PDB Chemical Component 8CX
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 8CX
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C2 |
C1 |
1.526 |
1.530 |
| C1 |
O1 |
1.425 |
1.429 |
| C1 |
H1 |
1.100 |
1.090 |
| C1 |
H1A |
1.100 |
1.090 |
| O1 |
C3' |
1.433 |
1.429 |
| C2 |
N2 |
1.450 |
1.469 |
| C2 |
H2 |
1.100 |
1.090 |
| C2 |
H2A |
1.100 |
1.090 |
| C3 |
N2 |
1.434 |
1.469 |
| N2 |
HN2 |
1.000 |
1.009 |
| C3 |
C4 |
1.518 |
1.529 |
| C3 |
H3 |
1.100 |
1.090 |
| C3 |
H3A |
1.100 |
1.090 |
| C11 |
C4 |
1.471 |
1.507 |
| C4 |
F5 |
1.390 |
1.399 |
| C4 |
H4 |
1.100 |
1.090 |
| C2' |
N1' |
1.438 |
1.486 |
| C5' |
N1' |
1.460 |
1.485 |
| N1' |
HN1' |
1.000 |
1.009 |
| C12 |
C11 |
1.389 |
1.382 |
| C11 |
C16 |
1.401 |
1.382 |
| C13 |
C12 |
1.378 |
1.384 |
| C12 |
H12 |
1.080 |
1.080 |
| F13 |
C13 |
1.344 |
1.352 |
| C13 |
C14 |
1.396 |
1.385 |
| C14 |
C15 |
1.395 |
1.382 |
| C14 |
H14 |
1.080 |
1.080 |
| C15 |
C16 |
1.378 |
1.383 |
| C15 |
H15 |
1.080 |
1.080 |
| C16 |
H16 |
1.080 |
1.080 |
| N1A |
C2A |
1.358 |
1.319 |
| N1A |
C6A |
1.355 |
1.323 |
| C3' |
C2' |
1.532 |
1.543 |
| C2' |
H2' |
1.100 |
1.090 |
| C2' |
H2'A |
1.100 |
1.090 |
| C7A |
C2A |
1.513 |
1.507 |
| C2A |
C3A |
1.407 |
1.381 |
| C3' |
C4' |
1.522 |
1.542 |
| C3' |
H3' |
1.100 |
1.090 |
| C3A |
C4A |
1.395 |
1.389 |
| C3A |
H3AA |
1.080 |
1.080 |
| C7A |
C4' |
1.531 |
1.530 |
| C4' |
C5' |
1.524 |
1.544 |
| C4' |
H4' |
1.100 |
1.090 |
| C5A |
C4A |
1.428 |
1.384 |
| C4A |
C8A |
1.520 |
1.507 |
| C5' |
H5' |
1.100 |
1.091 |
| C5' |
H5'A |
1.100 |
1.091 |
| C6A |
C5A |
1.382 |
1.391 |
| C5A |
H5A |
1.080 |
1.080 |
| N6A |
C6A |
1.402 |
1.390 |
| N6A |
HN6A |
1.000 |
0.971 |
| N6A |
HN6B |
1.000 |
0.970 |
| C7A |
H7A |
1.099 |
1.090 |
| C7A |
H7AA |
1.100 |
1.090 |
| C8A |
H8A |
1.100 |
1.090 |
| C8A |
H8AA |
1.100 |
1.090 |
| C8A |
H8AB |
1.099 |
1.090 |
Bond Angles for 8CX
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
C1 |
H1 |
110.2 |
109.5 |
| C2 |
C1 |
H1A |
110.2 |
109.5 |
| O1 |
C1 |
H1 |
110.2 |
109.5 |
| O1 |
C1 |
H1A |
110.2 |
109.5 |
| C1 |
O1 |
C3' |
113.5 |
114.0 |
| H1 |
C1 |
H1A |
108.8 |
109.5 |
| O1 |
C3' |
C2' |
112.1 |
110.3 |
| O1 |
C3' |
C4' |
107.6 |
110.4 |
| O1 |
C3' |
H3' |
107.7 |
110.2 |
| N2 |
C2 |
H2 |
109.1 |
109.5 |
| N2 |
C2 |
H2A |
109.0 |
109.5 |
| C2 |
