PDB Chemical Component DFO
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 DFO
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| N |
CA |
1.470 |
1.468 |
| N |
H |
1.020 |
1.009 |
| N |
H2 |
1.021 |
1.009 |
| CA |
CB |
1.551 |
1.529 |
| CA |
CH |
1.534 |
1.529 |
| CA |
HA |
1.115 |
1.090 |
| CB |
CG |
1.514 |
1.530 |
| CB |
HB2 |
1.115 |
1.091 |
| CB |
HB3 |
1.115 |
1.090 |
| CG |
CD1 |
1.520 |
1.529 |
| CG |
CD2 |
1.557 |
1.529 |
| CG |
HG |
1.115 |
1.089 |
| CD1 |
HD11 |
1.115 |
1.090 |
| CD1 |
HD12 |
1.115 |
1.090 |
| CD1 |
HD13 |
1.115 |
1.091 |
| CD2 |
HD21 |
1.115 |
1.089 |
| CD2 |
HD22 |
1.114 |
1.090 |
| CD2 |
HD23 |
1.115 |
1.090 |
| CH |
OH1 |
1.467 |
1.428 |
| CH |
OH2 |
1.404 |
1.429 |
| CH |
CM |
1.559 |
1.530 |
| OH1 |
HH1 |
0.949 |
0.967 |
| OH2 |
HH2 |
0.949 |
0.966 |
| CM |
F1 |
1.304 |
1.398 |
| CM |
F2 |
1.335 |
1.399 |
| CM |
C |
1.577 |
1.507 |
| C |
O |
1.244 |
1.209 |
| C |
OXT |
1.308 |
1.341 |
| OXT |
HXT |
0.950 |
0.967 |
Bond Angles for DFO
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| CA |
N |
H |
105.7 |
106.6 |
| CA |
N |
H2 |
113.7 |
106.7 |
| N |
CA |
CB |
105.7 |
109.5 |
| N |
CA |
CH |
110.2 |
109.5 |
| N |
CA |
HA |
111.9 |
109.5 |
| H |
N |
H2 |
113.6 |
106.7 |
| CB |
CA |
CH |
110.7 |
109.5 |
| CB |
CA |
HA |
111.3 |
109.5 |
| CA |
CB |
CG |
117.4 |
109.5 |
| CA |
CB |
HB2 |
109.4 |
109.5 |
| CA |
CB |
HB3 |
109.3 |
109.5 |
| CH |
CA |
HA |
107.1 |
109.5 |
| CA |
CH |
OH1 |
109.0 |
109.5 |
| CA |
CH |
OH2 |
106.5 |
109.4 |
| CA |
CH |
CM |
117.2 |
109.5 |
| CG |
CB |
HB2 |
109.3 |
109.4 |
| CG |
CB |
HB3 |
109.3 |
109.5 |
| CB |
CG |
CD1 |
111.1 |
109.5 |
| CB |
CG |
CD2 |
112.1 |
109.5 |
| CB |
CG |
HG |
105.5 |
109.4 |
| HB2 |
CB |
HB3 |
100.8 |
109.5 |
| CD1 |
CG |
CD2 |
106.1 |
109.5 |
| CD1 |
CG |
HG |
111.6 |
109.4 |
| CG |
CD1 |
HD11 |
111.1 |
109.5 |
| CG |
CD1 |
HD12 |
111.6 |
109.5 |
| CG |
CD1 |
HD13 |
111.7 |
109.4 |
| CD2 |
CG |
HG |
110.6 |
109.5 |
| CG |
CD2 |
HD21 |
112.1 |
109.5 |
| CG |
CD2 |
HD22 |
111.2 |
109.5 |
| CG |
CD2 |
HD23 |
111.2 |
109.4 |
| HD11 |
CD1 |
HD12 |
111.6 |
109.5 |
| HD11 |
CD1 |
