PDB Chemical Component D65
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 D65
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C10 |
C9 |
1.509 |
1.507 |
| N5 |
C9 |
1.368 |
1.317 |
| N5 |
C11 |
1.343 |
1.337 |
| C9 |
C8 |
1.429 |
1.393 |
| C11 |
N4 |
1.366 |
1.329 |
| C11 |
N2 |
1.338 |
1.367 |
| N4 |
C12 |
1.329 |
1.328 |
| C8 |
C7 |
1.416 |
1.382 |
| F2 |
C13 |
1.323 |
1.400 |
| N2 |
C7 |
1.358 |
1.365 |
| N2 |
N3 |
1.382 |
1.401 |
| C12 |
C13 |
1.469 |
1.506 |
| C12 |
N3 |
1.351 |
1.311 |
| C7 |
N1 |
1.367 |
1.378 |
| C13 |
C14 |
1.480 |
1.530 |
| C13 |
F1 |
1.335 |
1.400 |
| N1 |
C2 |
1.356 |
1.398 |
| C2 |
C1 |
1.405 |
1.389 |
| C2 |
C3 |
1.376 |
1.389 |
| C1 |
C6 |
1.379 |
1.382 |
| C3 |
C4 |
1.381 |
1.381 |
| F3 |
S1 |
1.573 |
1.610 |
| C6 |
C5 |
1.407 |
1.382 |
| C4 |
C5 |
1.387 |
1.383 |
| C5 |
S1 |
1.816 |
1.810 |
| F4 |
S1 |
1.573 |
1.609 |
| S1 |
F7 |
1.588 |
1.610 |
| S1 |
F5 |
1.569 |
1.610 |
| S1 |
F6 |
1.579 |
1.610 |
| C4 |
H1 |
1.079 |
1.080 |
| C3 |
H2 |
1.081 |
1.080 |
| C6 |
H3 |
1.080 |
1.081 |
| C1 |
H4 |
1.080 |
1.079 |
| N1 |
H5 |
1.000 |
0.970 |
| C8 |
H6 |
1.080 |
1.080 |
| C10 |
H7 |
1.100 |
1.090 |
| C10 |
H8 |
1.100 |
1.090 |
| C10 |
H9 |
1.100 |
1.090 |
| C14 |
H10 |
1.100 |
1.090 |
| C14 |
H11 |
1.100 |
1.090 |
| C14 |
H12 |
1.100 |
1.090 |
Bond Angles for D65
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| N5 |
C11 |
N4 |
128.7 |
132.4 |
| C9 |
C8 |
H6 |
121.4 |
120.5 |
| C11 |
N4 |
C12 |
103.0 |
109.7 |
| C11 |
N2 |
N3 |
111.0 |
106.4 |
| N4 |
C12 |
C13 |
121.9 |
125.2 |
| F2 |
C13 |
C14 |
116.0 |
109.5 |
| C12 |
C13 |
C14 |
104.5 |
109.5 |
| C12 |
C13 |
F1 |
112.8 |
109.5 |
| C7 |
N1 |
H5 |
117.8 |
120.0 |
| F1 |
C13 |
C14 |
107.2 |
109.4 |
| C13 |
C14 |
H10 |
109.5 |
109.5 |
| C13 |
C14 |
H11 |
109.5 |
109.4 |
| C13 |
C14 |
H12 |
109.5 |
109.4 |
| C2 |
C1 |
H4 |
120.7 |
120.1 |
| C2 |
C3 |
H2 |
118.9 |
120.0 |
| C1 |
C6 |
H3 |
120.1 |
120.0 |
| C3 |
C4 |
H1 |
121.3 |
120.0 |
| F3 |
S1 |
F6 |
179.3 |
180.0 |
| F4 |
S1 |
F5 |
89.4 |
90.0 |
| F4 |
S1 |
F6 |
91.2 |
90.0 |
| F5 |
S1 |
F6 |
91.8 |
90.0 |
| H7 |
C10 |
H8 |
109.4 |
109.5 |
| H7 |
C10 |
H9 |
109.5 |
109.5 |
| H8 |
C10 |
H9 |
109.4 |
109.5 |
| H10 |
C14 |
H11 |
109.4 |
109.5 |
| H10 |
C14 |
H12 |
109.5 |
109.5 |
| H11 |
C14 |
H12 |
109.5 |
