PDB Chemical Component Y50
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 Y50
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C16 |
O15 |
1.403 |
1.429 |
| O15 |
C14 |
1.439 |
1.357 |
| C13 |
C14 |
1.424 |
1.391 |
| C13 |
C12 |
1.430 |
1.377 |
| C14 |
C17 |
1.448 |
1.396 |
| C12 |
C11 |
1.420 |
1.400 |
| C17 |
C18 |
1.445 |
1.479 |
| C17 |
C24 |
1.413 |
1.399 |
| C18 |
C19 |
1.453 |
1.332 |
| C11 |
C24 |
1.442 |
1.398 |
| C11 |
C9 |
1.541 |
1.475 |
| C24 |
O23 |
1.505 |
1.355 |
| C19 |
C20 |
1.552 |
1.506 |
| O10 |
C9 |
1.173 |
1.218 |
| C22 |
C20 |
1.513 |
1.530 |
| C20 |
O23 |
1.481 |
1.429 |
| C20 |
C21 |
1.528 |
1.529 |
| C9 |
C8 |
1.510 |
1.463 |
| C8 |
C7 |
1.337 |
1.352 |
| C7 |
C6 |
1.601 |
1.469 |
| C5 |
C6 |
1.414 |
1.400 |
| C5 |
C4 |
1.408 |
1.379 |
| C6 |
C25 |
1.430 |
1.400 |
| C4 |
C3 |
1.411 |
1.387 |
| C25 |
C26 |
1.410 |
1.382 |
| C3 |
C26 |
1.425 |
1.397 |
| C3 |
O2 |
1.411 |
1.358 |
| C26 |
N27 |
1.450 |
1.399 |
| O2 |
C1 |
1.450 |
1.429 |
| C1 |
H1 |
1.100 |
1.090 |
| C1 |
H2 |
1.100 |
1.090 |
| C1 |
H3 |
1.100 |
1.090 |
| C4 |
H4 |
1.080 |
1.080 |
| C5 |
H5 |
1.079 |
1.080 |
| C7 |
H6 |
1.080 |
1.080 |
| C8 |
H7 |
1.080 |
1.080 |
| C12 |
H8 |
1.080 |
1.080 |
| C13 |
H9 |
1.080 |
1.080 |
| C16 |
H10 |
1.100 |
1.090 |
| C16 |
H11 |
1.100 |
1.090 |
| C16 |
H12 |
1.100 |
1.090 |
| C18 |
H13 |
1.080 |
1.080 |
| C19 |
H14 |
1.080 |
1.080 |
| C21 |
H15 |
1.100 |
1.090 |
| C21 |
H16 |
1.100 |
1.090 |
| C21 |
H17 |
1.100 |
1.090 |
| C22 |
H18 |
1.100 |
1.090 |
| C22 |
H19 |
1.100 |
1.091 |
| C22 |
H20 |
1.100 |
1.089 |
| C25 |
H21 |
1.080 |
1.080 |
| N27 |
H22 |
1.000 |
0.970 |
| N27 |
H23 |
1.000 |
0.970 |
Bond Angles for Y50
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O15 |
C14 |
C17 |
120.8 |
120.1 |
| C13 |
C14 |
C17 |
119.7 |
119.8 |
| C14 |
C13 |
H9 |
119.9 |
119.7 |
| C13 |
C12 |
H8 |
119.7 |
119.8 |
| C14 |
C17 |
C18 |
121.9 |
121.5 |
| C14 |
C17 |
C24 |
119.1 |
120.1 |
| C12 |
C11 |
C24 |
