PDB Chemical Component 0NP
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 0NP
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C5' |
C4' |
1.523 |
1.530 |
| C5' |
O5' |
1.429 |
1.429 |
| C4' |
O4' |
1.433 |
1.445 |
| C4' |
C3' |
1.518 |
1.545 |
| O4' |
C1' |
1.425 |
1.444 |
| N3' |
C3' |
1.453 |
1.465 |
| N3' |
N18 |
1.281 |
1.124 |
| C3' |
C2' |
1.509 |
1.545 |
| C1' |
N1 |
1.461 |
1.466 |
| C1' |
C2' |
1.519 |
1.544 |
| N18 |
N19 |
1.258 |
1.125 |
| N1 |
C6 |
1.332 |
1.367 |
| N1 |
C2 |
1.410 |
1.345 |
| O2 |
C2 |
1.246 |
1.216 |
| C6 |
C5 |
1.386 |
1.350 |
| C2' |
F2' |
1.362 |
1.399 |
| C2 |
N3 |
1.334 |
1.346 |
| C5 |
C4 |
1.388 |
1.417 |
| N3 |
C4 |
1.337 |
1.349 |
| C4 |
O4 |
1.247 |
1.217 |
| C6 |
H1 |
1.080 |
1.080 |
| N19 |
H2 |
1.000 |
0.970 |
| C3' |
H3 |
1.100 |
1.090 |
| C4' |
H4 |
1.100 |
1.090 |
| C5' |
H5 |
1.101 |
1.090 |
| C5' |
H6 |
1.101 |
1.089 |
| O5' |
H7 |
0.950 |
0.966 |
| C2' |
H8 |
1.100 |
1.090 |
| C1' |
H9 |
1.100 |
1.090 |
| N3 |
H10 |
1.000 |
0.970 |
| C5 |
H11 |
1.080 |
1.079 |
Bond Angles for 0NP
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C5' |
C4' |
O4' |
110.2 |
110.4 |
| C5' |
C4' |
H4 |
108.8 |
110.5 |
| O5' |
C5' |
H5 |
109.4 |
109.4 |
| O5' |
C5' |
H6 |
109.4 |
109.5 |
| C5' |
O5' |
H7 |
109.5 |
114.0 |
| C4' |
O4' |
C1' |
110.5 |
105.2 |
| O4' |
C4' |
H4 |
110.1 |
110.4 |
| C4' |
C3' |
C2' |
104.2 |
104.0 |
| C4' |
C3' |
H3 |
114.1 |
110.6 |
| O4' |
C1' |
N1 |
110.0 |
110.4 |
| O4' |
C1' |
C2' |
105.4 |
104.8 |
| O4' |
C1' |
H9 |
110.7 |
110.4 |
| N3' |
C3' |
C2' |
104.4 |
110.5 |
| N3' |
C3' |
H3 |
115.3 |
110.5 |
| C3' |
C2' |
F2' |
110.5 |
110.5 |
| C2' |
C3' |
H3 |
114.3 |
110.5 |
| C3' |
C2' |
H8 |
109.5 |
110.5 |
| N1 |
C1' |
H9 |
110.1 |
110.3 |
| C1' |
C2' |
H8 |
109.4 |
110.6 |
| N18 |
N19 |
H2 |
112.0 |
120.0 |
| N1 |
C6 |
C5 |
119.5 |
119.7 |
| N1 |
C6 |
H1 |
120.3 |
120.2 |
| N1 |
C2 |
N3 |
120.3 |
120.9 |
| O2 |
C2 |
N3 |
120.0 |
119.5 |
| C6 |
C5 |
C4 |
119.6 |
119.1 |
| C5 |
C6 |
H1 |
120.3 |
120.1 |
| C6 |
C5 |
H11 |
120.2 |
120.5 |
| F2' |
C2' |
H8 |
111.7 |
110.4 |
| C2 |
N3 |
C4 |
120.6 |
120.2 |
| C2 |
N3 |
H10 |
119.7 |
119.9 |
| N3 |
C4 |
C5 |
120.2 |
119.4 |
| C5 |
C4 |
O4 |
119.7 |
120.3 |
