PDB Chemical Component 1DY
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 1DY
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C25 |
O4 |
1.428 |
1.429 |
| C23 |
C22 |
1.442 |
1.382 |
| C23 |
C24 |
1.451 |
1.386 |
| C22 |
C21 |
1.432 |
1.383 |
| O4 |
C24 |
1.400 |
1.360 |
| C24 |
C19 |
1.432 |
1.393 |
| C21 |
C20 |
1.456 |
1.382 |
| C19 |
C20 |
1.444 |
1.387 |
| C19 |
N4 |
1.380 |
1.401 |
| N4 |
C18 |
1.371 |
1.348 |
| C18 |
O3 |
1.230 |
1.217 |
| C18 |
C17 |
1.457 |
1.476 |
| C14 |
C17 |
1.453 |
1.398 |
| C14 |
C13 |
1.451 |
1.376 |
| C17 |
C16 |
1.436 |
1.397 |
| C13 |
C12 |
1.430 |
1.392 |
| C16 |
C15 |
1.432 |
1.376 |
| C12 |
C15 |
1.454 |
1.392 |
| C12 |
N3 |
1.355 |
1.394 |
| N3 |
C11 |
1.382 |
1.348 |
| C11 |
C10 |
1.525 |
1.507 |
| C11 |
O2 |
1.221 |
1.213 |
| C10 |
C9 |
1.522 |
1.530 |
| C9 |
C8 |
1.512 |
1.508 |
| C8 |
N1 |
1.325 |
1.359 |
| C8 |
N2 |
1.315 |
1.298 |
| N1 |
C1 |
1.340 |
1.353 |
| N2 |
C7 |
1.334 |
1.356 |
| C1 |
O1 |
1.227 |
1.218 |
| C1 |
C2 |
1.464 |
1.471 |
| C7 |
C2 |
1.461 |
1.412 |
| C7 |
C6 |
1.429 |
1.396 |
| C2 |
C3 |
1.434 |
1.394 |
| C6 |
C5 |
1.426 |
1.376 |
| C3 |
C4 |
1.437 |
1.378 |
| C5 |
C4 |
1.448 |
1.389 |
| N1 |
H1 |
1.000 |
0.970 |
| C3 |
H2 |
1.080 |
1.080 |
| C4 |
H3 |
1.080 |
1.079 |
| C5 |
H4 |
1.080 |
1.080 |
| C6 |
H5 |
1.080 |
1.080 |
| C9 |
H6 |
1.100 |
1.089 |
| C9 |
H7 |
1.100 |
1.090 |
| C10 |
H8 |
1.100 |
1.089 |
| C10 |
H9 |
1.100 |
1.090 |
| N3 |
H10 |
1.000 |
0.970 |
| C13 |
H11 |
1.080 |
1.079 |
| C14 |
H12 |
1.080 |
1.081 |
| C15 |
H13 |
1.080 |
1.080 |
| C16 |
H14 |
1.080 |
1.080 |
| N4 |
H15 |
1.000 |
0.970 |
| C20 |
H16 |
1.080 |
1.079 |
| C21 |
H17 |
1.080 |
1.079 |
| C22 |
H18 |
1.080 |
1.080 |
| C23 |
H19 |
1.080 |
1.079 |
| C25 |
H20 |
1.100 |
1.090 |
| C25 |
H21 |
1.100 |
1.090 |
| C25 |
H22 |
1.100 |
1.090 |
Bond Angles for 1DY
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C23 |
C22 |
H18 |
119.1 |
119.9 |
| C24 |
C23 |
H19 |
121.1 |
119.9 |
| C22 |
C21 |
H17 |
120.3 |
120.0 |
| C21 |
C20 |
H16 |
120.2 |
120.0 |
| C19 |
C20 |
H16 |
120.1 |
120.1 |
| C19 |
N4 |
H15 |