N2 |
HN2 |
106.9 |
111.0 |
| H2 |
C2 |
H2A |
109.9 |
109.4 |
| C3 |
N2 |
HN2 |
106.9 |
111.0 |
| C4 |
C3 |
H3 |
109.2 |
109.5 |
| C4 |
C3 |
H3A |
109.2 |
109.5 |
| C3 |
C4 |
F5 |
114.2 |
109.5 |
| C3 |
C4 |
H4 |
105.8 |
109.5 |
| H3 |
C3 |
H3A |
109.7 |
109.5 |
| C11 |
C4 |
H4 |
112.7 |
109.4 |
| F5 |
C4 |
H4 |
107.4 |
109.5 |
| C2' |
N1' |
HN1' |
107.9 |
111.0 |
| C5' |
N1' |
HN1' |
107.9 |
111.0 |
| C12 |
C11 |
C16 |
121.8 |
120.0 |
| C11 |
C16 |
C15 |
119.4 |
120.1 |
| C11 |
C16 |
H16 |
120.3 |
120.0 |
| C13 |
C12 |
H12 |
120.7 |
120.0 |
| F13 |
C13 |
C14 |
122.3 |
120.0 |
| C13 |
C14 |
C15 |
121.6 |
120.0 |
| C13 |
C14 |
H14 |
119.2 |
120.0 |
| C15 |
C14 |
H14 |
119.2 |
120.0 |
| C14 |
C15 |
C16 |
118.7 |
120.0 |
| C14 |
C15 |
H15 |
120.6 |
120.0 |
| C16 |
C15 |
H15 |
120.6 |
120.0 |
| C15 |
C16 |
H16 |
120.3 |
120.0 |
| C2A |
N1A |
C6A |
122.5 |
121.7 |
| N1A |
C2A |
C3A |
122.8 |
120.9 |
| N1A |
C6A |
C5A |
116.8 |
120.6 |
| C3' |
C2' |
H2' |
111.1 |
110.5 |
| C3' |
C2' |
H2'A |
111.2 |
110.6 |
| H2' |
C2' |
H2'A |
107.7 |
110.3 |
| C2A |
C3A |
C4A |
116.2 |
119.3 |
| C2A |
C3A |
H3AA |
121.9 |
120.3 |
| C4' |
C3' |
H3' |
114.2 |
110.4 |
| C3' |
C4' |
C5' |
105.9 |
105.0 |
| C3' |
C4' |
H4' |
111.6 |
110.4 |
| C4A |
C3A |
H3AA |
121.9 |
120.4 |
| C3A |
C4A |
C8A |
118.1 |
120.7 |
| C7A |
C4' |
H4' |
101.8 |
110.3 |
| C5' |
C4' |
H4' |
109.5 |
110.3 |
| C4' |
C5' |
H5' |
111.4 |
110.4 |
| C4' |
C5' |
H5'A |
111.4 |
110.4 |
| C5A |
C4A |
C8A |
122.8 |
120.8 |
| C4A |
C8A |
H8A |
109.5 |
109.5 |
| C4A |
C8A |
H8AA |
109.5 |
109.4 |
| C4A |
C8A |
H8AB |
109.5 |
109.5 |
| H5' |
C5' |
H5'A |
107.4 |
110.4 |
| C6A |
C5A |
H5A |
118.8 |
120.5 |
| HN6A |
N6A |
HN6B |
109.4 |
120.0 |
| H7A |
C7A |
H7AA |
109.7 |
109.5 |
| H8A |
C8A |
H8AA |
109.4 |
109.5 |
| H8A |
C8A |
H8AB |
109.5 |
109.5 |
| H8AA |
C8A |
H8AB |
109.5 |
109.5 |
Torsion Angles for 8CX
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O1 |
C1 |
C2 |
H1 |
240.0 |
120.0 |
| O1 |
C1 |
C2 |
H1A |
120.0 |
240.0 |
| C2 |
C1 |
O1 |
C3' |
188.1 |
180.0 |
| H1 |
C1 |
C2 |
H1A |
240.0 |
120.0 |
| C2 |
C1 |
O1 |
H1 |
120.0 |
240.0 |
| C2 |
C1 |
O1 |
H1A |
240.0 |
120.0 |
| H1 |
C1 |
O1 |
H1A |
120.0 |
240.0 |
| C1 |
O1 |
C3' |
C2' |
56.7 |
91.4 |
| C1 |
O1 |
C3' |
C4' |
172.0 |
207.1 |
| C1 |
O1 |
C3' |
H3' |
