PDB Chemical Component EDP
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 EDP
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C6 |
C1 |
1.499 |
1.518 |
| C2 |
C1 |
1.507 |
1.517 |
| C1 |
C14 |
1.536 |
1.530 |
| C1 |
C12 |
1.525 |
1.530 |
| N3 |
C2 |
1.339 |
1.350 |
| C2 |
O8 |
1.249 |
1.213 |
| C4 |
N3 |
1.337 |
1.338 |
| N3 |
HN3 |
1.000 |
0.970 |
| S9 |
C4 |
1.596 |
1.712 |
| C4 |
N5 |
1.335 |
1.338 |
| N5 |
C6 |
1.336 |
1.345 |
| N5 |
HN5 |
1.000 |
0.971 |
| C6 |
O7 |
1.251 |
1.213 |
| C12 |
C13 |
1.515 |
1.530 |
| C12 |
H12 |
1.100 |
1.090 |
| C12 |
H12A |
1.100 |
1.090 |
| C13 |
H13 |
1.100 |
1.090 |
| C13 |
H13A |
1.100 |
1.090 |
| C13 |
H13B |
1.101 |
1.090 |
| C15 |
C14 |
1.527 |
1.529 |
| C14 |
C16 |
1.527 |
1.530 |
| C14 |
H14 |
1.100 |
1.090 |
| C15 |
H15 |
1.100 |
1.090 |
| C15 |
H15A |
1.100 |
1.090 |
| C15 |
H15B |
1.100 |
1.090 |
| C16 |
C17 |
1.525 |
1.531 |
| C16 |
H16 |
1.100 |
1.090 |
| C16 |
H16A |
1.100 |
1.090 |
| C18 |
C17 |
1.516 |
1.529 |
| C17 |
H17 |
1.100 |
1.090 |
| C17 |
H17A |
1.100 |
1.090 |
| C18 |
H18 |
1.100 |
1.090 |
| C18 |
H18A |
1.100 |
1.090 |
| C18 |
H18B |
1.100 |
1.090 |
Bond Angles for EDP
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C6 |
C1 |
C14 |
107.3 |
108.1 |
| C6 |
C1 |
C12 |
107.2 |
108.1 |
| C2 |
C1 |
C14 |
110.5 |
108.2 |
| C2 |
C1 |
C12 |
110.2 |
108.2 |
| C12 |
C1 |
C14 |
111.3 |
108.0 |
| C1 |
C14 |
C16 |
113.4 |
109.4 |
| C1 |
C14 |
H14 |
105.6 |
109.5 |
| C1 |
C12 |
C13 |
112.3 |
109.5 |
| C1 |
C12 |
H12 |
108.6 |
109.4 |
| C1 |
C12 |
H12A |
108.6 |
109.5 |
| N3 |
C2 |
O8 |
117.9 |
121.2 |
| C4 |
N3 |
HN3 |
118.8 |
119.0 |
| C4 |
N5 |
C6 |
122.4 |
121.9 |
| C4 |
N5 |
HN5 |
118.8 |
119.0 |
| C6 |
N5 |
HN5 |
118.8 |
119.1 |
| N5 |
C6 |
O7 |
119.1 |
121.2 |
| C13 |
C12 |
H12 |
108.5 |
109.5 |
| C13 |
C12 |
H12A |
108.5 |
109.5 |
| C12 |
C13 |
H13 |
109.5 |
109.5 |
| C12 |
C13 |
H13A |
109.5 |
109.5 |
| C12 |
C13 |
H13B |
109.5 |
109.4 |
| H12 |
C12 |
H12A |
110.3 |
109.5 |
| H13 |
C13 |
H13A |
109.4 |
109.5 |
| H13 |
C13 |
H13B |
109.5 |
109.5 |
| H13A |
C13 |
H13B |
109.5 |
109.4 |
| C15 |
C14 |
C16 |
110.7 |
109.5 |
| C15 |
C14 |
H14 |
108.6 |
109.5 |
| C16 |
C14 |
H14 |
106.6 |
109.4 |
| C14 |
C16 |
C17 |
112.6 |
109.5 |
| C14 |
C16 |
H16 |
108.4 |
109.5 |
| C14 |
C16 |
H16A |
108.4 |
109.5 |
| H15 |
C15 |
H15A |
109.4 |
109.5 |
| H15 |
C15 |
H15B |
109.5 |
109.4 |