HD13 |
111.6 |
109.4 |
| HD12 |
CD1 |
HD13 |
98.8 |
109.5 |
| HD21 |
CD2 |
HD22 |
111.2 |
109.5 |
| HD21 |
CD2 |
HD23 |
111.2 |
109.5 |
| HD22 |
CD2 |
HD23 |
99.1 |
109.5 |
| OH1 |
CH |
OH2 |
111.8 |
109.5 |
| OH1 |
CH |
CM |
107.7 |
109.5 |
| CH |
OH1 |
HH1 |
109.0 |
106.8 |
| OH2 |
CH |
CM |
104.7 |
109.5 |
| CH |
OH2 |
HH2 |
106.4 |
106.8 |
| CH |
CM |
F1 |
108.9 |
109.5 |
| CH |
CM |
F2 |
111.5 |
109.5 |
| CH |
CM |
C |
109.5 |
109.5 |
| F1 |
CM |
F2 |
108.1 |
109.5 |
| F1 |
CM |
C |
109.7 |
109.5 |
| F2 |
CM |
C |
109.1 |
109.4 |
| CM |
C |
O |
121.1 |
120.0 |
| CM |
C |
OXT |
113.4 |
120.1 |
| O |
C |
OXT |
125.5 |
120.0 |
| C |
OXT |
HXT |
113.4 |
120.1 |
Torsion Angles for DFO
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| H |
N |
CA |
H2 |
125.3 |
113.8 |
| CB |
CA |
N |
CH |
240.3 |
240.0 |
| CB |
CA |
N |
HA |
121.3 |
120.0 |
| N |
CA |
CB |
CG |
307.2 |
300.0 |
| N |
CA |
CB |
HB2 |
72.4 |
180.0 |
| N |
CA |
CB |
HB3 |
181.9 |
60.0 |
| CH |
CA |
N |
HA |
241.0 |
240.0 |
| N |
CA |
CH |
OH1 |
308.3 |
180.0 |
| N |
CA |
CH |
OH2 |
187.6 |
300.0 |
| N |
CA |
CH |
CM |
70.8 |
60.0 |
| CA |
N |
H |
H2 |
234.7 |
246.2 |
| H |
N |
CA |
CB |
180.0 |
53.8 |
| H |
N |
CA |
CH |
299.7 |
173.8 |
| H |
N |
CA |
HA |
58.7 |
293.8 |
| CA |
N |
H2 |
H |
121.0 |
113.7 |
| H2 |
N |
CA |
CB |
54.7 |
300.0 |
| H2 |
N |
CA |
CH |
174.4 |
60.1 |
| H2 |
N |
CA |
HA |
293.4 |
180.0 |
| CB |
CA |
N |
H |
180.0 |
53.8 |
| CB |
CA |
N |
H2 |
54.7 |
300.0 |
| N |
CA |
CB |
CH |
119.3 |
120.0 |
| N |
CA |
CB |
HA |
238.3 |
240.0 |
| CH |
CA |
CB |
HA |
119.0 |
120.0 |
| CB |
CA |
CH |
OH1 |
64.9 |
300.0 |
| CB |
CA |
CH |
OH2 |
304.2 |
60.0 |
| CB |
CA |
CH |
CM |
187.4 |
180.0 |
| CG |
CB |
CA |
HB2 |
234.8 |
119.9 |
| CG |
CB |
CA |
HB3 |
125.3 |
239.9 |
| CA |
CB |
CG |
CD1 |
176.0 |
180.0 |
| CA |
CB |
CG |
CD2 |
294.4 |
300.0 |
| CA |
CB |
CG |
HG |
54.9 |
60.0 |
| HB2 |
CB |
CA |
HB3 |
250.5 |
120.0 |
| CH |
CA |
N |
H |
299.7 |
173.8 |
| CH |
CA |
N |
H2 |
174.4 |
60.1 |
| N |
CA |
CH |
CB |
243.4 |
240.0 |
| N |
CA |
CH |
HA |
121.9 |
120.0 |
| CB |
CA |
CH |
HA |
238.5 |
