PDB Chemical Component UFP
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 UFP
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| N1 |
C2 |
1.369 |
1.345 |
| N1 |
C6 |
1.536 |
1.370 |
| N1 |
C1' |
1.452 |
1.465 |
| C2 |
N3 |
1.388 |
1.345 |
| C2 |
O2 |
1.223 |
1.216 |
| N3 |
C4 |
1.386 |
1.349 |
| N3 |
HN3 |
1.020 |
0.970 |
| C4 |
C5 |
1.644 |
1.417 |
| C4 |
O4 |
1.244 |
1.218 |
| C5 |
C6 |
1.608 |
1.350 |
| C5 |
F5 |
1.321 |
1.352 |
| C6 |
H6 |
1.103 |
1.080 |
| C1' |
C2' |
1.506 |
1.544 |
| C1' |
O4' |
1.478 |
1.444 |
| C1' |
H1' |
1.115 |
1.090 |
| C2' |
C3' |
1.534 |
1.545 |
| C2' |
H2'1 |
1.115 |
1.090 |
| C2' |
H2'2 |
1.115 |
1.089 |
| C3' |
C4' |
1.521 |
1.544 |
| C3' |
O3' |
1.417 |
1.429 |
| C3' |
H3' |
1.115 |
1.090 |
| C4' |
O4' |
1.468 |
1.447 |
| C4' |
C5' |
1.552 |
1.529 |
| C4' |
H4' |
1.114 |
1.091 |
| O3' |
HO3' |
0.950 |
0.966 |
| C5' |
O5' |
1.470 |
1.428 |
| C5' |
H5'1 |
1.116 |
1.090 |
| C5' |
H5'2 |
1.115 |
1.090 |
| O5' |
P |
1.588 |
1.610 |
| P |
O1P |
1.464 |
1.479 |
| P |
O2P |
1.460 |
1.609 |
| P |
O3P |
1.569 |
1.609 |
| O2P |
HOP2 |
0.950 |
0.967 |
| O3P |
HOP3 |
0.950 |
0.966 |
Bond Angles for UFP
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
N1 |
C6 |
121.0 |
120.6 |
| C2 |
N1 |
C1' |
124.3 |
119.7 |
| N1 |
C2 |
N3 |
120.5 |
121.0 |
| N1 |
C2 |
O2 |
124.1 |
119.5 |
| C6 |
N1 |
C1' |
114.7 |
119.7 |
| N1 |
C6 |
C5 |
114.5 |
119.7 |
| N1 |
C6 |
H6 |
120.7 |
120.2 |
| N1 |
C1' |
C2' |
110.7 |
110.4 |
| N1 |
C1' |
O4' |
107.1 |
110.4 |
| N1 |
C1' |
H1' |
109.7 |
110.3 |
| N3 |
C2 |
O2 |
115.4 |
119.5 |
| C2 |
N3 |
C4 |
125.7 |
120.3 |
| C2 |
N3 |
HN3 |
117.3 |
119.9 |
| C4 |
N3 |
HN3 |
117.0 |
119.8 |
| N3 |
C4 |
C5 |
117.8 |
119.4 |
| N3 |
C4 |
O4 |
122.8 |
120.3 |
| C5 |
C4 |
O4 |
118.7 |
120.3 |
| C4 |
C5 |
C6 |
105.2 |
119.1 |
| C4 |
C5 |
F5 |
115.8 |
120.4 |
| C6 |
C5 |
F5 |
116.1 |
120.5 |
| C5 |
C6 |
H6 |
124.8 |
120.1 |
| C2' |
C1' |
O4' |
108.0 |
104.8 |
| C2' |
C1' |
H1' |
108.9 |
110.4 |
| C1' |
C2' |
C3' |
98.1 |
104.1 |
| C1' |
C2' |
H2'1 |
