PDB Chemical Component LDO
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 LDO
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| N |
CA |
1.468 |
1.469 |
| N |
H |
1.021 |
1.008 |
| N |
H2 |
1.019 |
1.009 |
| CA |
CB |
1.533 |
1.529 |
| CA |
C |
1.520 |
1.506 |
| CA |
HA |
1.115 |
1.090 |
| CB |
CG |
1.511 |
1.529 |
| CB |
HB1 |
1.115 |
1.090 |
| CB |
HB2 |
1.115 |
1.089 |
| CG |
CD |
1.528 |
1.530 |
| CG |
HG1 |
1.115 |
1.090 |
| CG |
HG2 |
1.115 |
1.090 |
| CD |
CE |
1.528 |
1.529 |
| CD |
HD1 |
1.116 |
1.089 |
| CD |
HD2 |
1.114 |
1.090 |
| CE |
OZ |
1.418 |
1.427 |
| CE |
HE1 |
1.114 |
1.090 |
| CE |
HE2 |
1.115 |
1.090 |
| OZ |
HOZ |
0.950 |
0.967 |
| C |
O |
1.254 |
1.208 |
| C |
OXT |
1.247 |
1.342 |
| OXT |
HXT |
0.951 |
0.967 |
Bond Angles for LDO
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| CA |
N |
H |
111.0 |
106.7 |
| CA |
N |
H2 |
111.6 |
106.7 |
| N |
CA |
CB |
111.0 |
109.5 |
| N |
CA |
C |
111.5 |
109.5 |
| N |
CA |
HA |
106.6 |
109.4 |
| H |
N |
H2 |
111.7 |
106.7 |
| CB |
CA |
C |
108.1 |
109.6 |
| CB |
CA |
HA |
110.1 |
109.5 |
| CA |
CB |
CG |
115.3 |
109.5 |
| CA |
CB |
HB1 |
110.1 |
109.5 |
| CA |
CB |
HB2 |
110.1 |
109.5 |
| C |
CA |
HA |
109.5 |
109.4 |
| CA |
C |
O |
118.4 |
120.0 |
| CA |
C |
OXT |
117.4 |
120.0 |
| CG |
CB |
HB1 |
110.1 |
109.5 |
| CG |
CB |
HB2 |
110.1 |
109.5 |
| CB |
CG |
CD |
111.4 |
109.5 |
| CB |
CG |
HG1 |
111.5 |
109.5 |
| CB |
CG |
HG2 |
111.5 |
109.5 |
| HB1 |
CB |
HB2 |
100.1 |
109.4 |
| CD |
CG |
HG1 |
111.6 |
109.4 |
| CD |
CG |
HG2 |
111.5 |
109.4 |
| CG |
CD |
CE |
113.9 |
109.6 |
| CG |
CD |
HD1 |
110.6 |
109.4 |
| CG |
CD |
HD2 |
110.6 |
109.4 |
| HG1 |
CG |
HG2 |
98.9 |
109.4 |
| CE |
CD |
HD1 |
110.6 |
109.5 |
| CE |
CD |
HD2 |
110.6 |
109.4 |
| CD |
CE |
OZ |
111.9 |
109.5 |
| CD |
CE |
HE1 |
111.3 |
109.4 |
| CD |
CE |
HE2 |
111.3 |
109.4 |
| HD1 |
CD |
HD2 |
99.7 |
109.5 |
| OZ |
CE |
HE1 |
111.3 |
109.5 |
| OZ |
CE |
HE2 |
111.3 |
109.5 |
| CE |
OZ |
HOZ |
112.0 |
106.9 |
| HE1 |
CE |
HE2 |
99.1 |
109.4 |
| O |
C |
OXT |
124.3 |
119.9 |
| C |
OXT |
HXT |
117.3 |
120.0 |
Torsion Angles for LDO
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| H |
N |
CA |
H2 |
125.3 |
246.2 |
| CB |
CA |
N |
C |
239.4 |
239.9 |
| CB |
CA |
N |
HA |
119.9 |
120.0 |
| N |
CA |
CB |
CG |
291.8 |
300.0 |
| N |
CA |
CB |
HB1 |
57.1 |
60.1 |
| N |
CA |
CB |
HB2 |
166.5 |
180.0 |
| C |
CA |
N |
HA |
240.5 |
240.1 |
| N |
CA |
C |
O |
142.3 |
329.9 |
| N |
CA |
C |
OXT |
321.3 |
150.0 |
| CA |
N |
H |
H2 |
234.8 |
113.7 |
| H |
N |
CA |
CB |
180.0 |
299.9 |
| H |
N |
CA |
C |
300.6 |
60.0 |
| H |
N |
CA |
HA |
60.1 |
180.0 |
