PDB Chemical Component 5YA
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 5YA
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| O1 |
C17 |
1.267 |
1.216 |
| C15 |
C16 |
1.424 |
1.376 |
| C15 |
C14 |
1.411 |
1.397 |
| C16 |
C11 |
1.409 |
1.396 |
| C17 |
C14 |
1.522 |
1.477 |
| C17 |
N1 |
1.467 |
1.347 |
| C14 |
C13 |
1.393 |
1.397 |
| C11 |
C3 |
1.509 |
1.480 |
| C11 |
C12 |
1.394 |
1.397 |
| C7 |
C8 |
1.399 |
1.362 |
| C7 |
C4 |
1.411 |
1.402 |
| C8 |
C9 |
1.389 |
1.393 |
| C3 |
C4 |
1.409 |
1.415 |
| C3 |
C2 |
1.414 |
1.385 |
| N1 |
O2 |
1.289 |
1.416 |
| C4 |
C5 |
1.374 |
1.417 |
| C13 |
C12 |
1.382 |
1.377 |
| C2 |
C1 |
1.397 |
1.390 |
| C9 |
C10 |
1.377 |
1.361 |
| C5 |
C10 |
1.417 |
1.405 |
| C5 |
C6 |
1.439 |
1.406 |
| C1 |
C6 |
1.386 |
1.362 |
| C1 |
H1 |
1.080 |
1.079 |
| C2 |
H2 |
1.080 |
1.080 |
| C6 |
H3 |
1.080 |
1.081 |
| C7 |
H4 |
1.080 |
1.080 |
| C8 |
H5 |
1.080 |
1.080 |
| C9 |
H6 |
1.080 |
1.080 |
| C10 |
H7 |
1.081 |
1.081 |
| C12 |
H8 |
1.080 |
1.080 |
| C13 |
H9 |
1.080 |
1.080 |
| N1 |
H10 |
1.001 |
0.970 |
| C15 |
H11 |
1.080 |
1.081 |
| C16 |
H12 |
1.080 |
1.080 |
| O2 |
H13 |
0.951 |
0.967 |
Bond Angles for 5YA
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O1 |
C17 |
C14 |
121.3 |
120.0 |
| O1 |
C17 |
N1 |
122.3 |
120.0 |
| C16 |
C15 |
H11 |
120.1 |
120.0 |
| C15 |
C16 |
H12 |
120.6 |
120.0 |
| C17 |
N1 |
O2 |
128.3 |
120.1 |
| C17 |
N1 |
H10 |
115.9 |
120.0 |
| C14 |
C13 |
H9 |
119.9 |
120.0 |
| C11 |
C12 |
H8 |
119.4 |
120.0 |
| C7 |
C8 |
C9 |
119.9 |
120.9 |
| C8 |
C7 |
H4 |
121.3 |
120.1 |
| C7 |
C8 |
H5 |
120.0 |
119.5 |
| C8 |
C9 |
C10 |
122.7 |
120.9 |
| C9 |
C8 |
H5 |
120.1 |
119.5 |
| C8 |
C9 |
H6 |
118.6 |
119.6 |
| C3 |
C4 |
C5 |
118.7 |
119.3 |
| C3 |
C2 |
H2 |
118.6 |
119.6 |
| O2 |
N1 |
H10 |
115.9 |
120.0 |
| N1 |
O2 |
H13 |
109.5 |
114.0 |
| C4 |
C5 |
C10 |
119.8 |
119.3 |
| C4 |
C5 |
C6 |
122.7 |
119.5 |
| C13 |
C12 |
H8 |
119.4 |
120.0 |
| C2 |
C1 |
C6 |
118.7 |
121.1 |
| C2 |
C1 |
H1 |
120.7 |
119.5 |
| C5 |
C10 |
C9 |
117.8 |
119.7 |
| C10 |
C9 |
H6 |
118.6 |
119.5 |
| C9 |
C10 |
H7 |
121.1 |
120.1 |
| C6 |
C5 |
C10 |
117.5 |
121.2 |
| C5 |
C10 |
H7 |
121.1 |
120.2 |
| C1 |
C6 |
C5 |
118.5 |
120.1 |
| C5 |
C6 |
H3 |
120.7 |
119.9 |
| C6 |
C1 |
H1 |
120.6 |
119.4 |
| C1 |
C6 |
H3 |
120.7 |
119.9 |
Torsion Angles for 5YA
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O1 |
C17 |
N1 |
O2 |
0.9 |
0.0 |
| O1 |
C17 |
N1 |
H10 |
180.9 |
180.0 |
| O1 |
C17 |
C14 |
C15 |
334.9 |
180.0 |
| C15 |
C14 |
C13 |
H9 |
179.8 |
180.0 |
| C16 |
C11 |
C12 |
H8 |
180.3 |
180.3 |
| O1 |
C17 |
C14 |
N1 |
177.8 |
180.1 |
| C14 |
C17 |
N1 |
O2 |
178.7 |
180.1 |
| C14 |
C17 |
N1 |
H10 |
358.7 |
0.0 |
| C17 |
C14 |
C13 |
H9 |
0.3 |
359.9 |
| O1 |
C17 |
N1 |
C14 |
