PDB Chemical Component F2T
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 F2T
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| P |
SP1 |
1.520 |
2.120 |
| P |
OP2 |
1.536 |
1.480 |
| P |
O5' |
1.537 |
1.610 |
| O5' |
C5' |
1.386 |
1.429 |
| C5' |
C4' |
1.552 |
1.529 |
| C4' |
O4' |
1.272 |
1.444 |
| C4' |
C3' |
1.491 |
1.550 |
| O4' |
C1' |
1.602 |
1.438 |
| C3' |
O3' |
1.325 |
1.429 |
| C3' |
C2' |
1.499 |
1.548 |
| C2' |
F2' |
1.390 |
1.399 |
| C2' |
C1' |
1.246 |
1.541 |
| C1' |
N1 |
1.430 |
1.465 |
| N1 |
C2 |
1.351 |
1.345 |
| N1 |
C6 |
1.352 |
1.369 |
| C2 |
O2 |
1.203 |
1.216 |
| C2 |
N3 |
1.338 |
1.345 |
| N3 |
C4 |
1.355 |
1.348 |
| C4 |
O4 |
1.402 |
1.218 |
| C4 |
C5 |
1.397 |
1.416 |
| C5 |
C6 |
1.404 |
1.350 |
| C5' |
H5' |
1.100 |
1.090 |
| C5' |
H5'' |
1.100 |
1.089 |
| C4' |
H4' |
1.100 |
1.090 |
| C3' |
H3' |
1.100 |
1.090 |
| O3' |
HO3' |
0.950 |
0.967 |
| C2' |
H2' |
1.100 |
1.090 |
| C1' |
H1' |
1.100 |
1.091 |
| N3 |
H3 |
1.000 |
0.970 |
| C5 |
H5 |
1.080 |
1.080 |
| C6 |
H6 |
1.080 |
1.080 |
| P |
OP3 |
1.549 |
1.609 |
| SP1 |
H11 |
1.300 |
1.345 |
| OP3 |
HOP3 |
0.951 |
0.967 |
Bond Angles for F2T
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| SP1 |
P |
OP2 |
101.6 |
109.4 |
| SP1 |
P |
O5' |
105.6 |
109.5 |
| SP1 |
P |
OP3 |
126.6 |
109.5 |
| P |
SP1 |
H11 |
102.0 |
103.0 |
| OP2 |
P |
O5' |
112.9 |
109.4 |
| OP2 |
P |
OP3 |
106.8 |
109.5 |
| P |
O5' |
C5' |
113.7 |
123.0 |
| O5' |
P |
OP3 |
103.6 |
109.5 |
| O5' |
C5' |
C4' |
109.8 |
109.5 |
| O5' |
C5' |
H5' |
109.4 |
109.5 |
| O5' |
C5' |
H5'' |
109.4 |
109.5 |
| C5' |
C4' |
O4' |
110.6 |
110.6 |
| C5' |
C4' |
C3' |
109.5 |
110.6 |
| C4' |
C5' |
H5' |
109.4 |
109.5 |
| C4' |
C5' |
H5'' |
109.4 |
109.5 |
| C5' |
C4' |
H4' |
110.0 |
110.6 |
| O4' |
C4' |
C3' |
100.9 |
103.5 |
| C4' |
O4' |
C1' |
105.8 |
107.0 |
| O4' |
C4' |
H4' |
114.7 |
110.6 |
| C4' |
C3' |
O3' |
110.7 |
110.9 |
| C4' |
C3' |
C2' |
101.6 |
102.1 |
| C3' |
C4' |
H4' |
