PDB Chemical Component DDO
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 DDO
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| N |
CA |
1.452 |
1.469 |
| N |
HN1 |
1.021 |
1.008 |
| N |
HN2 |
1.019 |
1.009 |
| CA |
CB |
1.527 |
1.528 |
| CA |
C |
1.519 |
1.506 |
| CA |
HA1 |
1.115 |
1.091 |
| CB |
CG |
1.513 |
1.528 |
| CB |
HB1 |
1.115 |
1.090 |
| CB |
HB2 |
1.115 |
1.089 |
| CG |
CD |
1.520 |
1.530 |
| CG |
HG1 |
1.115 |
1.090 |
| CG |
HG2 |
1.116 |
1.090 |
| CD |
CE |
1.531 |
1.530 |
| CD |
HD1 |
1.115 |
1.090 |
| CD |
HD2 |
1.115 |
1.090 |
| CE |
OZ |
1.418 |
1.428 |
| CE |
HE1 |
1.114 |
1.090 |
| CE |
HE2 |
1.116 |
1.090 |
| OZ |
HOZ |
0.951 |
0.967 |
| C |
O |
1.240 |
1.208 |
| C |
OXT |
1.251 |
1.342 |
| OXT |
HXT |
0.950 |
0.967 |
Bond Angles for DDO
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| CA |
N |
HN1 |
111.0 |
106.7 |
| CA |
N |
HN2 |
111.6 |
106.7 |
| N |
CA |
CB |
111.0 |
109.5 |
| N |
CA |
C |
112.0 |
109.4 |
| N |
CA |
HA1 |
106.6 |
109.5 |
| HN1 |
N |
HN2 |
111.6 |
106.7 |
| CB |
CA |
C |
109.5 |
109.6 |
| CB |
CA |
HA1 |
109.3 |
109.5 |
| CA |
CB |
CG |
114.5 |
109.5 |
| CA |
CB |
HB1 |
110.3 |
109.5 |
| CA |
CB |
HB2 |
110.3 |
109.5 |
| C |
CA |
HA1 |
108.3 |
109.4 |
| CA |
C |
O |
115.9 |
120.1 |
| CA |
C |
OXT |
120.0 |
120.0 |
| CG |
CB |
HB1 |
110.4 |
109.5 |
| CG |
CB |
HB2 |
110.4 |
109.5 |
| CB |
CG |
CD |
110.8 |
109.5 |
| CB |
CG |
HG1 |
111.7 |
109.4 |
| CB |
CG |
HG2 |
111.7 |
109.5 |
| HB1 |
CB |
HB2 |
99.9 |
109.4 |
| CD |
CG |
HG1 |
111.8 |
109.4 |
| CD |
CG |
HG2 |
111.8 |
109.5 |
| CG |
CD |
CE |
112.0 |
109.5 |
| CG |
CD |
HD1 |
111.3 |
109.4 |
| CG |
CD |
HD2 |
111.3 |
109.5 |
| HG1 |
CG |
HG2 |
98.6 |
109.5 |
| CE |
CD |
HD1 |
111.3 |
109.5 |
| CE |
CD |
HD2 |
111.3 |
109.5 |
| CD |
CE |
OZ |
112.1 |
109.5 |
| CD |
CE |
HE1 |
111.3 |
109.5 |
| CD |
CE |
HE2 |
111.2 |
109.5 |
| HD1 |
CD |
HD2 |
99.1 |
109.5 |
| OZ |
CE |
HE1 |
111.2 |
109.4 |
| OZ |
CE |
HE2 |
111.2 |
109.5 |
| CE |
OZ |
HOZ |
112.2 |
106.9 |
| HE1 |
CE |
