PDB Chemical Component UVX
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 UVX
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| OP1 |
P |
1.603 |
1.481 |
| OP3 |
P |
1.564 |
1.610 |
| P |
O5' |
1.549 |
1.610 |
| P |
OP2 |
1.551 |
1.610 |
| C1' |
N1 |
1.478 |
1.464 |
| N1 |
C6 |
1.358 |
1.368 |
| N1 |
C2 |
1.329 |
1.346 |
| O2 |
C2 |
1.242 |
1.216 |
| C2 |
N3 |
1.337 |
1.346 |
| N3 |
C4 |
1.312 |
1.348 |
| C5 |
C4 |
1.375 |
1.415 |
| C4 |
O4 |
1.263 |
1.218 |
| C6 |
C5 |
1.376 |
1.351 |
| C5 |
H5 |
1.080 |
1.079 |
| C6 |
H6 |
1.080 |
1.080 |
| O4' |
C1' |
1.442 |
1.441 |
| C1' |
C2' |
1.519 |
1.562 |
| C1' |
H1' |
1.100 |
1.090 |
| C6' |
C2' |
1.506 |
1.538 |
| C3' |
C2' |
1.490 |
1.572 |
| C2' |
H2' |
1.100 |
1.090 |
| C4' |
C3' |
1.466 |
1.570 |
| C3' |
O3' |
1.436 |
1.429 |
| C3' |
H3' |
1.100 |
1.090 |
| O3' |
HO3' |
0.950 |
0.967 |
| C5' |
C4' |
1.519 |
1.530 |
| C8' |
C4' |
1.538 |
1.558 |
| C4' |
O4' |
1.440 |
1.455 |
| C5' |
O5' |
1.410 |
1.429 |
| C5' |
H5' |
1.100 |
1.090 |
| C5' |
H5'A |
1.100 |
1.090 |
| C8' |
C6' |
1.523 |
1.545 |
| C6' |
C7' |
1.487 |
1.310 |
| C7' |
H7' |
1.080 |
1.081 |
| C7' |
H7'A |
1.080 |
1.080 |
| C8' |
H8' |
1.100 |
1.090 |
| C8' |
H8'A |
1.100 |
1.090 |
| OP2 |
HOP2 |
0.950 |
0.967 |
| OP3 |
HOP3 |
0.950 |
0.967 |
| N3 |
HN3 |
1.000 |
0.971 |
Bond Angles for UVX
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| OP1 |
P |
OP2 |
115.1 |
109.4 |
| O5' |
P |
OP2 |
108.1 |
109.5 |
| P |
O5' |
C5' |
118.6 |
123.0 |
| P |
OP2 |
HOP2 |
109.5 |
114.0 |
| C2 |
N1 |
C6 |
119.9 |
120.6 |
| N1 |
C6 |
C5 |
119.8 |
119.7 |
| N1 |
C6 |
H6 |
120.1 |
120.1 |
| N1 |
C2 |
N3 |
120.1 |
120.9 |
| O2 |
C2 |
N3 |
120.2 |
119.6 |
| C2 |
N3 |
C4 |
122.2 |
120.3 |
| C2 |
N3 |
HN3 |
118.9 |
119.9 |
| N3 |
C4 |
O4 |
118.8 |
120.3 |
| C4 |
N3 |
HN3 |
118.9 |
119.8 |
| C6 |
C5 |
H5 |
120.8 |
120.4 |
| O4' |
C1' |
H1' |
113.3 |
110.3 |
| C2' |
C1' |
H1' |
109.4 |
110.3 |
| C1' |
C2' |
H2' |
118.5 |
116.6 |
| C6' |
C2' |
H2' |
115.2 |
116.5 |
| C3' |
C2' |
H2' |
119.8 |
116.9 |
| C4' |
C3' |
H3' |
116.7 |
112.4 |
| O3' |
C3' |
H3' |
104.6 |
112.0 |
| C3' |
O3' |
HO3' |
109.5 |
114.0 |
| O5' |
C5' |
H5' |
110.1 |
109.5 |
| O5' |
C5' |
H5'A |
110.1 |
109.4 |
| H5' |
C5' |
H5'A |
108.8 |
109.5 |
| C6' |
C7' |
H7' |
120.0 |
120.0 |
| C6' |
C7' |
H7'A |
120.0 |
120.1 |
| H7' |
C7' |
H7'A |
120.0 |
120.0 |
| H8' |
C8' |
H8'A |
105.3 |
110.4 |
Torsion Angles for UVX
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O5' |
P |
OP1 |
OP2 |
122.9 |
120.0 |
| OP1 |
P |
OP2 |
HOP2 |
360.0 |
180.0 |
| OP3 |
P |
OP2 |
HOP2 |
122.2 |
300.0 |
| OP1 |
P |
O5' |