110.8 |
110.7 |
| C4' |
C3' |
H3' |
111.7 |
110.9 |
| O4' |
C1' |
C2' |
106.9 |
107.3 |
| O4' |
C1' |
N1 |
110.4 |
109.9 |
| O4' |
C1' |
H1' |
107.3 |
109.9 |
| O3' |
C3' |
C2' |
105.7 |
110.9 |
| O3' |
C3' |
H3' |
114.6 |
110.8 |
| C3' |
O3' |
HO3' |
109.5 |
114.0 |
| C3' |
C2' |
F2' |
102.0 |
110.5 |
| C3' |
C2' |
C1' |
103.9 |
104.2 |
| C2' |
C3' |
H3' |
111.6 |
110.9 |
| C3' |
C2' |
H2' |
111.8 |
110.5 |
| F2' |
C2' |
C1' |
107.4 |
110.5 |
| F2' |
C2' |
H2' |
113.6 |
110.5 |
| C2' |
C1' |
N1 |
110.2 |
109.9 |
| C1' |
C2' |
H2' |
116.6 |
110.6 |
| C2' |
C1' |
H1' |
112.5 |
109.9 |
| C1' |
N1 |
C2 |
119.0 |
119.7 |
| C1' |
N1 |
C6 |
117.4 |
119.7 |
| N1 |
C1' |
H1' |
109.5 |
110.0 |
| C2 |
N1 |
C6 |
123.6 |
120.6 |
| N1 |
C2 |
O2 |
122.5 |
119.5 |
| N1 |
C2 |
N3 |
117.3 |
121.0 |
| N1 |
C6 |
C5 |
120.7 |
119.7 |
| N1 |
C6 |
H6 |
119.7 |
120.2 |
| O2 |
C2 |
N3 |
120.2 |
119.6 |
| C2 |
N3 |
C4 |
121.3 |
120.3 |
| C2 |
N3 |
H3 |
119.3 |
119.9 |
| N3 |
C4 |
O4 |
118.0 |
120.3 |
| N3 |
C4 |
C5 |
123.3 |
119.4 |
| C4 |
N3 |
H3 |
119.4 |
119.9 |
| O4 |
C4 |
C5 |
118.7 |
120.3 |
| C4 |
C5 |
C6 |
113.9 |
119.1 |
| C4 |
C5 |
H5 |
123.1 |
120.4 |
| C6 |
C5 |
H5 |
123.1 |
120.5 |
| C5 |
C6 |
H6 |
119.7 |
120.1 |
| H5' |
C5' |
H5'' |
109.4 |
109.5 |
| P |
OP3 |
HOP3 |
109.5 |
114.0 |
Torsion Angles for F2T
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| OP2 |
P |
SP1 |
O5' |
118.1 |
119.9 |
| OP2 |
P |
SP1 |
OP3 |
238.7 |
240.0 |
| SP1 |
P |
O5' |
C5' |
176.2 |
65.0 |
| O5' |
P |
SP1 |
OP3 |
120.7 |
120.0 |
| SP1 |
P |
OP3 |
HOP3 |
240.9 |
60.0 |
| SP1 |
P |
OP2 |
O5' |
247.4 |
240.1 |
| SP1 |
P |
OP2 |
OP3 |
134.2 |
120.0 |
| OP2 |
P |
SP1 |
H11 |
360.0 |
299.9 |
| OP2 |
P |
O5' |
C5' |
66.1 |
305.0 |
| O5' |
P |
OP2 |
OP3 |
246.8 |
240.0 |
| OP2 |
P |
OP3 |
HOP3 |
360.0 |
180.0 |
| SP1 |
P |
O5' |
OP2 |
110.2 |
119.9 |
| SP1 |
P |
O5' |
OP3 |
225.3 |
239.9 |
| O5' |
P |
SP1 |
H11 |
241.9 |
180.0 |
| OP2 |
P |
O5' |
OP3 |
115.1 |
