PDB Chemical Component YTR
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 YTR
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C2 |
C1 |
1.406 |
1.400 |
| C6 |
C1 |
1.373 |
1.365 |
| C1 |
H1 |
1.080 |
1.080 |
| C3 |
C2 |
1.485 |
1.408 |
| C2 |
C7 |
1.491 |
1.462 |
| N10 |
C3 |
1.436 |
1.381 |
| C4 |
C3 |
1.457 |
1.392 |
| O14 |
C4 |
1.380 |
1.361 |
| C4 |
C5 |
1.486 |
1.388 |
| O16 |
C5 |
1.382 |
1.359 |
| C5 |
C6 |
1.393 |
1.393 |
| C6 |
H6 |
1.080 |
1.081 |
| C8 |
C7 |
1.436 |
1.357 |
| C7 |
C13 |
1.520 |
1.507 |
| C9 |
C8 |
1.433 |
1.410 |
| C8 |
H8 |
1.080 |
1.080 |
| O11 |
C9 |
1.284 |
1.219 |
| N10 |
C9 |
1.424 |
1.344 |
| C12 |
N10 |
1.475 |
1.465 |
| C12 |
H12 |
1.100 |
1.090 |
| C12 |
H12A |
1.100 |
1.089 |
| C12 |
H12B |
1.100 |
1.091 |
| C13 |
H13 |
1.100 |
1.090 |
| C13 |
H13A |
1.100 |
1.091 |
| C13 |
H13B |
1.101 |
1.091 |
| O14 |
C15 |
1.447 |
1.429 |
| C15 |
H15 |
1.100 |
1.091 |
| C15 |
H15A |
1.100 |
1.091 |
| C15 |
H15B |
1.100 |
1.090 |
| O16 |
C17 |
1.441 |
1.429 |
| C17 |
H17 |
1.100 |
1.089 |
| C17 |
H17A |
1.100 |
1.090 |
| C17 |
H17B |
1.100 |
1.090 |
Bond Angles for YTR
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
C1 |
H1 |
119.1 |
120.1 |
| C6 |
C1 |
H1 |
119.1 |
120.1 |
| C3 |
C2 |
C7 |
117.6 |
119.0 |
| C2 |
C7 |
C13 |
117.4 |
120.8 |
| C4 |
C5 |
C6 |
121.1 |
120.5 |
| C5 |
C6 |
H6 |
119.5 |
119.7 |
| C8 |
C7 |
C13 |
123.5 |
120.7 |
| C7 |
C13 |
H13 |
109.5 |
109.5 |
| C7 |
C13 |
H13A |
109.5 |
109.5 |
| C7 |
C13 |
H13B |
109.5 |
109.5 |
| C9 |
C8 |
H8 |
119.5 |
119.9 |
| H12 |
C12 |
H12A |
109.4 |
109.5 |
| H12 |
C12 |
H12B |
109.5 |
109.5 |
| H12A |
C12 |
H12B |
109.5 |
109.5 |
| H13 |
C13 |
H13A |
109.5 |
109.5 |
| H13 |
C13 |
H13B |
109.5 |
109.4 |
| H13A |
C13 |
H13B |
109.5 |
109.4 |
| O14 |
C15 |
H15 |
109.5 |
109.5 |
| O14 |
C15 |
H15A |
109.5 |
109.5 |
| O14 |
C15 |
H15B |
109.5 |
109.5 |
| H15 |
C15 |
H15A |
109.5 |
109.4 |
| H15 |
C15 |
H15B |
109.5 |
109.4 |
| H15A |
C15 |
H15B |
109.5 |
109.5 |
| O16 |
C17 |
H17 |
109.5 |
109.5 |
| O16 |
C17 |
H17A |
109.5 |
109.4 |
| O16 |
C17 |
H17B |
109.5 |
109.5 |
| H17 |
C17 |
H17A |
109.5 |
109.5 |
| H17 |
C17 |
H17B |
109.4 |
109.5 |
| H17A |
C17 |
H17B |
109.5 |
109.4 |
Torsion Angles for YTR
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C6 |
C1 |
C2 |
H1 |
180.0 |
180.3 |
| C2 |
C1 |
C6 |
H1 |
180.0 |
179.7 |
| C3 |
C2 |
C1 |
H1 |
181.7 |
180.0 |
| C3 |
C2 |
