PDB Chemical Component PDW
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 PDW
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| CM |
OXT |
1.399 |
1.451 |
| O |
C |
1.254 |
1.209 |
| CG |
CB |
1.480 |
1.543 |
| CG |
CD |
1.491 |
1.544 |
| CB |
CA |
1.471 |
1.544 |
| CD |
N |
1.438 |
1.486 |
| OXT |
C |
1.421 |
1.342 |
| C |
CA |
1.484 |
1.507 |
| CA |
N |
1.456 |
1.485 |
| CM |
HM1 |
1.100 |
1.090 |
| CM |
HM2 |
1.100 |
1.089 |
| CM |
HM3 |
1.099 |
1.091 |
| CG |
HG2 |
1.100 |
1.090 |
| CG |
HG3 |
1.100 |
1.090 |
| CB |
HB2 |
1.100 |
1.090 |
| CB |
HB3 |
1.100 |
1.090 |
| CD |
HD2 |
1.100 |
1.091 |
| CD |
HD3 |
1.100 |
1.090 |
| CA |
HA |
1.100 |
1.089 |
| N |
H |
1.000 |
1.009 |
Bond Angles for PDW
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| CM |
OXT |
C |
119.0 |
117.1 |
| OXT |
CM |
HM1 |
109.5 |
109.5 |
| OXT |
CM |
HM2 |
109.5 |
109.5 |
| OXT |
CM |
HM3 |
109.4 |
109.5 |
| O |
C |
OXT |
116.8 |
119.9 |
| O |
C |
CA |
118.1 |
120.0 |
| CB |
CG |
CD |
101.8 |
105.1 |
| CG |
CB |
CA |
106.0 |
105.0 |
| CB |
CG |
HG2 |
111.4 |
110.3 |
| CB |
CG |
HG3 |
111.4 |
110.3 |
| CG |
CB |
HB2 |
110.3 |
110.3 |
| CG |
CB |
HB3 |
110.4 |
110.3 |
| CG |
CD |
N |
103.5 |
104.6 |
| CD |
CG |
HG2 |
111.3 |
110.4 |
| CD |
CG |
HG3 |
111.3 |
110.3 |
| CG |
CD |
HD2 |
111.0 |
110.3 |
| CG |
CD |
HD3 |
110.9 |
110.4 |
| CB |
CA |
C |
103.8 |
110.4 |
| CB |
CA |
N |
105.9 |
104.6 |
| CA |
CB |
HB2 |
110.4 |
110.4 |
| CA |
CB |
HB3 |
110.3 |
110.4 |
| CB |
CA |
HA |
110.5 |
110.4 |
| CD |
N |
CA |
107.4 |
104.2 |
| N |
CD |
HD2 |
110.9 |
110.4 |
| N |
CD |
HD3 |
111.0 |
110.4 |
| CD |
N |
H |
110.0 |
111.0 |
| OXT |
C |
CA |
117.2 |
120.0 |
| C |
CA |
N |
115.2 |
110.4 |
| C |
CA |
HA |
110.4 |
110.3 |
| N |
CA |
HA |
110.7 |
110.6 |
| CA |
N |
H |
110.0 |
111.0 |
| HM1 |
CM |
HM2 |
109.5 |
109.4 |
| HM1 |
CM |
HM3 |
109.5 |
109.4 |
| HM2 |
CM |
HM3 |
109.5 |
109.5 |
| HG2 |
CG |
HG3 |
109.5 |
110.4 |
| HB2 |
CB |
HB3 |
109.5 |
110.4 |
| HD2 |
CD |
HD3 |
109.5 |
110.5 |
Torsion Angles for PDW
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O |
C |
OXT |
CM |
19.8 |
0.0 |
| CM |
OXT |
C |
CA |
231.2 |
180.0 |
| HM1 |
CM |
OXT |
HM2 |
240.0 |
240.0 |
| HM1 |
CM |
OXT |
HM3 |
120.0 |
119.9 |
| HM2 |
CM |
OXT |
HM3 |
240.0 |
240.0 |
| CM |
OXT |
C |
O |
19.8 |
0.0 |
| CB |
CA |
C |
O |
347.4 |
260.0 |
| OXT |
C |
O |
CA |
211.7 |
180.0 |
| O |
C |
CA |
N |
102.7 |
15.2 |
| O |
C |
CA |
HA |
229.0 |
137.7 |
| CB |
CG |
CD |
N |
320.6 |
336.2 |
| CD |
CG |
CB |
HG2 |
241.3 |
241.1 |
| CD |
CG |
CB |
HG3 |
118.7 |
118.8 |
| CB |
CG |
CD |
HD2 |
79.7 |