| H15A |
C15 |
H15B |
109.5 |
109.4 |
| C17 |
C16 |
H16 |
108.5 |
109.5 |
| C17 |
C16 |
H16A |
108.4 |
109.4 |
| C16 |
C17 |
H17 |
108.9 |
109.5 |
| C16 |
C17 |
H17A |
108.9 |
109.4 |
| H16 |
C16 |
H16A |
110.4 |
109.4 |
| C18 |
C17 |
H17 |
108.9 |
109.5 |
| C18 |
C17 |
H17A |
108.9 |
109.5 |
| H17 |
C17 |
H17A |
110.0 |
109.5 |
| H18 |
C18 |
H18A |
109.4 |
109.5 |
| H18 |
C18 |
H18B |
109.5 |
109.4 |
| H18A |
C18 |
H18B |
109.5 |
109.5 |
Torsion Angles for EDP
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
C1 |
C6 |
C14 |
239.6 |
238.4 |
| C2 |
C1 |
C6 |
C12 |
120.0 |
121.6 |
| C12 |
C1 |
C6 |
C14 |
119.6 |
116.7 |
| C6 |
C1 |
C14 |
C16 |
208.4 |
170.9 |
| C6 |
C1 |
C14 |
H14 |
92.1 |
51.0 |
| C6 |
C1 |
C12 |
C13 |
239.2 |
63.2 |
| C6 |
C1 |
C12 |
H12 |
359.2 |
183.2 |
| C6 |
C1 |
C12 |
H12A |
119.2 |
303.2 |
| C6 |
C1 |
C2 |
C14 |
118.5 |
121.6 |
| C6 |
C1 |
C2 |
C12 |
241.9 |
238.4 |
| C12 |
C1 |
C2 |
C14 |
236.6 |
243.2 |
| C2 |
C1 |
C14 |
C16 |
328.7 |
297.2 |
| C2 |
C1 |
C14 |
H14 |
212.3 |
177.3 |
| C2 |
C1 |
C12 |
C13 |
119.2 |
296.8 |
| C2 |
C1 |
C12 |
H12 |
239.2 |
56.9 |
| C2 |
C1 |
C12 |
H12A |
359.2 |
176.8 |
| C6 |
C1 |
C14 |
C12 |
116.9 |
116.8 |
| C2 |
C1 |
C14 |
C12 |
237.2 |
243.1 |
| C14 |
C1 |
C12 |
C13 |
356.2 |
180.0 |
| C14 |
C1 |
C12 |
H12 |
116.2 |
300.0 |
| C14 |
C1 |
C12 |
H12A |
236.2 |
59.9 |
| C15 |
C14 |
C1 |
C16 |
125.8 |
120.0 |
| C15 |
C14 |
C1 |
H14 |
242.2 |
239.9 |
| C16 |
C14 |
C1 |
H14 |
116.3 |
119.9 |
| C1 |
C14 |
C16 |
C17 |
172.4 |
185.0 |
| C1 |
C14 |
C16 |
H16 |
292.4 |
305.0 |
| C1 |
C14 |
C16 |
H16A |
52.4 |
65.0 |
| C6 |
C1 |
C12 |
C14 |
243.0 |
243.2 |
| C2 |
C1 |
C12 |
C14 |
123.0 |
116.9 |
| C12 |
C1 |
C14 |
C16 |
91.5 |
54.1 |
| C12 |
C1 |
C14 |
H14 |
335.1 |
294.2 |
| C13 |
C12 |
C1 |
H12 |
240.0 |
240.0 |
| C13 |
C12 |
C1 |
H12A |
120.0 |
120.0 |
| C1 |
C12 |
C13 |
H13 |
180.0 |
299.9 |
| C1 |
C12 |
C13 |
H13A |
300.0 |
60.0 |
| C1 |
C12 |
C13 |
H13B |
60.0 |
180.0 |
| H12 |
C12 |
C1 |
H12A |
240.0 |
240.0 |
| N3 |
C2 |
C1 |
C14 |
242.4 |
238.3 |
| N3 |
C2 |
C1 |
C12 |
119.0 |
121.5 |
| O8 |
C2 |
C1 |
C14 |
62.3 |
58.3 |
| O8 |
C2 |
C1 |
C12 |
298.9 |
301.5 |
| C4 |
N3 |
C2 |
O8 |
179.7 |
180.0 |
| HN3 |
N3 |
C2 |
O8 |
359.7 |
360.0 |
| S9 |
C4 |
N3 |
HN3 |
0.1 |
360.0 |
| S9 |
C4 |
N5 |
HN5 |
359.7 |
359.9 |
| N5 |
C4 |
N3 |
HN3 |
180.1 |
180.0 |
| C6 |
N5 |
C4 |
HN5 |
180.0 |