118.8 |
119.6 |
| C18 |
C17 |
C24 |
118.9 |
118.4 |
| C17 |
C18 |
C19 |
119.5 |
118.0 |
| C17 |
C18 |
H13 |
120.2 |
121.0 |
| C11 |
C24 |
C17 |
121.4 |
119.7 |
| C17 |
C24 |
O23 |
119.6 |
118.9 |
| C18 |
C19 |
C20 |
119.4 |
120.0 |
| C19 |
C18 |
H13 |
120.3 |
121.0 |
| C18 |
C19 |
H14 |
120.3 |
120.0 |
| C11 |
C24 |
O23 |
119.0 |
121.4 |
| C19 |
C20 |
O23 |
112.0 |
110.6 |
| C19 |
C20 |
C21 |
111.8 |
109.3 |
| C20 |
C19 |
H14 |
120.3 |
120.0 |
| C22 |
C20 |
O23 |
105.9 |
109.2 |
| C21 |
C20 |
O23 |
110.6 |
109.3 |
| C20 |
C21 |
H15 |
109.5 |
109.5 |
| C20 |
C21 |
H16 |
109.4 |
109.5 |
| C20 |
C21 |
H17 |
109.5 |
109.5 |
| C9 |
C8 |
H7 |
120.9 |
120.0 |
| C8 |
C7 |
H6 |
117.6 |
120.0 |
| C7 |
C6 |
C25 |
123.1 |
120.1 |
| C5 |
C6 |
C25 |
120.3 |
119.8 |
| C6 |
C5 |
H5 |
119.9 |
120.0 |
| C5 |
C4 |
H4 |
120.1 |
119.9 |
| C6 |
C25 |
C26 |
119.2 |
119.8 |
| C6 |
C25 |
H21 |
120.4 |
120.1 |
| C4 |
C3 |
C26 |
120.2 |
120.2 |
| C3 |
C26 |
C25 |
120.1 |
120.0 |
| C25 |
C26 |
N27 |
119.9 |
120.0 |
| C26 |
C25 |
H21 |
120.4 |
120.1 |
| C3 |
C26 |
N27 |
119.9 |
120.0 |
| C26 |
N27 |
H22 |
109.5 |
120.1 |
| C26 |
N27 |
H23 |
109.5 |
120.0 |
| O2 |
C1 |
H1 |
109.5 |
109.5 |
| O2 |
C1 |
H2 |
109.5 |
109.5 |
| O2 |
C1 |
H3 |
109.5 |
109.5 |
| H1 |
C1 |
H2 |
109.5 |
109.5 |
| H1 |
C1 |
H3 |
109.5 |
109.5 |
| H2 |
C1 |
H3 |
109.5 |
109.5 |
| H10 |
C16 |
H11 |
109.5 |
109.5 |
| H10 |
C16 |
H12 |
109.5 |
109.5 |
| H11 |
C16 |
H12 |
109.5 |
109.4 |
| H15 |
C21 |
H16 |
109.5 |
109.5 |
| H15 |
C21 |
H17 |
109.5 |
109.4 |
| H16 |
C21 |
H17 |
109.5 |
109.4 |
| H18 |
C22 |
H19 |
109.5 |
109.4 |
| H18 |
C22 |
H20 |
109.5 |
109.5 |
| H19 |
C22 |
H20 |
109.4 |
109.5 |
| H22 |
N27 |
H23 |
109.5 |
119.9 |
Torsion Angles for Y50
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C16 |
O15 |
C14 |
C17 |
263.2 |
180.0 |
| C13 |
C14 |
O15 |
C17 |
179.8 |
180.0 |
| O15 |
C14 |
C13 |
H9 |
0.3 |
0.0 |
| O15 |
C14 |
C17 |
C18 |
359.5 |
360.0 |
| O15 |
C14 |
C17 |
