PDB Chemical Component A6U
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 A6U
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| OP1 |
P |
1.478 |
1.480 |
| OP2 |
P |
1.491 |
1.610 |
| P |
O5' |
1.584 |
1.610 |
| P |
OP3 |
1.601 |
1.610 |
| C6 |
N1 |
1.395 |
1.368 |
| N1 |
C1' |
1.539 |
1.465 |
| N1 |
C2 |
1.399 |
1.346 |
| N3 |
C2 |
1.354 |
1.346 |
| C2 |
O2 |
1.230 |
1.215 |
| C4 |
N3 |
1.365 |
1.349 |
| C5 |
C4 |
1.444 |
1.416 |
| O4 |
C4 |
1.215 |
1.218 |
| C5 |
C6 |
1.333 |
1.351 |
| C5 |
H5 |
1.080 |
1.080 |
| C6 |
H6 |
1.080 |
1.080 |
| C2' |
C1' |
1.570 |
1.531 |
| C1' |
C6' |
1.507 |
1.531 |
| C1' |
H1' |
1.100 |
1.090 |
| C3' |
C2' |
1.489 |
1.532 |
| C2' |
O2' |
1.455 |
1.430 |
| C2' |
H2' |
1.100 |
1.090 |
| O2' |
HO2' |
0.950 |
0.966 |
| O3' |
C3' |
1.444 |
1.429 |
| C3' |
C4' |
1.552 |
1.532 |
| C3' |
H3' |
1.100 |
1.090 |
| O3' |
HO3' |
0.950 |
0.967 |
| C5' |
C4' |
1.480 |
1.530 |
| C4' |
O4' |
1.446 |
1.429 |
| C4' |
H4' |
1.100 |
1.090 |
| O4' |
C6' |
1.432 |
1.429 |
| C5' |
O5' |
1.410 |
1.430 |
| C5' |
H5' |
1.100 |
1.089 |
| C5' |
H5'A |
1.100 |
1.090 |
| C6' |
H6' |
1.099 |
1.090 |
| C6' |
H6'A |
1.100 |
1.090 |
| OP2 |
HOP2 |
0.950 |
0.967 |
| OP3 |
HOP3 |
0.950 |
0.967 |
| N3 |
HN3 |
1.000 |
0.969 |
Bond Angles for A6U
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| OP1 |
P |
OP3 |
111.0 |
109.5 |
| OP2 |
P |
OP3 |
108.9 |
109.5 |
| O5' |
P |
OP3 |
101.4 |
109.4 |
| P |
O5' |
C5' |
114.2 |
123.0 |
| P |
OP3 |
HOP3 |
109.5 |
113.9 |
| C6 |
N1 |
C1' |
118.3 |
119.7 |
| C2 |
N1 |
C1' |
120.6 |
119.7 |
| N1 |
C1' |
C6' |
115.7 |
109.5 |
| N1 |
C1' |
H1' |
99.5 |
109.5 |
| N1 |
C2 |
O2 |
126.5 |
119.5 |
| C4 |
N3 |
HN3 |
116.0 |
119.9 |
| C6 |
C5 |
H5 |
121.0 |
120.4 |
| C5 |
C6 |
H6 |
118.5 |
120.1 |
| C2' |
C1' |
C6' |
107.5 |
109.2 |
| C2' |
C1' |
H1' |
109.1 |
109.6 |
| C6' |
C1' |
H1' |
108.9 |
109.5 |
| C1' |
C6' |
O4' |
109.0 |
109.4 |
| C1' |
C6' |
H6' |
109.6 |
109.4 |
| C1' |
C6' |
H6'A |
109.6 |
109.5 |
| C3' |
C2' |
H2' |
111.2 |
109.6 |
| O2' |
C2' |
H2' |
116.1 |
109.5 |
| C2' |
O2' |
HO2' |
109.5 |
114.0 |
| O3' |
C3' |
C4' |
115.6 |
109.5 |
| O3' |
C3' |
H3' |
103.5 |
109.6 |
| C4' |
C3' |
H3' |
107.9 |
109.5 |
| C3' |
C4' |
O4' |
112.8 |
109.4 |
| C3' |
C4' |
H4' |
104.0 |
109.5 |
| C5' |
C4' |
H4' |
115.6 |
109.5 |
| O4' |
C4' |
H4' |
113.6 |
109.5 |
| C4' |
O4' |
C6' |
115.8 |
114.1 |
| O4' |
C6' |
H6' |
109.6 |
