PDB Chemical Component XPT
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 XPT
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| SN1 |
CL1 |
1.300 |
2.020 |
| SN1 |
C3 |
2.146 |
1.810 |
| C3 |
C4 |
1.523 |
1.529 |
| C3 |
H3 |
1.101 |
1.090 |
| C3 |
H3A |
1.100 |
1.090 |
| C4 |
C5 |
1.509 |
1.530 |
| C4 |
H4 |
1.100 |
1.091 |
| C4 |
H4A |
1.100 |
1.090 |
| C5 |
H5 |
1.100 |
1.089 |
| C5 |
H5A |
1.100 |
1.090 |
| C5 |
H5B |
1.100 |
1.090 |
| SN1 |
C6 |
2.138 |
1.810 |
| C7 |
C6 |
1.524 |
1.530 |
| C6 |
H6 |
1.100 |
1.090 |
| C6 |
H6A |
1.100 |
1.090 |
| C7 |
C8 |
1.518 |
1.530 |
| C7 |
H7 |
1.100 |
1.091 |
| C7 |
H7A |
1.100 |
1.090 |
| C8 |
H8 |
1.100 |
1.090 |
| C8 |
H8A |
1.100 |
1.091 |
| C8 |
H8B |
1.100 |
1.090 |
| C10 |
C9 |
1.522 |
1.530 |
| C9 |
SN1 |
2.153 |
1.810 |
| C9 |
H9 |
1.100 |
1.089 |
| C9 |
H9A |
1.100 |
1.090 |
| C11 |
C10 |
1.510 |
1.530 |
| C10 |
H10 |
1.100 |
1.091 |
| C10 |
H10A |
1.100 |
1.090 |
| C11 |
H11 |
1.100 |
1.090 |
| C11 |
H11A |
1.100 |
1.091 |
| C11 |
H11B |
1.100 |
1.090 |
Bond Angles for XPT
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| SN1 |
C3 |
H3 |
108.9 |
109.4 |
| SN1 |
C3 |
H3A |
108.9 |
109.5 |
| C4 |
C3 |
H3 |
108.9 |
109.5 |
| C4 |
C3 |
H3A |
108.9 |
109.5 |
| C3 |
C4 |
C5 |
110.5 |
109.5 |
| C3 |
C4 |
H4 |
109.2 |
109.5 |
| C3 |
C4 |
H4A |
109.1 |
109.4 |
| H3 |
C3 |
H3A |
110.1 |
109.4 |
| C5 |
C4 |
H4 |
109.1 |
109.5 |
| C5 |
C4 |
H4A |
109.1 |
109.5 |
| C4 |
C5 |
H5 |
109.5 |
109.5 |
| C4 |
C5 |
H5A |
109.5 |
109.4 |
| C4 |
C5 |
H5B |
109.5 |
109.4 |
| H4 |
C4 |
H4A |
109.8 |
109.4 |
| H5 |
C5 |
H5A |
109.4 |
109.5 |
| H5 |
C5 |
H5B |
109.4 |
109.5 |
| H5A |
C5 |
H5B |
109.5 |
109.5 |
| SN1 |
C6 |
H6 |
109.1 |
109.5 |
| SN1 |
C6 |
H6A |
109.1 |
109.5 |
| C7 |
C6 |
H6 |
109.1 |
109.5 |
| C7 |
C6 |
H6A |
109.1 |
109.5 |
| H6 |
C6 |
H6A |
109.8 |
109.5 |
| C8 |
C7 |
H7 |
108.9 |
109.4 |
| C8 |
C7 |
H7A |
108.9 |
109.5 |
| C7 |
C8 |
H8 |
109.5 |
109.5 |
| C7 |
C8 |
H8A |
109.4 |
109.5 |
| C7 |
C8 |
H8B |
109.5 |
109.5 |
| H7 |
C7 |
H7A |
110.1 |
109.5 |
| H8 |
C8 |
H8A |
109.5 |
109.5 |
| H8 |
