PDB Chemical Component 4D9
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 4D9
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C6 |
C1 |
1.391 |
1.387 |
| C2 |
C1 |
1.389 |
1.380 |
| C1 |
H1 |
1.080 |
1.080 |
| C3 |
C2 |
1.398 |
1.387 |
| C2 |
H2 |
1.081 |
1.080 |
| C4 |
C3 |
1.399 |
1.366 |
| C3 |
H3 |
1.080 |
1.080 |
| C4 |
C7 |
1.380 |
1.398 |
| C4 |
H4 |
1.080 |
1.080 |
| C9 |
N5 |
1.343 |
1.360 |
| N5 |
C6 |
1.333 |
1.380 |
| C7 |
C6 |
1.479 |
1.406 |
| N8 |
C7 |
1.329 |
1.358 |
| N8 |
C9 |
1.360 |
1.301 |
| C10 |
C9 |
1.516 |
1.507 |
| C11 |
C10 |
1.543 |
1.531 |
| C10 |
H10 |
1.100 |
1.090 |
| C10 |
H10A |
1.100 |
1.091 |
| N13 |
C11 |
1.466 |
1.465 |
| C12 |
C11 |
1.516 |
1.507 |
| C11 |
H11 |
1.100 |
1.089 |
| O14 |
C12 |
1.266 |
1.208 |
| C12 |
O15 |
1.261 |
1.342 |
| C16 |
N13 |
1.349 |
1.347 |
| N13 |
HN13 |
1.000 |
0.970 |
| O15 |
HO15 |
0.950 |
0.967 |
| C17 |
C16 |
1.500 |
1.471 |
| C16 |
O18 |
1.225 |
1.217 |
| C19 |
C17 |
1.411 |
1.337 |
| S20 |
C17 |
1.771 |
1.755 |
| C22 |
C19 |
1.445 |
1.405 |
| C19 |
H19 |
1.080 |
1.080 |
| C21 |
S20 |
1.696 |
1.759 |
| C26 |
C21 |
1.399 |
1.398 |
| C22 |
C21 |
1.494 |
1.401 |
| C23 |
C22 |
1.401 |
1.415 |
| C24 |
C23 |
1.399 |
1.360 |
| C23 |
H23 |
1.080 |
1.079 |
| C24 |
C25 |
1.417 |
1.389 |
| C24 |
H24 |
1.081 |
1.080 |
| C25 |
C26 |
1.406 |
1.375 |
| C25 |
H25 |
1.080 |
1.080 |
| C26 |
H26 |
1.080 |
1.080 |
| N5 |
HN5 |
1.000 |
0.970 |
Bond Angles for 4D9
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C6 |
C1 |
H1 |
120.1 |
120.1 |
| C2 |
C1 |
H1 |
120.1 |
120.1 |
| C3 |
C2 |
H2 |
120.2 |
119.8 |
| C4 |
C3 |
H3 |
118.4 |
119.7 |
| C7 |
C4 |
H4 |
121.1 |
120.0 |
| C4 |
C7 |
C6 |
119.9 |
119.5 |
| C9 |
N5 |
HN5 |
125.7 |
126.4 |
| C6 |
N5 |
HN5 |
125.7 |
126.3 |
| C11 |
C10 |
H10 |
107.8 |
109.5 |
| C11 |
C10 |
H10A |
107.8 |
109.5 |
| H10 |
C10 |
H10A |
111.1 |
109.4 |
| N13 |
C11 |
H11 |
102.0 |
109.5 |
| C12 |
C11 |
H11 |
114.0 |
109.5 |
| O14 |
C12 |
O15 |
122.9 |
119.9 |
| C12 |
O15 |
HO15 |
109.5 |
117.1 |
| C16 |
N13 |
HN13 |
114.7 |
120.0 |
| C17 |
C16 |
O18 |
119.4 |
120.0 |
| C22 |
C19 |
H19 |
125.1 |
122.2 |
| C24 |
C23 |
H23 |
121.0 |
119.8 |
| C25 |
C24 |
H24 |
119.0 |
119.6 |
| C24 |
C25 |
C26 |
122.4 |
120.2 |