120.0 |
| P |
O5' |
C5' |
C4' |
222.5 |
180.0 |
| P |
O5' |
C5' |
H5' |
342.6 |
300.0 |
| P |
O5' |
C5' |
H5'' |
102.4 |
60.0 |
| O5' |
P |
OP3 |
HOP3 |
119.4 |
300.0 |
| C5' |
O5' |
P |
OP3 |
310.9 |
185.0 |
| O5' |
C5' |
C4' |
O4' |
333.0 |
66.5 |
| O5' |
C5' |
C4' |
C3' |
83.3 |
180.5 |
| C4' |
C5' |
O5' |
H5' |
239.9 |
240.0 |
| C4' |
C5' |
O5' |
H5'' |
120.1 |
120.0 |
| O5' |
C5' |
C4' |
H4' |
205.3 |
303.6 |
| H5' |
C5' |
O5' |
H5'' |
240.2 |
240.0 |
| O5' |
C5' |
C4' |
H5' |
120.1 |
120.0 |
| O5' |
C5' |
C4' |
H5'' |
239.9 |
240.0 |
| O4' |
C4' |
C5' |
C3' |
249.7 |
245.9 |
| C5' |
C4' |
O4' |
C1' |
148.8 |
158.5 |
| O4' |
C4' |
C5' |
H4' |
127.7 |
122.9 |
| C5' |
C4' |
C3' |
O3' |
86.1 |
86.3 |
| C5' |
C4' |
C3' |
C2' |
198.0 |
204.5 |
| C3' |
C4' |
C5' |
H4' |
238.0 |
236.9 |
| C5' |
C4' |
C3' |
H3' |
317.1 |
322.7 |
| H5' |
C5' |
C4' |
H5'' |
119.9 |
120.0 |
| C5' |
C4' |
O4' |
C3' |
115.8 |
118.5 |
| O4' |
C4' |
C5' |
H5' |
212.9 |
306.5 |
| O4' |
C4' |
C5' |
H5'' |
93.1 |
186.5 |
| C5' |
C4' |
O4' |
H4' |
234.9 |
237.1 |
| O4' |
C4' |
C3' |
O3' |
202.7 |
204.8 |
| O4' |
C4' |
C3' |
C2' |
314.6 |
323.0 |
| C3' |
C4' |
O4' |
H4' |
119.1 |
118.6 |
| O4' |
C4' |
C3' |
H3' |
73.7 |
81.2 |
| C4' |
O4' |
C1' |
C2' |
350.9 |
333.5 |
| C4' |
O4' |
C1' |
N1 |
231.0 |
214.0 |
| C4' |
O4' |
C1' |
H1' |
111.8 |
92.9 |
| C5' |
C4' |
C3' |
O4' |
243.4 |
241.5 |
| C3' |
C4' |
C5' |
H5' |
323.2 |
60.5 |
| C3' |
C4' |
C5' |
H5'' |
203.4 |
300.5 |
| C5' |
C4' |
C3' |
H4' |
121.5 |
122.9 |
| C3' |
C4' |
O4' |
C1' |
33.0 |
40.1 |
| O4' |
C4' |
C3' |
H4' |
238.1 |
241.5 |
| O3' |
C3' |
C4' |
C2' |
248.1 |
241.8 |
| O3' |
C3' |
C4' |
H3' |
129.0 |
123.6 |
| C4' |
C3' |
O3' |
HO3' |
180.0 |
180.0 |
| C4' |
C3' |
C2' |
F2' |
288.5 |
262.2 |
| C4' |
C3' |
C2' |
C1' |
40.1 |
20.9 |
| C2' |
C3' |
C4' |
H3' |
240.9 |
241.8 |
| C4' |
C3' |
C2' |
H2' |
166.7 |
139.7 |
| C1' |
O4' |
C4' |
C3' |
33.0 |
40.1 |
| C1' |
O4' |
C4' |
H4' |
273.9 |
281.4 |