HE2 |
99.1 |
109.5 |
| O |
C |
OXT |
124.1 |
119.9 |
| C |
OXT |
HXT |
120.0 |
120.0 |
Torsion Angles for DDO
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| HN1 |
N |
CA |
HN2 |
125.2 |
246.1 |
| CB |
CA |
N |
C |
122.7 |
120.1 |
| CB |
CA |
N |
HA1 |
241.0 |
240.0 |
| N |
CA |
CB |
CG |
58.3 |
60.0 |
| N |
CA |
CB |
HB1 |
183.6 |
180.0 |
| N |
CA |
CB |
HB2 |
293.0 |
299.9 |
| C |
CA |
N |
HA1 |
118.3 |
119.9 |
| N |
CA |
C |
O |
252.8 |
30.1 |
| N |
CA |
C |
OXT |
73.2 |
210.0 |
| CA |
N |
HN1 |
HN2 |
234.7 |
113.8 |
| HN1 |
N |
CA |
CB |
180.0 |
60.0 |
| HN1 |
N |
CA |
C |
57.3 |
299.9 |
| HN1 |
N |
CA |
HA1 |
299.0 |
180.0 |
| CA |
N |
HN2 |
HN1 |
124.9 |
246.2 |
| HN2 |
N |
CA |
CB |
54.8 |
173.9 |
| HN2 |
N |
CA |
C |
292.1 |
53.8 |
| HN2 |
N |
CA |
HA1 |
173.8 |
293.9 |
| CB |
CA |
N |
HN1 |
180.0 |
60.0 |
| CB |
CA |
N |
HN2 |
54.8 |
173.9 |
| N |
CA |
CB |
C |
235.9 |
240.0 |
| N |
CA |
CB |
HA1 |
117.4 |
120.0 |
| C |
CA |
CB |
HA1 |
241.5 |
240.0 |
| CB |
CA |
C |
O |
129.2 |
270.1 |
| CB |
CA |
C |
OXT |
309.6 |
90.0 |
| CG |
CB |
CA |
HB1 |
234.7 |
240.0 |
| CG |
CB |
CA |
HB2 |
125.3 |
120.1 |
| CA |
CB |
CG |
CD |
158.4 |
180.0 |
| CA |
CB |
CG |
HG1 |
283.7 |
300.0 |
| CA |
CB |
CG |
HG2 |
33.1 |
60.0 |
| HB1 |
CB |
CA |
HB2 |
250.5 |
240.1 |
| C |
CA |
N |
HN1 |
57.3 |
299.9 |
| C |
CA |
N |
HN2 |
292.1 |
53.8 |
| N |
CA |
C |
CB |
123.6 |
120.0 |
| N |
CA |
C |
HA1 |
242.7 |
240.1 |
| CB |
CA |
C |
HA1 |
119.1 |
120.1 |
| C |
CA |
CB |
CG |
182.4 |
180.0 |
| C |
CA |
CB |
HB1 |
307.7 |
300.0 |
| C |
CA |
CB |
HB2 |
57.2 |
59.9 |
| O |
C |
CA |
OXT |
179.6 |
180.1 |
| CA |
C |
OXT |
HXT |
180.0 |
180.0 |
| HA1 |
CA |
N |
HN1 |
299.0 |
180.0 |
| HA1 |
CA |
N |
HN2 |
173.8 |
293.9 |
| N |
CA |
HA1 |
CB |
239.9 |
240.0 |
| N |
CA |
HA1 |
C |
120.7 |
119.9 |
| CB |
CA |
HA1 |
C |
240.8 |
239.9 |
| HA1 |
CA |
CB |
CG |
300.9 |
300.0 |
| HA1 |
CA |
CB |
HB1 |
66.2 |
60.0 |
| HA1 |
CA |
CB |
HB2 |
175.6 |
179.9 |
| HA1 |
CA |
C |
O |
10.1 |
150.0 |
| HA1 |
CA |
C |