94.9 |
| CB |
CG |
CD |
HD3 |
201.6 |
217.4 |
| CG |
CB |
CA |
C |
108.1 |
142.7 |
| CG |
CB |
CA |
N |
346.4 |
23.9 |
| CA |
CB |
CG |
HB2 |
240.5 |
241.1 |
| CA |
CB |
CG |
HB3 |
119.5 |
118.9 |
| CG |
CB |
CA |
HA |
226.5 |
264.9 |
| HG2 |
CG |
CB |
HG3 |
237.5 |
237.8 |
| HB2 |
CB |
CG |
HB3 |
238.9 |
237.8 |
| CD |
CG |
CB |
CA |
32.4 |
360.0 |
| CB |
CG |
CD |
HG2 |
118.8 |
118.9 |
| CB |
CG |
CD |
HG3 |
241.2 |
241.1 |
| CD |
CG |
CB |
HB2 |
151.9 |
118.9 |
| CD |
CG |
CB |
HB3 |
273.0 |
241.1 |
| CG |
CD |
N |
CA |
32.1 |
39.4 |
| N |
CD |
CG |
HD2 |
241.0 |
241.3 |
| N |
CD |
CG |
HD3 |
119.0 |
118.8 |
| CG |
CD |
N |
H |
151.8 |
159.0 |
| HG2 |
CG |
CD |
HG3 |
122.5 |
122.2 |
| HD2 |
CD |
CG |
HD3 |
238.1 |
237.6 |
| O |
C |
CA |
CB |
347.4 |
260.0 |
| CA |
CB |
CG |
CD |
32.4 |
360.0 |
| CA |
CB |
CG |
HG2 |
151.2 |
118.9 |
| CA |
CB |
CG |
HG3 |
273.7 |
241.1 |
| CG |
CB |
CA |
HB2 |
119.4 |
118.9 |
| CG |
CB |
CA |
HB3 |
240.5 |
241.2 |
| CD |
N |
CA |
CB |
348.3 |
320.5 |
| OXT |
C |
CA |
CB |
135.6 |
80.0 |
| C |
CA |
CB |
N |
121.7 |
118.8 |
| C |
CA |
CB |
HA |
241.7 |
237.8 |
| N |
CA |
CB |
HA |
120.0 |
119.0 |
| CB |
CA |
N |
H |
228.6 |
201.0 |
| HB2 |
CB |
CA |
HB3 |
121.1 |
122.3 |
| N |
CD |
CG |
HG2 |
201.9 |
217.3 |
| N |
CD |
CG |
HG3 |
79.4 |
95.1 |
| CG |
CD |
N |
HD2 |
119.0 |
118.7 |
| CG |
CD |
N |
HD3 |
241.0 |
241.2 |
| CB |
CA |
N |
CD |
348.3 |
320.5 |
| C |
CA |
N |
CD |
234.2 |
201.8 |
| CD |
N |
CA |
HA |
108.1 |
79.4 |
| CA |
N |
CD |
H |
240.3 |
240.5 |
| HD2 |
CD |
N |
HD3 |
121.9 |
122.5 |
| C |
OXT |
CM |
HM1 |
180.0 |
59.9 |
| C |
OXT |
CM |
HM2 |
300.0 |
180.0 |
| C |
OXT |
CM |
HM3 |
60.0 |
300.0 |
| O |
C |
OXT |
CA |
148.6 |
180.0 |
| CB |
CA |
C |
OXT |
135.6 |
80.0 |
| OXT |
C |
CA |
N |
250.8 |
195.2 |
| OXT |
C |
CA |
HA |
17.1 |
317.7 |
| O |
C |
CA |
OXT |
211.8 |
180.0 |
| CB |
CA |
C |
N |
244.7 |
244.8 |
| C |
CA |
CB |
HB2 |
348.7 |
23.8 |
| C |
CA |
CB |
HB3 |
227.6 |
261.5 |
| CB |
CA |
C |
HA |
118.5 |
122.3 |
| CD |
N |
CA |
C |
234.2 |
201.8 |
| N |
CA |
C |
HA |
233.7 |
237.5 |
| C |
CA |
N |
H |
114.5 |
82.2 |
| CB |
CA |
N |
C |
114.1 |
118.7 |
| N |
CA |
CB |
HB2 |
227.0 |
265.0 |
| N |
CA |
CB |
HB3 |
105.9 |
142.7 |
| CB |
CA |
N |
HA |
240.2 |
241.1 |
| CA |
N |
CD |
HD2 |
273.1 |
280.7 |
| CA |
N |
CD |
HD3 |
151.1 |
158.3 |
| CD |
N |
CA |
H |
119.7 |
119.6 |
| C |
CA |
N |
HA |
126.1 |
122.4 |
| HM1 |
CM |
OXT |
C |
180.0 |
59.9 |
| OXT |
CM |
HM1 |
HM2 |
120.0 |
120.1 |
| OXT |
CM |
HM1 |
HM3 |
240.0 |
240.0 |
| HM2 |
CM |
HM1 |
HM3 |
120.0 |
119.9 |
| HM2 |
CM |
OXT |
C |
300.0 |