295.7 |
329.3 |
| C2 |
C1 |
H1 |
H1A |
120.9 |
240.0 |
| O1 |
C1 |
H1 |
H1A |
239.1 |
120.0 |
| H1 |
C1 |
O1 |
C3' |
68.2 |
300.0 |
| C2 |
C1 |
H1A |
H1 |
239.1 |
120.0 |
| O1 |
C1 |
H1A |
H1 |
120.9 |
240.0 |
| H1A |
C1 |
O1 |
C3' |
308.1 |
60.0 |
| C3' |
O1 |
C1 |
H1 |
68.2 |
300.0 |
| C3' |
O1 |
C1 |
H1A |
308.1 |
60.0 |
| O1 |
C3' |
C2' |
H2' |
336.8 |
24.0 |
| O1 |
C3' |
C2' |
H2'A |
216.8 |
261.6 |
| C4' |
C3' |
O1 |
H3' |
236.4 |
237.8 |
| O1 |
C3' |
C4' |
C5' |
265.8 |
241.1 |
| O1 |
C3' |
C4' |
H4' |
146.7 |
122.2 |
| N2 |
C2 |
C1 |
H1 |
210.1 |
305.0 |
| N2 |
C2 |
C1 |
H1A |
330.1 |
185.0 |
| H2 |
C2 |
N2 |
H2A |
120.0 |
120.0 |
| C3 |
N2 |
C2 |
HN2 |
240.0 |
236.0 |
| H2 |
C2 |
C1 |
H1 |
330.1 |
65.0 |
| H2 |
C2 |
C1 |
H1A |
90.1 |
305.0 |
| N2 |
C2 |
H2 |
H2A |
240.6 |
240.0 |
| H2 |
C2 |
N2 |
HN2 |
142.9 |
184.0 |
| H2A |
C2 |
C1 |
H1 |
90.1 |
185.0 |
| H2A |
C2 |
C1 |
H1A |
210.1 |
65.0 |
| N2 |
C2 |
H2A |
H2 |
119.5 |
120.0 |
| H2A |
C2 |
N2 |
HN2 |
22.9 |
64.0 |
| C3 |
N2 |
C2 |
H2 |
22.9 |
60.0 |
| C3 |
N2 |
C2 |
H2A |
262.9 |
300.0 |
| C2 |
N2 |
C3 |
HN2 |
120.0 |
124.0 |
| HN2 |
N2 |
C2 |
H2 |
142.9 |
184.0 |
| HN2 |
N2 |
C2 |
H2A |
22.9 |
64.0 |
| C4 |
C3 |
N2 |
HN2 |
42.8 |
56.1 |
| H3 |
C3 |
C4 |
H3A |
120.0 |
120.0 |
| C11 |
C4 |
C3 |
H4 |
121.5 |
120.0 |
| F5 |
C4 |
C3 |
H4 |
242.0 |
240.0 |
| H3 |
C3 |
N2 |
HN2 |
162.8 |
176.1 |
| C4 |
C3 |
H3 |
H3A |
240.3 |
240.0 |
| H3 |
C3 |
C4 |
F5 |
183.1 |
180.0 |
| H3 |
C3 |
C4 |
H4 |
301.1 |
300.0 |
| H3A |
C3 |
N2 |
HN2 |
282.8 |
296.1 |
| C4 |
C3 |
H3A |
H3 |
119.7 |
120.0 |
| H3A |
C3 |
C4 |
F5 |
63.1 |
60.0 |
| H3A |
C3 |
C4 |
H4 |
181.0 |
180.0 |
| C11 |
C4 |
C3 |
H3 |
62.6 |
60.0 |
| C11 |
C4 |
C3 |
H3A |
302.6 |
300.0 |
| C3 |
C4 |
C11 |
H4 |
242.7 |
240.0 |
| F5 |
C4 |
C11 |
H4 |
118.2 |
120.0 |
| F5 |
C4 |
C3 |
H3 |
183.1 |
180.0 |
| F5 |
C4 |
C3 |
H3A |
63.1 |
60.0 |
| C3 |
C4 |
F5 |
H4 |
117.1 |
120.1 |
| C11 |
C4 |
F5 |
H4 |
238.4 |
240.1 |
| H4 |
C4 |
C3 |
H3 |
301.1 |
300.0 |
| H4 |
C4 |
C3 |
H3A |
181.0 |
180.0 |
| C3 |
C4 |
H4 |
F5 |
237.6 |
239.9 |
| O1 |
C3' |
C2' |
N1' |
96.8 |
142.8 |
| C5' |
N1' |
C2' |
HN1' |
240.0 |
240.5 |
| C2' |
N1' |
C5' |
HN1' |
120.0 |
119.5 |
| C12 |
C11 |
C4 |
H4 |
198.3 |
185.3 |
| C12 |
C11 |
C16 |
C15 |
0.1 |
359.5 |
| C12 |
C11 |
C16 |
H16 |