OXT |
190.5 |
329.9 |
| CG |
CB |
CA |
C |
182.4 |
180.0 |
| CG |
CB |
CA |
HA1 |
300.9 |
300.0 |
| CA |
CB |
CG |
HB1 |
125.2 |
120.0 |
| CA |
CB |
CG |
HB2 |
234.8 |
239.9 |
| HB1 |
CB |
CG |
HB2 |
109.5 |
119.9 |
| CD |
CG |
CB |
HG1 |
234.7 |
240.0 |
| CD |
CG |
CB |
HG2 |
125.3 |
120.0 |
| CB |
CG |
CD |
CE |
281.9 |
180.0 |
| CB |
CG |
CD |
HD1 |
47.1 |
300.0 |
| CB |
CG |
CD |
HD2 |
156.6 |
60.0 |
| HG1 |
CG |
CB |
HG2 |
250.6 |
240.0 |
| HB1 |
CB |
CA |
C |
307.7 |
300.0 |
| HB1 |
CB |
CA |
HA1 |
66.2 |
60.0 |
| CA |
CB |
HB1 |
CG |
232.4 |
239.9 |
| CA |
CB |
HB1 |
HB2 |
116.2 |
119.9 |
| CG |
CB |
HB1 |
HB2 |
243.7 |
240.0 |
| HB1 |
CB |
CG |
CD |
33.1 |
60.0 |
| HB1 |
CB |
CG |
HG1 |
158.4 |
180.0 |
| HB1 |
CB |
CG |
HG2 |
267.8 |
300.0 |
| HB2 |
CB |
CA |
C |
57.2 |
59.9 |
| HB2 |
CB |
CA |
HA1 |
175.6 |
179.9 |
| CA |
CB |
HB2 |
CG |
127.6 |
120.1 |
| CA |
CB |
HB2 |
HB1 |
243.8 |
240.1 |
| CG |
CB |
HB2 |
HB1 |
116.3 |
120.0 |
| HB2 |
CB |
CG |
CD |
283.6 |
300.1 |
| HB2 |
CB |
CG |
HG1 |
48.9 |
60.0 |
| HB2 |
CB |
CG |
HG2 |
158.3 |
180.0 |
| CD |
CG |
CB |
HB1 |
33.1 |
60.0 |
| CD |
CG |
CB |
HB2 |
283.6 |
300.1 |
| CB |
CG |
CD |
HG1 |
125.3 |
120.0 |
| CB |
CG |
CD |
HG2 |
234.7 |
240.0 |
| HG1 |
CG |
CD |
HG2 |
109.4 |
120.0 |
| CE |
CD |
CG |
HD1 |
234.7 |
240.0 |
| CE |
CD |
CG |
HD2 |
125.3 |
120.0 |
| CG |
CD |
CE |
OZ |
57.6 |
180.0 |
| CG |
CD |
CE |
HE1 |
182.9 |
300.0 |
| CG |
CD |
CE |
HE2 |
292.4 |
60.0 |
| HD1 |
CD |
CG |
HD2 |
250.5 |
240.0 |
| HG1 |
CG |
CB |
HB1 |
158.4 |
180.0 |
| HG1 |
CG |
CB |
HB2 |
48.9 |
60.0 |
| CB |
CG |
HG1 |
CD |
235.2 |
240.0 |
| CB |
CG |
HG1 |
HG2 |
117.6 |
120.0 |
| CD |
CG |
HG1 |
HG2 |
242.3 |
240.0 |
| HG1 |
CG |
CD |
CE |
156.6 |
60.0 |
| HG1 |
CG |
CD |
HD1 |
281.8 |
180.0 |
| HG1 |
CG |
CD |
HD2 |
31.3 |
300.0 |
| HG2 |
CG |
CB |
HB1 |
267.8 |
300.0 |
| HG2 |
CG |
CB |
HB2 |
158.3 |
180.0 |
| CB |
CG |
HG2 |
CD |
124.8 |
120.1 |
| CB |
CG |
HG2 |
HG1 |
242.4 |
240.0 |
| CD |
CG |
HG2 |
HG1 |
117.7 |
120.0 |
| HG2 |