C24 |
179.9 |
180.0 |
| O15 |
C14 |
C13 |
C17 |
180.2 |
180.0 |
| C14 |
C13 |
C12 |
H8 |
179.6 |
180.0 |
| C13 |
C14 |
C17 |
C18 |
179.8 |
180.0 |
| C13 |
C14 |
C17 |
C24 |
0.2 |
360.0 |
| C13 |
C12 |
C11 |
C24 |
0.3 |
0.0 |
| C17 |
C14 |
C13 |
H9 |
180.1 |
180.0 |
| C18 |
C17 |
C14 |
C24 |
179.6 |
180.0 |
| C14 |
C17 |
C18 |
C19 |
203.0 |
196.3 |
| C14 |
C17 |
C18 |
H13 |
23.0 |
16.3 |
| C11 |
C24 |
C17 |
C14 |
359.8 |
0.0 |
| C14 |
C17 |
C24 |
O23 |
180.3 |
180.1 |
| C12 |
C11 |
C24 |
C17 |
360.0 |
360.0 |
| C12 |
C11 |
C24 |
O23 |
179.5 |
179.9 |
| C14 |
C17 |
C18 |
C24 |
180.4 |
180.0 |
| C11 |
C24 |
C17 |
C18 |
180.2 |
180.0 |
| C18 |
C17 |
C24 |
O23 |
0.7 |
0.1 |
| C17 |
C18 |
C19 |
C20 |
347.3 |
0.6 |
| C19 |
C18 |
C17 |
H13 |
180.0 |
180.0 |
| C17 |
C18 |
C19 |
H14 |
167.3 |
180.6 |
| C14 |
C17 |
C24 |
C18 |
179.6 |
180.0 |
| C24 |
C17 |
C18 |
C19 |
22.6 |
16.3 |
| C24 |
C17 |
C18 |
H13 |
202.6 |
196.3 |
| C11 |
C24 |
C17 |
O23 |
179.5 |
179.9 |
| C19 |
C18 |
C17 |
C24 |
22.6 |
16.3 |
| C17 |
C18 |
C19 |
H13 |
180.0 |
180.0 |
| C18 |
C19 |
C20 |
O23 |
340.9 |
328.9 |
| C18 |
C19 |
C20 |
C21 |
216.0 |
208.6 |
| C20 |
C19 |
C18 |
H14 |
180.0 |
180.0 |
| C14 |
C17 |
C24 |
C11 |
359.8 |
0.0 |
| C18 |
C17 |
C24 |
C11 |
180.2 |
180.0 |
| C17 |
C24 |
C11 |
O23 |
180.5 |
180.1 |
| C11 |
C9 |
C8 |
H7 |
217.7 |
359.9 |
| C11 |
C24 |
O23 |
C17 |
180.5 |
180.1 |
| C20 |
C19 |
C18 |
H13 |
167.3 |
180.6 |
| C18 |
C19 |
C20 |
H14 |
180.0 |
180.0 |
| C22 |
C20 |
C19 |
O23 |
121.4 |
120.2 |
| C21 |
C20 |
C19 |
O23 |
235.2 |
239.7 |
| C19 |
C20 |
C21 |
H15 |
180.0 |
60.0 |
| C19 |
C20 |
C21 |
H16 |
300.0 |
180.1 |
| C19 |
C20 |
C21 |
H17 |
60.0 |
300.0 |
| O10 |
C9 |
C8 |
H7 |
37.2 |
179.9 |
| C19 |
C20 |
C22 |
O23 |
235.4 |
239.0 |
| C22 |
C20 |
C19 |
H14 |
282.2 |
269.1 |
| C21 |
C20 |
C22 |
O23 |
115.1 |
119.5 |
| C22 |
C20 |
C21 |
H15 |
303.0 |
179.4 |
| C22 |
C20 |
C21 |
H16 |
63.0 |
299.5 |
| C22 |
C20 |
C21 |
H17 |
183.0 |
59.5 |
| C17 |