C8 |
H8B |
109.5 |
109.5 |
| H8A |
C8 |
H8B |
109.5 |
109.5 |
| C10 |
C9 |
SN1 |
111.0 |
109.5 |
| C10 |
C9 |
H9 |
109.0 |
109.5 |
| C10 |
C9 |
H9A |
109.0 |
109.4 |
| SN1 |
C9 |
H9 |
108.9 |
109.5 |
| SN1 |
C9 |
H9A |
108.9 |
109.5 |
| H9 |
C9 |
H9A |
110.0 |
109.5 |
| C11 |
C10 |
H10 |
108.9 |
109.5 |
| C11 |
C10 |
H10A |
108.9 |
109.5 |
| H10 |
C10 |
H10A |
110.0 |
109.4 |
| H11 |
C11 |
H11A |
109.5 |
109.5 |
| H11 |
C11 |
H11B |
109.4 |
109.5 |
| H11A |
C11 |
H11B |
109.5 |
109.4 |
Torsion Angles for XPT
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C4 |
C3 |
SN1 |
H3 |
240.0 |
120.0 |
| C4 |
C3 |
SN1 |
H3A |
120.0 |
240.0 |
| SN1 |
C3 |
C4 |
H4 |
43.7 |
307.2 |
| SN1 |
C3 |
C4 |
H4A |
163.7 |
67.2 |
| H3 |
C3 |
SN1 |
H3A |
240.0 |
119.9 |
| SN1 |
C3 |
C4 |
H3 |
120.0 |
240.0 |
| SN1 |
C3 |
C4 |
H3A |
240.0 |
120.0 |
| H3 |
C3 |
C4 |
H3A |
120.0 |
240.1 |
| C5 |
C4 |
C3 |
H4 |
240.0 |
240.0 |
| C5 |
C4 |
C3 |
H4A |
120.0 |
120.1 |
| C3 |
C4 |
C5 |
H5 |
180.0 |
60.0 |
| C3 |
C4 |
C5 |
H5A |
300.0 |
180.0 |
| C3 |
C4 |
C5 |
H5B |
60.0 |
300.0 |
| H4 |
C4 |
C3 |
H4A |
240.0 |
240.1 |
| SN1 |
C3 |
H3 |
H3A |
119.2 |
240.0 |
| C4 |
C3 |
H3 |
H3A |
240.7 |
120.0 |
| H3 |
C3 |
C4 |
C5 |
163.7 |
307.3 |
| H3 |
C3 |
C4 |
H4 |
283.7 |
67.3 |
| H3 |
C3 |
C4 |
H4A |
43.7 |
187.2 |
| SN1 |
C3 |
H3A |
H3 |
240.7 |
119.9 |
| C4 |
C3 |
H3A |
H3 |
119.3 |
240.0 |
| H3A |
C3 |
C4 |
C5 |
43.7 |
67.2 |
| H3A |
C3 |
C4 |
H4 |
163.7 |
187.2 |
| H3A |
C3 |
C4 |
H4A |
283.7 |
307.1 |
| C5 |
C4 |
C3 |
H3 |
163.7 |
307.3 |
| C5 |
C4 |
C3 |
H3A |
43.7 |
67.2 |
| C3 |
C4 |
C5 |
H4 |
120.0 |
120.0 |
| C3 |
C4 |
C5 |
H4A |
240.0 |
240.0 |
| H4 |
C4 |
C5 |
H4A |
120.0 |
120.0 |
| H5 |
C5 |
C4 |
H5A |
240.0 |
240.0 |
| H5 |
C5 |
C4 |
H5B |
120.0 |
120.0 |
| H5A |
C5 |
C4 |
H5B |
240.0 |
240.0 |
| H4 |
C4 |
C3 |
H3 |
283.7 |
67.3 |
| H4 |
C4 |
C3 |
H3A |
163.7 |
187.2 |
| C3 |
C4 |
H4 |
C5 |
239.2 |
240.0 |
| C3 |
C4 |
H4 |
H4A |
119.6 |
119.9 |
| C5 |
C4 |
H4 |
H4A |
240.4 |
240.0 |
| H4 |
C4 |
C5 |
H5 |
60.0 |
300.0 |
| H4 |
C4 |
C5 |
H5A |
180.0 |
60.0 |
| H4 |
C4 |
C5 |
