4 |
120.0 |
| C4 |
C5 |
C6 |
117.8 |
118.2 |
| C6 |
C5 |
N7 |
134.9 |
134.7 |
| C4 |
C5 |
N7 |
107.3 |
107.1 |
| C4 |
N9 |
C8 |
108.3 |
107.4 |
| C2' |
C1' |
H12 |
108.9 |
110.0 |
| C3' |
C2' |
H17 |
111.3 |
110.4 |
| C3' |
C2' |
H18 |
111.3 |
110.6 |
| C2' |
C3' |
H19 |
108.9 |
110.9 |
| C1' |
N9 |
C8 |
126.7 |
126.3 |
| N9 |
C1' |
H12 |
110.9 |
109.9 |
| C5 |
N7 |
C8 |
107.6 |
109.5 |
| N9 |
C8 |
N7 |
110.6 |
110.0 |
| N9 |
C8 |
H16 |
124.7 |
125.0 |
| O3' |
C3' |
H19 |
110.1 |
110.9 |
| C3' |
C4' |
H11 |
111.5 |
110.6 |
| O4' |
C4' |
H11 |
107.1 |
110.6 |
| N7 |
C8 |
H16 |
124.7 |
125.1 |
| C4' |
C5' |
H9 |
109.1 |
109.5 |
| C4' |
C5' |
H10 |
109.2 |
109.5 |
| O2B |
PB |
O1B |
109.9 |
109.4 |
| O2B |
PB |
C3B |
106.6 |
109.5 |
| O1B |
PB |
C3B |
109.0 |
109.4 |
| PB |
O1B |
H2 |
109.5 |
114.0 |
| PB |
C3B |
C4B |
108.9 |
109.5 |
| PB |
C3B |
PG |
111.4 |
109.5 |
| PB |
C3B |
H3 |
107.6 |
109.5 |
| C4B |
C3B |
PG |
109.8 |
109.5 |
| C4B |
C3B |
H3 |
111.7 |
109.4 |
| C3B |
C4B |
H4 |
109.5 |
109.5 |
| C3B |
C4B |
H5 |
109.4 |
109.5 |
| C3B |
C4B |
H6 |
109.4 |
109.5 |
| C3B |
PG |
O1G |
110.0 |
109.5 |
| C3B |
PG |
O2G |
109.0 |
109.5 |
| PG |
C3B |
H3 |
107.5 |
109.5 |
| O1A |
PA |
O2A |
113.2 |
109.5 |
| PA |
O1A |
H1 |
109.5 |
114.0 |
| O1G |
PG |
O2G |
109.2 |
109.5 |
| PG |
O1G |
H7 |
109.5 |
114.0 |
| PG |
O2G |
H8 |
109.5 |
114.0 |
| H4 |
C4B |
H5 |
109.5 |
109.4 |
| H4 |
C4B |
H6 |
109.5 |
109.5 |
| H5 |
C4B |
H6 |
109.5 |
109.5 |
| H9 |
C5' |
H10 |
109.5 |
109.5 |
| H14 |
N6 |
H15 |
109.5 |
120.0 |
| H17 |
C2' |
H18 |
109.5 |
110.6 |
Torsion Angles for HGV
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
N1 |
C6 |
N6 |
179.5 |
180.0 |
| C2 |
N1 |
C6 |
C5 |
358.6 |
0.0 |
| C2 |
N3 |
C4 |
C5 |
359.9 |
0.0 |
| C6 |
N1 |
C2 |
H13 |
180.9 |
180.0 |
| N6 |
C6 |
N1 |
C5 |
180.9 |
179.9 |
| N1 |
C6 |
N6 |
H14 |
360.0 |
0.1 |
| N1 |
C6 |
N6 |
H15 |
120.0 |
180.0 |
| C4 |
C5 |
C6 |