C24 |
O23 |
C20 |
326.1 |
326.3 |
| C11 |
C24 |
O23 |
C20 |
146.6 |
146.4 |
| C19 |
C20 |
O23 |
C21 |
234.5 |
239.7 |
| O23 |
C20 |
C19 |
H14 |
160.9 |
148.8 |
| O23 |
C20 |
C21 |
H15 |
54.4 |
298.9 |
| O23 |
C20 |
C21 |
H16 |
174.4 |
59.0 |
| O23 |
C20 |
C21 |
H17 |
294.4 |
178.9 |
| C19 |
C20 |
C21 |
O23 |
125.6 |
121.1 |
| C21 |
C20 |
C19 |
H14 |
36.0 |
28.5 |
| C22 |
C20 |
C21 |
O23 |
248.6 |
240.5 |
| H15 |
C21 |
C20 |
H16 |
240.0 |
239.9 |
| H15 |
C21 |
C20 |
H17 |
120.0 |
120.0 |
| H16 |
C21 |
C20 |
H17 |
240.0 |
240.0 |
| C9 |
C8 |
C7 |
H6 |
2.3 |
360.0 |
| C8 |
C7 |
C6 |
C25 |
343.8 |
180.0 |
| C5 |
C6 |
C7 |
C25 |
178.7 |
179.9 |
| C7 |
C6 |
C5 |
H5 |
0.2 |
0.0 |
| C7 |
C6 |
C25 |
C26 |
180.3 |
180.0 |
| C7 |
C6 |
C25 |
H21 |
0.3 |
359.9 |
| C7 |
C6 |
C5 |
C25 |
181.3 |
180.1 |
| C6 |
C5 |
C4 |
H4 |
179.9 |
180.0 |
| C5 |
C6 |
C25 |
C26 |
1.7 |
0.0 |
| C5 |
C6 |
C25 |
H21 |
181.7 |
180.0 |
| C5 |
C4 |
C3 |
C26 |
0.6 |
0.0 |
| C25 |
C6 |
C5 |
H5 |
179.0 |
180.0 |
| C3 |
C26 |
C25 |
C6 |
358.8 |
360.0 |
| C6 |
C25 |
C26 |
N27 |
179.5 |
180.3 |
| C26 |
C25 |
C6 |
H21 |
180.0 |
180.1 |
| C4 |
C3 |
C26 |
C25 |
0.0 |
360.0 |
| C4 |
C3 |
C26 |
N27 |
179.4 |
179.7 |
| C6 |
C25 |
C26 |
H21 |
180.0 |
179.9 |
| C3 |
C26 |
C25 |
N27 |
179.3 |
179.7 |
| C25 |
C26 |
N27 |
H22 |
180.0 |
179.7 |
| C25 |
C26 |
N27 |
H23 |
300.0 |
359.8 |
| C6 |
C25 |
C26 |
C3 |
358.8 |
360.0 |
| C25 |
C26 |
C3 |
N27 |
180.7 |
180.3 |
| C3 |
C26 |
C25 |
H21 |
178.8 |
180.1 |
| C3 |
C26 |
N27 |
H22 |
0.7 |
0.0 |
| C3 |
C26 |
N27 |
H23 |
120.7 |
180.0 |
| C3 |
O2 |
C1 |
H1 |
180.0 |
300.0 |
| C3 |
O2 |
C1 |
H2 |
300.0 |
60.0 |
| C3 |
O2 |
C1 |
H3 |
60.0 |
180.0 |
| C3 |
C26 |
N27 |
C25 |
180.7 |
180.3 |
| N27 |
C26 |
C25 |
H21 |
359.5 |
0.3 |
| H22 |
N27 |
C26 |
H23 |
240.0 |
180.0 |
| H1 |
C1 |
O2 |
H2 |
240.0 |
240.0 |
| H1 |
C1 |
O2 |
H3 |
120.0 |
120.0 |
| H2 |
C1 |
O2 |
H3 |
240.0 |
240.0 |
| O2 |
C1 |
H1 |
H2 |
120.0 |
120.0 |
| O2 |
C1 |
H1 |
H3 |