180.2 |
| C4 |
N5 |
C6 |
O7 |
179.9 |
180.0 |
| N5 |
C6 |
C1 |
C14 |
119.3 |
121.8 |
| N5 |
C6 |
C1 |
C12 |
238.9 |
238.5 |
| C4 |
N5 |
C6 |
HN5 |
180.0 |
179.8 |
| C4 |
N5 |
HN5 |
C6 |
180.0 |
180.2 |
| HN5 |
N5 |
C6 |
O7 |
359.9 |
0.2 |
| O7 |
C6 |
C1 |
C14 |
300.3 |
301.6 |
| O7 |
C6 |
C1 |
C12 |
59.9 |
58.3 |
| O7 |
C6 |
N5 |
HN5 |
359.9 |
0.2 |
| C13 |
C12 |
C1 |
C14 |
356.2 |
180.0 |
| C1 |
C12 |
C13 |
H12 |
120.0 |
120.0 |
| C1 |
C12 |
C13 |
H12A |
240.0 |
240.0 |
| H12 |
C12 |
C13 |
H12A |
120.0 |
120.0 |
| H13 |
C13 |
C12 |
H13A |
240.0 |
239.9 |
| H13 |
C13 |
C12 |
H13B |
120.0 |
120.0 |
| H13A |
C13 |
C12 |
H13B |
240.0 |
240.1 |
| H12 |
C12 |
C1 |
C14 |
116.2 |
300.0 |
| C1 |
C12 |
H12 |
C13 |
237.7 |
240.0 |
| C1 |
C12 |
H12 |
H12A |
118.9 |
120.0 |
| C13 |
C12 |
H12 |
H12A |
241.2 |
240.0 |
| H12 |
C12 |
C13 |
H13 |
60.0 |
180.0 |
| H12 |
C12 |
C13 |
H13A |
180.0 |
300.1 |
| H12 |
C12 |
C13 |
H13B |
300.0 |
60.0 |
| H12A |
C12 |
C1 |
C14 |
236.2 |
59.9 |
| C1 |
C12 |
H12A |
C13 |
122.3 |
120.0 |
| C1 |
C12 |
H12A |
H12 |
241.1 |
240.1 |
| C13 |
C12 |
H12A |
H12 |
118.8 |
120.1 |
| H12A |
C12 |
C13 |
H13 |
300.0 |
60.0 |
| H12A |
C12 |
C13 |
H13A |
60.0 |
180.0 |
| H12A |
C12 |
C13 |
H13B |
180.0 |
300.0 |
| H13 |
C13 |
C12 |
H12 |
60.0 |
180.0 |
| H13 |
C13 |
C12 |
H12A |
300.0 |
60.0 |
| C12 |
C13 |
H13 |
H13A |
120.0 |
120.1 |
| C12 |
C13 |
H13 |
H13B |
240.0 |
240.1 |
| H13A |
C13 |
H13 |
H13B |
120.0 |
120.0 |
| H13A |
C13 |
C12 |
H12 |
180.0 |
300.1 |
| H13A |
C13 |
C12 |
H12A |
60.0 |
180.0 |
| C12 |
C13 |
H13A |
H13 |
240.0 |
239.9 |
| C12 |
C13 |
H13A |
H13B |
120.0 |
119.9 |
| H13 |
C13 |
H13A |
H13B |
240.0 |
240.0 |
| H13B |
C13 |
C12 |
H12 |
300.0 |
60.0 |
| H13B |
C13 |
C12 |
H12A |
180.0 |
300.0 |
| C12 |
C13 |
H13B |
H13 |
120.0 |
120.0 |
| C12 |
C13 |
H13B |
H13A |
240.0 |
240.0 |
| H13 |
C13 |
H13B |
H13A |
120.0 |
120.0 |
| C1 |
C14 |
C15 |
C16 |
232.7 |
240.0 |
| C1 |
C14 |
C15 |
H14 |
116.0 |
120.1 |
| C16 |
C14 |
C15 |
H14 |
243.3 |
240.0 |
| C15 |
C14 |
C16 |
C17 |
46.1 |
65.0 |
| C15 |
C14 |
C16 |
H16 |
166.1 |
185.0 |
| C15 |
C14 |
C16 |
H16A |
286.1 |
305.0 |
| C1 |
C14 |
C16 |
H14 |
244.3 |
240.0 |
| C15 |
C14 |
C16 |
H14 |
118.0 |
120.0 |
| C17 |
C16 |
C14 |
H16 |
240.0 |
239.9 |
| C17 |
C16 |
C14 |
H16A |
120.0 |
120.0 |
| C14 |
C16 |
C17 |
H17 |
10.6 |
300.1 |
| C14 |
C16 |
C17 |
H17A |
130.5 |
60.0 |