115.6 |
120.0 |
| C14 |
C17 |
C16 |
123.6 |
119.9 |
| C17 |
C14 |
H12 |
120.9 |
120.0 |
| C14 |
C13 |
H11 |
121.0 |
120.0 |
| C17 |
C16 |
H14 |
121.1 |
120.1 |
| C13 |
C12 |
C15 |
123.2 |
120.1 |
| C16 |
C15 |
H13 |
120.5 |
120.0 |
| C12 |
C15 |
H13 |
120.4 |
119.9 |
| C12 |
N3 |
H10 |
114.7 |
120.0 |
| C11 |
C10 |
H8 |
108.9 |
109.5 |
| C11 |
C10 |
H9 |
108.9 |
109.4 |
| C10 |
C9 |
H6 |
109.2 |
109.5 |
| C10 |
C9 |
H7 |
109.2 |
109.4 |
| C8 |
N1 |
H1 |
116.3 |
119.7 |
| N1 |
C1 |
O1 |
118.8 |
121.3 |
| N1 |
C1 |
C2 |
114.7 |
117.4 |
| C1 |
N1 |
H1 |
116.3 |
119.7 |
| O1 |
C1 |
C2 |
126.4 |
121.3 |
| C1 |
C2 |
C3 |
121.6 |
121.9 |
| C7 |
C6 |
H5 |
122.6 |
120.2 |
| C2 |
C3 |
C4 |
115.3 |
119.5 |
| C2 |
C3 |
H2 |
122.3 |
120.3 |
| C6 |
C5 |
H4 |
118.3 |
119.6 |
| C4 |
C3 |
H2 |
122.3 |
120.3 |
| C3 |
C4 |
H3 |
119.0 |
119.7 |
| C5 |
C4 |
H3 |
119.0 |
119.8 |
| H6 |
C9 |
H7 |
109.5 |
109.5 |
| H8 |
C10 |
H9 |
109.5 |
109.5 |
| H20 |
C25 |
H21 |
109.4 |
109.4 |
| H20 |
C25 |
H22 |
109.5 |
109.5 |
| H21 |
C25 |
H22 |
109.5 |
109.4 |
Torsion Angles for 1DY
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C23 |
C22 |
C21 |
H17 |
179.8 |
180.1 |
| C24 |
C23 |
C22 |
H18 |
180.0 |
179.8 |
| C22 |
C21 |
C20 |
H16 |
180.1 |
180.0 |
| O4 |
C24 |
C23 |
H19 |
1.6 |
359.8 |
| C24 |
C19 |
C20 |
H16 |
180.2 |
180.3 |
| C24 |
C19 |
N4 |
H15 |
1.3 |
24.6 |
| C19 |
C20 |
C21 |
H16 |
180.0 |
180.0 |
| C21 |
C20 |
C19 |
H16 |
180.0 |
180.0 |
| C20 |
C19 |
N4 |
H15 |
180.2 |
204.8 |
| C18 |
C17 |
C14 |
H12 |
2.0 |
360.0 |
| C18 |
C17 |
C16 |
H14 |
357.8 |
0.3 |
| C17 |
C14 |
C13 |
H11 |
180.0 |
180.1 |
| C14 |
C17 |
C16 |
H14 |
179.5 |
180.0 |
| C14 |
C13 |
C12 |
C15 |
359.9 |
0.1 |
| C16 |
C17 |
C14 |
H12 |
180.2 |
180.3 |
| C17 |
C16 |
C15 |
H13 |
180.3 |
180.5 |
| C13 |
C12 |
C15 |
H13 |
179.9 |
179.7 |
| C13 |
C12 |
N3 |
H10 |
342.5 |
215.4 |
| C14 |
C17 |
C16 |
C15 |
359.6 |
359.5 |
| C12 |
C15 |
C16 |
H13 |
180.0 |
180.0 |
| C16 |
C15 |
C12 |
H13 |
180.0 |
180.0 |
| C15 |
C12 |
N3 |
H10 |
162.9 |
35.1 |
| N3 |
C11 |
C10 |
H8 |
213.0 |
60.0 |
| N3 |
C11 |
C10 |
H9 |