116.6 |
110.5 |
| C1' |
C2' |
H2'2 |
116.6 |
110.5 |
| O4' |
C1' |
H1' |
112.4 |
110.4 |
| C1' |
O4' |
C4' |
106.4 |
105.3 |
| C3' |
C2' |
H2'1 |
116.7 |
110.5 |
| C3' |
C2' |
H2'2 |
116.6 |
110.5 |
| C2' |
C3' |
C4' |
105.1 |
104.2 |
| C2' |
C3' |
O3' |
109.2 |
110.5 |
| C2' |
C3' |
H3' |
113.6 |
110.5 |
| H2'1 |
C2' |
H2'2 |
93.8 |
110.6 |
| C4' |
C3' |
O3' |
112.6 |
110.6 |
| C4' |
C3' |
H3' |
110.3 |
110.5 |
| C3' |
C4' |
O4' |
105.6 |
104.7 |
| C3' |
C4' |
C5' |
115.7 |
110.7 |
| C3' |
C4' |
H4' |
107.3 |
110.2 |
| O3' |
C3' |
H3' |
106.3 |
110.5 |
| C3' |
O3' |
HO3' |
109.2 |
106.8 |
| O4' |
C4' |
C5' |
106.9 |
110.3 |
| O4' |
C4' |
H4' |
115.9 |
110.3 |
| C5' |
C4' |
H4' |
105.9 |
110.3 |
| C4' |
C5' |
O5' |
107.2 |
109.6 |
| C4' |
C5' |
H5'1 |
113.1 |
109.5 |
| C4' |
C5' |
H5'2 |
113.1 |
109.5 |
| O5' |
C5' |
H5'1 |
113.1 |
109.4 |
| O5' |
C5' |
H5'2 |
113.1 |
109.5 |
| C5' |
O5' |
P |
119.0 |
106.8 |
| H5'1 |
C5' |
H5'2 |
97.4 |
109.4 |
| O5' |
P |
O1P |
109.8 |
109.5 |
| O5' |
P |
O2P |
111.8 |
109.5 |
| O5' |
P |
O3P |
94.6 |
109.4 |
| O1P |
P |
O2P |
113.3 |
109.5 |
| O1P |
P |
O3P |
116.4 |
109.5 |
| O2P |
P |
O3P |
109.4 |
109.5 |
| P |
O2P |
HOP2 |
111.8 |
106.8 |
| P |
O3P |
HOP3 |
94.6 |
106.9 |
Torsion Angles for UFP
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C6 |
N1 |
C2 |
C1' |
181.2 |
179.7 |
| C2 |
N1 |
C6 |
C5 |
30.5 |
0.3 |
| C2 |
N1 |
C6 |
H6 |
210.6 |
180.2 |
| C2 |
N1 |
C1' |
C2' |
76.5 |
299.7 |
| C2 |
N1 |
C1' |
O4' |
194.0 |
55.2 |
| C2 |
N1 |
C1' |
H1' |
316.2 |
177.5 |
| N3 |
C2 |
N1 |
O2 |
180.1 |
179.5 |
| N1 |
C2 |
N3 |
C4 |
357.5 |
0.5 |
| N1 |
C2 |
N3 |
HN3 |
177.5 |
180.3 |
| C2 |
N1 |
C6 |
C1' |
178.9 |
180.3 |
| C6 |
N1 |
C2 |
N3 |
354.9 |
359.5 |
| C6 |
N1 |
C2 |
O2 |
174.9 |
180.0 |
| C6 |
N1 |
C1' |
C2' |
255.3 |
120.0 |
| C6 |
N1 |
C1' |
O4' |
12.8 |
235.5 |
| C6 |
N1 |
C1' |
H1' |
135.1 |
357.8 |
| C4 |
C5 |
C6 |
N1 |
317.4 |
360.0 |
| N1 |
C6 |
C5 |
F5 |
188.0 |
180.0 |
| C5 |
C6 |
N1 |
H6 |
180.0 |
180.1 |
| C2 |
N1 |
C1' |
C6 |
181.2 |
179.7 |
