PDB Chemical Component 08T
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 08T
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| O3' |
C3' |
1.411 |
1.429 |
| O2' |
C2' |
1.432 |
1.430 |
| C3' |
C4' |
1.430 |
1.541 |
| C3' |
C2' |
1.396 |
1.548 |
| C4' |
C5' |
1.463 |
1.530 |
| C4' |
O4' |
1.378 |
1.438 |
| C2' |
C1' |
1.470 |
1.550 |
| C5' |
O5' |
1.405 |
1.428 |
| O4' |
C1' |
1.407 |
1.444 |
| C1' |
N9 |
1.478 |
1.466 |
| N3 |
C2 |
1.351 |
1.316 |
| N3 |
C4 |
1.391 |
1.329 |
| O2A |
PA |
1.508 |
1.480 |
| C2 |
N1 |
1.333 |
1.320 |
| O5' |
PA |
1.486 |
1.610 |
| C4 |
N9 |
1.431 |
1.372 |
| C4 |
C5 |
1.426 |
1.405 |
| N9 |
C8 |
1.334 |
1.363 |
| PA |
O1A |
1.541 |
1.610 |
| PA |
O3A |
1.599 |
1.611 |
| N1 |
C6 |
1.323 |
1.329 |
| C5 |
C6 |
1.387 |
1.406 |
| C5 |
N7 |
1.318 |
1.354 |
| O3A |
PB |
1.536 |
1.610 |
| C8 |
N7 |
1.316 |
1.301 |
| C6 |
N6 |
1.423 |
1.384 |
| O1B |
PB |
1.474 |
1.480 |
| PB |
O3B |
1.596 |
1.610 |
| PB |
O2B |
1.575 |
1.610 |
| F1 |
BE |
1.368 |
1.390 |
| BE |
F3 |
1.399 |
1.390 |
| O3B |
BE |
1.437 |
1.439 |
| BE |
F2 |
1.401 |
1.390 |
| C5' |
H1 |
1.100 |
1.089 |
| C5' |
H2 |
1.100 |
1.090 |
| C4' |
H3 |
1.101 |
1.090 |
| C3' |
H4 |
1.100 |
1.091 |
| O3' |
H5 |
0.950 |
0.967 |
| C2' |
H6 |
1.100 |
1.090 |
| O2' |
H7 |
0.950 |
0.967 |
| C1' |
H8 |
1.100 |
1.090 |
| O1A |
H9 |
0.950 |
0.967 |
| C2 |
H10 |
1.080 |
1.080 |
| O2B |
H11 |
0.950 |
0.967 |
| N6 |
H12 |
1.000 |
0.971 |
| N6 |
H13 |
1.000 |
0.970 |
| C8 |
H14 |
1.080 |
1.080 |
Bond Angles for 08T
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O3' |
C3' |
C2' |
111.6 |
110.5 |
| O3' |
C3' |
H4 |
109.4 |
110.5 |
| O2' |
C2' |
C1' |
109.8 |
110.9 |
| O2' |
C2' |
H6 |
110.3 |
110.8 |
| C3' |
C4' |
H3 |
114.6 |
110.0 |
| C3' |
C2' |
C1' |
110.3 |
102.1 |
| C2' |
C3' |
H4 |
108.8 |
110.5 |
| C3' |
C2' |
H6 |
109.8 |
110.9 |
| C4' |
C5' |
H1 |
107.4 |
109.5 |
| C4' |
C5' |
H2 |
107.4 |
109.5 |
| C4' |
O4' |
C1' |
113.0 |
107.0 |
| O4' |
C4' |
H3 |
107.9 |
109.9 |
| O4' |
C1' |
C2' |
102.2 |
103.5 |
| C2' |
C1' |
N9 |
112.7 |
110.6 |
| C1' |
C2' |
H6 |