240.0 |
240.0 |
| H2 |
C1 |
H1 |
H3 |
120.0 |
120.0 |
| O2 |
C1 |
H2 |
H1 |
240.0 |
240.0 |
| O2 |
C1 |
H2 |
H3 |
120.0 |
120.0 |
| H1 |
C1 |
H2 |
H3 |
240.0 |
240.0 |
| O2 |
C1 |
H3 |
H1 |
120.0 |
120.0 |
| O2 |
C1 |
H3 |
H2 |
240.0 |
240.0 |
| H1 |
C1 |
H3 |
H2 |
120.0 |
120.0 |
| H4 |
C4 |
C3 |
C26 |
180.6 |
180.0 |
| H5 |
C5 |
C6 |
C25 |
179.0 |
180.0 |
| H5 |
C5 |
C4 |
H4 |
359.9 |
0.0 |
| H6 |
C7 |
C6 |
C25 |
163.8 |
0.0 |
| H7 |
C8 |
C7 |
H6 |
182.3 |
180.1 |
| H8 |
C12 |
C11 |
C24 |
180.3 |
179.9 |
| H9 |
C13 |
C14 |
C17 |
180.1 |
180.0 |
| H9 |
C13 |
C12 |
H8 |
359.6 |
0.1 |
| H11 |
C16 |
H10 |
H12 |
120.0 |
119.9 |
| H10 |
C16 |
H11 |
H12 |
240.0 |
240.0 |
| H10 |
C16 |
H12 |
H11 |
120.0 |
120.0 |
| H13 |
C18 |
C17 |
C24 |
202.6 |
196.3 |
| C17 |
C18 |
H13 |
C19 |
180.0 |
180.0 |
| H13 |
C18 |
C19 |
C20 |
167.3 |
180.6 |
| H13 |
C18 |
C19 |
H14 |
347.3 |
0.6 |
| C18 |
C19 |
H14 |
C20 |
180.0 |
180.0 |
| H14 |
C19 |
C18 |
H13 |
347.3 |
0.6 |
| H14 |
C19 |
C20 |
O23 |
160.9 |
148.8 |
| H14 |
C19 |
C20 |
C21 |
36.0 |
28.5 |
| H15 |
C21 |
C20 |
O23 |
54.4 |
298.9 |
| C20 |
C21 |
H15 |
H16 |
120.0 |
120.0 |
| C20 |
C21 |
H15 |
H17 |
240.0 |
240.0 |
| H16 |
C21 |
H15 |
H17 |
120.0 |
120.0 |
| H16 |
C21 |
C20 |
O23 |
174.4 |
59.0 |
| C20 |
C21 |
H16 |
H15 |
240.0 |
240.0 |
| C20 |
C21 |
H16 |
H17 |
120.0 |
120.0 |
| H15 |
C21 |
H16 |
H17 |
240.0 |
240.0 |
| H17 |
C21 |
C20 |
O23 |
294.4 |
178.9 |
| C20 |
C21 |
H17 |
H15 |
120.0 |
120.0 |
| C20 |
C21 |
H17 |
H16 |
240.0 |
240.0 |
| H15 |
C21 |
H17 |
H16 |
120.0 |
120.0 |
| H18 |
C22 |
C20 |
O23 |
304.6 |
181.1 |
| H19 |
C22 |
H18 |
H20 |
120.0 |
120.0 |
| H19 |
C22 |
C20 |
O23 |
64.7 |
301.0 |
| H18 |
C22 |
H19 |
H20 |
240.0 |
240.0 |
| H20 |
C22 |
C20 |
O23 |
184.6 |
61.0 |
| H18 |
C22 |
H20 |
H19 |
120.0 |
120.0 |
| C6 |
C25 |
H21 |
C26 |
180.0 |
180.1 |
| H21 |
C25 |
C26 |
N27 |
359.5 |
0.3 |
| C26 |
N27 |
H22 |
H23 |
120.0 |
180.0 |
| C26 |
N27 |
H23 |
H22 |
240.0 |
180.0 |