240.0 |
| CH |
CA |
CB |
CG |
187.8 |
179.9 |
| CH |
CA |
CB |
HB2 |
313.1 |
60.0 |
| CH |
CA |
CB |
HB3 |
62.6 |
300.0 |
| OH1 |
CH |
CA |
OH2 |
120.7 |
240.0 |
| OH1 |
CH |
CA |
CM |
237.5 |
120.1 |
| CA |
CH |
OH1 |
HH1 |
180.0 |
299.9 |
| OH2 |
CH |
CA |
CM |
116.7 |
240.0 |
| CA |
CH |
OH2 |
HH2 |
180.0 |
60.0 |
| CA |
CH |
CM |
F1 |
315.9 |
300.0 |
| CA |
CH |
CM |
F2 |
196.7 |
60.0 |
| CA |
CH |
CM |
C |
75.8 |
180.0 |
| HA |
CA |
N |
H |
58.7 |
293.8 |
| HA |
CA |
N |
H2 |
293.4 |
180.0 |
| N |
CA |
HA |
CB |
118.0 |
120.0 |
| N |
CA |
HA |
CH |
239.2 |
240.0 |
| CB |
CA |
HA |
CH |
121.1 |
120.0 |
| HA |
CA |
CB |
CG |
68.9 |
59.9 |
| HA |
CA |
CB |
HB2 |
194.1 |
300.0 |
| HA |
CA |
CB |
HB3 |
303.6 |
180.0 |
| HA |
CA |
CH |
OH1 |
186.4 |
60.1 |
| HA |
CA |
CH |
OH2 |
65.7 |
180.0 |
| HA |
CA |
CH |
CM |
308.9 |
300.0 |
| CG |
CB |
CA |
CH |
187.8 |
179.9 |
| CG |
CB |
CA |
HA |
68.9 |
59.9 |
| CA |
CB |
CG |
HB2 |
125.3 |
240.0 |
| CA |
CB |
CG |
HB3 |
234.7 |
120.1 |
| HB2 |
CB |
CG |
HB3 |
109.4 |
240.0 |
| CD1 |
CG |
CB |
CD2 |
241.5 |
239.9 |
| CD1 |
CG |
CB |
HG |
121.1 |
120.0 |
| CB |
CG |
CD1 |
HD11 |
180.0 |
180.0 |
| CB |
CG |
CD1 |
HD12 |
305.2 |
300.1 |
| CB |
CG |
CD1 |
HD13 |
54.7 |
60.1 |
| CD2 |
CG |
CB |
HG |
239.6 |
240.0 |
| CB |
CG |
CD2 |
HD21 |
180.0 |
299.9 |
| CB |
CG |
CD2 |
HD22 |
305.2 |
60.0 |
| CB |
CG |
CD2 |
HD23 |
54.7 |
179.9 |
| HB2 |
CB |
CA |
CH |
313.1 |
60.0 |
| HB2 |
CB |
CA |
HA |
194.1 |
300.0 |
| CA |
CB |
HB2 |
CG |
230.2 |
120.0 |
| CA |
CB |
HB2 |
HB3 |
115.1 |
240.0 |
| CG |
CB |
HB2 |
HB3 |
244.9 |
120.0 |
| HB2 |
CB |
CG |
CD1 |
50.7 |
299.9 |
| HB2 |
CB |
CG |
CD2 |
169.2 |
60.0 |
| HB2 |
CB |
CG |
HG |
289.6 |
180.0 |
| HB3 |
CB |
CA |
CH |
62.6 |
300.0 |
| HB3 |
CB |
CA |
HA |
303.6 |
180.0 |
| CA |
CB |
HB3 |
CG |
129.8 |
239.9 |
| CA |
CB |
HB3 |
HB2 |
244.9 |
120.0 |
| CG |
CB |
HB3 |
HB2 |
115.0 |
240.1 |
| HB3 |
CB |
CG |
CD1 |
301.2 |
59.9 |
| HB3 |
CB |
CG |
CD2 |
59.7 |
180.0 |
| HB3 |
CB |
CG |
HG |
180.1 |
300.0 |
| CD1 |
CG |
CB |
HB2 |
50.7 |
299.9 |
| CD1 |
CG |
CB |
HB3 |
301.2 |
59.9 |
| CB |
CG |
CD1 |
