PDB Chemical Component SDC
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 SDC
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| O01 |
C04 |
1.203 |
1.343 |
| O01 |
H01 |
0.950 |
0.967 |
| NP2 |
C03 |
1.498 |
1.469 |
| NP2 |
HP21 |
1.000 |
1.009 |
| NP2 |
HP22 |
1.000 |
1.009 |
| C03 |
C04 |
1.554 |
1.507 |
| C03 |
C06 |
1.526 |
1.530 |
| C03 |
H03 |
1.100 |
1.091 |
| C04 |
O05 |
1.352 |
1.208 |
| C06 |
S07 |
1.807 |
1.814 |
| C06 |
H061 |
1.100 |
1.091 |
| C06 |
H062 |
1.100 |
1.089 |
| S07 |
C08 |
1.837 |
1.813 |
| C08 |
C09 |
1.535 |
1.530 |
| C08 |
H081 |
1.100 |
1.090 |
| C08 |
H082 |
1.099 |
1.089 |
| C09 |
S10 |
1.796 |
1.813 |
| C09 |
H091 |
1.100 |
1.090 |
| C09 |
H092 |
1.100 |
1.090 |
| S10 |
O11 |
1.400 |
1.421 |
| S10 |
N12 |
1.635 |
1.657 |
| S10 |
O13 |
1.440 |
1.421 |
| N12 |
H121 |
1.000 |
0.970 |
| N12 |
H122 |
1.000 |
0.969 |
Bond Angles for SDC
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C04 |
O01 |
H01 |
109.5 |
117.0 |
| O01 |
C04 |
C03 |
128.0 |
120.0 |
| O01 |
C04 |
O05 |
123.3 |
120.0 |
| C03 |
NP2 |
HP21 |
109.5 |
111.0 |
| C03 |
NP2 |
HP22 |
109.5 |
111.0 |
| NP2 |
C03 |
C04 |
112.2 |
109.5 |
| NP2 |
C03 |
C06 |
104.7 |
109.5 |
| NP2 |
C03 |
H03 |
112.2 |
109.5 |
| HP21 |
NP2 |
HP22 |
109.4 |
111.0 |
| C04 |
C03 |
C06 |
113.3 |
109.5 |
| C04 |
C03 |
H03 |
103.5 |
109.5 |
| C03 |
C04 |
O05 |
108.7 |
120.0 |
| C06 |
C03 |
H03 |
111.2 |
109.4 |
| C03 |
C06 |
S07 |
107.3 |
109.5 |
| C03 |
C06 |
H061 |
110.2 |
109.4 |
| C03 |
C06 |
H062 |
110.6 |
109.5 |
| S07 |
C06 |
H061 |
110.2 |
109.5 |
| S07 |
C06 |
H062 |
110.7 |
109.5 |
| C06 |
S07 |
C08 |
98.7 |
103.0 |
| H061 |
C06 |
H062 |
107.8 |
109.5 |
| S07 |
C08 |
C09 |
105.3 |
109.5 |
| S07 |
C08 |
H081 |
110.9 |
109.5 |
| S07 |
C08 |
H082 |
111.8 |
109.5 |
| C09 |
C08 |
H081 |
110.9 |
109.4 |
| C09 |
C08 |
H082 |
111.8 |
109.5 |
| C08 |
C09 |
S10 |
111.7 |
109.5 |
| C08 |
C09 |
H091 |
108.7 |
109.4 |
| C08 |
C09 |
H092 |
108.3 |
109.5 |
| H081 |
C08 |
H082 |
106.3 |
109.4 |
| S10 |
C09 |
H091 |
108.7 |
109.5 |
| S10 |
C09 |
H092 |
108.2 |
109.5 |
| C09 |
S10 |
O11 |
113.4 |
110.5 |
| C09 |
S10 |
N12 |
104.2 |
104.5 |
| C09 |
S10 |
O13 |
114.6 |
110.5 |
| H091 |
C09 |
H092 |
111.2 |
109.4 |
| O11 |
S10 |
N12 |
106.6 |
