PDB Chemical Component O3Y
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 O3Y
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C26 |
C25 |
1.385 |
1.383 |
| C26 |
C27 |
1.387 |
1.384 |
| C25 |
C24 |
1.407 |
1.382 |
| C27 |
C28 |
1.388 |
1.379 |
| C24 |
CL29 |
1.689 |
1.735 |
| C24 |
C23 |
1.400 |
1.398 |
| O30 |
C13 |
1.330 |
1.355 |
| C17 |
C16 |
1.404 |
1.382 |
| C17 |
C18 |
1.399 |
1.382 |
| C28 |
C23 |
1.388 |
1.397 |
| C16 |
C15 |
1.404 |
1.389 |
| C18 |
C19 |
1.408 |
1.383 |
| C23 |
C4 |
1.502 |
1.476 |
| C13 |
N11 |
1.371 |
1.345 |
| C13 |
C3 |
1.404 |
1.389 |
| C15 |
N11 |
1.442 |
1.400 |
| C15 |
C20 |
1.404 |
1.389 |
| C19 |
C20 |
1.418 |
1.382 |
| N11 |
N12 |
1.410 |
1.398 |
| C4 |
C3 |
1.416 |
1.412 |
| C4 |
C5 |
1.392 |
1.408 |
| C3 |
C2 |
1.440 |
1.473 |
| O14 |
C6 |
1.238 |
1.213 |
| C5 |
C6 |
1.473 |
1.466 |
| C5 |
C10 |
1.444 |
1.408 |
| C6 |
C7 |
1.529 |
1.514 |
| N12 |
C2 |
1.358 |
1.319 |
| C2 |
N1 |
1.398 |
1.343 |
| C10 |
N1 |
1.315 |
1.313 |
| C10 |
C9 |
1.508 |
1.509 |
| C7 |
C8 |
1.536 |
1.535 |
| C21 |
C8 |
1.520 |
1.530 |
| C8 |
C9 |
1.541 |
1.526 |
| C8 |
C22 |
1.542 |
1.530 |
| C16 |
H35 |
1.080 |
1.079 |
| C17 |
H36 |
1.080 |
1.080 |
| C18 |
H37 |
1.080 |
1.080 |
| C19 |
H38 |
1.080 |
1.080 |
| C20 |
H39 |
1.080 |
1.080 |
| C21 |
H42 |
1.100 |
1.090 |
| C21 |
H40 |
1.100 |
1.089 |
| C21 |
H41 |
1.100 |
1.090 |
| C22 |
H43 |
1.100 |
1.090 |
| C22 |
H45 |
1.099 |
1.090 |
| C22 |
H44 |
1.100 |
1.090 |
| C25 |
H46 |
1.080 |
1.079 |
| C26 |
H47 |
1.080 |
1.080 |
| C27 |
H48 |
1.080 |
1.080 |
| C28 |
H49 |
1.080 |
1.080 |
| C7 |
H31 |
1.099 |
1.091 |
| C7 |
H32 |
1.100 |
1.090 |
| C9 |
H34 |
1.100 |
1.089 |
| C9 |
H33 |
1.100 |
1.090 |
| O30 |
H50 |
0.950 |
0.967 |
Bond Angles for O3Y
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C26 |
C25 |
H46 |
121.1 |
120.0 |
| C26 |
C27 |
C28 |
120.9 |
120.2 |
| C27 |
C26 |
H47 |
119.7 |
119.8 |
| C26 |
C27 |
H48 |
119.5 |
119.9 |
| C25 |
C24 |
CL29 |
118.0 |
120.1 |
| C28 |
C27 |
H48 |
119.6 |
119.9 |