108.4 |
111.0 |
| C2' |
C1' |
H8 |
111.5 |
110.6 |
| O5' |
C5' |
H1 |
107.4 |
109.5 |
| O5' |
C5' |
H2 |
107.4 |
109.5 |
| O4' |
C1' |
N9 |
107.4 |
110.6 |
| O4' |
C1' |
H8 |
116.5 |
110.7 |
| C1' |
N9 |
C4 |
86.9 |
126.3 |
| C1' |
N9 |
C8 |
164.3 |
126.3 |
| N9 |
C1' |
H8 |
106.6 |
110.7 |
| N3 |
C2 |
H10 |
119.7 |
118.8 |
| N3 |
C4 |
N9 |
149.3 |
134.9 |
| N3 |
C4 |
C5 |
109.0 |
119.1 |
| O2A |
PA |
O3A |
114.7 |
109.5 |
| C2 |
N1 |
C6 |
119.1 |
121.2 |
| O5' |
PA |
O1A |
113.2 |
109.5 |
| O5' |
PA |
O3A |
104.8 |
109.5 |
| C5 |
C4 |
N9 |
101.7 |
106.0 |
| C4 |
N9 |
C8 |
108.2 |
107.4 |
| C4 |
C5 |
C6 |
124.4 |
118.2 |
| C4 |
C5 |
N7 |
110.4 |
107.1 |
| N9 |
C8 |
H14 |
124.6 |
125.0 |
| O1A |
PA |
O3A |
109.3 |
109.4 |
| PA |
O1A |
H9 |
109.5 |
114.0 |
| PA |
O3A |
PB |
122.7 |
134.0 |
| N1 |
C6 |
C5 |
120.2 |
118.4 |
| N1 |
C6 |
N6 |
120.2 |
120.8 |
| C6 |
C5 |
N7 |
125.1 |
134.7 |
| C5 |
C6 |
N6 |
119.5 |
120.7 |
| O3A |
PB |
O3B |
110.3 |
109.5 |
| C6 |
N6 |
H12 |
109.5 |
120.0 |
| C6 |
N6 |
H13 |
109.5 |
120.1 |
| O1B |
PB |
O3B |
107.6 |
109.5 |
| O1B |
PB |
O2B |
112.5 |
109.5 |
| O2B |
PB |
O3B |
109.6 |
109.5 |
| PB |
O3B |
BE |
122.4 |
114.0 |
| PB |
O2B |
H11 |
109.5 |
114.0 |
| F1 |
BE |
F3 |
110.3 |
109.5 |
| F1 |
BE |
F2 |
111.2 |
109.5 |
| O3B |
BE |
F3 |
109.9 |
109.4 |
| F2 |
BE |
F3 |
107.1 |
109.4 |
| H1 |
C5' |
H2 |
111.5 |
109.4 |
| H12 |
N6 |
H13 |
109.4 |
120.0 |
Torsion Angles for 08T
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O3' |
C3' |
C4' |
H3 |
7.7 |
358.8 |
| O3' |
C3' |
C2' |
C1' |
112.6 |
97.8 |
| C2' |
C3' |
O3' |
H4 |
120.4 |
122.6 |
| O3' |
C3' |
C2' |
H6 |
231.9 |
216.1 |
| C3' |
C2' |
O2' |
C1' |
120.4 |
112.7 |
| O2' |
C2' |
C3' |
H4 |
113.3 |
102.3 |
| C3' |
C2' |
O2' |
H6 |
239.8 |
236.4 |
| O4' |
C1' |
C2' |
O2' |
116.8 |
155.2 |
| O2' |
C2' |
C1' |
N9 |
231.8 |
273.7 |
| C1' |
C2' |
O2' |
H6 |
119.4 |
123.7 |
| O2' |
C2' |
C1' |
H8 |
351.7 |
36.7 |
| C3' |
C4' |
C5' |
H1 |
207.6 |
64.3 |
| C3' |
C4' |
C5' |
H2 |
327.6 |
304.3 |
| C3' |
C4' |
O4' |
C1' |
350.2 |
26.5 |
| O4' |
C4' |
C3' |
H3 |
240.7 |