| C3' |
C2' |
C1' |
O4' |
340.0 |
2.0 |
| F2' |
C2' |
C1' |
O4' |
87.6 |
120.7 |
| C2' |
C1' |
O4' |
N1 |
119.9 |
119.5 |
| O4' |
C1' |
C2' |
H2' |
216.4 |
243.3 |
| C2' |
C1' |
O4' |
H1' |
239.1 |
240.6 |
| O4' |
C1' |
N1 |
C2 |
205.6 |
233.5 |
| O4' |
C1' |
N1 |
C6 |
25.3 |
53.3 |
| N1 |
C1' |
O4' |
H1' |
119.3 |
121.1 |
| C4' |
C3' |
O3' |
C2' |
109.3 |
112.7 |
| O3' |
C3' |
C4' |
H4' |
324.5 |
323.3 |
| C4' |
C3' |
O3' |
H3' |
232.6 |
236.3 |
| O3' |
C3' |
C2' |
F2' |
44.1 |
20.4 |
| O3' |
C3' |
C2' |
C1' |
155.7 |
139.1 |
| C2' |
C3' |
O3' |
H3' |
123.3 |
123.6 |
| O3' |
C3' |
C2' |
H2' |
282.3 |
257.9 |
| C4' |
C3' |
C2' |
O3' |
244.4 |
241.8 |
| C2' |
C3' |
C4' |
H4' |
76.5 |
81.5 |
| C4' |
C3' |
C2' |
H3' |
119.1 |
118.2 |
| O4' |
C1' |
C2' |
C3' |
340.0 |
2.0 |
| O3' |
C3' |
C2' |
H3' |
234.8 |
236.4 |
| C2' |
C3' |
O3' |
HO3' |
70.7 |
67.3 |
| F2' |
C2' |
C3' |
C1' |
248.4 |
241.3 |
| F2' |
C2' |
C3' |
H2' |
121.8 |
122.5 |
| C3' |
C2' |
C1' |
N1 |
100.0 |
121.5 |
| C1' |
C2' |
C3' |
H2' |
233.4 |
241.2 |
| C3' |
C2' |
C1' |
H1' |
222.5 |
242.6 |
| O4' |
C1' |
C2' |
F2' |
87.6 |
120.7 |
| C3' |
C2' |
F2' |
C1' |
108.9 |
114.8 |
| F2' |
C2' |
C3' |
H3' |
169.3 |
144.0 |
| C3' |
C2' |
F2' |
H2' |
239.4 |
237.4 |
| F2' |
C2' |
C1' |
N1 |
207.6 |
240.1 |
| C1' |
C2' |
F2' |
H2' |
130.5 |
122.7 |
| F2' |
C2' |
C1' |
H1' |
330.1 |
1.3 |
| O4' |
C1' |
C2' |
N1 |
240.0 |
240.6 |
| O4' |
C1' |
C2' |
H1' |
117.5 |
119.4 |
| C3' |
C2' |
C1' |
F2' |
252.4 |
241.3 |
| C1' |
C2' |
C3' |
H3' |
280.9 |
262.7 |
| C3' |
C2' |
C1' |
H2' |
123.5 |
118.7 |
| F2' |
C2' |
C1' |
H2' |
231.1 |
237.4 |
| C2' |
C1' |
N1 |
C2 |
87.7 |
115.7 |
| C2' |
C1' |
N1 |
C6 |
267.5 |
295.5 |
| N1 |
C1' |
C2' |
H1' |
237.5 |
238.9 |
| O4' |
C1' |
N1 |
C2' |
117.8 |
117.8 |
| O4' |
C1' |
N1 |
H1' |
242.1 |
238.9 |
| N1 |
C1' |
C2' |
H2' |
336.5 |
2.7 |
| C2' |
C1' |
N1 |
H1' |
124.2 |
121.1 |
| C2 |
N1 |
C1' |
C6 |
180.2 |
180.3 |
| C1' |
N1 |
C2 |
O2 |