| C27 |
C28 |
H49 |
119.8 |
120.0 |
| C24 |
C23 |
C4 |
123.7 |
120.2 |
| C17 |
C16 |
H35 |
121.0 |
120.0 |
| C17 |
C18 |
C19 |
120.6 |
120.2 |
| C18 |
C17 |
H36 |
119.8 |
120.0 |
| C17 |
C18 |
H37 |
119.7 |
119.9 |
| C28 |
C23 |
C4 |
118.1 |
120.2 |
| C16 |
C15 |
N11 |
121.0 |
120.1 |
| C16 |
C15 |
C20 |
123.0 |
119.9 |
| C18 |
C19 |
C20 |
120.1 |
120.1 |
| C19 |
C18 |
H37 |
119.7 |
119.9 |
| C18 |
C19 |
H38 |
120.0 |
120.0 |
| C23 |
C4 |
C5 |
127.0 |
121.1 |
| C13 |
N11 |
C15 |
127.3 |
125.0 |
| C13 |
N11 |
N12 |
112.9 |
109.9 |
| C20 |
C15 |
N11 |
116.0 |
120.0 |
| C15 |
N11 |
N12 |
119.8 |
125.1 |
| C15 |
C20 |
C19 |
117.7 |
119.9 |
| C15 |
C20 |
H39 |
121.2 |
120.0 |
| C20 |
C19 |
H38 |
119.9 |
119.9 |
| C19 |
C20 |
H39 |
121.1 |
120.1 |
| C4 |
C5 |
C6 |
122.4 |
119.0 |
| C3 |
C2 |
N1 |
122.6 |
119.6 |
| C5 |
C6 |
C7 |
119.2 |
117.8 |
| C5 |
C10 |
N1 |
127.8 |
121.2 |
| C5 |
C10 |
C9 |
121.0 |
120.9 |
| C6 |
C7 |
C8 |
112.6 |
107.4 |
| C6 |
C7 |
H31 |
108.6 |
109.9 |
| C6 |
C7 |
H32 |
108.7 |
109.9 |
| C2 |
N1 |
C10 |
114.0 |
122.6 |
| C9 |
C10 |
N1 |
111.2 |
117.9 |
| C10 |
C9 |
C8 |
113.4 |
111.2 |
| C10 |
C9 |
H34 |
108.4 |
109.2 |
| C10 |
C9 |
H33 |
108.5 |
109.1 |
| C21 |
C8 |
C7 |
109.3 |
109.5 |
| C7 |
C8 |
C9 |
109.2 |
109.3 |
| C8 |
C7 |
H31 |
108.7 |
109.9 |
| C8 |
C7 |
H32 |
108.7 |
109.9 |
| C21 |
C8 |
C9 |
111.5 |
109.5 |
| C21 |
C8 |
C22 |
109.2 |
109.5 |
| C8 |
C21 |
H42 |
109.5 |
109.4 |
| C8 |
C21 |
H40 |
109.5 |
109.5 |
| C8 |
C21 |
H41 |
109.5 |
109.5 |
| C8 |
C9 |
H34 |
108.5 |
109.1 |
| C8 |
C9 |
H33 |
108.5 |
109.0 |
| C8 |
C22 |
H43 |
109.5 |
109.5 |
| C8 |
C22 |
H45 |
109.5 |
109.5 |
| C8 |
C22 |
H44 |
109.5 |
109.5 |
| H42 |
C21 |
H40 |
109.4 |
109.5 |
| H42 |
C21 |
H41 |
109.5 |
109.5 |
| H40 |
C21 |
H41 |
109.5 |
109.5 |
| H43 |
C22 |
H45 |
109.5 |
109.5 |
| H43 |
C22 |
H44 |
109.5 |
109.4 |
| H45 |
C22 |
H44 |
109.5 |
109.5 |
| H31 |
C7 |
H32 |
109.5 |
109.9 |
| H34 |
C9 |
H33 |
109.5 |
109.1 |
Torsion Angles for O3Y
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C26 |
