PDB Chemical Component SAO
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 SAO
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| N6 |
C6 |
1.335 |
1.384 |
| C6 |
C5 |
1.417 |
1.406 |
| C6 |
N1 |
1.353 |
1.329 |
| N7 |
C5 |
1.391 |
1.354 |
| N7 |
C8 |
1.319 |
1.302 |
| C5 |
C4 |
1.378 |
1.405 |
| N1 |
C2 |
1.337 |
1.320 |
| C8 |
N9 |
1.362 |
1.363 |
| C4 |
N9 |
1.383 |
1.372 |
| C4 |
N3 |
1.337 |
1.329 |
| C2 |
N3 |
1.337 |
1.316 |
| N9 |
C1' |
1.459 |
1.465 |
| C1' |
C2' |
1.528 |
1.555 |
| C1' |
O4' |
1.412 |
1.444 |
| C2' |
O2' |
1.428 |
1.429 |
| C2' |
C3' |
1.536 |
1.547 |
| O4' |
C4' |
1.445 |
1.438 |
| C5' |
C4' |
1.517 |
1.530 |
| C5' |
SD |
1.815 |
1.814 |
| C3' |
C4' |
1.541 |
1.541 |
| C3' |
O3' |
1.426 |
1.429 |
| SD |
CG |
1.822 |
1.814 |
| CG |
CB |
1.526 |
1.529 |
| CB |
CA |
1.533 |
1.530 |
| N |
CA |
1.491 |
1.469 |
| CA |
C |
1.535 |
1.507 |
| O |
C |
1.255 |
1.208 |
| C |
OXT |
1.257 |
1.342 |
| N |
HN2 |
1.000 |
1.009 |
| N |
H3 |
0.999 |
1.009 |
| N |
HN1 |
1.000 |
1.009 |
| CA |
HA |
1.100 |
1.090 |
| CB |
HB1 |
1.100 |
1.090 |
| CB |
HB2 |
1.100 |
1.090 |
| CG |
HG2 |
1.100 |
1.090 |
| CG |
HG1 |
1.100 |
1.090 |
| OXT |
H1 |
0.949 |
0.967 |
| C5' |
H5'2 |
1.099 |
1.089 |
| C5' |
H5'1 |
1.100 |
1.090 |
| C4' |
H4' |
1.100 |
1.090 |
| C3' |
H3' |
1.100 |
1.090 |
| O3' |
HO3' |
0.950 |
0.967 |
| C2' |
H2' |
1.100 |
1.090 |
| O2' |
HO2' |
0.950 |
0.967 |
| C1' |
H1' |
1.100 |
1.089 |
| C8 |
H8 |
1.080 |
1.081 |
| N6 |
HN61 |
1.000 |
0.970 |
| N6 |
HN62 |
1.000 |
0.970 |
| C2 |
H2 |
1.080 |
1.080 |
Bond Angles for SAO
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| N6 |
C6 |
N1 |
118.7 |
120.8 |
| C6 |
C5 |
C4 |
116.9 |
118.2 |
| C6 |
N1 |
C2 |
118.9 |
121.2 |
| N7 |
C5 |
C4 |
111.9 |
107.2 |
| N7 |
C8 |
H8 |
122.5 |
125.0 |
| C5 |
C4 |
N3 |
127.3 |
119.1 |
| N1 |
C2 |
N3 |
128.9 |
122.5 |
| N1 |
C2 |
H2 |
115.6 |
118.8 |
| N3 |
C2 |
H2 |
115.5 |
118.8 |
| N9 |
C1' |
H1' |
109.5 |
110.7 |
| C1' |
C2' |
H2' |
109.8 |
110.9 |
| O2' |
C2' |
H2' |
111.3 |
110.8 |
| C2' |
O2' |
HO2' |
109.5 |
114.0 |
| C2' |
C3' |
H3' |
109.6 |
110.6 |
| O4' |
C4' |
H4' |
109.9 |
109.8 |
| C4' |
C5' |
H5'2 |
108.9 |
109.5 |
| C4' |
C5' |
H5'1 |
108.9 |
109.5 |
| C5' |
C4' |
H4' |
108.9 |
109.9 |
| C3' |
C4' |
H4' |
108.7 |
109.9 |
| O3' |
C3' |
H3' |
111.2 |
110.4 |
| C3' |
O3' |
HO3' |
109.5 |
114.0 |
| SD |
CG |
HG2 |
110.6 |
109.5 |
| SD |
CG |
HG1 |
110.6 |
109.5 |
| CG |
CB |
HB1 |
108.2 |
109.5 |
| CG |
CB |
HB2 |
108.2 |
109.5 |
| CB |
CA |
C |
112.4 |
109.5 |
| CB |
CA |
HA |
107.6 |
109.5 |
| N |
CA |
C |
109.6 |
109.4 |
| CA |