| C1' |
N1 |
C2 |
N3 |
173.7 |
179.8 |
| C1' |
N1 |
C2 |
O2 |
353.7 |
0.2 |
| C1' |
N1 |
C6 |
C5 |
211.7 |
180.0 |
| C1' |
N1 |
C6 |
H6 |
31.7 |
359.9 |
| C2' |
C1' |
N1 |
O4' |
242.5 |
244.5 |
| C2' |
C1' |
N1 |
H1' |
120.3 |
122.2 |
| N1 |
C1' |
C2' |
C3' |
155.0 |
142.9 |
| N1 |
C1' |
C2' |
H2'1 |
280.3 |
24.3 |
| N1 |
C1' |
C2' |
H2'2 |
29.7 |
261.6 |
| O4' |
C1' |
N1 |
H1' |
237.7 |
237.7 |
| N1 |
C1' |
O4' |
C4' |
217.8 |
200.7 |
| N3 |
C2 |
N1 |
C6 |
354.9 |
359.5 |
| N3 |
C2 |
N1 |
C1' |
173.7 |
179.8 |
| N1 |
C2 |
N3 |
O2 |
180.0 |
180.5 |
| C4 |
N3 |
C2 |
HN3 |
180.0 |
180.2 |
| C2 |
N3 |
C4 |
C5 |
343.8 |
359.8 |
| C2 |
N3 |
C4 |
O4 |
174.1 |
179.7 |
| O2 |
C2 |
N1 |
C6 |
174.9 |
180.0 |
| O2 |
C2 |
N1 |
C1' |
353.7 |
0.2 |
| N1 |
C2 |
O2 |
N3 |
180.0 |
179.5 |
| O2 |
C2 |
N3 |
C4 |
177.6 |
180.0 |
| O2 |
C2 |
N3 |
HN3 |
357.6 |
359.8 |
| C4 |
N3 |
C2 |
O2 |
177.6 |
180.0 |
| C2 |
N3 |
C4 |
HN3 |
180.0 |
179.8 |
| C5 |
C4 |
N3 |
O4 |
169.7 |
180.0 |
| N3 |
C4 |
C5 |
C6 |
37.0 |
0.0 |
| N3 |
C4 |
C5 |
F5 |
166.7 |
180.0 |
| HN3 |
N3 |
C2 |
O2 |
357.6 |
359.8 |
| C2 |
N3 |
HN3 |
C4 |
180.0 |
180.2 |
| HN3 |
N3 |
C4 |
C5 |
163.8 |
179.9 |
| HN3 |
N3 |
C4 |
O4 |
354.1 |
359.9 |
| N1 |
C6 |
C5 |
C4 |
317.4 |
360.0 |
| C5 |
C4 |
N3 |
HN3 |
163.8 |
179.9 |
| N3 |
C4 |
C5 |
O4 |
189.9 |
180.0 |
| C6 |
C5 |
C4 |
F5 |
230.3 |
180.0 |
| C4 |
C5 |
C6 |
H6 |
137.4 |
180.0 |
| O4 |
C4 |
N3 |
HN3 |
354.1 |
359.9 |
| N3 |
C4 |
O4 |
C5 |
169.6 |
180.0 |
| O4 |
C4 |
C5 |
C6 |
207.2 |
180.1 |
| O4 |
C4 |
C5 |
F5 |
336.8 |
0.1 |
| C5 |
C6 |
N1 |
C1' |
211.7 |
180.0 |
| N1 |
C6 |
C5 |
H6 |
180.0 |
179.9 |
| C6 |
C5 |
C4 |
O4 |
207.2 |
180.1 |
| C4 |
C5 |
C6 |
F5 |
129.5 |
180.0 |
| F5 |
C5 |
C4 |
O4 |
336.8 |
0.1 |
| C4 |
C5 |
F5 |
C6 |
235.8 |
180.0 |
| F5 |
C5 |
C6 |
H6 |
8.0 |
0.0 |
| H6 |
C6 |
N1 |
C1' |
31.7 |
359.9 |
| N1 |
C6 |
H6 |
C5 |
180.0 |
180.1 |
| H6 |
C6 |
C5 |
F5 |
8.0 |
0.0 |
| N1 |
C1' |
C2' |
O4' |
116.9 |
118.9 |
| N1 |
C1' |
C2' |
H1' |
239.3 |
237.8 |
| O4' |
C1' |
C2' |
H1' |
122.3 |