C25 |
C24 |
CL29 |
184.7 |
180.1 |
| C27 |
C26 |
C25 |
H46 |
180.4 |
180.1 |
| C28 |
C27 |
C26 |
H48 |
180.0 |
179.7 |
| C26 |
C27 |
C28 |
H49 |
180.6 |
180.0 |
| C25 |
C24 |
C23 |
C4 |
171.9 |
180.0 |
| C28 |
C27 |
C26 |
H47 |
178.4 |
179.8 |
| C26 |
C27 |
C28 |
H48 |
180.0 |
180.3 |
| C27 |
C28 |
C23 |
C4 |
186.5 |
179.7 |
| CL29 |
C24 |
C23 |
C4 |
349.0 |
360.0 |
| C28 |
C23 |
C24 |
C4 |
185.2 |
180.3 |
| C24 |
C23 |
C4 |
C5 |
82.5 |
90.0 |
| C17 |
C16 |
C15 |
N11 |
181.9 |
180.0 |
| C17 |
C16 |
C15 |
C20 |
359.8 |
0.3 |
| C18 |
C17 |
C16 |
H35 |
180.4 |
180.0 |
| C17 |
C18 |
C19 |
C20 |
359.8 |
359.6 |
| C19 |
C18 |
C17 |
H37 |
180.0 |
180.1 |
| C17 |
C18 |
C19 |
H38 |
179.8 |
180.0 |
| C24 |
C23 |
C28 |
C4 |
175.1 |
179.7 |
| C28 |
C23 |
C4 |
C5 |
257.2 |
269.7 |
| C13 |
N11 |
C15 |
C16 |
325.6 |
325.3 |
| C20 |
C15 |
C16 |
N11 |
177.9 |
180.3 |
| C16 |
C15 |
N11 |
N12 |
147.5 |
145.0 |
| C16 |
C15 |
C20 |
C19 |
359.7 |
359.4 |
| C16 |
C15 |
C20 |
H39 |
179.7 |
179.7 |
| C19 |
C18 |
C17 |
H36 |
179.8 |
180.1 |
| C17 |
C18 |
C19 |
H37 |
180.0 |
179.9 |
| C15 |
C20 |
C19 |
C18 |
0.4 |
0.7 |
| C20 |
C19 |
C18 |
H38 |
180.0 |
179.7 |
| C18 |
C19 |
C20 |
H39 |
180.5 |
180.3 |
| C23 |
C4 |
C5 |
C6 |
10.3 |
359.3 |
| C16 |
C15 |
N11 |
C13 |
325.6 |
325.3 |
| C20 |
C15 |
N11 |
C13 |
147.5 |
145.0 |
| C15 |
N11 |
C13 |
N12 |
181.8 |
179.7 |
| C13 |
C3 |
C2 |
N1 |
177.3 |
180.1 |
| C16 |
C15 |
N11 |
C20 |
178.1 |
180.4 |
| C13 |
N11 |
C15 |
N12 |
178.1 |
180.4 |
| N11 |
C15 |
C20 |
C19 |
177.8 |
179.7 |
| N11 |
C15 |
C20 |
H39 |
357.7 |
0.1 |
| C16 |
C15 |
C20 |
N11 |
182.0 |
179.7 |
| C18 |
C19 |
C20 |
C15 |
0.4 |
0.7 |
| C13 |
N11 |
C15 |
C20 |
147.5 |
145.0 |
| C20 |
C15 |
N11 |
N12 |
329.5 |
324.6 |
| C15 |
C20 |
C19 |
H38 |
180.4 |
180.3 |
| C19 |
C20 |
C15 |
H39 |
180.0 |
179.6 |
| C20 |
C19 |
C18 |
H37 |
179.8 |
179.7 |
| C18 |
C19 |
C20 |
H38 |
180.0 |
180.3 |
| C19 |
C20 |
C15 |
N11 |
177.8 |
179.7 |
| C15 |
C20 |
C19 |
H39 |
180.0 |
180.4 |
| C13 |
N11 |
N12 |