359.2 |
0.0 |
| C1' |
N1 |
C2 |
N3 |
179.4 |
180.0 |
| C1' |
N1 |
C6 |
C5 |
180.6 |
179.8 |
| C1' |
N1 |
C6 |
H6 |
0.7 |
359.9 |
| C1' |
N1 |
C2 |
C6 |
179.7 |
179.7 |
| C2 |
N1 |
C1' |
H1' |
323.5 |
354.6 |
| C2 |
N1 |
C6 |
C5 |
0.4 |
359.5 |
| C2 |
N1 |
C6 |
H6 |
180.4 |
179.7 |
| O2 |
C2 |
N1 |
N3 |
179.7 |
180.0 |
| N1 |
C2 |
N3 |
C4 |
0.0 |
360.0 |
| N1 |
C2 |
N3 |
H3 |
180.0 |
180.0 |
| C1' |
N1 |
C6 |
C2 |
180.3 |
180.3 |
| C6 |
N1 |
C1' |
H1' |
143.2 |
174.4 |
| C6 |
N1 |
C2 |
O2 |
179.4 |
180.3 |
| C6 |
N1 |
C2 |
N3 |
359.7 |
0.3 |
| C4 |
C5 |
C6 |
N1 |
359.9 |
0.5 |
| N1 |
C6 |
C5 |
H5 |
179.9 |
180.3 |
| C5 |
C6 |
N1 |
H6 |
180.0 |
179.8 |
| O2 |
C2 |
N1 |
C6 |
179.4 |
180.3 |
| N1 |
C2 |
O2 |
N3 |
180.3 |
180.0 |
| O2 |
C2 |
N3 |
C4 |
180.3 |
179.9 |
| O2 |
C2 |
N3 |
H3 |
0.3 |
360.0 |
| N3 |
C2 |
N1 |
C6 |
359.7 |
0.3 |
| N1 |
C2 |
N3 |
O2 |
179.8 |
180.0 |
| C2 |
N3 |
C4 |
O4 |
180.2 |
180.0 |
| C2 |
N3 |
C4 |
C5 |
0.2 |
0.0 |
| C4 |
N3 |
C2 |
H3 |
180.0 |
180.0 |
| C2 |
N3 |
C4 |
H3 |
180.0 |
180.0 |
| O4 |
C4 |
N3 |
C5 |
180.0 |
180.0 |
| N3 |
C4 |
C5 |
C6 |
359.9 |
359.8 |
| N3 |
C4 |
C5 |
H5 |
179.9 |
179.9 |
| N3 |
C4 |
O4 |
C5 |
180.0 |
180.0 |
| O4 |
C4 |
N3 |
H3 |
0.2 |
360.0 |
| O4 |
C4 |
C5 |
C6 |
179.8 |
179.8 |
| O4 |
C4 |
C5 |
H5 |
359.8 |
359.9 |
| N1 |
C6 |
C5 |
C4 |
359.9 |
0.5 |
| N3 |
C4 |
C5 |
O4 |
180.0 |
180.0 |
| C5 |
C4 |
N3 |
H3 |
180.2 |
180.0 |
| C6 |
C5 |
C4 |
H5 |
180.0 |
179.9 |
| C4 |
C5 |
C6 |
H6 |
179.8 |
180.3 |
| N1 |
C6 |
C5 |
H6 |
180.0 |
180.2 |
| C4 |
C5 |
C6 |
H5 |
180.0 |
180.1 |
| O5' |
C5' |
H5' |
C4' |
239.6 |
240.0 |
| O5' |
C5' |
H5' |
H5'' |
119.8 |
120.0 |
| H5' |
C5' |
C4' |
O4' |
212.9 |
306.5 |
| H5' |
C5' |
C4' |
C3' |
323.2 |
60.5 |
| C4' |
C5' |
H5' |
H5'' |
240.2 |
240.0 |
| H5' |
C5' |
C4' |
H4' |
85.3 |
183.6 |
| O5' |
C5' |
H5'' |
C4' |
120.3 |
120.0 |
| O5' |
C5' |
H5'' |
H5' |
240.2 |
240.0 |
| H5'' |
C5' |
C4' |
O4' |
93.1 |
186.5 |
| H5'' |
C5' |
C4' |
C3' |