| C4 |
C5 |
H11 |
120.2 |
120.4 |
| N3 |
C4 |
O4 |
120.0 |
120.3 |
| C4 |
N3 |
H10 |
119.7 |
119.9 |
| H5 |
C5' |
H6 |
109.5 |
109.5 |
Torsion Angles for 0NP
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C5' |
C4' |
O4' |
C1' |
125.2 |
159.3 |
| O4' |
C4' |
C5' |
H4 |
120.7 |
122.3 |
| C5' |
C4' |
C3' |
C2' |
254.5 |
217.2 |
| C5' |
C4' |
C3' |
H3 |
19.7 |
335.9 |
| O5' |
C5' |
C4' |
O4' |
286.3 |
66.5 |
| O5' |
C5' |
C4' |
H4 |
165.5 |
304.2 |
| H5 |
C5' |
O5' |
H6 |
119.9 |
120.1 |
| C5' |
C4' |
O4' |
H4 |
240.0 |
237.6 |
| O4' |
C4' |
C3' |
C2' |
15.3 |
336.0 |
| O4' |
C4' |
C3' |
H3 |
140.6 |
94.7 |
| C4' |
O4' |
C1' |
N1 |
219.4 |
200.6 |
| C4' |
O4' |
C1' |
C2' |
339.3 |
319.5 |
| C4' |
O4' |
C1' |
H9 |
97.4 |
78.5 |
| N3' |
C3' |
C4' |
C2' |
251.1 |
241.4 |
| N3' |
C3' |
C4' |
H3 |
125.9 |
122.7 |
| C4' |
C3' |
C2' |
F2' |
213.3 |
241.3 |
| C2' |
C3' |
C4' |
H3 |
234.8 |
241.3 |
| C4' |
C3' |
C2' |
H8 |
89.8 |
118.8 |
| C1' |
O4' |
C4' |
H4 |
245.2 |
281.7 |
| N1 |
C1' |
O4' |
H9 |
122.0 |
122.1 |
| O4' |
C1' |
C2' |
H8 |
272.6 |
265.3 |
| C4' |
C3' |
N3' |
C2' |
108.7 |
114.6 |
| C4' |
C3' |
N3' |
H3 |
234.9 |
237.3 |
| N3' |
C3' |
C2' |
F2' |
321.4 |
359.9 |
| C2' |
C3' |
N3' |
H3 |
126.2 |
122.7 |
| N3' |
C3' |
C2' |
H8 |
197.9 |
237.4 |
| N3' |
N18 |
N19 |
H2 |
0.0 |
96.1 |
| C4' |
C3' |
C2' |
H3 |
125.1 |
118.7 |
| O4' |
C1' |
C2' |
C3' |
29.5 |
24.0 |
| N3' |
C3' |
C2' |
H3 |
233.2 |
237.4 |
| C1' |
C2' |
C3' |
H8 |
243.2 |
241.2 |
| F2' |
C2' |
C3' |
H8 |
123.5 |
122.5 |
| O4' |
C1' |
N1 |
C2' |
116.4 |
115.4 |
| O4' |
C1' |
N1 |
H9 |
237.7 |
237.8 |
| N1 |
C1' |
C2' |
H8 |
31.8 |
24.2 |
| C1' |
N1 |
C6 |
C5 |
179.9 |
180.5 |
| C1' |
N1 |
C6 |
H1 |
359.9 |
359.8 |
| C1' |
N1 |
C2 |
N3 |
180.1 |
180.0 |
| O4' |
C1' |
C2' |
N1 |
240.9 |
241.1 |
| O4' |
C1' |
C2' |
H9 |
119.0 |
118.9 |
| C1' |
C2' |
C3' |
H3 |
207.9 |
241.3 |
| C3' |
C2' |
C1' |
H8 |
116.9 |
118.7 |
| F2' |
C2' |
C1' |
H8 |
235.9 |
237.4 |
| C6 |
N1 |
C2 |
N3 |
0.3 |
360.0 |
| N1 |
C6 |
C5 |
C4 |
0.0 |
359.3 |
| C5 |
C6 |
N1 |
H1 |
180.0 |
180.7 |
| N1 |
C6 |
C5 |
H11 |
180.0 |
179.3 |
| O2 |
C2 |
N1 |
N3 |
179.8 |
179.7 |
| N1 |
C2 |
N3 |
C4 |
359.8 |
359.8 |
| N1 |
C2 |
N3 |
H10 |
179.8 |