118.9 |
| C2' |
C1' |
O4' |
C4' |
337.0 |
319.6 |
| C3' |
C2' |
C1' |
H2'1 |
234.7 |
118.6 |
| C3' |
C2' |
C1' |
H2'2 |
125.3 |
241.4 |
| C1' |
C2' |
C3' |
C4' |
321.0 |
359.9 |
| C1' |
C2' |
C3' |
O3' |
82.0 |
118.6 |
| C1' |
C2' |
C3' |
H3' |
200.4 |
241.3 |
| H2'1 |
C2' |
C1' |
H2'2 |
250.6 |
122.8 |
| N1 |
C1' |
O4' |
C2' |
240.8 |
241.1 |
| N1 |
C1' |
O4' |
H1' |
120.6 |
122.3 |
| C2' |
C1' |
O4' |
H1' |
239.8 |
241.1 |
| O4' |
C1' |
C2' |
C3' |
38.1 |
24.0 |
| O4' |
C1' |
C2' |
H2'1 |
163.4 |
265.4 |
| O4' |
C1' |
C2' |
H2'2 |
272.8 |
142.6 |
| C3' |
C4' |
O4' |
C1' |
357.0 |
40.3 |
| C1' |
O4' |
C4' |
C5' |
120.7 |
159.5 |
| C1' |
O4' |
C4' |
H4' |
238.5 |
281.7 |
| N1 |
C1' |
H1' |
C2' |
121.3 |
122.2 |
| N1 |
C1' |
H1' |
O4' |
240.9 |
237.7 |
| C2' |
C1' |
H1' |
O4' |
119.6 |
115.4 |
| H1' |
C1' |
C2' |
C3' |
275.7 |
265.1 |
| H1' |
C1' |
C2' |
H2'1 |
41.1 |
146.5 |
| H1' |
C1' |
C2' |
H2'2 |
150.5 |
23.8 |
| H1' |
C1' |
O4' |
C4' |
97.2 |
78.4 |
| C3' |
C2' |
C1' |
O4' |
38.1 |
24.0 |
| C3' |
C2' |
C1' |
H1' |
275.7 |
265.1 |
| C1' |
C2' |
C3' |
H2'1 |
125.3 |
241.4 |
| C1' |
C2' |
C3' |
H2'2 |
234.8 |
118.7 |
| H2'1 |
C2' |
C3' |
H2'2 |
109.5 |
237.3 |
| C4' |
C3' |
C2' |
O3' |
239.0 |
241.3 |
| C4' |
C3' |
C2' |
H3' |
120.6 |
118.6 |
| C2' |
C3' |
C4' |
O4' |
27.2 |
336.2 |
| C2' |
C3' |
C4' |
C5' |
269.2 |
217.3 |
| C2' |
C3' |
C4' |
H4' |
151.4 |
94.9 |
| O3' |
C3' |
C2' |
H3' |
241.6 |
237.4 |
| C2' |
C3' |
O3' |
HO3' |
180.0 |
63.3 |
| H2'1 |
C2' |
C1' |
O4' |
163.4 |
265.4 |
| H2'1 |
C2' |
C1' |
H1' |
41.1 |
146.5 |
| C1' |
C2' |
H2'1 |
C3' |
244.6 |
114.6 |
| C1' |
C2' |
H2'1 |
H2'2 |
122.3 |
237.3 |
| C3' |
C2' |
H2'1 |
H2'2 |
237.7 |
122.6 |
| H2'1 |
C2' |
C3' |
C4' |
195.7 |
118.5 |
| H2'1 |
C2' |
C3' |
O3' |
316.7 |
237.3 |
| H2'1 |
C2' |
C3' |
H3' |
75.1 |
359.9 |
| H2'2 |
C2' |
C1' |
O4' |
272.8 |
142.6 |
| H2'2 |
C2' |
C1' |
H1' |
150.5 |
23.8 |
| C1' |
C2' |
H2'2 |
C3' |
115.3 |
245.3 |
| C1' |
C2' |
H2'2 |
H2'1 |
237.7 |
122.7 |
| C3' |
C2' |
H2'2 |
H2'1 |
122.4 |
237.4 |