109.5 |
| O4' |
C6' |
H6'A |
109.6 |
109.5 |
| O5' |
C5' |
H5' |
109.4 |
109.5 |
| O5' |
C5' |
H5'A |
109.5 |
109.4 |
| H5' |
C5' |
H5'A |
109.5 |
109.5 |
| H6' |
C6' |
H6'A |
109.3 |
109.5 |
Torsion Angles for A6U
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| OP2 |
P |
OP1 |
OP3 |
127.0 |
120.0 |
| O5' |
P |
OP1 |
OP3 |
252.9 |
240.0 |
| OP1 |
P |
OP3 |
HOP3 |
360.0 |
60.0 |
| OP1 |
P |
OP2 |
OP3 |
232.0 |
240.0 |
| O5' |
P |
OP2 |
OP3 |
112.4 |
120.0 |
| OP2 |
P |
OP3 |
HOP3 |
227.9 |
300.0 |
| OP1 |
P |
O5' |
OP3 |
114.5 |
120.0 |
| OP2 |
P |
O5' |
OP3 |
243.1 |
240.0 |
| O5' |
P |
OP3 |
HOP3 |
107.2 |
180.0 |
| P |
O5' |
C5' |
H5' |
62.4 |
60.0 |
| P |
O5' |
C5' |
H5'A |
302.5 |
300.0 |
| OP3 |
P |
O5' |
C5' |
265.9 |
185.0 |
| C2 |
N1 |
C6 |
C1' |
177.7 |
179.7 |
| C6 |
N1 |
C1' |
C6' |
47.4 |
3.2 |
| C6 |
N1 |
C1' |
H1' |
163.9 |
123.4 |
| C1' |
N1 |
C2 |
O2 |
1.8 |
360.0 |
| C2' |
C1' |
N1 |
C6' |
233.1 |
240.3 |
| C2' |
C1' |
N1 |
H1' |
116.6 |
120.2 |
| C6' |
C1' |
N1 |
H1' |
243.5 |
239.9 |
| N1 |
C1' |
C6' |
O4' |
285.3 |
297.7 |
| N1 |
C1' |
C6' |
H6' |
45.3 |
57.7 |
| N1 |
C1' |
C6' |
H6'A |
165.3 |
177.7 |
| C6 |
N1 |
C2 |
C1' |
182.4 |
180.3 |
| C2 |
N1 |
C1' |
C6' |
229.7 |
183.5 |
| C2 |
N1 |
C1' |
H1' |
346.2 |
303.6 |
| N3 |
C2 |
N1 |
C1' |
177.6 |
180.0 |
| O2 |
C2 |
N1 |
C1' |
1.8 |
360.0 |
| C5 |
C4 |
N3 |
HN3 |
177.5 |
180.0 |
| O4 |
C4 |
N3 |
HN3 |
358.0 |
360.0 |
| C5 |
C6 |
N1 |
C1' |
177.8 |
179.7 |
| H5 |
C5 |
C6 |
H6 |
5.6 |
359.7 |
| H6 |
C6 |
N1 |
C1' |
357.8 |
0.3 |
| H6 |
C6 |
C5 |
H5 |
5.6 |
359.7 |
| N1 |
C1' |
C2' |
C6' |
130.9 |
119.9 |
| N1 |
C1' |
C2' |
H1' |
248.9 |
239.8 |
| C6' |
C1' |
C2' |
H1' |
118.0 |
119.9 |
| C2' |
C1' |
C6' |
O4' |
56.1 |
57.6 |
| C2' |
C1' |
C6' |
H6' |
176.1 |
177.6 |
| C2' |
C1' |
C6' |
H6'A |
296.1 |
297.6 |
| N1 |
C1' |
C6' |
H1' |
111.0 |
120.1 |
| C2' |
C1' |
C6' |
H1' |
241.9 |
240.0 |
| C4' |
O4' |
C6' |
C1' |
299.9 |
298.8 |
| O4' |
C6' |
C1' |
H6' |
240.0 |
240.0 |
| O4' |
C6' |
C1' |
H6'A |
120.0 |
120.0 |
| H6' |
C6' |
C1' |
H6'A |
240.0 |
240.0 |
| N1 |
C1' |
H1' |
C6' |
238.5 |
239.9 |
| C2' |
C1' |
H1' |
C6' |
117.1 |
119.7 |
| H1' |
C1' |
C6' |
O4' |
174.2 |
177.6 |
| H1' |
C1' |
C6' |
H6' |
294.2 |
297.6 |
| H1' |
C1' |
C6' |
H6'A |
54.2 |
57.6 |
| C3' |
C2' |
C1' |
C6' |
302.2 |
303.0 |
| C3' |
C2' |
C1' |
H1' |
184.1 |
183.1 |
| O2' |
C2' |
C3' |
H2' |
124.2 |
120.2 |
| C3' |
C2' |