203.4 |
300.5 |
| C4' |
C5' |
H5'' |
H5' |
119.8 |
120.0 |
| H5'' |
C5' |
C4' |
H4' |
325.4 |
63.6 |
| C5' |
C4' |
H4' |
O4' |
125.4 |
122.9 |
| C5' |
C4' |
H4' |
C3' |
238.8 |
237.0 |
| H4' |
C4' |
C5' |
H5' |
85.3 |
183.6 |
| H4' |
C4' |
C5' |
H5'' |
325.4 |
63.6 |
| O4' |
C4' |
H4' |
C3' |
113.4 |
114.1 |
| H4' |
C4' |
O4' |
C1' |
273.9 |
281.4 |
| H4' |
C4' |
C3' |
O3' |
324.5 |
323.3 |
| H4' |
C4' |
C3' |
C2' |
76.5 |
81.5 |
| H4' |
C4' |
C3' |
H3' |
195.5 |
199.7 |
| C4' |
C3' |
H3' |
O3' |
126.9 |
123.7 |
| C4' |
C3' |
H3' |
C2' |
247.0 |
247.3 |
| H3' |
C3' |
C4' |
H4' |
195.5 |
199.7 |
| O3' |
C3' |
H3' |
C2' |
120.1 |
123.6 |
| H3' |
C3' |
O3' |
HO3' |
307.4 |
303.6 |
| H3' |
C3' |
C2' |
F2' |
169.3 |
144.0 |
| H3' |
C3' |
C2' |
C1' |
280.9 |
262.7 |
| H3' |
C3' |
C2' |
H2' |
47.5 |
21.5 |
| HO3' |
O3' |
C3' |
C2' |
70.7 |
67.3 |
| HO3' |
O3' |
C3' |
H3' |
307.4 |
303.6 |
| C3' |
C2' |
H2' |
F2' |
114.9 |
122.6 |
| C3' |
C2' |
H2' |
C1' |
240.7 |
245.2 |
| H2' |
C2' |
C3' |
H3' |
47.5 |
21.5 |
| F2' |
C2' |
H2' |
C1' |
125.8 |
122.6 |
| H2' |
C2' |
C1' |
N1 |
336.5 |
2.7 |
| H2' |
C2' |
C1' |
H1' |
99.0 |
123.9 |
| O4' |
C1' |
H1' |
C2' |
242.8 |
242.2 |
| O4' |
C1' |
H1' |
N1 |
119.9 |
121.1 |
| C2' |
C1' |
H1' |
N1 |
237.1 |
238.9 |
| H1' |
C1' |
C2' |
H2' |
99.0 |
123.9 |
| H1' |
C1' |
N1 |
C2 |
323.5 |
354.6 |
| H1' |
C1' |
N1 |
C6 |
143.2 |
174.4 |
| C2 |
N3 |
H3 |
C4 |
180.0 |
180.0 |
| H3 |
N3 |
C4 |
O4 |
0.2 |
360.0 |
| H3 |
N3 |
C4 |
C5 |
180.2 |
180.0 |
| C4 |
C5 |
H5 |
C6 |
180.0 |
179.9 |
| H5 |
C5 |
C6 |
H6 |
359.8 |
0.2 |
| N1 |
C6 |
H6 |
C5 |
180.0 |
179.8 |
| H6 |
C6 |
C5 |
H5 |
359.8 |
0.2 |
| SP1 |
P |
OP3 |
OP2 |
241.0 |
240.0 |
| SP1 |
P |
OP3 |
O5' |
121.5 |
120.0 |
| OP3 |
P |
SP1 |
H11 |
121.3 |
60.0 |
| OP2 |
P |
OP3 |
O5' |
240.6 |
240.0 |
| OP3 |
P |
O5' |
C5' |
310.9 |
185.0 |
| H11 |
SP1 |
P |
OP2 |
360.0 |
299.9 |
| H11 |
SP1 |
P |
O5' |
241.9 |
180.0 |
| H11 |
SP1 |
P |
OP3 |
121.3 |
60.0 |