N |
HN2 |
109.5 |
109.5 |
| CA |
N |
H3 |
109.5 |
109.5 |
| CA |
N |
HN1 |
109.4 |
109.5 |
| N |
CA |
HA |
108.1 |
109.5 |
| CA |
C |
OXT |
116.7 |
120.0 |
| C |
CA |
HA |
107.6 |
109.5 |
| O |
C |
OXT |
125.7 |
120.0 |
| C |
OXT |
H1 |
109.5 |
117.0 |
| HN2 |
N |
H3 |
109.5 |
109.4 |
| HN2 |
N |
HN1 |
109.5 |
109.4 |
| H3 |
N |
HN1 |
109.5 |
109.5 |
| HB1 |
CB |
HB2 |
109.5 |
109.4 |
| HG2 |
CG |
HG1 |
109.5 |
109.4 |
| H5'2 |
C5' |
H5'1 |
109.5 |
109.5 |
| HN61 |
N6 |
HN62 |
109.5 |
120.0 |
Torsion Angles for SAO
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| N6 |
C6 |
C5 |
C4 |
181.4 |
180.3 |
| N6 |
C6 |
N1 |
C2 |
178.7 |
180.0 |
| N7 |
C5 |
C6 |
C4 |
179.4 |
179.8 |
| C6 |
C5 |
C4 |
N3 |
359.8 |
359.5 |
| N1 |
C6 |
C5 |
C4 |
0.3 |
0.2 |
| C6 |
N1 |
C2 |
N3 |
360.0 |
0.0 |
| C6 |
N1 |
C2 |
H2 |
180.0 |
180.0 |
| C6 |
C5 |
N7 |
C4 |
180.6 |
180.2 |
| C5 |
N7 |
C8 |
H8 |
179.8 |
180.0 |
| N7 |
C5 |
C4 |
N3 |
180.3 |
179.7 |
| N3 |
C2 |
N1 |
H2 |
180.0 |
180.0 |
| C8 |
N9 |
C1' |
H1' |
190.4 |
142.1 |
| C4 |
N9 |
C1' |
H1' |
11.2 |
321.8 |
| C4 |
N3 |
C2 |
H2 |
180.1 |
179.7 |
| C5 |
C4 |
N3 |
C2 |
0.0 |
0.5 |
| N1 |
C2 |
N3 |
H2 |
180.0 |
180.0 |
| N9 |
C1' |
C2' |
H2' |
41.6 |
37.3 |
| O2' |
C2' |
C1' |
H2' |
236.0 |
236.4 |
| C1' |
C2' |
O2' |
HO2' |
180.0 |
185.8 |
| C1' |
C2' |
C3' |
H3' |
214.0 |
220.4 |
| C1' |
O4' |
C4' |
H4' |
255.9 |
266.9 |
| C1' |
C2' |
O2' |
H2' |
123.1 |
123.6 |
| O2' |
C2' |
C3' |
H3' |
94.6 |
102.2 |
| C2' |
C3' |
C4' |
H4' |
129.6 |
117.5 |
| O3' |
C3' |
C2' |
H3' |
236.7 |
237.4 |
| C2' |
C3' |
O3' |
HO3' |
180.0 |
65.3 |
| O4' |
C4' |
C5' |
H5'2 |
283.8 |
306.7 |
| O4' |
C4' |
C5' |
H5'1 |
43.2 |
186.7 |
| C5' |
C4' |
O4' |
H4' |
241.7 |
239.0 |
| C3' |
C4' |
O4' |
H4' |
117.6 |
119.5 |
| O4' |
C4' |
C5' |
H4' |
119.0 |
121.0 |
| C3' |
C4' |
C5' |
H4' |
237.5 |
239.0 |
| H5'2 |
C5' |
C4' |
H5'1 |
240.7 |
120.1 |
| C5' |
SD |
CG |
HG2 |
224.9 |
60.0 |
| C5' |
SD |
CG |
HG1 |
346.3 |
300.0 |
| O4' |
C4' |
C3' |
H4' |
241.6 |
240.5 |
| C3' |
C4' |
C5' |
H5'2 |
42.4 |
64.7 |
| C3' |
C4' |
C5' |
H5'1 |
161.7 |
304.6 |
| C5' |
C4' |
C3' |
H4' |
122.6 |
121.0 |
| C2' |
C3' |
O3' |
H3' |
122.4 |
122.7 |
| O3' |
C3' |
C4' |
H4' |
9.8 |
358.8 |
| SD |
CG |
CB |
HB1 |
285.7 |
60.0 |
| SD |
CG |
CB |
HB2 |
44.2 |
300.0 |
| HG2 |
CG |
SD |
HG1 |
238.6 |
120.0 |
| CG |
CB |
CA |
C |
300.9 |
175.0 |
| CG |
CB |
CA |
HA |
182.6 |
55.0 |
| HB1 |
CB |
CG |
HB2 |
241.5 |
119.9 |
| N |
CA |
CB |
C |
123.3 |
120.0 |
| CB |
CA |
N |
HN2 |
180.0 |
300.0 |
| CB |
CA |
N |
H3 |
300.0 |
60.0 |
| CB |
CA |
N |
HN1 |
60.0 |
180.0 |