C15 |
181.7 |
179.7 |
| C4 |
C3 |
C2 |
N1 |
359.6 |
0.1 |
| C4 |
C5 |
C6 |
C7 |
179.9 |
168.5 |
| C4 |
C5 |
C10 |
N1 |
357.3 |
0.7 |
| C4 |
C5 |
C10 |
C9 |
177.0 |
180.8 |
| C3 |
C2 |
N1 |
C10 |
1.5 |
360.0 |
| O14 |
C6 |
C7 |
H31 |
325.8 |
342.1 |
| O14 |
C6 |
C7 |
H32 |
84.8 |
103.2 |
| C6 |
C5 |
C10 |
N1 |
172.3 |
180.8 |
| C6 |
C5 |
C10 |
C9 |
352.0 |
0.9 |
| C5 |
C6 |
C7 |
C8 |
27.3 |
42.6 |
| C5 |
C6 |
C7 |
H31 |
147.7 |
162.1 |
| C5 |
C6 |
C7 |
H32 |
266.8 |
283.1 |
| C23 |
C4 |
C5 |
C10 |
185.2 |
179.4 |
| C2 |
N1 |
C10 |
C5 |
0.0 |
359.7 |
| C9 |
C10 |
C5 |
N1 |
179.7 |
180.2 |
| C5 |
C10 |
C9 |
C8 |
338.3 |
336.8 |
| C5 |
C10 |
C9 |
H34 |
98.9 |
97.3 |
| C5 |
C10 |
C9 |
H33 |
217.7 |
216.5 |
| C21 |
C8 |
C7 |
C6 |
67.3 |
55.8 |
| C6 |
C7 |
C8 |
C9 |
305.2 |
295.8 |
| C8 |
C7 |
C6 |
H31 |
239.5 |
240.5 |
| C8 |
C7 |
C6 |
H32 |
120.5 |
119.5 |
| H31 |
C7 |
C6 |
H32 |
240.9 |
239.0 |
| C5 |
C10 |
N1 |
C2 |
0.0 |
359.7 |
| C9 |
C10 |
N1 |
C2 |
180.3 |
179.5 |
| C5 |
C10 |
N1 |
C9 |
179.7 |
180.2 |
| N1 |
C10 |
C9 |
C8 |
158.1 |
157.0 |
| N1 |
C10 |
C9 |
H34 |
278.6 |
277.5 |
| N1 |
C10 |
C9 |
H33 |
37.5 |
36.6 |
| C5 |
C10 |
C9 |
N1 |
180.3 |
179.8 |
| C2 |
N1 |
C10 |
C9 |
180.3 |
179.5 |
| C7 |
C8 |
C9 |
C10 |
52.3 |
55.1 |
| C21 |
C8 |
C9 |
C10 |
291.4 |
295.1 |
| C8 |
C9 |
C10 |
H34 |
239.4 |
239.5 |
| C8 |
C9 |
C10 |
H33 |
120.6 |
120.3 |
| H34 |
C9 |
C10 |
H33 |
241.2 |
240.8 |
| C6 |
C7 |
C8 |
H31 |
120.5 |
119.5 |
| C6 |
C7 |
C8 |
H32 |
239.5 |
240.5 |
| C10 |
C9 |
C8 |
C7 |
52.3 |
55.1 |
| C21 |
C8 |
C7 |
C9 |
122.2 |
120.0 |
| C21 |
C8 |
C7 |
C22 |
240.6 |
240.0 |
| C7 |
C8 |
C21 |
H42 |
180.0 |
60.0 |
| C7 |
C8 |
C21 |
H40 |
300.0 |
180.0 |
| C7 |
C8 |
C21 |
H41 |
60.0 |
300.0 |
| C7 |
C8 |
C9 |
H34 |
291.7 |
294.6 |
| C7 |
C8 |
C9 |
H33 |
172.9 |
175.5 |
| C7 |
C8 |
C22 |
H43 |
180.0 |
299.9 |
| C7 |
C8 |
C22 |
H45 |
300.0 |
59.9 |
| C7 |
C8 |
C22 |
H44 |
60.0 |
180.0 |
| H31 |
C7 |
C8 |
H32 |
119.1 |
121.1 |
| C6 |
C7 |
C8 |
C21 |
67.3 |
55.8 |
| C10 |
C9 |
C8 |
C21 |