OP2 |
233.2 |
240.0 |
| O5' |
P |
OP2 |
HOP2 |
235.8 |
60.0 |
| P |
O5' |
C5' |
H5' |
38.3 |
60.0 |
| P |
O5' |
C5' |
H5'A |
278.3 |
300.0 |
| OP2 |
P |
O5' |
C5' |
165.3 |
65.0 |
| C1' |
N1 |
C6 |
H6 |
1.3 |
0.3 |
| C6 |
N1 |
C2 |
N3 |
0.5 |
0.0 |
| N1 |
C6 |
C5 |
H5 |
181.3 |
180.0 |
| C2 |
N1 |
C6 |
C5 |
358.7 |
359.9 |
| C2 |
N1 |
C6 |
H6 |
178.7 |
180.0 |
| O2 |
C2 |
N1 |
N3 |
180.5 |
179.9 |
| N1 |
C2 |
N3 |
C4 |
0.5 |
360.0 |
| N1 |
C2 |
N3 |
HN3 |
180.5 |
180.0 |
| O2 |
C2 |
N1 |
C6 |
181.0 |
180.0 |
| N1 |
C2 |
O2 |
N3 |
179.5 |
180.1 |
| O2 |
C2 |
N3 |
C4 |
179.9 |
180.0 |
| O2 |
C2 |
N3 |
HN3 |
359.9 |
0.1 |
| N3 |
C2 |
N1 |
C6 |
0.5 |
0.0 |
| C2 |
N3 |
C4 |
O4 |
178.9 |
180.1 |
| C4 |
N3 |
C2 |
HN3 |
180.0 |
180.0 |
| C2 |
N3 |
C4 |
HN3 |
180.0 |
180.0 |
| N1 |
C6 |
C5 |
C4 |
1.3 |
0.1 |
| C5 |
C4 |
N3 |
HN3 |
179.5 |
180.0 |
| O4 |
C4 |
N3 |
HN3 |
358.9 |
0.0 |
| N1 |
C6 |
C5 |
H6 |
180.0 |
180.1 |
| N1 |
C6 |
H6 |
C5 |
180.0 |
179.9 |
| H6 |
C6 |
C5 |
H5 |
1.3 |
360.0 |
| C2' |
C1' |
O4' |
H1' |
240.3 |
240.9 |
| O4' |
C1' |
C2' |
H2' |
196.9 |
201.5 |
| O4' |
C1' |
C2' |
H1' |
122.3 |
119.1 |
| C6' |
C2' |
C1' |
H2' |
232.0 |
230.5 |
| C3' |
C2' |
C1' |
H2' |
129.3 |
126.3 |
| H1' |
C1' |
C2' |
H2' |
74.7 |
82.4 |
| C6' |
C2' |
C1' |
H1' |
306.6 |
312.9 |
| C1' |
C2' |
C6' |
H2' |
130.1 |
129.6 |
| C3' |
C2' |
C6' |
H2' |
229.5 |
231.8 |
| C3' |
C2' |
C1' |
H1' |
203.9 |
208.7 |
| C1' |
C2' |
C3' |
H2' |
231.6 |
233.9 |
| C6' |
C2' |
C3' |
H2' |
127.6 |
127.9 |
| H2' |
C2' |
C1' |
H1' |
74.7 |
82.4 |
| C4' |
C3' |
C2' |
H2' |
182.2 |
176.3 |
| O3' |
C3' |
C4' |
H3' |
119.7 |
127.4 |
| C4' |
C3' |
O3' |
HO3' |
286.3 |
166.3 |
| O3' |
C3' |
C2' |
H2' |
297.8 |
292.6 |
| C4' |
C3' |
O3' |
H3' |
233.3 |
232.4 |
| H3' |
C3' |
C2' |
H2' |
57.4 |
59.9 |
| H3' |
C3' |
O3' |
HO3' |
53.0 |
293.9 |
| HO3' |
O3' |
C3' |
H3' |
53.0 |
293.9 |
| P |
O5' |
C5' |
C4' |
158.3 |
180.0 |
| C5' |
C4' |
C3' |
H3' |
307.4 |
296.7 |
| C8' |
C4' |
C3' |
H3' |
179.9 |
170.3 |
| C4' |
O4' |
C1' |
H1' |
119.7 |
117.2 |
| O4' |
C4' |
C3' |
H3' |
68.7 |
63.0 |
| C5' |
O5' |
P |
OP2 |
165.3 |
65.0 |
| H5' |
C5' |
O5' |
H5'A |
120.0 |
120.1 |
| O5' |
C5' |
H5' |
H5'A |
239.2 |
240.0 |
| O5' |
C5' |
H5'A |
H5' |
120.8 |
120.1 |
| C8' |
C6' |
C2' |
H2' |
160.5 |
164.3 |
| C8' |
C6' |
C7' |
H7' |
360.0 |
180.9 |
| C8' |
C6' |
C7' |
H7'A |
180.0 |
0.8 |
| C7' |
C6' |
C2' |
H2' |
343.7 |
344.9 |
| H7' |
C7' |
C6' |
H7'A |
180.0 |
180.1 |
| C6' |
C7' |
H7' |
H7'A |
180.0 |
179.9 |
| C6' |
C7' |
H7'A |
H7' |
180.0 |
180.1 |
| C2 |
N3 |
HN3 |
C4 |
180.0 |
180.0 |
| HN3 |
N3 |
C4 |
O4 |
358.9 |
0.0 |