240.5 |
| O3' |
C3' |
C2' |
H4 |
239.2 |
237.3 |
| O2' |
C2' |
C3' |
C1' |
239.9 |
241.8 |
| O2' |
C2' |
C3' |
H6 |
120.5 |
123.5 |
| C2' |
C3' |
C4' |
H3 |
127.0 |
117.5 |
| O4' |
C1' |
C2' |
C3' |
357.6 |
37.1 |
| C3' |
C2' |
C1' |
N9 |
112.6 |
155.5 |
| C1' |
C2' |
C3' |
H6 |
240.6 |
241.7 |
| C3' |
C2' |
C1' |
H8 |
232.5 |
278.5 |
| O5' |
C5' |
C4' |
H1 |
240.0 |
120.0 |
| O5' |
C5' |
C4' |
H2 |
120.0 |
240.0 |
| H1 |
C5' |
C4' |
H2 |
240.0 |
120.0 |
| C3' |
C4' |
O4' |
H3 |
123.6 |
119.5 |
| O4' |
C4' |
C5' |
H1 |
90.7 |
306.4 |
| O4' |
C4' |
C5' |
H2 |
210.7 |
186.5 |
| C4' |
O4' |
C1' |
C2' |
7.5 |
319.9 |
| C4' |
O4' |
C1' |
N9 |
248.7 |
201.4 |
| C4' |
O4' |
C1' |
H8 |
129.3 |
78.4 |
| O2' |
C2' |
C1' |
H6 |
239.4 |
236.4 |
| C1' |
C2' |
C3' |
H4 |
233.4 |
220.5 |
| C3' |
C2' |
C1' |
H6 |
120.2 |
118.2 |
| O4' |
C1' |
C2' |
N9 |
245.0 |
241.5 |
| O4' |
C1' |
C2' |
H8 |
125.1 |
118.6 |
| C2' |
C1' |
N9 |
C4 |
61.2 |
89.5 |
| C2' |
C1' |
N9 |
C8 |
225.7 |
269.4 |
| N9 |
C1' |
C2' |
H8 |
240.1 |
237.0 |
| C4' |
C5' |
O5' |
H1 |
120.0 |
240.0 |
| C4' |
C5' |
O5' |
H2 |
240.0 |
120.0 |
| C5' |
O5' |
PA |
O1A |
128.0 |
65.0 |
| C5' |
O5' |
PA |
O3A |
247.1 |
185.0 |
| H1 |
C5' |
O5' |
H2 |
120.0 |
240.0 |
| O2' |
C2' |
C1' |
O4' |
116.8 |
155.2 |
| C3' |
C2' |
C1' |
O4' |
357.6 |
37.1 |
| C1' |
O4' |
C4' |
H3 |
226.6 |
267.0 |
| C2' |
C1' |
O4' |
N9 |
118.8 |
118.5 |
| O4' |
C1' |
C2' |
H6 |
237.4 |
278.9 |
| C2' |
C1' |
O4' |
H8 |
238.2 |
241.5 |
| O4' |
C1' |
N9 |
C4 |
173.0 |
203.6 |
| O4' |
C1' |
N9 |
C8 |
337.5 |
23.5 |
| N9 |
C1' |
O4' |
H8 |
119.4 |
123.0 |
| O4' |
C1' |
N9 |
C2' |
111.8 |
114.1 |
| N9 |
C1' |
C2' |
H6 |
352.4 |
37.3 |
| C2' |
C1' |
N9 |
H8 |
122.6 |
122.9 |
| O4' |
C1' |
N9 |
H8 |
234.5 |
237.0 |
| N3 |
C4 |
N9 |
C1' |
355.5 |
359.9 |
| C5 |
C4 |
N9 |
C1' |
178.7 |
180.0 |
| C4 |
N9 |
C1' |
C8 |
195.5 |
180.1 |
| C1' |
N9 |
C8 |
H14 |
12.6 |
0.1 |
| N3 |
C2 |
N1 |
C6 |
359.9 |
359.9 |
| C1' |
N9 |
C4 |
N3 |
355.5 |
359.9 |
| C4 |
N3 |
C2 |
H10 |
180.1 |
180.0 |
| C5 |
C4 |
N3 |
N9 |
176.7 |
180.0 |
| N3 |
C4 |
N9 |
C8 |