C7 |
C13 |
179.1 |
180.0 |
| C7 |
C2 |
C1 |
H1 |
0.1 |
359.9 |
| C8 |
C7 |
C2 |
C13 |
180.3 |
180.0 |
| C2 |
C7 |
C13 |
H13 |
180.0 |
90.0 |
| C2 |
C7 |
C13 |
H13A |
300.0 |
210.0 |
| C2 |
C7 |
C13 |
H13B |
60.0 |
330.0 |
| C4 |
C3 |
C2 |
C7 |
180.3 |
180.0 |
| C4 |
C5 |
C6 |
H6 |
180.7 |
180.0 |
| O16 |
C5 |
C6 |
H6 |
359.6 |
359.8 |
| C5 |
C6 |
C1 |
H1 |
178.6 |
179.8 |
| H6 |
C6 |
C1 |
H1 |
358.6 |
0.3 |
| C2 |
C7 |
C8 |
C13 |
179.7 |
180.0 |
| C8 |
C7 |
C13 |
H13 |
359.7 |
269.9 |
| C8 |
C7 |
C13 |
H13A |
119.7 |
30.0 |
| C8 |
C7 |
C13 |
H13B |
239.7 |
149.9 |
| H13 |
C13 |
C7 |
H13A |
240.0 |
239.9 |
| H13 |
C13 |
C7 |
H13B |
120.0 |
120.0 |
| H13A |
C13 |
C7 |
H13B |
240.0 |
240.0 |
| C9 |
C8 |
C7 |
C13 |
179.6 |
180.0 |
| H8 |
C8 |
C7 |
C13 |
359.6 |
0.1 |
| O11 |
C9 |
C8 |
H8 |
0.3 |
359.9 |
| N10 |
C9 |
C8 |
H8 |
181.2 |
180.0 |
| H12A |
C12 |
H12 |
H12B |
120.0 |
120.0 |
| H12 |
C12 |
H12A |
H12B |
240.0 |
240.0 |
| H12 |
C12 |
H12B |
H12A |
120.0 |
120.0 |
| C7 |
C13 |
H13 |
H13A |
120.0 |
120.1 |
| C7 |
C13 |
H13 |
H13B |
240.0 |
240.0 |
| H13A |
C13 |
H13 |
H13B |
120.0 |
119.9 |
| C7 |
C13 |
H13A |
H13 |
240.0 |
239.9 |
| C7 |
C13 |
H13A |
H13B |
120.0 |
120.0 |
| H13 |
C13 |
H13A |
H13B |
240.0 |
240.1 |
| C7 |
C13 |
H13B |
H13 |
120.0 |
120.0 |
| C7 |
C13 |
H13B |
H13A |
240.0 |
240.0 |
| H13 |
C13 |
H13B |
H13A |
120.0 |
120.0 |
| H15 |
C15 |
O14 |
H15A |
240.0 |
240.1 |
| H15 |
C15 |
O14 |
H15B |
120.0 |
120.0 |
| H15A |
C15 |
O14 |
H15B |
240.0 |
239.9 |
| O14 |
C15 |
H15 |
H15A |
120.0 |
120.0 |
| O14 |
C15 |
H15 |
H15B |
240.0 |
239.9 |
| H15A |
C15 |
H15 |
H15B |
120.0 |
120.0 |
| O14 |
C15 |
H15A |
H15 |
240.0 |
240.0 |
| O14 |
C15 |
H15A |
H15B |
120.0 |
120.1 |
| H15 |
C15 |
H15A |
H15B |
240.0 |
240.1 |
| O14 |
C15 |
H15B |
H15 |
120.0 |
120.1 |
| O14 |
C15 |
H15B |
H15A |
240.0 |
240.0 |
| H15 |
C15 |
H15B |
H15A |
120.0 |
119.9 |
| H17 |
C17 |
O16 |
H17A |
240.0 |
240.0 |
| H17 |
C17 |
O16 |
H17B |
120.0 |
120.1 |
| H17A |
C17 |
O16 |
H17B |
240.0 |
240.1 |
| O16 |
C17 |
H17 |
H17A |
120.0 |
120.0 |
| O16 |
C17 |
H17 |
H17B |
240.0 |
240.0 |
| H17A |
C17 |
H17 |
H17B |
120.0 |
120.0 |
| O16 |
C17 |
H17A |
H17 |
240.0 |
240.0 |
| O16 |
C17 |
H17A |
H17B |
120.0 |
120.0 |
| H17 |
C17 |
H17A |
H17B |
240.1 |
240.0 |
| O16 |
C17 |
H17B |
H17 |
120.0 |
120.1 |
| O16 |
C17 |
H17B |
H17A |
240.0 |
240.1 |
| H17 |
C17 |
H17B |
H17A |
120.0 |
120.0 |