104.3 |
| O11 |
S10 |
O13 |
118.0 |
121.1 |
| N12 |
S10 |
O13 |
97.1 |
104.2 |
| S10 |
N12 |
H121 |
109.5 |
119.9 |
| S10 |
N12 |
H122 |
109.5 |
120.0 |
| H121 |
N12 |
H122 |
109.5 |
120.0 |
Torsion Angles for SDC
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| NP2 |
C03 |
C04 |
O01 |
221.8 |
160.0 |
| O01 |
C04 |
C03 |
C06 |
340.2 |
280.1 |
| O01 |
C04 |
C03 |
H03 |
100.7 |
40.0 |
| C03 |
C04 |
O01 |
O05 |
180.6 |
179.9 |
| H01 |
O01 |
C04 |
C03 |
180.6 |
180.0 |
| H01 |
O01 |
C04 |
O05 |
360.0 |
0.0 |
| O01 |
C04 |
C03 |
NP2 |
221.8 |
160.0 |
| HP21 |
NP2 |
C03 |
HP22 |
240.0 |
236.1 |
| C04 |
C03 |
NP2 |
C06 |
123.3 |
120.1 |
| C04 |
C03 |
NP2 |
H03 |
244.0 |
240.0 |
| NP2 |
C03 |
C04 |
O05 |
42.4 |
339.9 |
| C06 |
C03 |
NP2 |
H03 |
120.7 |
119.9 |
| NP2 |
C03 |
C06 |
S07 |
208.2 |
300.1 |
| NP2 |
C03 |
C06 |
H061 |
328.3 |
60.0 |
| NP2 |
C03 |
C06 |
H062 |
87.4 |
180.0 |
| C03 |
NP2 |
HP21 |
HP22 |
120.0 |
123.9 |
| HP21 |
NP2 |
C03 |
C04 |
254.6 |
296.1 |
| HP21 |
NP2 |
C03 |
C06 |
131.3 |
176.0 |
| HP21 |
NP2 |
C03 |
H03 |
10.6 |
56.1 |
| C03 |
NP2 |
HP22 |
HP21 |
240.0 |
236.0 |
| HP22 |
NP2 |
C03 |
C04 |
14.6 |
60.0 |
| HP22 |
NP2 |
C03 |
C06 |
251.3 |
299.9 |
| HP22 |
NP2 |
C03 |
H03 |
130.6 |
180.0 |
| C03 |
C04 |
O01 |
H01 |
180.6 |
180.0 |
| O01 |
C04 |
C03 |
O05 |
179.4 |
180.1 |
| C04 |
C03 |
NP2 |
HP21 |
254.6 |
296.1 |
| C04 |
C03 |
NP2 |
HP22 |
14.6 |
60.0 |
| NP2 |
C03 |
C04 |
C06 |
241.7 |
239.9 |
| NP2 |
C03 |
C04 |
H03 |
121.2 |
120.0 |
| C06 |
C03 |
C04 |
H03 |
239.5 |
240.1 |
| C04 |
C03 |
C06 |
S07 |
85.6 |
180.0 |
| C04 |
C03 |
C06 |
H061 |
205.6 |
300.0 |
| C04 |
C03 |
C06 |
H062 |
324.8 |
59.9 |
| C06 |
C03 |
NP2 |
HP21 |
131.3 |
176.0 |
| C06 |
C03 |
NP2 |
HP22 |
251.3 |
299.9 |
| NP2 |
C03 |
C06 |
C04 |
122.6 |
120.1 |
| NP2 |
C03 |
C06 |
H03 |
238.6 |
240.0 |
| C04 |
C03 |
C06 |
H03 |
116.0 |
120.0 |
| C06 |
C03 |
C04 |
O05 |
160.7 |
100.0 |
| S07 |
C06 |
C03 |
H061 |
240.0 |
240.0 |
| S07 |
C06 |
C03 |
H062 |
120.9 |
120.1 |
| C03 |
C06 |
S07 |
C08 |
203.3 |
180.0 |
| H061 |
C06 |
C03 |
H062 |
240.9 |
240.0 |
| H03 |
C03 |
NP2 |
HP21 |
10.6 |
56.1 |
| H03 |
C03 |
NP2 |
HP22 |
130.6 |
180.0 |
| NP2 |
C03 |
H03 |
C04 |
238.8 |
240.0 |
| NP2 |
C03 |
H03 |
C06 |
116.9 |