180.0 |
| OXT |
CM |
HM2 |
HM1 |
239.9 |
239.9 |
| OXT |
CM |
HM2 |
HM3 |
120.0 |
120.0 |
| HM1 |
CM |
HM2 |
HM3 |
240.0 |
240.1 |
| HM3 |
CM |
OXT |
C |
60.0 |
300.0 |
| OXT |
CM |
HM3 |
HM1 |
120.0 |
120.0 |
| OXT |
CM |
HM3 |
HM2 |
240.0 |
239.9 |
| HM1 |
CM |
HM3 |
HM2 |
120.0 |
119.9 |
| CB |
CG |
HG2 |
CD |
247.1 |
244.3 |
| HG2 |
CG |
CB |
CA |
151.2 |
118.9 |
| CB |
CG |
HG2 |
HG3 |
123.6 |
122.2 |
| HG2 |
CG |
CB |
HB2 |
270.6 |
237.8 |
| HG2 |
CG |
CB |
HB3 |
31.7 |
0.0 |
| HG2 |
CG |
CD |
N |
201.9 |
217.3 |
| CD |
CG |
HG2 |
HG3 |
236.5 |
237.9 |
| HG2 |
CG |
CD |
HD2 |
320.9 |
336.0 |
| HG2 |
CG |
CD |
HD3 |
82.8 |
98.4 |
| CB |
CG |
HG3 |
CD |
112.9 |
115.6 |
| HG3 |
CG |
CB |
CA |
273.7 |
241.1 |
| CB |
CG |
HG3 |
HG2 |
236.4 |
237.8 |
| HG3 |
CG |
CB |
HB2 |
33.1 |
0.0 |
| HG3 |
CG |
CB |
HB3 |
154.2 |
122.2 |
| HG3 |
CG |
CD |
N |
79.4 |
95.1 |
| CD |
CG |
HG3 |
HG2 |
123.5 |
122.2 |
| HG3 |
CG |
CD |
HD2 |
198.4 |
213.8 |
| HG3 |
CG |
CD |
HD3 |
320.4 |
336.2 |
| HB2 |
CB |
CG |
CD |
151.9 |
118.9 |
| CG |
CB |
HB2 |
CA |
243.2 |
244.4 |
| HB2 |
CB |
CG |
HG2 |
270.6 |
237.8 |
| HB2 |
CB |
CG |
HG3 |
33.1 |
0.0 |
| CG |
CB |
HB2 |
HB3 |
121.6 |
122.1 |
| HB2 |
CB |
CA |
C |
348.7 |
23.8 |
| HB2 |
CB |
CA |
N |
227.0 |
265.0 |
| CA |
CB |
HB2 |
HB3 |
238.4 |
237.7 |
| HB2 |
CB |
CA |
HA |
107.0 |
146.0 |
| HB3 |
CB |
CG |
CD |
273.0 |
241.1 |
| CG |
CB |
HB3 |
CA |
116.8 |
115.6 |
| HB3 |
CB |
CG |
HG2 |
31.7 |
0.0 |
| HB3 |
CB |
CG |
HG3 |
154.2 |
122.2 |
| CG |
CB |
HB3 |
HB2 |
238.4 |
237.9 |
| HB3 |
CB |
CA |
C |
227.6 |
261.5 |
| HB3 |
CB |
CA |
N |
105.9 |
142.7 |
| CA |
CB |
HB3 |
HB2 |
121.6 |
122.3 |
| HB3 |
CB |
CA |
HA |
345.9 |
23.7 |
| CG |
CD |
HD2 |
N |
245.6 |
244.9 |
| HD2 |
CD |
CG |
HG2 |
320.9 |
336.0 |
| HD2 |
CD |
CG |
HG3 |
198.4 |
213.8 |
| CG |
CD |
HD2 |
HD3 |
122.8 |
122.4 |
| HD2 |
CD |
N |
CA |
273.1 |
280.7 |
| N |
CD |
HD2 |
HD3 |
237.2 |
237.6 |
| HD2 |
CD |
N |
H |
32.7 |
40.3 |
| CG |
CD |
HD3 |
N |
114.4 |
115.2 |
| HD3 |
CD |
CG |
HG2 |
82.8 |
98.4 |
| HD3 |
CD |
CG |
HG3 |
320.4 |
336.2 |
| CG |
CD |
HD3 |
HD2 |
237.2 |
237.6 |
| HD3 |
CD |
N |
CA |
151.1 |
158.3 |
| N |
CD |
HD3 |
HD2 |
122.8 |
122.4 |
| HD3 |
CD |
N |
H |
270.8 |
277.8 |
| CB |
CA |
HA |
C |
245.8 |
237.8 |
| CB |
CA |
HA |
N |
117.0 |
115.3 |
| HA |
CA |
CB |
HB2 |
107.0 |
146.0 |
| HA |
CA |
CB |
HB3 |
345.9 |
23.7 |
| C |
CA |
HA |
N |
231.2 |
237.6 |
| HA |
CA |
N |
H |
348.4 |
319.8 |
| CD |
N |
H |
CA |
241.9 |
244.6 |
| H |
N |
CD |
HD2 |
32.7 |
40.3 |
| H |
N |
CD |
HD3 |
270.8 |
277.8 |
| H |
N |
CA |
HA |
348.4 |
319.8 |