| H2'2 |
C2' |
C3' |
C4' |
86.3 |
241.2 |
| H2'2 |
C2' |
C3' |
O3' |
207.3 |
360.0 |
| H2'2 |
C2' |
C3' |
H3' |
325.7 |
122.6 |
| C1' |
O4' |
C4' |
C3' |
357.0 |
40.3 |
| C4' |
C3' |
C2' |
H2'1 |
195.7 |
118.5 |
| C4' |
C3' |
C2' |
H2'2 |
86.3 |
241.2 |
| C2' |
C3' |
C4' |
O3' |
118.7 |
118.7 |
| C2' |
C3' |
C4' |
H3' |
237.2 |
241.3 |
| O3' |
C3' |
C4' |
H3' |
118.5 |
122.6 |
| C4' |
C3' |
O3' |
HO3' |
296.3 |
178.1 |
| O4' |
C4' |
C3' |
C5' |
118.0 |
118.9 |
| O4' |
C4' |
C3' |
H4' |
235.8 |
241.3 |
| C5' |
C4' |
C3' |
H4' |
117.8 |
122.4 |
| C3' |
C4' |
C5' |
O5' |
290.2 |
176.9 |
| C3' |
C4' |
C5' |
H5'1 |
55.5 |
296.9 |
| C3' |
C4' |
C5' |
H5'2 |
164.9 |
56.9 |
| O3' |
C3' |
C2' |
H2'1 |
316.7 |
237.3 |
| O3' |
C3' |
C2' |
H2'2 |
207.3 |
360.0 |
| C2' |
C3' |
O3' |
C4' |
243.7 |
245.2 |
| C2' |
C3' |
O3' |
H3' |
122.9 |
122.6 |
| C4' |
C3' |
O3' |
H3' |
239.2 |
237.4 |
| O3' |
C3' |
C4' |
O4' |
268.4 |
217.5 |
| O3' |
C3' |
C4' |
C5' |
150.5 |
98.6 |
| O3' |
C3' |
C4' |
H4' |
32.6 |
336.2 |
| H3' |
C3' |
C2' |
H2'1 |
75.1 |
359.9 |
| H3' |
C3' |
C2' |
H2'2 |
325.7 |
122.6 |
| C2' |
C3' |
H3' |
C4' |
117.6 |
114.7 |
| C2' |
C3' |
H3' |
O3' |
239.9 |
237.4 |
| C4' |
C3' |
H3' |
O3' |
122.3 |
122.7 |
| H3' |
C3' |
C4' |
O4' |
149.9 |
94.9 |
| H3' |
C3' |
C4' |
C5' |
31.9 |
335.9 |
| H3' |
C3' |
C4' |
H4' |
274.1 |
213.5 |
| H3' |
C3' |
O3' |
HO3' |
57.1 |
300.7 |
| C4' |
O4' |
C1' |
H1' |
97.2 |
78.4 |
| O4' |
C4' |
C3' |
O3' |
268.4 |
217.5 |
| O4' |
C4' |
C3' |
H3' |
149.9 |
94.9 |
| C3' |
C4' |
O4' |
C5' |
236.3 |
240.8 |
| C3' |
C4' |
O4' |
H4' |
118.5 |
118.6 |
| C5' |
C4' |
O4' |
H4' |
242.2 |
237.8 |
| O4' |
C4' |
C5' |
O5' |
173.0 |
61.5 |
| O4' |
C4' |
C5' |
H5'1 |
298.3 |
181.5 |
| O4' |
C4' |
C5' |
H5'2 |
47.7 |
301.4 |
| C5' |
C4' |
C3' |
O3' |
150.5 |
98.6 |
| C5' |
C4' |
C3' |
H3' |
31.9 |
335.9 |
| C3' |
C4' |
C5' |
O4' |
117.2 |
115.5 |
| C3' |
C4' |
C5' |
H4' |
241.4 |
237.7 |
| O4' |
C4' |
C5' |
H4' |
124.2 |
122.2 |
| O5' |
C5' |
C4' |
H5'1 |
234.7 |
240.0 |
| O5' |
C5' |
C4' |
H5'2 |