332.3 |
299.9 |
| C11 |
C10 |
C9 |
H6 |
219.5 |
59.9 |
| C11 |
C10 |
C9 |
H7 |
339.1 |
299.9 |
| H8 |
C10 |
C11 |
H9 |
240.7 |
120.0 |
| O2 |
C11 |
C10 |
H8 |
32.9 |
240.0 |
| O2 |
C11 |
C10 |
H9 |
152.2 |
120.0 |
| H6 |
C9 |
C10 |
H7 |
240.3 |
120.0 |
| C9 |
C8 |
N1 |
H1 |
357.5 |
0.2 |
| C1 |
N1 |
C8 |
H1 |
180.0 |
179.8 |
| N2 |
C8 |
N1 |
H1 |
176.8 |
179.7 |
| C8 |
N1 |
C1 |
H1 |
180.0 |
180.2 |
| O1 |
C1 |
N1 |
C2 |
175.7 |
180.0 |
| N1 |
C1 |
C2 |
C3 |
183.4 |
180.0 |
| N2 |
C7 |
C6 |
H5 |
2.0 |
0.1 |
| N1 |
C1 |
O1 |
C2 |
184.9 |
180.0 |
| O1 |
C1 |
N1 |
H1 |
357.9 |
0.0 |
| O1 |
C1 |
C2 |
C3 |
8.1 |
0.0 |
| N1 |
C1 |
C2 |
O1 |
175.3 |
180.0 |
| C2 |
C1 |
N1 |
H1 |
182.2 |
180.0 |
| C1 |
C2 |
C3 |
C4 |
177.4 |
180.0 |
| C1 |
C2 |
C3 |
H2 |
357.4 |
359.9 |
| C7 |
C2 |
C3 |
H2 |
182.8 |
180.0 |
| C7 |
C6 |
C5 |
H4 |
178.2 |
180.1 |
| C4 |
C3 |
C2 |
H2 |
180.0 |
180.1 |
| C2 |
C3 |
C4 |
H3 |
178.9 |
180.0 |
| C6 |
C5 |
C4 |
H3 |
180.7 |
180.0 |
| C2 |
C3 |
C4 |
H2 |
180.0 |
179.9 |
| C5 |
C4 |
C3 |
H3 |
180.0 |
180.0 |
| C5 |
C4 |
C3 |
H2 |
178.9 |
180.0 |
| C3 |
C4 |
C5 |
H3 |
180.0 |
180.0 |
| H1 |
N1 |
C1 |
O1 |
357.9 |
0.0 |
| H1 |
N1 |
C1 |
C2 |
182.2 |
180.0 |
| C2 |
C3 |
H2 |
C4 |
180.0 |
180.1 |
| H2 |
C3 |
C4 |
H3 |
358.9 |
0.1 |
| H3 |
C4 |
C3 |
H2 |
358.9 |
0.1 |
| H4 |
C5 |
C4 |
H3 |
0.6 |
360.0 |
| H5 |
C6 |
C5 |
H4 |
358.2 |
360.0 |
| C10 |
C9 |
H6 |
H7 |
119.5 |
240.0 |
| C10 |
C9 |
H7 |
H6 |
240.5 |
120.0 |
| C11 |
C10 |
H8 |
H9 |
119.0 |
240.0 |
| H8 |
C10 |
C9 |
H6 |
99.1 |
180.0 |
| H8 |
C10 |
C9 |
H7 |
218.8 |
60.0 |
| C11 |
C10 |
H9 |
H8 |
241.0 |
120.0 |
| H9 |
C10 |
C9 |
H6 |
339.8 |
300.0 |
| H9 |
C10 |
C9 |
H7 |
99.5 |
180.0 |
| H11 |
C13 |
C12 |
C15 |
179.9 |
180.0 |
| H12 |
C14 |
C17 |
C16 |
180.2 |
180.3 |
| H12 |
C14 |
C13 |
H11 |
0.0 |
0.1 |
| H14 |
C16 |
C15 |
H13 |
0.4 |
360.0 |
| H17 |
C21 |
C20 |
H16 |
0.1 |
359.9 |
| H18 |
C22 |
C21 |
H17 |
359.8 |
0.0 |
| H19 |
C23 |
C22 |
H18 |
0.0 |
360.0 |
| H21 |
C25 |
H20 |
H22 |
120.0 |
119.9 |
| H20 |
C25 |
H21 |
H22 |
240.0 |
240.0 |
| H20 |
C25 |
H22 |
H21 |
120.0 |
119.9 |