PDB Chemical Component A6C
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 A6C
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| OP1 |
P |
1.484 |
1.479 |
| P |
O5' |
1.630 |
1.611 |
| P |
OP2 |
1.460 |
1.610 |
| P |
OP3 |
1.594 |
1.611 |
| C6 |
N1 |
1.389 |
1.363 |
| C1' |
N1 |
1.526 |
1.464 |
| N1 |
C2 |
1.425 |
1.346 |
| C2 |
O2 |
1.251 |
1.220 |
| C2 |
N3 |
1.390 |
1.332 |
| C4 |
N3 |
1.358 |
1.326 |
| C5 |
C4 |
1.454 |
1.410 |
| C4 |
N4 |
1.346 |
1.376 |
| N4 |
HN4 |
1.000 |
0.970 |
| N4 |
HN4A |
1.000 |
0.970 |
| C6 |
C5 |
1.368 |
1.355 |
| C5 |
H5 |
1.080 |
1.080 |
| C6 |
H6 |
1.080 |
1.080 |
| C2' |
C1' |
1.549 |
1.532 |
| C1' |
C6' |
1.517 |
1.531 |
| C1' |
H1' |
1.100 |
1.091 |
| C3' |
C2' |
1.526 |
1.531 |
| O2' |
C2' |
1.429 |
1.429 |
| C2' |
H2' |
1.100 |
1.091 |
| O2' |
HO2' |
0.950 |
0.967 |
| O3' |
C3' |
1.418 |
1.429 |
| C3' |
C4' |
1.539 |
1.531 |
| C3' |
H3' |
1.100 |
1.090 |
| O3' |
HO3' |
0.950 |
0.967 |
| C5' |
C4' |
1.534 |
1.530 |
| C4' |
O4' |
1.422 |
1.429 |
| C4' |
H4' |
1.100 |
1.089 |
| O4' |
C6' |
1.437 |
1.429 |
| C5' |
O5' |
1.429 |
1.429 |
| C5' |
H5' |
1.100 |
1.090 |
| C5' |
H5'A |
1.100 |
1.089 |
| C6' |
H6' |
1.100 |
1.090 |
| C6' |
H6'A |
1.100 |
1.090 |
| OP2 |
HOP2 |
0.950 |
0.967 |
| OP3 |
HOP3 |
0.950 |
0.967 |
Bond Angles for A6C
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| OP1 |
P |
OP2 |
124.0 |
109.5 |
| OP1 |
P |
OP3 |
107.3 |
109.5 |
| O5' |
P |
OP2 |
105.6 |
109.5 |
| O5' |
P |
OP3 |
105.9 |
109.4 |
| P |
O5' |
C5' |
123.5 |
123.0 |
| OP2 |
P |
OP3 |
104.5 |
109.5 |
| P |
OP2 |
HOP2 |
109.5 |
114.0 |
| P |
OP3 |
HOP3 |
109.5 |
114.0 |
| N1 |
C2 |
O2 |
117.5 |
119.5 |
| N1 |
C2 |
N3 |
119.4 |
121.1 |
| O2 |
C2 |
N3 |
122.8 |
119.4 |
| C4 |
N4 |
HN4 |
120.0 |
120.0 |
| C4 |
N4 |
HN4A |
120.0 |
120.0 |
| HN4 |
N4 |
HN4A |
120.0 |
120.0 |
| C6 |
C5 |
H5 |
120.8 |
120.5 |
| C2' |
C1' |
C6' |
106.5 |
109.2 |
| C2' |
C1' |
H1' |
111.6 |
109.5 |
| C6' |
C1' |
H1' |
109.5 |
109.5 |
| C1' |
C6' |
O4' |
111.6 |
109.4 |
| C1' |
C6' |
H6' |
108.8 |
109.5 |
| C1' |
C6' |
H6'A |
108.8 |
109.5 |
| C3' |
C2' |
H2' |
105.9 |
109.6 |
| O2' |
C2' |
H2' |
111.7 |
109.5 |
| O3' |
C3' |
C4' |
112.1 |
109.5 |
| O3' |
C3' |
H3' |
103.2 |
109.5 |
| C4' |
C3' |
H3' |
108.1 |
109.5 |
| C3' |
C4' |
O4' |
109.3 |
109.4 |
| C3' |
C4' |