291.4 |
295.1 |
| C7 |
C8 |
C21 |
C9 |
239.2 |
240.1 |
| C21 |
C8 |
C7 |
H31 |
306.9 |
296.3 |
| C21 |
C8 |
C7 |
H32 |
187.8 |
175.2 |
| C21 |
C8 |
C9 |
H34 |
170.9 |
174.6 |
| C21 |
C8 |
C9 |
H33 |
52.0 |
55.5 |
| C21 |
C8 |
C22 |
H43 |
299.5 |
60.0 |
| C21 |
C8 |
C22 |
H45 |
59.5 |
180.0 |
| C21 |
C8 |
C22 |
H44 |
179.5 |
300.0 |
| H42 |
C21 |
C8 |
H40 |
240.0 |
240.0 |
| H42 |
C21 |
C8 |
H41 |
120.0 |
120.0 |
| H40 |
C21 |
C8 |
H41 |
240.0 |
240.0 |
| C8 |
C9 |
C10 |
N1 |
158.1 |
157.0 |
| C10 |
C9 |
C8 |
H34 |
120.6 |
120.5 |
| C10 |
C9 |
C8 |
H33 |
239.4 |
239.6 |
| C21 |
C8 |
C9 |
C7 |
239.2 |
240.0 |
| C9 |
C8 |
C7 |
H31 |
184.7 |
176.3 |
| C9 |
C8 |
C7 |
H32 |
65.7 |
55.2 |
| C21 |
C8 |
C9 |
C22 |
120.2 |
120.1 |
| C9 |
C8 |
C21 |
H42 |
300.8 |
179.9 |
| C9 |
C8 |
C21 |
H40 |
60.8 |
299.9 |
| C9 |
C8 |
C21 |
H41 |
180.8 |
59.9 |
| C9 |
C8 |
C22 |
H43 |
61.1 |
180.1 |
| C9 |
C8 |
C22 |
H45 |
181.1 |
300.1 |
| C9 |
C8 |
C22 |
H44 |
301.1 |
60.2 |
| H34 |
C9 |
C8 |
H33 |
118.8 |
119.1 |
| C21 |
C8 |
C22 |
C7 |
119.5 |
120.0 |
| C21 |
C8 |
C22 |
C9 |
238.4 |
239.9 |
| C22 |
C8 |
C21 |
H42 |
60.5 |
300.0 |
| C22 |
C8 |
C21 |
H40 |
180.5 |
60.0 |
| C22 |
C8 |
C21 |
H41 |
300.5 |
180.0 |
| H43 |
C22 |
C8 |
H45 |
240.0 |
240.0 |
| H43 |
C22 |
C8 |
H44 |
120.0 |
119.9 |
| H45 |
C22 |
C8 |
H44 |
240.0 |
239.9 |
| H35 |
C16 |
C15 |
N11 |
1.9 |
360.0 |
| H35 |
C16 |
C15 |
C20 |
179.8 |
180.3 |
| H36 |
C17 |
C16 |
H35 |
0.4 |
360.0 |
| H36 |
C17 |
C18 |
C19 |
179.8 |
180.1 |
| H36 |
C17 |
C18 |
H37 |
359.8 |
360.0 |
| C17 |
C18 |
H37 |
C19 |
180.0 |
180.1 |
| H37 |
C18 |
C17 |
H36 |
359.8 |
360.0 |
| H37 |
C18 |
C19 |
C20 |
179.8 |
179.7 |
| H37 |
C18 |
C19 |
H38 |
359.8 |
0.0 |
| C18 |
C19 |
H38 |
C20 |
180.0 |
179.7 |
| H38 |
C19 |
C18 |
H37 |
359.8 |
0.0 |
| H38 |
C19 |
C20 |
H39 |
0.4 |
360.0 |
| H39 |
C20 |
C15 |
N11 |
357.7 |
0.1 |
| C15 |
C20 |
H39 |
C19 |
180.0 |
179.6 |
| H39 |
C20 |
C19 |
H38 |
0.4 |
360.0 |
| H42 |
C21 |
C8 |
C7 |
180.0 |
60.0 |
| H42 |
C21 |
C8 |
C9 |
300.8 |