CD2 |
122.1 |
120.0 |
| CB |
CG |
CD1 |
HG |
242.6 |
240.1 |
| CD2 |
CG |
CD1 |
HG |
120.5 |
120.0 |
| CD1 |
CG |
CD2 |
HD21 |
301.4 |
60.0 |
| CD1 |
CG |
CD2 |
HD22 |
66.7 |
180.0 |
| CD1 |
CG |
CD2 |
HD23 |
176.2 |
300.0 |
| HD11 |
CD1 |
CG |
HD12 |
234.8 |
240.0 |
| HD11 |
CD1 |
CG |
HD13 |
125.3 |
119.9 |
| HD12 |
CD1 |
CG |
HD13 |
250.5 |
240.0 |
| CD2 |
CG |
CB |
HB2 |
169.2 |
60.0 |
| CD2 |
CG |
CB |
HB3 |
59.7 |
180.0 |
| CB |
CG |
CD2 |
CD1 |
238.6 |
239.9 |
| CB |
CG |
CD2 |
HG |
117.4 |
119.9 |
| CD1 |
CG |
CD2 |
HG |
238.9 |
240.0 |
| CD2 |
CG |
CD1 |
HD11 |
57.9 |
60.0 |
| CD2 |
CG |
CD1 |
HD12 |
183.1 |
180.0 |
| CD2 |
CG |
CD1 |
HD13 |
292.6 |
300.1 |
| HD21 |
CD2 |
CG |
HD22 |
234.8 |
239.9 |
| HD21 |
CD2 |
CG |
HD23 |
125.3 |
120.0 |
| HD22 |
CD2 |
CG |
HD23 |
250.5 |
240.0 |
| HG |
CG |
CB |
HB2 |
289.6 |
180.0 |
| HG |
CG |
CB |
HB3 |
180.1 |
300.0 |
| CB |
CG |
HG |
CD1 |
120.8 |
120.0 |
| CB |
CG |
HG |
CD2 |
238.6 |
240.0 |
| CD1 |
CG |
HG |
CD2 |
117.8 |
120.0 |
| HG |
CG |
CD1 |
HD11 |
297.4 |
300.0 |
| HG |
CG |
CD1 |
HD12 |
62.7 |
60.0 |
| HG |
CG |
CD1 |
HD13 |
172.2 |
180.0 |
| HG |
CG |
CD2 |
HD21 |
62.6 |
180.0 |
| HG |
CG |
CD2 |
HD22 |
187.8 |
300.1 |
| HG |
CG |
CD2 |
HD23 |
297.3 |
60.0 |
| HD11 |
CD1 |
CG |
CD2 |
57.9 |
60.0 |
| HD11 |
CD1 |
CG |
HG |
297.4 |
300.0 |
| CG |
CD1 |
HD11 |
HD12 |
125.2 |
120.1 |
| CG |
CD1 |
HD11 |
HD13 |
234.7 |
240.1 |
| HD12 |
CD1 |
HD11 |
HD13 |
109.4 |
120.0 |
| HD12 |
CD1 |
CG |
CD2 |
183.1 |
180.0 |
| HD12 |
CD1 |
CG |
HG |
62.7 |
60.0 |
| CG |
CD1 |
HD12 |
HD11 |
235.1 |
239.9 |
| CG |
CD1 |
HD12 |
HD13 |
117.6 |
120.0 |
| HD11 |
CD1 |
HD12 |
HD13 |
242.5 |
240.1 |
| HD13 |
CD1 |
CG |
CD2 |
292.6 |
300.1 |
| HD13 |
CD1 |
CG |
HG |
172.2 |
180.0 |
| CG |
CD1 |
HD13 |
HD11 |
125.0 |
120.0 |
| CG |
CD1 |
HD13 |
HD12 |
242.5 |
240.0 |
| HD11 |
CD1 |
HD13 |
HD12 |
117.5 |
120.0 |
| HD21 |
CD2 |
CG |
HG |
62.6 |
180.0 |
| CG |
CD2 |
HD21 |
HD22 |
125.2 |
120.0 |
| CG |
CD2 |
HD21 |
HD23 |
234.7 |
240.0 |
| HD22 |
CD2 |
HD21 |
HD23 |
109.5 |
120.0 |
| HD22 |
CD2 |
CG |
HG |
187.8 |
300.1 |
| CG |
CD2 |
HD22 |