125.3 |
120.1 |
| C4' |
C5' |
O5' |
P |
134.0 |
180.0 |
| H5'1 |
C5' |
C4' |
H5'2 |
250.6 |
240.1 |
| H4' |
C4' |
C3' |
O3' |
32.6 |
336.2 |
| H4' |
C4' |
C3' |
H3' |
274.1 |
213.5 |
| C3' |
C4' |
H4' |
O4' |
242.4 |
244.8 |
| C3' |
C4' |
H4' |
C5' |
124.0 |
122.6 |
| O4' |
C4' |
H4' |
C5' |
241.7 |
237.8 |
| H4' |
C4' |
C5' |
O5' |
48.8 |
299.3 |
| H4' |
C4' |
C5' |
H5'1 |
174.1 |
59.3 |
| H4' |
C4' |
C5' |
H5'2 |
283.5 |
179.2 |
| HO3' |
O3' |
C3' |
H3' |
57.1 |
300.7 |
| O5' |
C5' |
C4' |
H4' |
48.8 |
299.3 |
| C4' |
C5' |
O5' |
H5'1 |
125.3 |
120.0 |
| C4' |
C5' |
O5' |
H5'2 |
234.7 |
239.9 |
| H5'1 |
C5' |
O5' |
H5'2 |
109.4 |
119.9 |
| C5' |
O5' |
P |
O1P |
56.7 |
60.0 |
| C5' |
O5' |
P |
O2P |
290.0 |
180.0 |
| C5' |
O5' |
P |
O3P |
177.0 |
299.9 |
| H5'1 |
C5' |
C4' |
H4' |
174.1 |
59.3 |
| C4' |
C5' |
H5'1 |
O5' |
238.0 |
239.9 |
| C4' |
C5' |
H5'1 |
H5'2 |
119.0 |
119.9 |
| O5' |
C5' |
H5'1 |
H5'2 |
241.0 |
240.0 |
| H5'1 |
C5' |
O5' |
P |
8.7 |
60.0 |
| H5'2 |
C5' |
C4' |
H4' |
283.5 |
179.2 |
| C4' |
C5' |
H5'2 |
O5' |
122.1 |
120.1 |
| C4' |
C5' |
H5'2 |
H5'1 |
241.0 |
240.1 |
| O5' |
C5' |
H5'2 |
H5'1 |
119.0 |
119.9 |
| H5'2 |
C5' |
O5' |
P |
259.3 |
300.1 |
| P |
O5' |
C5' |
H5'1 |
8.7 |
60.0 |
| P |
O5' |
C5' |
H5'2 |
259.3 |
300.1 |
| O1P |
P |
O5' |
O2P |
126.7 |
240.0 |
| O1P |
P |
O5' |
O3P |
239.7 |
120.0 |
| O2P |
P |
O5' |
O3P |
113.1 |
240.0 |
| O5' |
P |
O2P |
HOP2 |
179.9 |
180.0 |
| O5' |
P |
O3P |
HOP3 |
180.0 |
300.0 |
| O5' |
P |
O1P |
O2P |
234.2 |
120.0 |
| O5' |
P |
O1P |
O3P |
106.0 |
240.0 |
| O2P |
P |
O1P |
O3P |
231.8 |
120.0 |
| O1P |
P |
O2P |
HOP2 |
55.2 |
300.0 |
| O1P |
P |
O3P |
HOP3 |
294.9 |
179.9 |
| O5' |
P |
O2P |
O1P |
124.7 |
240.0 |
| O5' |
P |
O2P |
O3P |
256.5 |
120.0 |
| O1P |
P |
O2P |
O3P |
131.8 |
240.0 |
| O2P |
P |
O3P |
HOP3 |
65.0 |
59.9 |
| O5' |
P |
O3P |
O1P |
245.2 |
120.0 |
| O5' |
P |
O3P |
O2P |
115.1 |
240.0 |
| O1P |
P |
O3P |
O2P |
229.9 |
120.0 |
| O3P |
P |
O2P |
HOP2 |
283.4 |
60.0 |
| HOP2 |
O2P |
P |
O3P |
283.4 |
60.0 |