CG |
CD |
CE |
47.1 |
300.0 |
| HG2 |
CG |
CD |
HD1 |
172.4 |
60.0 |
| HG2 |
CG |
CD |
HD2 |
281.9 |
180.0 |
| CE |
CD |
CG |
HG1 |
156.6 |
60.0 |
| CE |
CD |
CG |
HG2 |
47.1 |
300.0 |
| CG |
CD |
CE |
HD1 |
125.2 |
120.0 |
| CG |
CD |
CE |
HD2 |
234.8 |
240.0 |
| HD1 |
CD |
CE |
HD2 |
109.5 |
120.0 |
| OZ |
CE |
CD |
HE1 |
234.7 |
240.0 |
| OZ |
CE |
CD |
HE2 |
125.2 |
120.0 |
| CD |
CE |
OZ |
HOZ |
180.0 |
180.0 |
| HE1 |
CE |
CD |
HE2 |
250.5 |
240.0 |
| HD1 |
CD |
CG |
HG1 |
281.8 |
180.0 |
| HD1 |
CD |
CG |
HG2 |
172.4 |
60.0 |
| CG |
CD |
HD1 |
CE |
234.4 |
240.0 |
| CG |
CD |
HD1 |
HD2 |
117.2 |
120.0 |
| CE |
CD |
HD1 |
HD2 |
242.8 |
240.0 |
| HD1 |
CD |
CE |
OZ |
292.4 |
60.0 |
| HD1 |
CD |
CE |
HE1 |
57.7 |
180.0 |
| HD1 |
CD |
CE |
HE2 |
167.2 |
300.0 |
| HD2 |
CD |
CG |
HG1 |
31.3 |
300.0 |
| HD2 |
CD |
CG |
HG2 |
281.9 |
180.0 |
| CG |
CD |
HD2 |
CE |
125.6 |
120.0 |
| CG |
CD |
HD2 |
HD1 |
242.8 |
240.0 |
| CE |
CD |
HD2 |
HD1 |
117.2 |
120.0 |
| HD2 |
CD |
CE |
OZ |
182.9 |
300.0 |
| HD2 |
CD |
CE |
HE1 |
308.1 |
60.0 |
| HD2 |
CD |
CE |
HE2 |
57.6 |
180.0 |
| OZ |
CE |
CD |
HD1 |
292.4 |
60.0 |
| OZ |
CE |
CD |
HD2 |
182.9 |
300.0 |
| CD |
CE |
OZ |
HE1 |
125.3 |
120.0 |
| CD |
CE |
OZ |
HE2 |
234.7 |
240.0 |
| HE1 |
CE |
OZ |
HE2 |
109.4 |
120.0 |
| HE1 |
CE |
CD |
HD1 |
57.7 |
180.0 |
| HE1 |
CE |
CD |
HD2 |
308.1 |
60.0 |
| CD |
CE |
HE1 |
OZ |
234.2 |
240.0 |
| CD |
CE |
HE1 |
HE2 |
117.1 |
120.0 |
| OZ |
CE |
HE1 |
HE2 |
242.9 |
240.0 |
| HE1 |
CE |
OZ |
HOZ |
54.7 |
60.0 |
| HE2 |
CE |
CD |
HD1 |
167.2 |
300.0 |
| HE2 |
CE |
CD |
HD2 |
57.6 |
180.0 |
| CD |
CE |
HE2 |
OZ |
125.8 |
120.0 |
| CD |
CE |
HE2 |
HE1 |
242.8 |
240.0 |
| OZ |
CE |
HE2 |
HE1 |
117.1 |
120.0 |
| HE2 |
CE |
OZ |
HOZ |
305.3 |
300.0 |
| HOZ |
OZ |
CE |
HE1 |
54.7 |
60.0 |
| HOZ |
OZ |
CE |
HE2 |
305.3 |
300.0 |
| O |
C |
CA |
HA1 |
10.1 |
150.0 |
| CA |
C |
O |
OXT |
180.4 |
179.9 |
| O |
C |
OXT |
HXT |
0.5 |
359.9 |
| OXT |
C |
CA |
HA1 |
190.5 |
329.9 |
| CA |
C |
OXT |
O |
179.6 |
180.1 |