PDB Chemical Component A5L
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 A5L
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| F |
C2' |
1.383 |
1.399 |
| OP2 |
P |
1.477 |
1.480 |
| OP1 |
P |
1.478 |
1.611 |
| P |
OP3 |
1.614 |
1.610 |
| P |
O5' |
1.607 |
1.610 |
| C2 |
N1 |
1.325 |
1.321 |
| C6 |
N1 |
1.332 |
1.329 |
| N3 |
C2 |
1.327 |
1.316 |
| C2 |
H2 |
1.080 |
1.080 |
| C4 |
N3 |
1.362 |
1.329 |
| N9 |
C4 |
1.377 |
1.372 |
| C4 |
C5 |
1.369 |
1.405 |
| N7 |
C5 |
1.395 |
1.355 |
| C5 |
C6 |
1.414 |
1.405 |
| C6 |
N6 |
1.321 |
1.384 |
| HN6 |
N6 |
1.000 |
0.970 |
| N6 |
HN6A |
1.000 |
0.970 |
| C8 |
N7 |
1.306 |
1.302 |
| H8 |
C8 |
1.080 |
1.081 |
| N9 |
C8 |
1.377 |
1.363 |
| C1' |
N9 |
1.490 |
1.465 |
| C2' |
C1' |
1.533 |
1.540 |
| O4' |
C1' |
1.424 |
1.437 |
| C1' |
H1' |
1.100 |
1.091 |
| C3' |
C2' |
1.535 |
1.549 |
| C2' |
H2' |
1.100 |
1.090 |
| H3' |
C3' |
1.100 |
1.089 |
| O3' |
C3' |
1.430 |
1.429 |
| C3' |
C4' |
1.537 |
1.550 |
| O3' |
HO3' |
0.950 |
0.966 |
| C5' |
C4' |
1.532 |
1.530 |
| H4' |
C4' |
1.100 |
1.090 |
| C4' |
O4' |
1.427 |
1.446 |
| H5' |
C5' |
1.100 |
1.090 |
| O5' |
C5' |
1.414 |
1.428 |
| C5' |
H5'A |
1.100 |
1.089 |
| OP1 |
HOP1 |
0.950 |
0.967 |
| OP3 |
HOP3 |
0.951 |
0.966 |
Bond Angles for A5L
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| F |
C2' |
C1' |
110.2 |
110.5 |
| F |
C2' |
H2' |
106.3 |
110.5 |
| OP2 |
P |
OP3 |
107.8 |
109.5 |
| OP1 |
P |
OP3 |
108.8 |
109.5 |
| O5' |
P |
OP3 |
100.4 |
109.5 |
| P |
OP3 |
HOP3 |
109.5 |
114.0 |
| P |
O5' |
C5' |
120.3 |
123.0 |
| N3 |
C2 |
H2 |
116.1 |
118.8 |
| C4 |
C5 |
C6 |
114.6 |
118.2 |
| C5 |
C6 |
N6 |
125.2 |
120.8 |
| C6 |
N6 |
HN6A |
109.5 |
120.0 |
| HN6 |
N6 |
HN6A |
109.5 |
120.0 |
| C2' |
C1' |
H1' |
106.6 |
109.9 |
| O4' |
C1' |
H1' |
114.9 |
109.8 |
| C3' |
C2' |
H2' |
114.1 |
110.6 |
| O3' |
C3' |
C4' |
109.6 |
110.9 |
| C3' |
C4' |
O4' |
108.0 |
103.6 |
| H5' |
C5' |
H5'A |
111.1 |
109.5 |
| O5' |
C5' |
H5'A |
107.8 |
109.5 |
Torsion Angles for A5L
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| F |
C2' |
C1' |
H1' |
155.4 |
123.8 |
| C3' |
C2' |
F |
H2' |
124.2 |
122.6 |
| OP1 |
P |
OP2 |
OP3 |
234.2 |
240.0 |
| O5' |
P |
OP2 |
OP3 |
107.8 |
120.0 |
| OP2 |
P |
OP3 |
HOP3 |
0.0 |
300.0 |
| OP2 |
P |
OP1 |
OP3 |
125.3 |
120.0 |
| O5' |
P |
OP1 |
OP3 |
251.4 |
239.9 |
| OP1 |
P |
OP3 |
HOP3 |
132.6 |
59.9 |
| OP3 |
P |
O5' |
C5' |
271.5 |
175.0 |
| OP2 |
P |
O5' |
OP3 |
247.1 |
240.0 |
| OP1 |
P |
O5' |
OP3 |
114.2 |
120.0 |
| O5' |
P |
OP3 |
HOP3 |
246.8 |
180.0 |
| P |
O5' |
C5' |
H5'A |
297.8 |
300.0 |
| C4 |
N3 |
C2 |
H2 |
180.5 |
180.0 |
| C4 |
C5 |
C6 |
N6 |
182.7 |
180.0 |
| C5 |
C6 |
N6 |
HN6A |
297.5 |
0.1 |
| HN6 |
N6 |
C6 |
HN6A |
240.0 |
179.9 |
| C6 |
N6 |
HN6 |
HN6A |
120.0 |
180.1 |
| F |
C2' |
C1' |
N9 |
41.8 |
2.8 |
| F |
C2' |
C1' |
H2' |
119.6 |
122.6 |
| O4' |
C1' |
C2' |
H1' |
122.7 |
119.5 |
| C2' |
C1' |
O4' |
H1' |
242.8 |
240.5 |
| F |
C2' |
C3' |
H2' |
240.4 |
237.4 |
| C3' |
C2' |
C1' |
H1' |
272.3 |
242.4 |
| F |
C2' |
H2' |
C1' |
238.3 |
237.4 |
| H2' |
C2' |
C1' |
H1' |
35.8 |
1.2 |
| O3' |
C3' |
C2' |
H2' |
328.2 |
20.3 |
| O3' |
C3' |
C4' |
O4' |
248.6 |
204.9 |
| C4' |
C3' |
C2' |
H2' |
208.1 |
262.2 |
| HO3' |
O3' |
C3' |
C4' |
296.7 |
174.2 |
| P |
O5' |
C5' |
C4' |
177.8 |
180.0 |
| C4' |
O4' |
C1' |
H1' |
89.2 |
93.2 |
| O5' |
C5' |
H5' |
H5'A |
242.1 |
239.9 |
| C5' |
O5' |
P |
OP3 |
271.5 |
175.0 |
| H5' |
C5' |
O5' |
H5'A |
120.0 |
120.1 |
| HOP1 |
OP1 |
P |
OP3 |
234.7 |
60.1 |