120.0 |
| C04 |
C03 |
H03 |
C06 |
238.1 |
240.0 |
| H03 |
C03 |
C04 |
O05 |
281.2 |
220.0 |
| H03 |
C03 |
C06 |
S07 |
329.6 |
60.0 |
| H03 |
C03 |
C06 |
H061 |
89.6 |
180.0 |
| H03 |
C03 |
C06 |
H062 |
208.7 |
300.0 |
| O05 |
C04 |
O01 |
H01 |
360.0 |
0.0 |
| O01 |
C04 |
O05 |
C03 |
180.5 |
179.9 |
| O05 |
C04 |
C03 |
C06 |
160.7 |
100.0 |
| O05 |
C04 |
C03 |
H03 |
281.2 |
220.0 |
| S07 |
C06 |
C03 |
H03 |
329.6 |
60.0 |
| C03 |
C06 |
S07 |
H061 |
120.0 |
119.9 |
| C03 |
C06 |
S07 |
H062 |
239.2 |
239.9 |
| H061 |
C06 |
S07 |
H062 |
119.1 |
120.0 |
| C06 |
S07 |
C08 |
C09 |
224.9 |
180.0 |
| C06 |
S07 |
C08 |
H081 |
344.9 |
300.0 |
| C06 |
S07 |
C08 |
H082 |
103.3 |
60.0 |
| H061 |
C06 |
C03 |
H03 |
89.6 |
180.0 |
| C03 |
C06 |
H061 |
S07 |
241.7 |
240.0 |
| C03 |
C06 |
H061 |
H062 |
120.8 |
120.0 |
| S07 |
C06 |
H061 |
H062 |
239.1 |
240.0 |
| H061 |
C06 |
S07 |
C08 |
83.2 |
60.0 |
| H062 |
C06 |
C03 |
H03 |
208.7 |
300.0 |
| C03 |
C06 |
H062 |
S07 |
118.9 |
120.1 |
| C03 |
C06 |
H062 |
H061 |
239.4 |
240.1 |
| S07 |
C06 |
H062 |
H061 |
120.6 |
120.0 |
| H062 |
C06 |
S07 |
C08 |
324.1 |
300.0 |
| C08 |
S07 |
C06 |
H061 |
83.2 |
60.0 |
| C08 |
S07 |
C06 |
H062 |
324.1 |
300.0 |
| C09 |
C08 |
S07 |
H081 |
240.0 |
240.0 |
| C09 |
C08 |
S07 |
H082 |
121.6 |
120.0 |
| S07 |
C08 |
C09 |
S10 |
199.9 |
180.0 |
| S07 |
C08 |
C09 |
H091 |
319.9 |
300.0 |
| S07 |
C08 |
C09 |
H092 |
80.9 |
59.9 |
| H081 |
C08 |
S07 |
H082 |
241.6 |
240.0 |
| S07 |
C08 |
C09 |
H081 |
120.0 |
120.0 |
| S07 |
C08 |
C09 |
H082 |
238.4 |
239.9 |
| H081 |
C08 |
C09 |
H082 |
118.4 |
119.9 |
| S10 |
C09 |
C08 |
H091 |
240.0 |
240.0 |
| S10 |
C09 |
C08 |
H092 |
119.0 |
120.1 |
| C08 |
C09 |
S10 |
O11 |
132.7 |
68.4 |
| C08 |
C09 |
S10 |
N12 |
248.2 |
180.0 |
| C08 |
C09 |
S10 |
O13 |
353.1 |
291.6 |
| H091 |
C09 |
C08 |
H092 |
239.0 |
240.1 |
| S07 |
C08 |
H081 |
C09 |
243.4 |
240.0 |
| S07 |
C08 |
H081 |
H082 |
121.7 |
120.1 |
| C09 |
C08 |
H081 |
H082 |
238.3 |
240.1 |
| H081 |
C08 |
C09 |
S10 |
79.9 |
60.0 |
| H081 |
C08 |
C09 |
H091 |
199.9 |
180.0 |
| H081 |
C08 |
C09 |
H092 |
320.9 |
299.9 |
| S07 |
C08 |
H082 |
C09 |
117.8 |
120.0 |
| S07 |
C08 |
H082 |
H081 |
238.9 |
239.9 |
| C09 |
C08 |
H082 |
H081 |
121.1 |
119.9 |
| H082 |
C08 |