H4' |
106.1 |
109.5 |
| C5' |
C4' |
H4' |
109.5 |
109.5 |
| O4' |
C4' |
H4' |
113.2 |
109.5 |
| C4' |
O4' |
C6' |
115.4 |
114.1 |
| O4' |
C6' |
H6' |
108.8 |
109.5 |
| O4' |
C6' |
H6'A |
108.8 |
109.5 |
| O5' |
C5' |
H5' |
108.5 |
109.4 |
| O5' |
C5' |
H5'A |
108.4 |
109.5 |
| H5' |
C5' |
H5'A |
110.5 |
109.5 |
| H6' |
C6' |
H6'A |
110.1 |
109.5 |
Torsion Angles for A6C
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O5' |
P |
OP1 |
OP2 |
124.3 |
120.0 |
| O5' |
P |
OP1 |
OP3 |
246.1 |
240.0 |
| OP2 |
P |
OP1 |
OP3 |
121.8 |
120.0 |
| OP1 |
P |
OP2 |
HOP2 |
0.0 |
300.0 |
| OP1 |
P |
OP3 |
HOP3 |
0.0 |
180.0 |
| OP1 |
P |
O5' |
OP2 |
225.3 |
239.9 |
| OP1 |
P |
O5' |
OP3 |
114.8 |
120.0 |
| OP2 |
P |
O5' |
OP3 |
249.5 |
240.1 |
| O5' |
P |
OP2 |
HOP2 |
234.6 |
180.0 |
| O5' |
P |
OP3 |
HOP3 |
115.4 |
300.0 |
| P |
O5' |
C5' |
H5' |
39.2 |
60.1 |
| P |
O5' |
C5' |
H5'A |
279.2 |
300.0 |
| OP1 |
P |
OP2 |
OP3 |
237.0 |
240.0 |
| O5' |
P |
OP2 |
OP3 |
111.5 |
119.9 |
| OP2 |
P |
O5' |
C5' |
188.1 |
175.0 |
| OP2 |
P |
OP3 |
HOP3 |
226.7 |
59.9 |
| OP1 |
P |
OP3 |
OP2 |
133.3 |
120.0 |
| O5' |
P |
OP3 |
OP2 |
248.7 |
240.1 |
| OP3 |
P |
O5' |
C5' |
298.7 |
294.9 |
| OP3 |
P |
OP2 |
HOP2 |
123.0 |
60.0 |
| O2 |
C2 |
N1 |
N3 |
173.5 |
180.1 |
| N1 |
C2 |
O2 |
N3 |
186.7 |
179.9 |
| N1 |
C2 |
N3 |
O2 |
173.1 |
180.1 |
| C5 |
C4 |
N4 |
HN4 |
183.5 |
180.0 |
| C5 |
C4 |
N4 |
HN4A |
3.5 |
0.1 |
| HN4 |
N4 |
C4 |
HN4A |
180.0 |
179.9 |
| C4 |
N4 |
HN4 |
HN4A |
180.0 |
180.1 |
| C4 |
N4 |
HN4A |
HN4 |
180.0 |
179.9 |
| H6 |
C6 |
C5 |
H5 |
355.6 |
0.1 |
| C6' |
C1' |
C2' |
H1' |
119.4 |
119.9 |
| C2' |
C1' |
C6' |
O4' |
58.8 |
57.6 |
| C2' |
C1' |
C6' |
H6' |
178.8 |
177.6 |
| C2' |
C1' |
C6' |
H6'A |
298.8 |
297.7 |
| C2' |
C1' |
C6' |
H1' |
239.2 |
240.1 |
| C4' |
O4' |
C6' |
C1' |
296.8 |
298.9 |
| O4' |
C6' |
C1' |
H6' |
240.0 |
240.0 |
| O4' |
C6' |
C1' |
H6'A |
120.0 |
120.0 |
| H6' |
C6' |
C1' |
H6'A |
240.0 |
239.9 |
| C2' |
C1' |
H1' |
C6' |
117.6 |
119.7 |
| H1' |
C1' |
C6' |
O4' |
179.6 |
177.5 |
| H1' |
C1' |
C6' |
H6' |
299.6 |
297.5 |
| H1' |
C1' |
C6' |
H6'A |
59.6 |
57.6 |
| C3' |
C2' |
C1' |
C6' |
306.0 |
303.0 |
| C3' |
C2' |
C1' |
H1' |
186.6 |
183.1 |
| O2' |
C2' |
C3' |
H2' |
121.4 |
120.3 |
| O2' |
C2' |
C1' |
C6' |
66.6 |
63.0 |
| O2' |
C2' |
C1' |
H1' |