179.8 |
180.0 |
| N3 |
C4 |
C5 |
C6 |
0.2 |
0.0 |
| N3 |
C4 |
C5 |
N7 |
180.2 |
180.0 |
| O5' |
PA |
O2A |
O3A |
244.6 |
240.0 |
| O1A |
PA |
O2A |
O3A |
122.5 |
120.0 |
| O2A |
PA |
O1A |
H9 |
360.0 |
180.0 |
| O2A |
PA |
O3A |
PB |
72.9 |
45.0 |
| C2 |
N1 |
C6 |
C5 |
0.1 |
0.1 |
| C2 |
N1 |
C6 |
N6 |
179.9 |
180.0 |
| O2A |
PA |
O5' |
O3A |
121.9 |
120.0 |
| O1A |
PA |
O5' |
O3A |
240.9 |
240.0 |
| O5' |
PA |
O1A |
H9 |
242.1 |
60.0 |
| O5' |
PA |
O3A |
PB |
189.3 |
165.0 |
| C1' |
N9 |
C4 |
C8 |
175.7 |
179.9 |
| C4 |
N9 |
C1' |
H8 |
298.5 |
326.6 |
| N3 |
C4 |
N9 |
C5 |
176.8 |
180.0 |
| N9 |
C4 |
C5 |
C6 |
178.5 |
180.0 |
| N9 |
C4 |
C5 |
N7 |
358.5 |
360.0 |
| C4 |
N9 |
C8 |
H14 |
176.3 |
180.1 |
| C1' |
N9 |
C4 |
C5 |
178.7 |
180.0 |
| N3 |
C4 |
C5 |
N9 |
181.7 |
180.0 |
| C5 |
C4 |
N9 |
C8 |
3.0 |
0.0 |
| N1 |
C6 |
C5 |
C4 |
359.8 |
359.9 |
| C6 |
C5 |
C4 |
N7 |
180.0 |
180.0 |
| C4 |
C5 |
C6 |
N6 |
180.0 |
180.0 |
| C1' |
N9 |
C8 |
C4 |
196.3 |
180.1 |
| C8 |
N9 |
C1' |
H8 |
103.0 |
146.5 |
| O2A |
PA |
O1A |
O3A |
234.3 |
240.0 |
| O5' |
PA |
O1A |
O3A |
116.5 |
120.0 |
| O1A |
PA |
O3A |
PB |
311.0 |
285.0 |
| O5' |
PA |
O3A |
O1A |
238.3 |
240.0 |
| O3A |
PA |
O1A |
H9 |
125.7 |
300.0 |
| PA |
O3A |
PB |
O3B |
196.9 |
200.0 |
| C4 |
C5 |
C6 |
N1 |
359.8 |
359.9 |
| N1 |
C6 |
C5 |
N7 |
179.8 |
180.0 |
| C5 |
C6 |
N1 |
N6 |
180.2 |
180.1 |
| N1 |
C6 |
N6 |
H12 |
0.0 |
360.0 |
| N1 |
C6 |
N6 |
H13 |
120.0 |
180.0 |
| C6 |
C5 |
C4 |
N9 |
178.5 |
180.0 |
| C4 |
C5 |
C6 |
N7 |
180.0 |
179.9 |
| N1 |
C6 |
C5 |
N6 |
179.8 |
179.9 |
| C5 |
C6 |
N6 |
H12 |
179.8 |
179.9 |
| C5 |
C6 |
N6 |
H13 |
299.7 |
360.0 |
| N7 |
C5 |
C4 |
N9 |
358.5 |
360.0 |
| C4 |
C5 |
N7 |
C6 |
180.0 |
180.1 |
| N7 |
C5 |
C6 |
N6 |
360.0 |
0.1 |
| O1B |
PB |
O3A |
O3B |
118.3 |
120.0 |
| O2B |
PB |
O3A |
O3B |
240.7 |
240.0 |
| O3A |
PB |
O3B |
BE |
127.7 |
180.0 |
| O3A |
PB |
O2B |
H11 |
239.4 |
60.0 |
| C1' |
N9 |
C8 |
N7 |
192.6 |
180.0 |
| C4 |
N9 |
C8 |
N7 |
356.4 |
360.0 |
| N1 |
C6 |
N6 |
C5 |
180.2 |
180.1 |
| N6 |
C6 |
C5 |
N7 |
360.0 |
0.1 |
| H12 |
N6 |
C6 |