180.1 |
179.8 |
| C16 |
C11 |
C4 |
H4 |
16.9 |
5.0 |
| C14 |
C15 |
C16 |
C11 |
0.2 |
0.5 |
| C11 |
C16 |
C15 |
H15 |
180.2 |
180.3 |
| C15 |
C16 |
C11 |
H16 |
180.0 |
179.7 |
| C13 |
C12 |
C11 |
C16 |
359.8 |
0.2 |
| H12 |
C12 |
C11 |
C16 |
179.8 |
180.3 |
| F13 |
C13 |
C12 |
H12 |
359.4 |
360.0 |
| F13 |
C13 |
C14 |
C15 |
181.0 |
180.0 |
| F13 |
C13 |
C14 |
H14 |
0.9 |
360.0 |
| C14 |
C13 |
C12 |
H12 |
180.0 |
180.0 |
| C15 |
C14 |
C13 |
H14 |
180.0 |
180.0 |
| C13 |
C14 |
C15 |
C16 |
359.6 |
359.8 |
| C13 |
C14 |
C15 |
H15 |
179.6 |
180.0 |
| C11 |
C16 |
C15 |
C14 |
0.2 |
0.5 |
| C13 |
C14 |
C15 |
H14 |
180.0 |
180.0 |
| C16 |
C15 |
C14 |
H15 |
180.0 |
179.7 |
| C14 |
C15 |
C16 |
H16 |
180.2 |
180.2 |
| C13 |
C14 |
H14 |
C15 |
180.0 |
180.0 |
| H14 |
C14 |
C15 |
C16 |
179.6 |
179.8 |
| H14 |
C14 |
C15 |
H15 |
359.6 |
0.0 |
| C11 |
C16 |
C15 |
H16 |
180.0 |
180.3 |
| C16 |
C15 |
C14 |
H14 |
179.6 |
179.8 |
| C14 |
C15 |
C16 |
H15 |
180.0 |
180.3 |
| H15 |
C15 |
C14 |
H14 |
359.6 |
0.0 |
| C14 |
C15 |
H15 |
C16 |
180.0 |
179.7 |
| H15 |
C15 |
C16 |
H16 |
0.2 |
360.0 |
| C11 |
C16 |
H16 |
C15 |
180.0 |
179.7 |
| H16 |
C16 |
C15 |
H15 |
0.2 |
360.0 |
| C2A |
N1A |
C6A |
C5A |
0.8 |
360.0 |
| N1A |
C2A |
C3A |
C4A |
359.4 |
0.0 |
| N1A |
C2A |
C3A |
H3AA |
179.4 |
180.0 |
| C6A |
N1A |
C2A |
C3A |
0.3 |
0.0 |
| N1A |
C6A |
C5A |
H5A |
178.4 |
180.0 |
| O1 |
C3' |
C2' |
C4' |
116.8 |
118.9 |
| O1 |
C3' |
C2' |
H3' |
240.2 |
238.0 |
| C3' |
C2' |
N1' |
HN1' |
127.0 |
80.1 |
| H2' |
C2' |
C3' |
H2'A |
120.0 |
122.4 |
| H2' |
C2' |
N1' |
HN1' |
247.0 |
198.9 |
| C3' |
C2' |
H2' |
H2'A |
238.0 |
237.4 |
| H2'A |
C2' |
N1' |
HN1' |
7.0 |
321.1 |
| C3' |
C2' |
H2'A |
H2' |
122.0 |
122.5 |
| C7A |
C2A |
C3A |
H3AA |
359.1 |
360.0 |
| C3A |
C2A |
N1A |
C6A |
0.3 |
0.0 |
| C4A |
C3A |
C2A |
H3AA |
180.0 |
180.1 |
| C2A |
C3A |
C4A |
C8A |
179.6 |
180.0 |
| O1 |
C3' |
C4' |
C2' |
240.2 |
241.1 |
| O1 |
C3' |
C4' |
H3' |
119.6 |
122.1 |
| C4' |
C3' |
C2' |
H2' |
220.1 |
265.1 |
| C4' |
C3' |
C2' |
H2'A |
100.1 |
142.6 |
| C7A |
C4' |
C3' |
H4' |
245.9 |
237.8 |
| C5' |
C4' |
C3' |
H4' |
119.1 |
118.9 |
| C3' |
C4' |
C5' |
H5' |
219.0 |
217.3 |
| C3' |
C4' |
C5' |
H5'A |
99.1 |
94.9 |
| O1 |
C3' |
H3' |
C2' |
122.4 |
122.1 |
| O1 |
C3' |
H3' |
C4' |
240.5 |
237.8 |
| H3' |
C3' |
