PDB Chemical Component HYH
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 HYH
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| N |
C5 |
1.300 |
1.348 |
| C5 |
O1 |
1.231 |
1.213 |
| C5 |
C4 |
1.527 |
1.507 |
| C3 |
C4 |
1.523 |
1.530 |
| C3 |
C2 |
1.554 |
1.530 |
| C1 |
C2 |
1.483 |
1.530 |
| C1 |
C |
1.521 |
1.530 |
| C4 |
O |
1.473 |
1.429 |
| N |
H1 |
1.000 |
0.970 |
| N |
H2 |
1.000 |
0.970 |
| C4 |
H3 |
1.100 |
1.090 |
| O |
H4 |
0.950 |
0.967 |
| C3 |
H5 |
1.100 |
1.090 |
| C3 |
H6 |
1.100 |
1.090 |
| C2 |
H7 |
1.099 |
1.089 |
| C2 |
H8 |
1.100 |
1.090 |
| C1 |
H9 |
1.100 |
1.090 |
| C1 |
H10 |
1.100 |
1.090 |
| C |
H11 |
1.100 |
1.090 |
| C |
H12 |
1.100 |
1.090 |
| C |
H13 |
1.100 |
1.090 |
Bond Angles for HYH
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| N |
C5 |
C4 |
125.6 |
120.0 |
| C5 |
C4 |
O |
112.6 |
109.5 |
| C5 |
C4 |
H3 |
105.6 |
109.5 |
| C3 |
C4 |
H3 |
105.6 |
109.5 |
| C2 |
C3 |
H5 |
108.2 |
109.5 |
| C2 |
C3 |
H6 |
108.2 |
109.5 |
| C3 |
C2 |
H7 |
108.5 |
109.4 |
| C3 |
C2 |
H8 |
108.5 |
109.5 |
| C1 |
C2 |
H7 |
108.5 |
109.5 |
| C1 |
C2 |
H8 |
108.5 |
109.5 |
| C |
C1 |
H9 |
108.4 |
109.5 |
| C |
C1 |
H10 |
108.4 |
109.5 |
| C1 |
C |
H11 |
109.5 |
109.4 |
| C1 |
C |
H12 |
109.4 |
109.5 |
| C1 |
C |
H13 |
109.5 |
109.4 |
| O |
C4 |
H3 |
106.2 |
109.4 |
| C4 |
O |
H4 |
109.5 |
114.0 |
| H1 |
N |
H2 |
120.0 |
120.0 |
| H5 |
C3 |
H6 |
109.5 |
109.4 |
| H7 |
C2 |
H8 |
109.5 |
109.5 |
| H9 |
C1 |
H10 |
109.5 |
109.5 |
| H11 |
C |
H12 |
109.4 |
109.5 |
| H11 |
C |
H13 |
109.5 |
109.5 |
| H12 |
C |
H13 |
109.5 |
109.5 |
Torsion Angles for HYH
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| N |
C5 |
C4 |
O |
70.7 |
184.8 |
| N |
C5 |
C4 |
H3 |
186.1 |
304.7 |
| C3 |
C4 |
C5 |
H3 |
111.2 |
120.1 |
| O |
C4 |
C5 |
H3 |
244.5 |
240.0 |
| C5 |
C4 |
O |
H4 |
180.0 |
300.0 |
| C5 |
C4 |
C3 |
H3 |
248.7 |
240.0 |
| O |
C4 |
C3 |
H3 |
120.4 |
120.0 |
| C3 |
C4 |
O |
H4 |
304.7 |
60.0 |
| C2 |
C3 |
C4 |
H3 |
313.4 |
305.1 |
| C1 |
C2 |
C3 |
H7 |
239.4 |
240.0 |
| C1 |
C2 |
C3 |
H8 |
120.6 |
120.0 |
| H5 |
C3 |
C2 |
H6 |
118.6 |
120.0 |
| H7 |
C2 |
C3 |
H8 |
241.1 |
240.0 |
| C1 |
C2 |
C3 |
H5 |
72.5 |
60.0 |
| C1 |
C2 |
C3 |
H6 |
313.9 |
300.0 |
| C3 |