C09 |
S10 |
321.5 |
300.1 |
| H082 |
C08 |
C09 |
H091 |
81.5 |
60.1 |
| H082 |
C08 |
C09 |
H092 |
202.5 |
180.0 |
| S10 |
C09 |
C08 |
H081 |
79.9 |
60.0 |
| S10 |
C09 |
C08 |
H082 |
321.5 |
300.1 |
| C08 |
C09 |
S10 |
H091 |
120.0 |
120.0 |
| C08 |
C09 |
S10 |
H092 |
240.9 |
240.0 |
| H091 |
C09 |
S10 |
H092 |
120.9 |
120.0 |
| O11 |
S10 |
C09 |
N12 |
244.5 |
248.4 |
| O11 |
S10 |
C09 |
O13 |
139.6 |
136.8 |
| N12 |
S10 |
C09 |
O13 |
255.1 |
248.4 |
| C09 |
S10 |
N12 |
H121 |
256.0 |
359.9 |
| C09 |
S10 |
N12 |
H122 |
16.0 |
180.0 |
| H091 |
C09 |
C08 |
H081 |
199.9 |
180.0 |
| H091 |
C09 |
C08 |
H082 |
81.5 |
60.1 |
| C08 |
C09 |
H091 |
S10 |
238.2 |
240.0 |
| C08 |
C09 |
H091 |
H092 |
119.1 |
119.9 |
| S10 |
C09 |
H091 |
H092 |
240.9 |
239.9 |
| H091 |
C09 |
S10 |
O11 |
12.7 |
308.4 |
| H091 |
C09 |
S10 |
N12 |
128.2 |
60.0 |
| H091 |
C09 |
S10 |
O13 |
233.1 |
171.6 |
| H092 |
C09 |
C08 |
H081 |
320.9 |
299.9 |
| H092 |
C09 |
C08 |
H082 |
202.5 |
180.0 |
| C08 |
C09 |
H092 |
S10 |
121.2 |
120.1 |
| C08 |
C09 |
H092 |
H091 |
240.6 |
240.1 |
| S10 |
C09 |
H092 |
H091 |
119.4 |
120.0 |
| H092 |
C09 |
S10 |
O11 |
251.7 |
188.4 |
| H092 |
C09 |
S10 |
N12 |
7.2 |
300.0 |
| H092 |
C09 |
S10 |
O13 |
112.1 |
51.6 |
| O11 |
S10 |
C09 |
H091 |
12.7 |
308.4 |
| O11 |
S10 |
C09 |
H092 |
251.7 |
188.4 |
| C09 |
S10 |
O11 |
N12 |
114.1 |
111.8 |
| C09 |
S10 |
O11 |
O13 |
221.9 |
228.5 |
| N12 |
S10 |
O11 |
O13 |
107.7 |
116.7 |
| O11 |
S10 |
N12 |
H121 |
16.2 |
116.0 |
| O11 |
S10 |
N12 |
H122 |
136.2 |
296.1 |
| N12 |
S10 |
C09 |
H091 |
128.2 |
60.0 |
| N12 |
S10 |
C09 |
H092 |
7.2 |
300.0 |
| C09 |
S10 |
N12 |
O11 |
239.8 |
243.9 |
| C09 |
S10 |
N12 |
O13 |
117.7 |
116.1 |
| O11 |
S10 |
N12 |
O13 |
237.9 |
232.1 |
| H121 |
N12 |
S10 |
H122 |
240.0 |
179.9 |
| O13 |
S10 |
C09 |
H091 |
233.1 |
171.6 |
| O13 |
S10 |
C09 |
H092 |
112.1 |
51.6 |
| C09 |
S10 |
O13 |
O11 |
137.7 |
131.5 |
| C09 |
S10 |
O13 |
N12 |
250.7 |
248.3 |
| O11 |
S10 |
O13 |
N12 |
113.1 |
116.7 |
| O13 |
S10 |
N12 |
H121 |
138.3 |
243.9 |
| O13 |
S10 |
N12 |
H122 |
258.3 |
64.0 |
| H121 |
N12 |
S10 |
O13 |
138.3 |
243.9 |
| S10 |
N12 |
H121 |
H122 |
120.0 |
180.1 |
| H122 |
N12 |
S10 |
O13 |
258.3 |
64.0 |
| S10 |
N12 |
H122 |
H121 |
240.0 |
179.9 |