H5B |
300.0 |
180.0 |
| H4A |
C4 |
C3 |
H3 |
43.7 |
187.2 |
| H4A |
C4 |
C3 |
H3A |
283.7 |
307.1 |
| C3 |
C4 |
H4A |
C5 |
120.8 |
120.1 |
| C3 |
C4 |
H4A |
H4 |
240.4 |
240.0 |
| C5 |
C4 |
H4A |
H4 |
119.6 |
120.0 |
| H4A |
C4 |
C5 |
H5 |
300.0 |
180.0 |
| H4A |
C4 |
C5 |
H5A |
60.0 |
300.0 |
| H4A |
C4 |
C5 |
H5B |
180.0 |
60.0 |
| H5 |
C5 |
C4 |
H4 |
60.0 |
300.0 |
| H5 |
C5 |
C4 |
H4A |
300.0 |
180.0 |
| C4 |
C5 |
H5 |
H5A |
120.0 |
120.0 |
| C4 |
C5 |
H5 |
H5B |
240.0 |
240.1 |
| H5A |
C5 |
H5 |
H5B |
120.0 |
120.1 |
| H5A |
C5 |
C4 |
H4 |
180.0 |
60.0 |
| H5A |
C5 |
C4 |
H4A |
60.0 |
300.0 |
| C4 |
C5 |
H5A |
H5 |
239.9 |
240.0 |
| C4 |
C5 |
H5A |
H5B |
120.0 |
119.9 |
| H5 |
C5 |
H5A |
H5B |
240.1 |
239.9 |
| H5B |
C5 |
C4 |
H4 |
300.0 |
180.0 |
| H5B |
C5 |
C4 |
H4A |
180.0 |
60.0 |
| C4 |
C5 |
H5B |
H5 |
120.1 |
120.0 |
| C4 |
C5 |
H5B |
H5A |
240.0 |
240.1 |
| H5 |
C5 |
H5B |
H5A |
119.9 |
120.1 |
| C6 |
SN1 |
C3 |
H3 |
70.4 |
288.0 |
| C6 |
SN1 |
C3 |
H3A |
190.4 |
168.1 |
| C7 |
C6 |
SN1 |
H6 |
240.0 |
120.0 |
| C7 |
C6 |
SN1 |
H6A |
120.0 |
240.0 |
| H6 |
C6 |
SN1 |
H6A |
240.0 |
120.0 |
| SN1 |
C6 |
C7 |
H6 |
120.0 |
240.0 |
| SN1 |
C6 |
C7 |
H6A |
240.0 |
120.0 |
| H6 |
C6 |
C7 |
H6A |
120.0 |
240.0 |
| SN1 |
C6 |
H6 |
H6A |
119.6 |
240.0 |
| C7 |
C6 |
H6 |
H6A |
240.4 |
120.0 |
| SN1 |
C6 |
H6A |
H6 |
240.4 |
120.0 |
| C7 |
C6 |
H6A |
H6 |
119.6 |
240.0 |
| C8 |
C7 |
C6 |
H6 |
65.9 |
300.0 |
| C8 |
C7 |
C6 |
H6A |
305.9 |
60.0 |
| H7 |
C7 |
C8 |
H7A |
120.0 |
120.0 |
| H8 |
C8 |
C7 |
H8A |
240.0 |
240.0 |
| H8 |
C8 |
C7 |
H8B |
120.0 |
120.0 |
| H8A |
C8 |
C7 |
H8B |
240.0 |
240.0 |
| H7 |
C7 |
C6 |
H6 |
186.0 |
60.0 |
| H7 |
C7 |
C6 |
H6A |
65.9 |
179.9 |
| C8 |
C7 |
H7 |
H7A |
240.8 |
240.0 |
| H7 |
C7 |
C8 |
H8 |
60.0 |
60.0 |
| H7 |
C7 |
C8 |
H8A |
180.0 |
180.0 |
| H7 |
C7 |
C8 |
H8B |
300.0 |
300.0 |
| H7A |
C7 |
C6 |
H6 |
305.9 |
180.0 |
| H7A |
C7 |
C6 |
H6A |
185.9 |
300.0 |
| C8 |
C7 |
H7A |
H7 |
119.3 |
120.0 |
| H7A |
C7 |
C8 |
H8 |
300.0 |
300.0 |
| H7A |
C7 |
C8 |
H8A |
60.0 |
60.0 |
| H7A |
C7 |
C8 |
H8B |
180.0 |
180.0 |
| H8 |