O2' |
HO2' |
302.5 |
299.6 |
| O2' |
C2' |
C1' |
C6' |
56.4 |
62.9 |
| O2' |
C2' |
C1' |
H1' |
298.4 |
303.0 |
| C3' |
C2' |
O2' |
H2' |
239.1 |
239.8 |
| H2' |
C2' |
C1' |
C6' |
180.8 |
183.1 |
| H2' |
C2' |
C1' |
H1' |
62.8 |
63.2 |
| H2' |
C2' |
O2' |
HO2' |
63.4 |
59.8 |
| HO2' |
O2' |
C2' |
H2' |
63.4 |
59.8 |
| O3' |
C3' |
C2' |
H2' |
295.8 |
296.8 |
| C4' |
C3' |
O3' |
H3' |
242.2 |
239.8 |
| O3' |
C3' |
C4' |
O4' |
186.6 |
182.5 |
| O3' |
C3' |
C4' |
H4' |
310.0 |
302.5 |
| C4' |
C3' |
C2' |
H2' |
169.7 |
176.9 |
| O3' |
C3' |
C4' |
H3' |
115.3 |
120.2 |
| C5' |
C4' |
C3' |
H4' |
124.8 |
120.1 |
| O4' |
C4' |
C3' |
H4' |
236.5 |
240.0 |
| C3' |
C4' |
O4' |
C6' |
57.7 |
61.2 |
| H3' |
C3' |
C2' |
H2' |
51.4 |
57.0 |
| O3' |
C3' |
H3' |
C4' |
237.0 |
239.9 |
| H3' |
C3' |
C4' |
O4' |
71.3 |
62.3 |
| H3' |
C3' |
C4' |
H4' |
194.8 |
182.3 |
| HO3' |
O3' |
C3' |
C4' |
300.6 |
299.6 |
| HO3' |
O3' |
C3' |
H3' |
58.4 |
59.8 |
| P |
O5' |
C5' |
C4' |
182.5 |
180.0 |
| C5' |
C4' |
C3' |
H3' |
319.5 |
302.3 |
| C3' |
C4' |
C5' |
H4' |
242.1 |
240.0 |
| O4' |
C4' |
C5' |
H4' |
122.7 |
120.1 |
| C5' |
C4' |
O4' |
C6' |
175.5 |
181.1 |
| C1' |
C6' |
O4' |
C4' |
299.9 |
298.8 |
| O4' |
C4' |
C3' |
H3' |
71.3 |
62.3 |
| C3' |
C4' |
O4' |
H4' |
118.0 |
120.0 |
| C5' |
C4' |
O4' |
H4' |
235.9 |
239.9 |
| C4' |
O4' |
C6' |
H6' |
179.9 |
178.9 |
| C4' |
O4' |
C6' |
H6'A |
59.9 |
58.8 |
| H4' |
C4' |
C3' |
H3' |
194.8 |
182.3 |
| C3' |
C4' |
H4' |
O4' |
237.0 |
240.1 |
| H4' |
C4' |
O4' |
C6' |
299.7 |
301.2 |
| O4' |
C6' |
C1' |
H1' |
174.2 |
177.6 |
| C1' |
C6' |
O4' |
H6' |
120.0 |
120.0 |
| C1' |
C6' |
O4' |
H6'A |
240.0 |
240.0 |
| C6' |
O4' |
C4' |
H4' |
299.7 |
301.2 |
| H6' |
C6' |
O4' |
H6'A |
120.0 |
120.1 |
| C5' |
O5' |
P |
OP3 |
265.9 |
185.0 |
| O5' |
C5' |
C4' |
H4' |
193.4 |
305.0 |
| H5' |
C5' |
O5' |
H5'A |
119.9 |
120.0 |
| H5' |
C5' |
C4' |
H4' |
313.4 |
65.0 |
| O5' |
C5' |
H5' |
H5'A |
240.1 |
240.0 |
| H5'A |
C5' |
C4' |
H4' |
73.4 |
185.1 |
| O5' |
C5' |
H5'A |
H5' |
119.9 |
120.0 |
| H6' |
C6' |
C1' |
H1' |
294.2 |
297.6 |
| C1' |
C6' |
H6' |
O4' |
240.4 |
240.0 |
| C1' |
C6' |
H6' |
H6'A |
120.2 |
120.0 |
| O4' |
C6' |
H6' |
H6'A |
239.8 |
239.9 |
| H6'A |
C6' |
C1' |
H1' |
54.2 |
57.6 |
| C1' |
C6' |
H6'A |
O4' |
119.6 |
120.0 |
| C1' |
C6' |
H6'A |
H6' |
239.8 |
240.0 |
| O4' |
C6' |
H6'A |
H6' |
120.2 |
120.1 |
| HOP2 |
OP2 |
P |
OP3 |
128.0 |
300.0 |