179.9 |
| H42 |
C21 |
C8 |
C22 |
60.5 |
300.0 |
| C8 |
C21 |
H42 |
H40 |
120.0 |
120.0 |
| C8 |
C21 |
H42 |
H41 |
240.0 |
240.0 |
| H40 |
C21 |
H42 |
H41 |
120.0 |
120.0 |
| H40 |
C21 |
C8 |
C7 |
300.0 |
180.0 |
| H40 |
C21 |
C8 |
C9 |
60.8 |
299.9 |
| H40 |
C21 |
C8 |
C22 |
180.5 |
60.0 |
| C8 |
C21 |
H40 |
H42 |
240.0 |
240.0 |
| C8 |
C21 |
H40 |
H41 |
120.0 |
120.0 |
| H42 |
C21 |
H40 |
H41 |
240.0 |
240.0 |
| H41 |
C21 |
C8 |
C7 |
60.0 |
300.0 |
| H41 |
C21 |
C8 |
C9 |
180.8 |
59.9 |
| H41 |
C21 |
C8 |
C22 |
300.5 |
180.0 |
| C8 |
C21 |
H41 |
H42 |
120.0 |
120.0 |
| C8 |
C21 |
H41 |
H40 |
240.0 |
240.0 |
| H42 |
C21 |
H41 |
H40 |
120.0 |
120.0 |
| C8 |
C22 |
H43 |
H45 |
120.0 |
120.0 |
| C8 |
C22 |
H43 |
H44 |
240.0 |
240.1 |
| H45 |
C22 |
H43 |
H44 |
120.0 |
120.0 |
| C8 |
C22 |
H45 |
H43 |
240.0 |
240.0 |
| C8 |
C22 |
H45 |
H44 |
120.0 |
120.0 |
| H43 |
C22 |
H45 |
H44 |
240.0 |
240.1 |
| C8 |
C22 |
H44 |
H43 |
120.0 |
120.0 |
| C8 |
C22 |
H44 |
H45 |
240.0 |
239.9 |
| H43 |
C22 |
H44 |
H45 |
120.0 |
120.0 |
| H46 |
C25 |
C24 |
CL29 |
4.7 |
360.0 |
| H47 |
C26 |
C25 |
H46 |
0.4 |
0.0 |
| H47 |
C26 |
C27 |
C28 |
178.4 |
179.8 |
| H47 |
C26 |
C27 |
H48 |
358.4 |
0.1 |
| C26 |
C27 |
H48 |
C28 |
180.0 |
179.7 |
| H48 |
C27 |
C26 |
H47 |
358.4 |
0.1 |
| H48 |
C27 |
C28 |
H49 |
0.6 |
359.7 |
| H49 |
C28 |
C27 |
H48 |
0.6 |
359.7 |
| H49 |
C28 |
C23 |
C4 |
6.5 |
0.3 |
| C6 |
C7 |
H31 |
C8 |
237.1 |
242.1 |
| C6 |
C7 |
H31 |
H32 |
118.6 |
121.0 |
| H31 |
C7 |
C8 |
C9 |
184.7 |
176.3 |
| C8 |
C7 |
H31 |
H32 |
241.5 |
238.9 |
| C6 |
C7 |
H32 |
C8 |
122.9 |
117.9 |
| C6 |
C7 |
H32 |
H31 |
241.5 |
239.0 |
| H32 |
C7 |
C8 |
C9 |
65.7 |
55.2 |
| C8 |
C7 |
H32 |
H31 |
118.6 |
121.1 |
| H34 |
C9 |
C10 |
N1 |
278.6 |
277.5 |
| C10 |
C9 |
H34 |
C8 |
236.4 |
238.2 |
| C10 |
C9 |
H34 |
H33 |
118.2 |
119.2 |
| C8 |
C9 |
H34 |
H33 |
241.8 |
240.9 |
| H33 |
C9 |
C10 |
N1 |
37.5 |
36.6 |
| C10 |
C9 |
H33 |
C8 |
123.6 |
121.7 |
| C10 |
C9 |
H33 |
H34 |
241.8 |
240.8 |
| C8 |
C9 |
H33 |
H34 |
118.2 |
119.1 |