109.5 |
Torsion Angles for D65
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C10 |
C9 |
C8 |
H6 |
359.7 |
0.1 |
| N5 |
C9 |
C8 |
H6 |
181.4 |
180.0 |
| N5 |
C11 |
N4 |
C12 |
179.9 |
179.9 |
| N5 |
C11 |
N2 |
N3 |
181.1 |
180.1 |
| N4 |
C11 |
N2 |
N3 |
0.4 |
360.0 |
| C11 |
N4 |
C12 |
C13 |
180.5 |
180.0 |
| N4 |
C12 |
C13 |
C14 |
306.4 |
0.0 |
| N4 |
C12 |
C13 |
F1 |
190.3 |
120.0 |
| C8 |
C7 |
N1 |
H5 |
198.3 |
302.0 |
| C12 |
C13 |
F2 |
C14 |
244.6 |
120.1 |
| F1 |
C13 |
F2 |
C14 |
122.2 |
240.1 |
| F2 |
C13 |
C14 |
H10 |
180.0 |
180.1 |
| F2 |
C13 |
C14 |
H11 |
300.0 |
300.1 |
| F2 |
C13 |
C14 |
H12 |
60.0 |
60.0 |
| N2 |
C7 |
N1 |
H5 |
16.2 |
121.8 |
| F2 |
C13 |
C12 |
C14 |
123.0 |
240.0 |
| F1 |
C13 |
C12 |
C14 |
243.8 |
120.0 |
| C12 |
C13 |
C14 |
H10 |
296.2 |
60.0 |
| C12 |
C13 |
C14 |
H11 |
56.2 |
180.0 |
| C12 |
C13 |
C14 |
H12 |
176.2 |
299.9 |
| C11 |
N4 |
C12 |
N3 |
358.3 |
360.0 |
| C12 |
C13 |
C14 |
F1 |
240.0 |
120.0 |
| H10 |
C14 |
C13 |
H11 |
240.0 |
240.0 |
| H10 |
C14 |
C13 |
H12 |
120.0 |
120.0 |
| H11 |
C14 |
C13 |
H12 |
240.0 |
240.0 |
| F2 |
C13 |
F1 |
C14 |
232.8 |
120.0 |
| C12 |
C13 |
F1 |
C14 |
114.5 |
240.0 |
| F1 |
C13 |
C14 |
H10 |
56.2 |
300.0 |
| F1 |
C13 |
C14 |
H11 |
176.2 |
60.0 |
| F1 |
C13 |
C14 |
H12 |
296.2 |
180.0 |
| N1 |
C2 |
C1 |
H4 |
1.8 |
0.0 |
| N1 |
C2 |
C3 |
H2 |
0.2 |
0.0 |
| C1 |
C2 |
C3 |
H2 |
178.7 |
179.7 |
| C2 |
C1 |
C6 |
H3 |
176.5 |
180.0 |
| C2 |
C3 |
C4 |
H1 |
179.2 |
180.0 |
| F4 |
S1 |
F3 |
F6 |
2.1 |
183.3 |
| F5 |
S1 |
F3 |
F6 |
91.5 |
273.3 |
| F3 |
S1 |
F4 |
F6 |
180.0 |
180.0 |
| F5 |
S1 |
F4 |
F6 |
91.8 |
90.0 |
| F3 |
S1 |
F5 |
F6 |
180.7 |
180.0 |
| F4 |
S1 |
F5 |
F6 |
268.8 |
270.0 |
| F4 |
S1 |
F6 |
F5 |
89.4 |
90.0 |
| H2 |
C3 |
C4 |
H1 |
359.2 |
360.0 |
| H4 |
C1 |
C6 |
H3 |
356.5 |
359.9 |
| H8 |
C10 |
H7 |
H9 |
120.0 |
120.1 |
| H7 |
C10 |
H8 |
H9 |
240.0 |
239.9 |
| H7 |
C10 |
H9 |
H8 |
120.0 |
120.1 |
| C13 |
C14 |
H10 |
H11 |
120.0 |
120.0 |
| C13 |
C14 |
H10 |
H12 |
240.0 |
240.0 |
| H11 |
C14 |
H10 |
H12 |
120.0 |
120.0 |
| C13 |
C14 |
H11 |
H10 |
240.0 |
240.0 |
| C13 |
C14 |
H11 |
H12 |
120.0 |
119.9 |
| H10 |
C14 |
H11 |
H12 |
240.0 |
239.9 |
| C13 |
C14 |
H12 |
H10 |
120.0 |
120.0 |
| C13 |
C14 |
H12 |
H11 |
240.0 |
240.1 |
| H10 |
C14 |
H12 |
H11 |
120.0 |
120.0 |