N1 |
1.2 |
0.0 |
| N1 |
C6 |
C5 |
N7 |
181.1 |
180.0 |
| N3 |
C4 |
C5 |
C6 |
359.5 |
359.9 |
| N3 |
C4 |
C5 |
N7 |
179.6 |
180.0 |
| N3 |
C4 |
N9 |
C8 |
180.1 |
180.3 |
| N1 |
C6 |
N6 |
C5 |
179.1 |
180.1 |
| C4 |
C5 |
C6 |
N6 |
180.3 |
180.1 |
| N6 |
C6 |
C5 |
N7 |
0.2 |
0.0 |
| H14 |
N6 |
C6 |
H15 |
240.0 |
180.1 |
| N1 |
C6 |
C5 |
N6 |
180.9 |
179.9 |
| C5 |
C6 |
N6 |
H14 |
180.9 |
180.0 |
| C5 |
C6 |
N6 |
H15 |
300.9 |
360.0 |
| C4 |
C5 |
C6 |
N7 |
180.1 |
180.1 |
| C6 |
C5 |
N7 |
C8 |
180.2 |
179.8 |
| N1 |
C6 |
C5 |
C4 |
1.2 |
0.0 |
| N6 |
C6 |
C5 |
C4 |
180.3 |
180.1 |
| C6 |
C5 |
C4 |
N7 |
180.0 |
180.0 |
| C5 |
C4 |
N9 |
C8 |
358.7 |
0.2 |
| C4 |
C5 |
N7 |
C8 |
0.1 |
359.7 |
| C1' |
N9 |
C4 |
C8 |
181.7 |
179.7 |
| C4 |
N9 |
C1' |
H12 |
331.0 |
324.8 |
| C4 |
N9 |
C8 |
N7 |
1.4 |
359.6 |
| C4 |
N9 |
C8 |
H16 |
181.4 |
179.8 |
| N9 |
C1' |
C2' |
H12 |
239.4 |
238.9 |
| C3' |
C2' |
C1' |
H12 |
215.7 |
242.7 |
| O3' |
C3' |
C2' |
H19 |
239.2 |
236.4 |
| C2' |
C3' |
C4' |
H11 |
75.6 |
81.7 |
| H17 |
C2' |
C3' |
H18 |
122.4 |
122.7 |
| C4 |
N9 |
C1' |
C8 |
178.0 |
180.3 |
| C2' |
C1' |
N9 |
H12 |
119.4 |
121.2 |
| C1' |
N9 |
C8 |
N7 |
179.7 |
179.9 |
| C1' |
N9 |
C8 |
H16 |
359.7 |
0.0 |
| C1' |
O4' |
C4' |
H11 |
270.0 |
281.4 |
| C4 |
C5 |
N7 |
C6 |
179.9 |
180.0 |
| N9 |
C8 |
N7 |
C5 |
359.1 |
0.4 |
| C5 |
N7 |
C8 |
H16 |
179.1 |
180.3 |
| C8 |
N9 |
C1' |
H12 |
153.0 |
144.5 |
| C5 |
N7 |
C8 |
N9 |
359.1 |
0.4 |
| N7 |
C8 |
N9 |
H16 |
180.0 |
179.8 |
| O3' |
C3' |
C2' |
H17 |
40.8 |
20.5 |
| O3' |
C3' |
C2' |
H18 |
278.4 |
257.8 |
| C2' |
C3' |
O3' |
H19 |
120.1 |
123.6 |
| O3' |
C3' |
C4' |
H11 |
317.5 |
323.5 |
| O4' |
C4' |
C3' |
H11 |
244.6 |
241.4 |
| C3' |
C4' |
C5' |
H9 |
179.6 |
62.8 |
| C3' |
C4' |
C5' |
H10 |
299.2 |
302.8 |
| C3' |
C4' |
O4' |
H11 |
118.4 |
118.6 |
| O4' |
C4' |
C5' |
H9 |
63.0 |
308.6 |
| O4' |
C4' |
C5' |
H10 |
182.6 |
188.6 |
| N9 |
C8 |
N7 |
H16 |