| H16 |
C16 |
C14 |
H16A |
240.0 |
240.0 |
| C1 |
C14 |
H14 |
C16 |
120.9 |
119.9 |
| C15 |
C14 |
H14 |
C16 |
240.7 |
240.0 |
| H14 |
C14 |
C16 |
C17 |
288.1 |
305.0 |
| H14 |
C14 |
C16 |
H16 |
48.2 |
65.0 |
| H14 |
C14 |
C16 |
H16A |
168.1 |
185.0 |
| H15 |
C15 |
C14 |
C16 |
307.3 |
64.6 |
| H15 |
C15 |
C14 |
H14 |
64.0 |
184.5 |
| H15A |
C15 |
H15 |
H15B |
120.0 |
119.9 |
| H15A |
C15 |
C14 |
C16 |
67.3 |
184.6 |
| H15A |
C15 |
C14 |
H14 |
184.0 |
304.5 |
| H15 |
C15 |
H15A |
H15B |
240.0 |
240.1 |
| H15B |
C15 |
C14 |
C16 |
187.3 |
304.6 |
| H15B |
C15 |
C14 |
H14 |
304.0 |
64.5 |
| H15 |
C15 |
H15B |
H15A |
120.0 |
119.9 |
| C17 |
C16 |
C14 |
H14 |
288.1 |
305.0 |
| C14 |
C16 |
C17 |
H16 |
120.0 |
120.1 |
| C14 |
C16 |
C17 |
H16A |
240.0 |
240.0 |
| H16 |
C16 |
C17 |
H16A |
120.0 |
119.9 |
| C18 |
C17 |
C16 |
H17 |
240.0 |
240.0 |
| C18 |
C17 |
C16 |
H17A |
120.0 |
120.0 |
| H17 |
C17 |
C16 |
H17A |
240.0 |
240.0 |
| H16 |
C16 |
C14 |
H14 |
48.2 |
65.0 |
| C14 |
C16 |
H16 |
C17 |
237.4 |
239.9 |
| C14 |
C16 |
H16 |
H16A |
118.7 |
120.0 |
| C17 |
C16 |
H16 |
H16A |
241.3 |
240.1 |
| H16 |
C16 |
C17 |
H17 |
250.6 |
180.0 |
| H16 |
C16 |
C17 |
H17A |
10.5 |
299.9 |
| H16A |
C16 |
C14 |
H14 |
168.1 |
185.0 |
| C14 |
C16 |
H16A |
C17 |
122.6 |
120.0 |
| C14 |
C16 |
H16A |
H16 |
241.3 |
240.0 |
| C17 |
C16 |
H16A |
H16 |
118.7 |
119.9 |
| H16A |
C16 |
C17 |
H17 |
130.6 |
60.1 |
| H16A |
C16 |
C17 |
H17A |
250.6 |
180.0 |
| C18 |
C17 |
C16 |
H16 |
130.5 |
59.9 |
| C18 |
C17 |
C16 |
H16A |
10.6 |
300.0 |
| C16 |
C17 |
C18 |
H17 |
120.0 |
120.0 |
| C16 |
C17 |
C18 |
H17A |
240.0 |
240.0 |
| H17 |
C17 |
C18 |
H17A |
120.0 |
120.0 |
| H17 |
C17 |
C16 |
H16 |
250.6 |
180.0 |
| H17 |
C17 |
C16 |
H16A |
130.6 |
60.1 |
| C16 |
C17 |
H17 |
H17A |
119.2 |
119.9 |
| C18 |
C17 |
H17 |
H17A |
240.7 |
239.9 |
| H17A |
C17 |
C16 |
H16 |
10.5 |
299.9 |
| H17A |
C17 |
C16 |
H16A |
250.6 |
180.0 |
| C16 |
C17 |
H17A |
H17 |
240.8 |
240.1 |
| C18 |
C17 |
H17A |
H17 |
119.3 |
120.1 |
| H18 |
C18 |
C17 |
H17 |
60.0 |
300.0 |
| H18 |
C18 |
C17 |
H17A |
300.0 |
180.0 |
| H18A |
C18 |
H18 |
H18B |
120.0 |
119.9 |
| H18A |
C18 |
C17 |
H17 |
180.0 |
60.0 |
| H18A |
C18 |
C17 |
H17A |
60.0 |
300.0 |
| H18 |
C18 |
H18A |
H18B |
240.0 |
240.1 |
| H18B |
C18 |
C17 |
H17 |
300.0 |
180.0 |
| H18B |
C18 |
C17 |
H17A |
180.0 |
60.0 |
| H18 |
C18 |
H18B |
H18A |
120.0 |
119.9 |