307.2 |
303.1 |
| C3' |
C2' |
O2' |
H2' |
242.0 |
239.7 |
| H2' |
C2' |
C1' |
C6' |
188.0 |
183.1 |
| H2' |
C2' |
C1' |
H1' |
68.6 |
63.2 |
| HO2' |
O2' |
C2' |
H2' |
58.9 |
59.9 |
| O3' |
C3' |
C2' |
H2' |
305.0 |
296.8 |
| C4' |
C3' |
O3' |
H3' |
243.9 |
239.9 |
| O3' |
C3' |
C4' |
O4' |
175.9 |
182.5 |
| O3' |
C3' |
C4' |
H4' |
298.3 |
302.4 |
| C4' |
C3' |
C2' |
H2' |
172.5 |
176.9 |
| O3' |
C3' |
C4' |
H3' |
113.1 |
120.1 |
| C5' |
C4' |
C3' |
H4' |
120.0 |
120.1 |
| O4' |
C4' |
C3' |
H4' |
237.6 |
240.0 |
| C3' |
C4' |
O4' |
C6' |
55.3 |
61.1 |
| H3' |
C3' |
C2' |
H2' |
56.6 |
56.9 |
| O3' |
C3' |
H3' |
C4' |
241.1 |
239.9 |
| H3' |
C3' |
C4' |
O4' |
62.9 |
62.3 |
| H3' |
C3' |
C4' |
H4' |
185.3 |
182.3 |
| HO3' |
O3' |
C3' |
C4' |
313.0 |
299.7 |
| HO3' |
O3' |
C3' |
H3' |
69.1 |
59.8 |
| P |
O5' |
C5' |
C4' |
159.2 |
180.0 |
| C5' |
C4' |
C3' |
H3' |
305.3 |
302.4 |
| C3' |
C4' |
C5' |
H4' |
242.0 |
239.9 |
| O4' |
C4' |
C5' |
H4' |
122.4 |
120.0 |
| C5' |
C4' |
O4' |
C6' |
177.3 |
181.1 |
| C1' |
C6' |
O4' |
C4' |
296.8 |
298.9 |
| O4' |
C4' |
C3' |
H3' |
62.9 |
62.3 |
| C3' |
C4' |
O4' |
H4' |
118.0 |
120.0 |
| C5' |
C4' |
O4' |
H4' |
240.0 |
240.0 |
| C4' |
O4' |
C6' |
H6' |
176.8 |
178.9 |
| C4' |
O4' |
C6' |
H6'A |
56.8 |
58.8 |
| H4' |
C4' |
C3' |
H3' |
185.3 |
182.3 |
| C3' |
C4' |
H4' |
O4' |
240.1 |
240.1 |
| H4' |
C4' |
O4' |
C6' |
297.3 |
301.1 |
| O4' |
C6' |
C1' |
H1' |
179.6 |
177.5 |
| C1' |
C6' |
O4' |
H6' |
120.0 |
120.0 |
| C1' |
C6' |
O4' |
H6'A |
240.0 |
240.0 |
| C6' |
O4' |
C4' |
H4' |
297.3 |
301.1 |
| H6' |
C6' |
O4' |
H6'A |
120.0 |
120.0 |
| C5' |
O5' |
P |
OP2 |
188.1 |
175.0 |
| C5' |
O5' |
P |
OP3 |
298.7 |
294.9 |
| O5' |
C5' |
C4' |
H4' |
177.8 |
305.1 |
| H5' |
C5' |
O5' |
H5'A |
120.0 |
120.1 |
| H5' |
C5' |
C4' |
H4' |
297.8 |
65.0 |
| O5' |
C5' |
H5' |
H5'A |
241.3 |
240.0 |
| H5'A |
C5' |
C4' |
H4' |
57.8 |
185.1 |
| O5' |
C5' |
H5'A |
H5' |
118.8 |
120.0 |
| H6' |
C6' |
C1' |
H1' |
299.6 |
297.5 |
| C1' |
C6' |
H6' |
O4' |
238.3 |
240.1 |
| C1' |
C6' |
H6' |
H6'A |
119.1 |
120.1 |
| O4' |
C6' |
H6' |
H6'A |
240.8 |
240.0 |
| H6'A |
C6' |
C1' |
H1' |
59.6 |
57.6 |
| C1' |
C6' |
H6'A |
O4' |
121.7 |
119.9 |
| C1' |
C6' |
H6'A |
H6' |
240.9 |
239.9 |
| O4' |
C6' |
H6'A |
H6' |
119.1 |
120.0 |
| HOP2 |
OP2 |
P |
OP3 |
123.0 |
60.0 |