180.0 |
180.2 |
| H9 |
C5' |
C4' |
H10 |
240.4 |
120.1 |
| O1B |
PB |
O2B |
C3B |
242.0 |
240.0 |
| O2B |
PB |
O1B |
H2 |
0.0 |
180.0 |
| O2B |
PB |
C3B |
C4B |
89.0 |
165.0 |
| O2B |
PB |
C3B |
PG |
210.3 |
285.0 |
| O2B |
PB |
C3B |
H3 |
327.8 |
45.0 |
| O5' |
PA |
O1A |
H1 |
237.1 |
60.0 |
| O2B |
PB |
O1B |
C3B |
116.5 |
120.0 |
| O1B |
PB |
C3B |
C4B |
207.6 |
285.0 |
| O1B |
PB |
C3B |
PG |
328.8 |
45.0 |
| O1B |
PB |
C3B |
H3 |
86.3 |
165.0 |
| O2B |
PB |
C3B |
O1B |
241.5 |
240.0 |
| C3B |
PB |
O1B |
H2 |
243.5 |
60.0 |
| C4B |
C3B |
PB |
PG |
238.7 |
239.9 |
| C4B |
C3B |
PB |
H3 |
121.2 |
120.0 |
| PB |
C3B |
C4B |
H4 |
180.0 |
60.0 |
| PB |
C3B |
C4B |
H5 |
300.0 |
180.0 |
| PB |
C3B |
C4B |
H6 |
60.0 |
300.0 |
| PB |
C3B |
PG |
O1G |
332.9 |
60.0 |
| PB |
C3B |
PG |
O2G |
213.3 |
180.0 |
| PG |
C3B |
PB |
H3 |
242.5 |
240.0 |
| O3A |
PA |
O1A |
H1 |
120.5 |
300.0 |
| PB |
C3B |
C4B |
PG |
122.2 |
120.0 |
| PB |
C3B |
C4B |
H3 |
241.3 |
240.0 |
| C4B |
C3B |
PG |
O1G |
93.6 |
180.0 |
| C4B |
C3B |
PG |
O2G |
334.0 |
300.0 |
| PG |
C3B |
C4B |
H3 |
119.1 |
120.0 |
| H4 |
C4B |
C3B |
H5 |
240.0 |
240.1 |
| H4 |
C4B |
C3B |
H6 |
120.0 |
120.0 |
| H5 |
C4B |
C3B |
H6 |
240.0 |
240.0 |
| PB |
C3B |
PG |
C4B |
239.3 |
240.0 |
| PB |
C3B |
PG |
H3 |
117.6 |
120.0 |
| C4B |
C3B |
PG |
H3 |
238.3 |
240.0 |
| PG |
C3B |
C4B |
H4 |
57.8 |
300.0 |
| PG |
C3B |
C4B |
H5 |
177.8 |
60.0 |
| PG |
C3B |
C4B |
H6 |
297.8 |
180.0 |
| O1G |
PG |
C3B |
O2G |
119.6 |
240.0 |
| C3B |
PG |
O1G |
H7 |
119.0 |
59.9 |
| C3B |
PG |
O2G |
H8 |
239.9 |
180.0 |
| O2A |
PA |
O1A |
H1 |
0.0 |
180.0 |
| O3G |
PG |
C3B |
H3 |
334.1 |
180.0 |
| O3G |
PG |
O1G |
H7 |
360.0 |
180.0 |
| O3G |
PG |
O2G |
H8 |
360.0 |
60.0 |
| C3B |
PG |
O1G |
O2G |
240.5 |
120.0 |
| O1G |
PG |
C3B |
H3 |
215.3 |
300.0 |
| O1G |
PG |
O2G |
H8 |
119.7 |
300.0 |
| C3B |
PG |
O2G |
O1G |
120.1 |
240.0 |
| O2G |
PG |
C3B |
H3 |
95.7 |