HD21 |
234.2 |
239.9 |
| CG |
CD2 |
HD22 |
HD23 |
117.1 |
119.9 |
| HD21 |
CD2 |
HD22 |
HD23 |
242.9 |
240.0 |
| HD23 |
CD2 |
CG |
HG |
297.3 |
60.0 |
| CG |
CD2 |
HD23 |
HD21 |
125.8 |
120.0 |
| CG |
CD2 |
HD23 |
HD22 |
242.9 |
240.0 |
| HD21 |
CD2 |
HD23 |
HD22 |
117.1 |
120.0 |
| OH1 |
CH |
CA |
HA |
186.4 |
60.1 |
| CA |
CH |
OH1 |
OH2 |
242.6 |
120.0 |
| CA |
CH |
OH1 |
CM |
128.1 |
240.0 |
| OH2 |
CH |
OH1 |
CM |
245.5 |
120.0 |
| OH1 |
CH |
OH2 |
HH2 |
61.1 |
180.0 |
| OH1 |
CH |
CM |
F1 |
79.1 |
180.0 |
| OH1 |
CH |
CM |
F2 |
319.9 |
300.0 |
| OH1 |
CH |
CM |
C |
199.0 |
60.0 |
| OH2 |
CH |
CA |
HA |
65.7 |
180.0 |
| CA |
CH |
OH2 |
OH1 |
118.9 |
240.0 |
| CA |
CH |
OH2 |
CM |
235.2 |
120.0 |
| OH1 |
CH |
OH2 |
CM |
116.3 |
240.0 |
| OH2 |
CH |
OH1 |
HH1 |
297.4 |
180.0 |
| OH2 |
CH |
CM |
F1 |
198.2 |
60.0 |
| OH2 |
CH |
CM |
F2 |
79.0 |
180.0 |
| OH2 |
CH |
CM |
C |
318.1 |
299.9 |
| CM |
CH |
CA |
HA |
308.9 |
300.0 |
| CA |
CH |
CM |
OH1 |
236.8 |
120.0 |
| CA |
CH |
CM |
OH2 |
117.7 |
240.0 |
| OH1 |
CH |
CM |
OH2 |
240.9 |
120.0 |
| CM |
CH |
OH1 |
HH1 |
51.9 |
60.0 |
| CM |
CH |
OH2 |
HH2 |
304.8 |
300.0 |
| F1 |
CM |
CH |
F2 |
119.2 |
240.0 |
| F1 |
CM |
CH |
C |
240.1 |
120.0 |
| F2 |
CM |
CH |
C |
120.9 |
240.1 |
| CH |
CM |
C |
O |
277.6 |
90.0 |
| CH |
CM |
C |
OXT |
97.1 |
270.1 |
| HH1 |
OH1 |
CH |
OH2 |
297.4 |
180.0 |
| HH1 |
OH1 |
CH |
CM |
51.9 |
60.0 |
| HH2 |
OH2 |
CH |
CM |
304.8 |
300.0 |
| CH |
CM |
F1 |
F2 |
238.7 |
120.0 |
| CH |
CM |
F1 |
C |
119.8 |
240.0 |
| F2 |
CM |
F1 |
C |
241.1 |
119.9 |
| F1 |
CM |
C |
O |
37.0 |
329.9 |
| F1 |
CM |
C |
OXT |
216.5 |
150.0 |
| CH |
CM |
F2 |
F1 |
119.7 |
240.0 |
| CH |
CM |
F2 |
C |
238.9 |
120.0 |
| F1 |
CM |
F2 |
C |
119.3 |
240.1 |
| F2 |
CM |
C |
O |
155.3 |
210.0 |
| F2 |
CM |
C |
OXT |
334.8 |
30.1 |
| CH |
CM |
C |
F1 |
240.6 |
120.1 |
| CH |
CM |
C |
F2 |
122.3 |
240.0 |
| F1 |
CM |
C |
F2 |
241.7 |
120.0 |
| O |
C |
CM |
OXT |
180.5 |
179.9 |
| CM |
C |
OXT |
HXT |
180.0 |
180.0 |
| CM |
C |
O |
OXT |
179.4 |
180.1 |
| O |
C |
OXT |
HXT |
359.5 |
0.1 |
| CM |
C |
OXT |
O |
180.5 |
179.9 |