| CA |
N |
H2 |
H |
124.9 |
246.3 |
| H2 |
N |
CA |
CB |
54.7 |
53.7 |
| H2 |
N |
CA |
C |
175.4 |
173.8 |
| H2 |
N |
CA |
HA |
294.9 |
293.7 |
| CB |
CA |
N |
H |
180.0 |
299.9 |
| CB |
CA |
N |
H2 |
54.7 |
53.7 |
| N |
CA |
CB |
C |
122.6 |
120.1 |
| N |
CA |
CB |
HA |
242.2 |
240.1 |
| C |
CA |
CB |
HA |
119.6 |
120.0 |
| CB |
CA |
C |
O |
264.6 |
90.0 |
| CB |
CA |
C |
OXT |
83.6 |
270.1 |
| CG |
CB |
CA |
HB1 |
234.7 |
240.0 |
| CG |
CB |
CA |
HB2 |
125.3 |
120.1 |
| CA |
CB |
CG |
CD |
207.1 |
180.0 |
| CA |
CB |
CG |
HG1 |
332.4 |
300.0 |
| CA |
CB |
CG |
HG2 |
81.9 |
60.0 |
| HB1 |
CB |
CA |
HB2 |
250.6 |
240.1 |
| C |
CA |
N |
H |
300.6 |
60.0 |
| C |
CA |
N |
H2 |
175.4 |
173.8 |
| N |
CA |
C |
CB |
237.7 |
239.9 |
| N |
CA |
C |
HA |
117.8 |
119.9 |
| CB |
CA |
C |
HA |
240.0 |
240.0 |
| C |
CA |
CB |
CG |
169.2 |
180.0 |
| C |
CA |
CB |
HB1 |
294.5 |
300.0 |
| C |
CA |
CB |
HB2 |
44.0 |
59.9 |
| O |
C |
CA |
OXT |
181.0 |
179.9 |
| CA |
C |
OXT |
HXT |
180.0 |
179.9 |
| HA |
CA |
N |
H |
60.1 |
180.0 |
| HA |
CA |
N |
H2 |
294.9 |
293.7 |
| N |
CA |
HA |
CB |
120.5 |
120.0 |
| N |
CA |
HA |
C |
239.2 |
240.1 |
| CB |
CA |
HA |
C |
118.8 |
120.1 |
| HA |
CA |
CB |
CG |
49.6 |
60.0 |
| HA |
CA |
CB |
HB1 |
174.9 |
180.0 |
| HA |
CA |
CB |
HB2 |
284.3 |
299.9 |
| HA |
CA |
C |
O |
24.5 |
210.0 |
| HA |
CA |
C |
OXT |
203.5 |
30.1 |
| CG |
CB |
CA |
C |
169.2 |
180.0 |
| CG |
CB |
CA |
HA |
49.6 |
60.0 |
| CA |
CB |
CG |
HB1 |
125.3 |
120.0 |
| CA |
CB |
CG |
HB2 |
234.7 |
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 |
297.0 |
180.0 |
| CB |
CG |
CD |
HD1 |
62.2 |
300.1 |
| CB |
CG |
CD |
HD2 |
171.7 |
60.0 |
| HG1 |
CG |
CB |
HG2 |
250.5 |
240.0 |
| HB1 |
CB |
CA |
C |
294.5 |
300.0 |
| HB1 |
CB |
CA |
HA |
174.9 |
180.0 |
| CA |
CB |
HB1 |
CG |
231.8 |
239.9 |
| CA |
CB |
HB1 |
HB2 |
115.9 |
120.0 |
| CG |
CB |
HB1 |
HB2 |
244.1 |
240.1 |
| HB1 |
CB |
CG |
CD |
81.8 |
59.9 |
| HB1 |
CB |
CG |
HG1 |
207.1 |
180.0 |
| HB1 |
CB |
CG |
HG2 |
316.6 |
299.9 |
| HB2 |
CB |
CA |
C |
44.0 |
59.9 |
| HB2 |
CB |
CA |
HA |
284.3 |
299.9 |
| CA |
CB |
HB2 |
CG |
128.2 |
120.1 |
| CA |
CB |
HB2 |
HB1 |
244.2 |
240.0 |
| CG |
CB |
HB2 |
HB1 |
115.9 |
119.9 |
| HB2 |
CB |
CG |
CD |
332.4 |
300.1 |
| HB2 |
CB |
CG |
HG1 |
97.7 |
60.1 |
| HB2 |
CB |
CG |
HG2 |
207.1 |
180.1 |
| CD |
CG |
CB |
HB1 |
81.8 |
59.9 |
| CD |
CG |
CB |
HB2 |
332.4 |
300.1 |
| CB |
CG |
CD |
HG1 |
125.2 |
120.1 |
| CB |
CG |
CD |
HG2 |
234.8 |
240.0 |
| HG1 |
CG |
CD |
HG2 |
109.5 |
119.9 |
| CE |
CD |
CG |
HD1 |
234.7 |
239.9 |
| CE |
CD |
CG |
HD2 |
125.3 |
120.0 |
| CG |
CD |
CE |
OZ |
72.7 |
180.0 |
| CG |
CD |
CE |