60.0 |
| O2G |
PG |
O1G |
H7 |
238.5 |
300.0 |
| H1 |
O1A |
PA |
O2A |
0.0 |
180.0 |
| H2 |
O1B |
PB |
C3B |
243.5 |
60.0 |
| PB |
C3B |
H3 |
C4B |
119.4 |
120.0 |
| PB |
C3B |
H3 |
PG |
240.0 |
240.0 |
| C4B |
C3B |
H3 |
PG |
120.5 |
120.0 |
| H3 |
C3B |
C4B |
H4 |
298.7 |
180.0 |
| H3 |
C3B |
C4B |
H5 |
58.7 |
300.0 |
| H3 |
C3B |
C4B |
H6 |
178.7 |
60.0 |
| H3 |
C3B |
PG |
O1G |
215.3 |
300.0 |
| H3 |
C3B |
PG |
O2G |
95.7 |
60.0 |
| H4 |
C4B |
C3B |
PG |
57.8 |
300.0 |
| H4 |
C4B |
C3B |
H3 |
298.7 |
180.0 |
| C3B |
C4B |
H4 |
H5 |
120.0 |
120.0 |
| C3B |
C4B |
H4 |
H6 |
240.0 |
240.0 |
| H5 |
C4B |
H4 |
H6 |
120.0 |
120.0 |
| H5 |
C4B |
C3B |
PG |
177.8 |
60.0 |
| H5 |
C4B |
C3B |
H3 |
58.7 |
300.0 |
| C3B |
C4B |
H5 |
H4 |
239.9 |
240.0 |
| C3B |
C4B |
H5 |
H6 |
120.0 |
120.0 |
| H4 |
C4B |
H5 |
H6 |
240.0 |
240.0 |
| H6 |
C4B |
C3B |
PG |
297.8 |
180.0 |
| H6 |
C4B |
C3B |
H3 |
178.7 |
60.0 |
| C3B |
C4B |
H6 |
H4 |
120.0 |
120.0 |
| C3B |
C4B |
H6 |
H5 |
240.0 |
240.0 |
| H4 |
C4B |
H6 |
H5 |
120.0 |
120.0 |
| H7 |
O1G |
PG |
O2G |
238.5 |
300.0 |
| C4' |
C5' |
H9 |
H10 |
119.4 |
239.9 |
| C4' |
C5' |
H10 |
H9 |
240.6 |
120.1 |
| H11 |
C4' |
C5' |
H9 |
306.7 |
185.7 |
| H11 |
C4' |
C5' |
H10 |
66.3 |
65.7 |
| H12 |
C1' |
N9 |
C8 |
153.0 |
144.5 |
| H13 |
C2 |
N1 |
C6 |
180.9 |
180.0 |
| H14 |
N6 |
C6 |
C5 |
180.9 |
180.0 |
| C6 |
N6 |
H14 |
H15 |
120.0 |
179.9 |
| H15 |
N6 |
C6 |
C5 |
300.9 |
360.0 |
| C6 |
N6 |
H15 |
H14 |
240.0 |
180.1 |
| N9 |
C8 |
H16 |
N7 |
180.0 |
179.8 |
| H17 |
C2' |
C1' |
H12 |
334.5 |
1.2 |
| C3' |
C2' |
H17 |
H18 |
236.6 |
237.3 |
| H17 |
C2' |
C3' |
H19 |
161.6 |
144.1 |
| H18 |
C2' |
C1' |
H12 |
96.8 |
123.9 |
| C3' |
C2' |
H18 |
H17 |
123.4 |
122.5 |
| H18 |
C2' |
C3' |
H19 |
39.2 |
21.4 |
| H19 |
C3' |
C2' |
H17 |
161.6 |
144.1 |
| H19 |
C3' |
C2' |
H18 |
39.2 |
21.4 |
| H19 |
C3' |
C4' |
H11 |
192.0 |
199.8 |
| H20 |
O3' |
C3' |
H19 |
21.9 |
297.9 |