C8 |
C7 |
H7 |
60.0 |
60.0 |
| H8 |
C8 |
C7 |
H7A |
300.0 |
300.0 |
| C7 |
C8 |
H8 |
H8A |
120.0 |
120.0 |
| C7 |
C8 |
H8 |
H8B |
240.0 |
240.0 |
| H8A |
C8 |
H8 |
H8B |
120.0 |
120.0 |
| H8A |
C8 |
C7 |
H7 |
180.0 |
180.0 |
| H8A |
C8 |
C7 |
H7A |
60.0 |
60.0 |
| C7 |
C8 |
H8A |
H8 |
240.0 |
240.0 |
| C7 |
C8 |
H8A |
H8B |
120.0 |
120.0 |
| H8 |
C8 |
H8A |
H8B |
240.0 |
240.0 |
| H8B |
C8 |
C7 |
H7 |
300.0 |
300.0 |
| H8B |
C8 |
C7 |
H7A |
180.0 |
180.0 |
| C7 |
C8 |
H8B |
H8 |
120.0 |
120.0 |
| C7 |
C8 |
H8B |
H8A |
240.0 |
240.0 |
| H8 |
C8 |
H8B |
H8A |
120.0 |
120.0 |
| SN1 |
C9 |
C10 |
H9 |
240.0 |
239.9 |
| SN1 |
C9 |
C10 |
H9A |
120.0 |
120.0 |
| H9 |
C9 |
C10 |
H9A |
240.0 |
240.0 |
| C9 |
SN1 |
C3 |
H3 |
311.2 |
198.0 |
| C9 |
SN1 |
C3 |
H3A |
71.2 |
78.1 |
| C9 |
SN1 |
C6 |
H6 |
23.9 |
60.0 |
| C9 |
SN1 |
C6 |
H6A |
143.9 |
300.0 |
| C10 |
C9 |
SN1 |
H9 |
120.0 |
120.0 |
| C10 |
C9 |
SN1 |
H9A |
240.0 |
240.1 |
| H9 |
C9 |
SN1 |
H9A |
120.0 |
120.1 |
| C10 |
C9 |
H9 |
SN1 |
238.7 |
240.0 |
| C10 |
C9 |
H9 |
H9A |
119.4 |
119.9 |
| SN1 |
C9 |
H9 |
H9A |
240.7 |
240.0 |
| C10 |
C9 |
H9A |
SN1 |
121.3 |
120.0 |
| C10 |
C9 |
H9A |
H9 |
240.6 |
240.0 |
| SN1 |
C9 |
H9A |
H9 |
119.3 |
120.1 |
| C11 |
C10 |
C9 |
SN1 |
284.7 |
171.8 |
| C11 |
C10 |
C9 |
H9 |
44.7 |
291.9 |
| C11 |
C10 |
C9 |
H9A |
164.7 |
51.9 |
| H10 |
C10 |
C11 |
H10A |
120.0 |
120.0 |
| H10 |
C10 |
C9 |
SN1 |
44.7 |
291.8 |
| H10 |
C10 |
C9 |
H9 |
164.7 |
51.9 |
| H10 |
C10 |
C9 |
H9A |
284.7 |
171.8 |
| C11 |
C10 |
H10 |
H10A |
240.7 |
240.0 |
| H10A |
C10 |
C9 |
SN1 |
164.7 |
51.7 |
| H10A |
C10 |
C9 |
H9 |
284.7 |
171.8 |
| H10A |
C10 |
C9 |
H9A |
44.8 |
291.8 |
| C11 |
C10 |
H10A |
H10 |
119.3 |
120.0 |
| H11 |
C11 |
C10 |
H10 |
60.0 |
300.0 |
| H11 |
C11 |
C10 |
H10A |
300.0 |
180.0 |
| H11A |
C11 |
H11 |
H11B |
120.0 |
120.0 |
| H11A |
C11 |
C10 |
H10 |
180.0 |
60.1 |
| H11A |
C11 |
C10 |
H10A |
60.0 |
300.1 |
| H11 |
C11 |
H11A |
H11B |
240.0 |
240.0 |
| H11B |
C11 |
C10 |
H10 |
300.0 |
180.0 |
| H11B |
C11 |
C10 |
H10A |
180.0 |
60.0 |
| H11 |
C11 |
H11B |
H11A |
120.0 |
120.0 |