182.2 |
179.9 |
| O2 |
N1 |
C17 |
H10 |
180.0 |
180.0 |
| C17 |
N1 |
O2 |
H13 |
359.6 |
180.0 |
| O1 |
C17 |
C14 |
C13 |
154.3 |
0.1 |
| C14 |
C13 |
C12 |
H8 |
180.0 |
179.9 |
| C11 |
C3 |
C2 |
H2 |
357.9 |
360.0 |
| C13 |
C12 |
C11 |
H8 |
180.0 |
180.0 |
| C7 |
C8 |
C9 |
C10 |
358.6 |
359.9 |
| C9 |
C8 |
C7 |
H5 |
180.0 |
180.1 |
| C7 |
C8 |
C9 |
H6 |
178.6 |
179.9 |
| C7 |
C4 |
C5 |
C10 |
359.8 |
360.0 |
| C9 |
C8 |
C7 |
H4 |
180.3 |
180.0 |
| C7 |
C8 |
C9 |
H5 |
180.0 |
179.9 |
| C5 |
C10 |
C9 |
C8 |
1.7 |
0.0 |
| C10 |
C9 |
C8 |
H6 |
180.0 |
180.0 |
| C8 |
C9 |
C10 |
H7 |
181.7 |
180.0 |
| C4 |
C3 |
C2 |
H2 |
181.3 |
180.0 |
| C3 |
C4 |
C5 |
C10 |
181.0 |
180.0 |
| C3 |
C4 |
C5 |
C6 |
1.1 |
0.1 |
| C3 |
C2 |
C1 |
C6 |
359.4 |
0.0 |
| C3 |
C2 |
C1 |
H1 |
179.4 |
179.7 |
| C17 |
N1 |
O2 |
H10 |
180.0 |
180.0 |
| C4 |
C5 |
C10 |
C9 |
359.1 |
0.0 |
| C6 |
C5 |
C4 |
C10 |
180.1 |
180.1 |
| C4 |
C5 |
C10 |
H7 |
179.1 |
180.0 |
| C1 |
C6 |
C5 |
C4 |
359.6 |
359.9 |
| C4 |
C5 |
C6 |
H3 |
179.6 |
180.3 |
| C11 |
C12 |
C13 |
H8 |
180.0 |
180.0 |
| C2 |
C1 |
C6 |
C5 |
0.1 |
0.0 |
| C6 |
C1 |
C2 |
H1 |
180.0 |
180.3 |
| C2 |
C1 |
C6 |
H3 |
180.1 |
179.7 |
| C10 |
C9 |
C8 |
H5 |
178.6 |
180.0 |
| C8 |
C9 |
C10 |
H6 |
180.0 |
180.0 |
| C6 |
C5 |
C10 |
C9 |
179.0 |
179.9 |
| C5 |
C10 |
C9 |
H7 |
180.0 |
180.0 |
| C8 |
C9 |
C10 |
C5 |
1.7 |
0.0 |
| C4 |
C5 |
C10 |
C6 |
180.1 |
180.1 |
| C5 |
C10 |
C9 |
H6 |
181.7 |
180.0 |
| C9 |
C10 |
C5 |
H7 |
180.0 |
180.0 |
| C1 |
C6 |
C5 |
C10 |
179.8 |
180.0 |
| C10 |
C5 |
C6 |
H3 |
359.7 |
0.4 |
| C4 |
C5 |
C6 |
C10 |
179.9 |
179.9 |
| C6 |
C5 |
C10 |
H7 |
359.0 |
359.9 |
| C5 |
C6 |
C1 |
H1 |
180.1 |
180.3 |
| C1 |
C6 |
C5 |
H3 |
180.0 |
179.7 |
| C4 |
C5 |
C6 |
C1 |
359.6 |
359.9 |
| C2 |
C1 |
C6 |
H1 |
180.0 |
179.7 |
| C5 |
C6 |
C1 |
H3 |
180.0 |
180.3 |
| C2 |
C1 |
H1 |
C6 |
180.0 |
180.3 |
| H1 |
C1 |
C6 |
C5 |
180.1 |
180.3 |
| H1 |
C1 |
C6 |
H3 |
0.1 |
360.0 |
| H2 |
C2 |
C1 |
C6 |
179.4 |
180.0 |
| H2 |
C2 |
C1 |
H1 |
359.4 |
359.7 |
| H3 |
C6 |
C5 |
C10 |
359.7 |
0.4 |
| C1 |
C6 |
H3 |
C5 |
180.0 |
180.3 |
| H3 |
C6 |
C1 |
H1 |
0.1 |
360.0 |
| H4 |
C7 |
C8 |
C9 |
180.3 |
180.0 |
| H4 |
C7 |
C8 |
H5 |
0.3 |
359.9 |
| C7 |
C8 |
H5 |
C9 |
180.0 |
180.1 |
| H5 |
C8 |
C7 |
H4 |
0.3 |
359.9 |
| H5 |
C8 |
C9 |
C10 |
178.6 |
180.0 |
| H5 |
C8 |
C9 |
H6 |
358.6 |
0.0 |
| C8 |
C9 |
H6 |
C10 |
180.0 |
180.0 |
| H6 |
C9 |
C8 |
H5 |
358.6 |
0.0 |
| H6 |
C9 |
C10 |
H7 |
1.7 |
0.0 |
| C5 |
C10 |
H7 |
C9 |
180.0 |
180.0 |
| H7 |
C10 |
C9 |
H6 |
1.7 |
0.0 |
| H9 |
C13 |
C12 |
H8 |
360.0 |
360.0 |
| C17 |
N1 |
H10 |
O2 |
180.0 |
180.0 |
| H10 |
N1 |
O2 |
H13 |
179.6 |
0.1 |
| H11 |
C15 |
C16 |
H12 |
0.1 |
359.5 |
| H12 |
C16 |
C15 |
H11 |
0.1 |
359.5 |
| H13 |
O2 |
N1 |
H10 |
179.6 |
0.1 |