C2' |
H2' |
96.6 |
146.0 |
| H3' |
C3' |
C2' |
H2'A |
336.6 |
23.6 |
| H3' |
C3' |
C4' |
C5' |
146.2 |
119.0 |
| H3' |
C3' |
C4' |
H4' |
27.1 |
0.1 |
| C2A |
C3A |
C4A |
H3AA |
180.0 |
179.9 |
| C5A |
C4A |
C3A |
C8A |
180.2 |
179.9 |
| C3A |
C4A |
C8A |
H8A |
90.1 |
90.0 |
| C3A |
C4A |
C8A |
H8AA |
210.1 |
210.0 |
| C3A |
C4A |
C8A |
H8AB |
330.1 |
329.9 |
| C2A |
C3A |
H3AA |
C4A |
180.0 |
180.1 |
| H3AA |
C3A |
C4A |
C8A |
359.6 |
0.1 |
| C7A |
C4' |
C3' |
H3' |
273.1 |
237.9 |
| C3' |
C4' |
C7A |
H4' |
119.9 |
122.2 |
| C5' |
C4' |
C7A |
H4' |
241.7 |
237.8 |
| C7A |
C4' |
C5' |
H5' |
93.4 |
98.5 |
| C7A |
C4' |
C5' |
H5'A |
333.4 |
336.0 |
| C4' |
C5' |
N1' |
HN1' |
248.7 |
279.9 |
| C5' |
C4' |
C3' |
H3' |
146.2 |
119.0 |
| C3' |
C4' |
C5' |
H4' |
239.5 |
241.1 |
| C7A |
C4' |
C5' |
H4' |
113.9 |
122.2 |
| H5' |
C5' |
C4' |
H5'A |
120.0 |
122.4 |
| H4' |
C4' |
C3' |
H3' |
27.1 |
0.1 |
| C3' |
C4' |
H4' |
C5' |
117.0 |
115.6 |
| H4' |
C4' |
C5' |
H5' |
339.5 |
336.3 |
| H4' |
C4' |
C5' |
H5'A |
219.6 |
213.9 |
| N1A |
C6A |
C5A |
C4A |
358.4 |
0.0 |
| C5A |
C4A |
C3A |
H3AA |
179.8 |
180.0 |
| C3A |
C4A |
C5A |
C8A |
179.8 |
180.1 |
| C5A |
C4A |
C8A |
H8A |
269.9 |
270.1 |
| C5A |
C4A |
C8A |
H8AA |
29.9 |
30.0 |
| C5A |
C4A |
C8A |
H8AB |
149.9 |
150.0 |
| C8A |
C4A |
C3A |
H3AA |
359.6 |
0.1 |
| H8A |
C8A |
C4A |
H8AA |
240.0 |
240.0 |
| H8A |
C8A |
C4A |
H8AB |
120.0 |
120.1 |
| H8AA |
C8A |
C4A |
H8AB |
240.0 |
240.0 |
| H5' |
C5' |
N1' |
HN1' |
8.7 |
38.7 |
| H5' |
C5' |
C4' |
H4' |
339.5 |
336.3 |
| C4' |
C5' |
H5' |
H5'A |
237.7 |
237.6 |
| H5'A |
C5' |
N1' |
HN1' |
128.7 |
161.1 |
| H5'A |
C5' |
C4' |
H4' |
219.6 |
213.9 |
| C4' |
C5' |
H5'A |
H5' |
122.3 |
122.4 |
| C6A |
C5A |
C4A |
C8A |
181.5 |
180.0 |
| H5A |
C5A |
C4A |
C8A |
1.5 |
0.0 |
| N6A |
C6A |
C5A |
H5A |
359.9 |
360.0 |
| H7A |
C7A |
C4' |
H4' |
300.4 |
292.8 |
| H7AA |
C7A |
C4' |
H4' |
180.4 |
172.8 |
| C4A |
C8A |
H8A |
H8AA |
120.0 |
119.9 |
| C4A |
C8A |
H8A |
H8AB |
240.0 |
240.0 |
| H8AA |
C8A |
H8A |
H8AB |
120.0 |
120.0 |
| C4A |
C8A |
H8AA |
H8A |
240.0 |
240.0 |
| C4A |
C8A |
H8AA |
H8AB |
120.0 |
120.0 |
| H8A |
C8A |
H8AA |
H8AB |
240.0 |
239.9 |
| C4A |
C8A |
H8AB |
H8A |
120.0 |
120.0 |
| C4A |
C8A |
H8AB |
H8AA |
240.0 |
240.1 |
| H8A |
C8A |
H8AB |
H8AA |
120.0 |
120.0 |