HE1 |
198.0 |
300.1 |
| CG |
CD |
CE |
HE2 |
307.5 |
60.0 |
| HD1 |
CD |
CG |
HD2 |
250.6 |
240.0 |
| HG1 |
CG |
CB |
HB1 |
207.1 |
180.0 |
| HG1 |
CG |
CB |
HB2 |
97.7 |
60.1 |
| CB |
CG |
HG1 |
CD |
234.8 |
239.9 |
| CB |
CG |
HG1 |
HG2 |
117.4 |
120.0 |
| CD |
CG |
HG1 |
HG2 |
242.5 |
240.1 |
| HG1 |
CG |
CD |
CE |
171.8 |
59.9 |
| HG1 |
CG |
CD |
HD1 |
297.0 |
180.0 |
| HG1 |
CG |
CD |
HD2 |
46.5 |
300.0 |
| HG2 |
CG |
CB |
HB1 |
316.6 |
299.9 |
| HG2 |
CG |
CB |
HB2 |
207.1 |
180.1 |
| CB |
CG |
HG2 |
CD |
125.2 |
120.1 |
| CB |
CG |
HG2 |
HG1 |
242.6 |
240.0 |
| CD |
CG |
HG2 |
HG1 |
117.5 |
119.9 |
| HG2 |
CG |
CD |
CE |
62.2 |
300.0 |
| HG2 |
CG |
CD |
HD1 |
187.5 |
60.1 |
| HG2 |
CG |
CD |
HD2 |
296.9 |
180.1 |
| CE |
CD |
CG |
HG1 |
171.8 |
59.9 |
| CE |
CD |
CG |
HG2 |
62.2 |
300.0 |
| CG |
CD |
CE |
HD1 |
125.3 |
120.0 |
| CG |
CD |
CE |
HD2 |
234.7 |
240.0 |
| HD1 |
CD |
CE |
HD2 |
109.5 |
120.0 |
| OZ |
CE |
CD |
HE1 |
234.8 |
240.0 |
| OZ |
CE |
CD |
HE2 |
125.2 |
120.0 |
| CD |
CE |
OZ |
HOZ |
180.0 |
180.0 |
| HE1 |
CE |
CD |
HE2 |
250.5 |
240.1 |
| HD1 |
CD |
CG |
HG1 |
297.0 |
180.0 |
| HD1 |
CD |
CG |
HG2 |
187.5 |
60.1 |
| CG |
CD |
HD1 |
CE |
232.9 |
239.9 |
| CG |
CD |
HD1 |
HD2 |
116.4 |
119.9 |
| CE |
CD |
HD1 |
HD2 |
243.5 |
240.0 |
| HD1 |
CD |
CE |
OZ |
307.5 |
60.0 |
| HD1 |
CD |
CE |
HE1 |
72.7 |
180.0 |
| HD1 |
CD |
CE |
HE2 |
182.2 |
299.9 |
| HD2 |
CD |
CG |
HG1 |
46.5 |
300.0 |
| HD2 |
CD |
CG |
HG2 |
296.9 |
180.1 |
| CG |
CD |
HD2 |
CE |
127.1 |
120.1 |
| CG |
CD |
HD2 |
HD1 |
243.6 |
240.1 |
| CE |
CD |
HD2 |
HD1 |
116.5 |
120.0 |
| HD2 |
CD |
CE |
OZ |
198.0 |
300.0 |
| HD2 |
CD |
CE |
HE1 |
323.2 |
60.0 |
| HD2 |
CD |
CE |
HE2 |
72.8 |
179.9 |
| OZ |
CE |
CD |
HD1 |
307.5 |
60.0 |
| OZ |
CE |
CD |
HD2 |
198.0 |
300.0 |
| CD |
CE |
OZ |
HE1 |
125.2 |
120.0 |
| CD |
CE |
OZ |
HE2 |
234.8 |
240.0 |
| HE1 |
CE |
OZ |
HE2 |
109.5 |
120.0 |
| HE1 |
CE |
CD |
HD1 |
72.7 |
180.0 |
| HE1 |
CE |
CD |
HD2 |
323.2 |
60.0 |
| CD |
CE |
HE1 |
OZ |
234.4 |
239.9 |
| CD |
CE |
HE1 |
HE2 |
117.2 |
119.9 |
| OZ |
CE |
HE1 |
HE2 |
242.8 |
240.0 |
| HE1 |
CE |
OZ |
HOZ |
54.7 |
60.0 |
| HE2 |
CE |
CD |
HD1 |
182.2 |
299.9 |
| HE2 |
CE |
CD |
HD2 |
72.8 |
179.9 |
| CD |
CE |
HE2 |
OZ |
125.6 |
120.1 |
| CD |
CE |
HE2 |
HE1 |
242.8 |
240.1 |
| OZ |
CE |
HE2 |
HE1 |
117.2 |
120.0 |
| HE2 |
CE |
OZ |
HOZ |
305.2 |
300.0 |
| HOZ |
OZ |
CE |
HE1 |
54.7 |
60.0 |
| HOZ |
OZ |
CE |
HE2 |
305.2 |
300.0 |
| O |
C |
CA |
HA |
24.5 |
210.0 |
| CA |
C |
O |
OXT |
178.9 |
180.1 |
| O |
C |
OXT |
HXT |
358.9 |
0.0 |
| OXT |
C |
CA |
HA |
203.5 |
30.1 |
| CA |
C |
OXT |
O |
181.1 |
179.9 |