179.8 |
| N1 |
C2 |
O2 |
N3 |
180.2 |
180.2 |
| O2 |
C2 |
N3 |
C4 |
180.0 |
180.0 |
| O2 |
C2 |
N3 |
H10 |
0.0 |
0.0 |
| N1 |
C6 |
C5 |
H1 |
180.0 |
179.3 |
| N3 |
C4 |
C5 |
C6 |
0.1 |
0.5 |
| C6 |
C5 |
C4 |
O4 |
180.2 |
180.5 |
| C4 |
C5 |
C6 |
H11 |
180.0 |
180.0 |
| O4' |
C1' |
C2' |
F2' |
148.6 |
142.7 |
| F2' |
C2' |
C3' |
H3 |
88.2 |
122.6 |
| C3' |
C2' |
F2' |
H8 |
237.8 |
237.4 |
| C1' |
C2' |
F2' |
H8 |
122.7 |
122.8 |
| C2 |
N3 |
C4 |
C5 |
360.0 |
360.0 |
| C2 |
N3 |
C4 |
O4 |
179.9 |
179.9 |
| C4 |
N3 |
C2 |
H10 |
180.0 |
180.0 |
| C4 |
C5 |
C6 |
H1 |
180.1 |
180.0 |
| C6 |
C5 |
C4 |
H11 |
180.0 |
180.0 |
| N3 |
C4 |
C5 |
O4 |
179.9 |
180.0 |
| C5 |
C4 |
N3 |
H10 |
180.0 |
180.0 |
| C6 |
C5 |
C4 |
N3 |
0.1 |
0.5 |
| C2 |
N3 |
C4 |
H10 |
180.0 |
180.0 |
| C5 |
C4 |
N3 |
O4 |
180.1 |
180.0 |
| N3 |
C4 |
C5 |
H11 |
180.1 |
180.5 |
| N3 |
C4 |
O4 |
C5 |
180.1 |
180.0 |
| O4 |
C4 |
C5 |
H11 |
0.1 |
0.5 |
| O4 |
C4 |
N3 |
H10 |
359.9 |
359.9 |
| N1 |
C6 |
H1 |
C5 |
180.0 |
180.7 |
| H1 |
C6 |
C5 |
C4 |
180.1 |
180.0 |
| H1 |
C6 |
C5 |
H11 |
0.1 |
0.0 |
| C4' |
C3' |
H3 |
C2' |
240.3 |
245.3 |
| N3' |
C3' |
H3 |
C2' |
120.9 |
122.7 |
| H3 |
C3' |
C2' |
F2' |
88.2 |
122.6 |
| H3 |
C3' |
C2' |
H8 |
324.7 |
0.1 |
| C5' |
C4' |
H4 |
O4' |
120.8 |
122.3 |
| H4 |
C4' |
O4' |
C1' |
245.2 |
281.7 |
| H4 |
C4' |
C3' |
C2' |
134.3 |
94.8 |
| H4 |
C4' |
C3' |
H3 |
259.5 |
213.5 |
| H5 |
C5' |
C4' |
O4' |
46.3 |
186.4 |
| H5 |
C5' |
C4' |
H4 |
285.6 |
64.1 |
| O5' |
C5' |
H5 |
H6 |
240.2 |
239.9 |
| H5 |
C5' |
O5' |
H7 |
60.0 |
60.1 |
| H6 |
C5' |
C4' |
O4' |
166.2 |
306.5 |
| H6 |
C5' |
C4' |
H4 |
45.5 |
184.1 |
| O5' |
C5' |
H6 |
H5 |
119.8 |
120.0 |
| H6 |
C5' |
O5' |
H7 |
300.1 |
300.0 |
| H7 |
O5' |
C5' |
H5 |
60.0 |
60.1 |
| H7 |
O5' |
C5' |
H6 |
300.1 |
300.0 |
| C3' |
C2' |
H8 |
F2' |
122.8 |
122.6 |
| H8 |
C2' |
C3' |
H3 |
324.7 |
0.1 |
| O4' |
C1' |
H9 |
N1 |
121.9 |
122.2 |
| O4' |
C1' |
H9 |
C2' |
244.3 |
244.5 |
| H9 |
C1' |
C2' |
H8 |
153.6 |
146.4 |
| C2 |
N3 |
H10 |
C4 |
180.0 |
180.0 |
| H10 |
N3 |
C4 |
C5 |
180.0 |
180.0 |
| H10 |
N3 |
C4 |
O4 |
359.9 |
359.9 |
| C6 |
C5 |
H11 |
C4 |
180.0 |
180.0 |
| H11 |
C5 |
C6 |
H1 |
0.1 |
0.0 |
| H11 |
C5 |
C4 |
O4 |
0.1 |
0.5 |