H13 |
240.0 |
180.0 |
| PA |
O3A |
PB |
O1B |
315.2 |
320.0 |
| O3A |
PB |
O1B |
O3B |
240.0 |
240.0 |
| O2B |
PB |
O1B |
O3B |
120.9 |
120.0 |
| O1B |
PB |
O3B |
BE |
8.1 |
60.0 |
| O1B |
PB |
O2B |
H11 |
0.0 |
180.0 |
| O1B |
PB |
O3B |
O2B |
122.7 |
120.0 |
| O3B |
PB |
O2B |
H11 |
119.7 |
300.0 |
| PB |
O3B |
BE |
F3 |
134.0 |
60.0 |
| PA |
O3A |
PB |
O2B |
77.6 |
80.0 |
| O3A |
PB |
O2B |
O3B |
119.7 |
120.0 |
| O1B |
PB |
O2B |
O3B |
240.3 |
240.0 |
| O2B |
PB |
O3B |
BE |
245.5 |
300.0 |
| PB |
O3B |
BE |
F1 |
12.0 |
180.0 |
| O3B |
BE |
F1 |
F3 |
121.8 |
240.0 |
| F2 |
BE |
F1 |
F3 |
241.3 |
120.0 |
| F1 |
BE |
F3 |
F2 |
238.8 |
120.0 |
| F1 |
BE |
O3B |
F3 |
238.0 |
120.0 |
| F2 |
BE |
O3B |
F3 |
116.3 |
240.0 |
| PB |
O3B |
BE |
F2 |
250.3 |
300.0 |
| F1 |
BE |
F2 |
F3 |
120.5 |
240.0 |
| O3B |
BE |
F2 |
F3 |
241.9 |
120.0 |
| C4' |
C5' |
H1 |
H2 |
117.3 |
240.0 |
| O5' |
C5' |
H1 |
H2 |
242.6 |
120.0 |
| C4' |
C5' |
H2 |
H1 |
242.7 |
120.0 |
| O5' |
C5' |
H2 |
H1 |
117.3 |
240.0 |
| H3 |
C4' |
C5' |
H1 |
331.2 |
185.4 |
| H3 |
C4' |
C5' |
H2 |
91.1 |
65.4 |
| H3 |
C4' |
O4' |
C1' |
226.6 |
267.0 |
| O3' |
C3' |
H4 |
C2' |
122.1 |
122.6 |
| H4 |
C3' |
C4' |
H3 |
247.2 |
236.1 |
| H4 |
C3' |
C2' |
C1' |
233.4 |
220.5 |
| H4 |
C3' |
C2' |
H6 |
352.8 |
338.7 |
| H5 |
O3' |
C3' |
C2' |
63.8 |
65.2 |
| H5 |
O3' |
C3' |
H4 |
303.4 |
302.6 |
| O2' |
C2' |
H6 |
C1' |
120.2 |
123.7 |
| C3' |
C2' |
H6 |
C1' |
239.5 |
247.3 |
| H6 |
C2' |
C3' |
H4 |
352.8 |
338.7 |
| H6 |
C2' |
C1' |
N9 |
352.4 |
37.3 |
| H6 |
C2' |
C1' |
H8 |
112.3 |
160.3 |
| H7 |
O2' |
C2' |
C1' |
59.6 |
185.9 |
| H7 |
O2' |
C2' |
H6 |
300.2 |
62.1 |
| O4' |
C1' |
H8 |
C2' |
243.3 |
245.9 |
| C2' |
C1' |
H8 |
N9 |
236.6 |
237.1 |
| H8 |
C1' |
C2' |
H6 |
112.3 |
160.3 |
| O4' |
C1' |
H8 |
N9 |
119.8 |
123.0 |
| H8 |
C1' |
N9 |
C4 |
298.5 |
326.6 |
| H8 |
C1' |
N9 |
C8 |
103.0 |
146.5 |
| H9 |
O1A |
PA |
O3A |
125.7 |
300.0 |
| H10 |
C2 |
N1 |
C6 |
179.9 |
180.0 |
| H11 |
O2B |
PB |
O3B |
119.7 |
300.0 |
| C6 |
N6 |
H12 |
H13 |
120.0 |
180.0 |
| C6 |
N6 |
H13 |
H12 |
240.0 |
180.0 |