| C24 |
C25 |
H25 |
118.8 |
119.9 |
| C26 |
C25 |
H25 |
118.8 |
119.9 |
| C25 |
C26 |
H26 |
121.7 |
119.9 |
Torsion Angles for 4D9
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
C1 |
C6 |
H1 |
180.0 |
179.7 |
| C6 |
C1 |
C2 |
H1 |
180.0 |
180.3 |
| C3 |
C2 |
C1 |
H1 |
179.5 |
180.0 |
| H2 |
C2 |
C1 |
H1 |
359.4 |
359.9 |
| C4 |
C3 |
C2 |
H2 |
180.7 |
180.0 |
| H3 |
C3 |
C2 |
H2 |
0.7 |
0.1 |
| C7 |
C4 |
C3 |
H3 |
179.7 |
180.0 |
| H4 |
C4 |
C3 |
H3 |
359.7 |
359.9 |
| H4 |
C4 |
C7 |
C6 |
179.9 |
179.8 |
| C6 |
N5 |
C9 |
HN5 |
180.0 |
180.7 |
| N5 |
C6 |
C1 |
H1 |
0.0 |
0.0 |
| C4 |
C7 |
C6 |
N5 |
180.3 |
180.4 |
| C9 |
N5 |
C6 |
HN5 |
180.0 |
179.3 |
| C7 |
C6 |
C1 |
H1 |
180.1 |
179.7 |
| C6 |
C7 |
C4 |
H4 |
179.9 |
179.8 |
| C7 |
C6 |
N5 |
HN5 |
180.0 |
180.3 |
| N8 |
C7 |
C4 |
H4 |
0.4 |
0.1 |
| N8 |
C9 |
N5 |
HN5 |
180.1 |
179.9 |
| C10 |
C9 |
N5 |
HN5 |
0.7 |
359.3 |
| H10 |
C10 |
C11 |
H10A |
120.0 |
119.9 |
| C11 |
C10 |
H10 |
H10A |
242.1 |
240.0 |
| C11 |
C10 |
H10A |
H10 |
117.9 |
120.0 |
| N13 |
C11 |
C10 |
H10 |
292.0 |
305.0 |
| N13 |
C11 |
C10 |
H10A |
172.0 |
185.0 |
| C12 |
C11 |
N13 |
H11 |
121.2 |
120.0 |
| C12 |
C11 |
C10 |
H10 |
58.3 |
65.0 |
| C12 |
C11 |
C10 |
H10A |
298.3 |
305.0 |
| N13 |
C11 |
C12 |
H11 |
246.3 |
239.9 |
| H11 |
C11 |
C10 |
H10 |
179.7 |
184.9 |
| H11 |
C11 |
C10 |
H10A |
59.7 |
65.0 |
| O14 |
C12 |
C11 |
H11 |
163.8 |
120.1 |
| O14 |
C12 |
O15 |
HO15 |
360.0 |
360.0 |
| O15 |
C12 |
C11 |
H11 |
343.4 |
300.1 |
| C16 |
N13 |
C11 |
H11 |
101.5 |
325.0 |
| HN13 |
N13 |
C11 |
H11 |
281.5 |
145.0 |
| C17 |
C16 |
N13 |
HN13 |
285.3 |
360.0 |
| O18 |
C16 |
N13 |
HN13 |
104.3 |
180.0 |
| C21 |
C22 |
C19 |
H19 |
180.3 |
179.9 |
| C23 |
C22 |
C19 |
H19 |
359.8 |
360.0 |
| C25 |
C24 |
C23 |
H23 |
179.6 |
180.1 |
| C26 |
C25 |
C24 |
H25 |
180.0 |
179.8 |
| C24 |
C25 |
C26 |
H26 |
180.8 |
180.0 |
| H24 |
C24 |
C23 |
H23 |
359.6 |
360.0 |
| H24 |
C24 |
C25 |
C26 |
179.9 |
179.8 |
| H24 |
C24 |
C25 |
H25 |
359.9 |
0.0 |
| C26 |
C25 |
C24 |
H24 |
179.9 |
179.8 |
| C24 |
C25 |
C26 |
H25 |
180.0 |
180.2 |
| H25 |
C25 |
C24 |
H24 |
359.9 |
0.0 |
| C24 |
C25 |
H25 |
C26 |
180.0 |
179.8 |
| H25 |
C25 |
C26 |
H26 |
0.8 |
359.8 |
| H26 |
C26 |
C25 |
H25 |
0.8 |
359.8 |