C2 |
C1 |
H7 |
120.6 |
120.0 |
| C3 |
C2 |
C1 |
H8 |
239.4 |
240.0 |
| H7 |
C2 |
C1 |
H8 |
118.8 |
120.0 |
| C |
C1 |
C2 |
H7 |
56.3 |
60.0 |
| C |
C1 |
C2 |
H8 |
297.5 |
300.0 |
| H9 |
C1 |
C |
H10 |
118.8 |
120.0 |
| H11 |
C |
C1 |
H12 |
240.0 |
240.0 |
| H11 |
C |
C1 |
H13 |
120.0 |
120.0 |
| H12 |
C |
C1 |
H13 |
240.0 |
240.0 |
| C5 |
C4 |
O |
H3 |
115.2 |
120.0 |
| C3 |
C4 |
O |
H3 |
239.9 |
240.0 |
| H1 |
N |
C5 |
C4 |
181.2 |
180.2 |
| H2 |
N |
C5 |
C4 |
1.2 |
0.3 |
| C5 |
C4 |
H3 |
O |
240.2 |
240.0 |
| H3 |
C4 |
O |
H4 |
64.9 |
180.0 |
| H4 |
O |
C4 |
H3 |
64.9 |
180.0 |
| H5 |
C3 |
C4 |
H3 |
74.0 |
65.1 |
| C2 |
C3 |
H5 |
H6 |
242.2 |
240.0 |
| H5 |
C3 |
C2 |
H7 |
193.0 |
180.0 |
| H5 |
C3 |
C2 |
H8 |
311.9 |
300.0 |
| H6 |
C3 |
C4 |
H3 |
192.7 |
185.0 |
| C2 |
C3 |
H6 |
H5 |
117.8 |
120.0 |
| H6 |
C3 |
C2 |
H7 |
74.4 |
60.0 |
| H6 |
C3 |
C2 |
H8 |
193.3 |
180.0 |
| H7 |
C2 |
C3 |
H5 |
193.0 |
180.0 |
| H7 |
C2 |
C3 |
H6 |
74.4 |
60.0 |
| C3 |
C2 |
H7 |
H8 |
118.3 |
120.0 |
| C1 |
C2 |
H7 |
H8 |
241.8 |
240.0 |
| H8 |
C2 |
C3 |
H5 |
311.9 |
300.0 |
| H8 |
C2 |
C3 |
H6 |
193.3 |
180.0 |
| C3 |
C2 |
H8 |
H7 |
241.7 |
240.0 |
| C1 |
C2 |
H8 |
H7 |
118.2 |
120.0 |
| H9 |
C1 |
C2 |
H7 |
176.9 |
180.0 |
| H9 |
C1 |
C2 |
H8 |
58.1 |
60.0 |
| C |
C1 |
H9 |
H10 |
241.8 |
240.0 |
| H9 |
C1 |
C |
H11 |
59.4 |
180.0 |
| H9 |
C1 |
C |
H12 |
179.4 |
300.0 |
| H9 |
C1 |
C |
H13 |
299.4 |
60.1 |
| H10 |
C1 |
C2 |
H7 |
295.7 |
300.0 |
| H10 |
C1 |
C2 |
H8 |
176.9 |
180.0 |
| C |
C1 |
H10 |
H9 |
118.2 |
120.1 |
| H10 |
C1 |
C |
H11 |
300.6 |
60.0 |
| H10 |
C1 |
C |
H12 |
60.6 |
180.0 |
| H10 |
C1 |
C |
H13 |
180.6 |
300.0 |
| H11 |
C |
C1 |
H9 |
59.4 |
180.0 |
| H11 |
C |
C1 |
H10 |
300.6 |
60.0 |
| C1 |
C |
H11 |
H12 |
120.0 |
120.0 |
| C1 |
C |
H11 |
H13 |
240.0 |
240.1 |
| H12 |
C |
H11 |
H13 |
120.0 |
120.0 |
| H12 |
C |
C1 |
H9 |
179.4 |
300.0 |
| H12 |
C |
C1 |
H10 |
60.6 |
180.0 |
| C1 |
C |
H12 |
H11 |
240.0 |
240.0 |
| C1 |
C |
H12 |
H13 |
120.0 |
120.0 |
| H11 |
C |
H12 |
H13 |
240.0 |
240.0 |
| H13 |
C |
C1 |
H9 |
299.4 |
60.1 |
| H13 |
C |
C1 |
H10 |
180.6 |
300.0 |
| C1 |
C |
H13 |
H11 |
120.1 |
120.0 |
| C1 |
C |
H13 |
H12 |
240.0 |
240.0 |
| H11 |
C |
H13 |
H12 |
120.0 |
120.0 |