| N |
CA |
CB |
HA |
241.7 |
240.0 |
| CB |
CA |
C |
OXT |
264.8 |
280.0 |
| C |
CA |
CB |
HA |
118.3 |
120.0 |
| CB |
CA |
N |
C |
235.1 |
240.0 |
| CB |
CA |
N |
HA |
118.0 |
120.0 |
| N |
CA |
C |
OXT |
140.5 |
160.0 |
| C |
CA |
N |
HA |
243.0 |
240.0 |
| HN2 |
N |
CA |
H3 |
240.0 |
240.0 |
| HN2 |
N |
CA |
HN1 |
120.0 |
120.0 |
| H3 |
N |
CA |
HN1 |
240.0 |
240.0 |
| CB |
CA |
C |
HA |
241.6 |
240.0 |
| C |
CA |
N |
HN2 |
304.9 |
60.0 |
| C |
CA |
N |
H3 |
64.9 |
180.0 |
| C |
CA |
N |
HN1 |
184.9 |
300.0 |
| N |
CA |
C |
HA |
117.4 |
120.0 |
| O |
C |
CA |
OXT |
180.8 |
179.9 |
| CA |
C |
OXT |
H1 |
180.9 |
180.0 |
| CA |
C |
O |
OXT |
179.1 |
180.1 |
| O |
C |
CA |
HA |
203.9 |
220.0 |
| O |
C |
OXT |
H1 |
0.0 |
0.1 |
| OXT |
C |
CA |
HA |
23.1 |
40.1 |
| HN2 |
N |
CA |
C |
304.9 |
60.0 |
| CA |
N |
HN2 |
H3 |
120.0 |
120.0 |
| CA |
N |
HN2 |
HN1 |
240.0 |
240.0 |
| HN2 |
N |
CA |
HA |
61.9 |
180.0 |
| H3 |
N |
HN2 |
HN1 |
120.0 |
120.0 |
| H3 |
N |
CA |
C |
64.9 |
180.0 |
| CA |
N |
H3 |
HN2 |
240.0 |
240.0 |
| CA |
N |
H3 |
HN1 |
120.0 |
120.1 |
| H3 |
N |
CA |
HA |
182.0 |
300.0 |
| HN2 |
N |
H3 |
HN1 |
240.0 |
240.1 |
| HN1 |
N |
CA |
C |
184.9 |
300.0 |
| CA |
N |
HN1 |
HN2 |
120.0 |
120.0 |
| CA |
N |
HN1 |
H3 |
240.0 |
240.0 |
| HN1 |
N |
CA |
HA |
301.9 |
60.0 |
| HN2 |
N |
HN1 |
H3 |
120.0 |
119.9 |
| CB |
CA |
HA |
C |
121.4 |
120.0 |
| N |
CA |
HA |
C |
241.7 |
240.0 |
| HA |
CA |
N |
HN2 |
61.9 |
180.0 |
| HA |
CA |
N |
H3 |
182.0 |
300.0 |
| HA |
CA |
N |
HN1 |
301.9 |
60.0 |
| HA |
CA |
C |
OXT |
23.1 |
40.1 |
| CG |
CB |
HB1 |
HB2 |
117.7 |
240.0 |
| HB1 |
CB |
CA |
C |
180.2 |
295.0 |
| HB1 |
CB |
CA |
HA |
61.8 |
175.0 |
| CG |
CB |
HB2 |
HB1 |
242.3 |
120.0 |
| HB2 |
CB |
CA |
C |
61.7 |
55.0 |
| HB2 |
CB |
CA |
HA |
303.3 |
295.0 |
| SD |
CG |
HG2 |
HG1 |
122.0 |
240.0 |
| HG2 |
CG |
CB |
HB1 |
166.5 |
180.0 |
| HG2 |
CG |
CB |
HB2 |
285.0 |
60.1 |
| SD |
CG |
HG1 |
HG2 |
237.9 |
120.0 |
| HG1 |
CG |
CB |
HB1 |
45.0 |
299.9 |
| HG1 |
CG |
CB |
HB2 |
163.5 |
180.0 |
| C4' |
C5' |
H5'2 |
H5'1 |
118.9 |
240.0 |
| H5'2 |
C5' |
C4' |
H4' |
164.9 |
185.7 |
| C4' |
C5' |
H5'1 |
H5'2 |
241.1 |
120.1 |
| H5'1 |
C5' |
C4' |
H4' |
284.2 |
65.7 |
| H4' |
C4' |
C5' |
H5'2 |
164.9 |
185.7 |
| H4' |
C4' |
C5' |
H5'1 |
284.2 |
65.7 |
| H3' |
C3' |
C4' |
H4' |
246.5 |
236.4 |
| H3' |
C3' |
O3' |
HO3' |
57.6 |
302.5 |
| HO3' |
O3' |
C3' |
H3' |
57.6 |
302.5 |
| H2' |
C2' |
O2' |
HO2' |
56.8 |
62.2 |
| H2' |
C2' |
C3' |
H3' |
330.0 |
338.6 |
| HO2' |
O2' |
C2' |
H2' |
56.8 |
62.2 |
| H1' |
C1' |
C2' |
H2' |
164.5 |
160.3 |
| HN61 |
N6 |
C6 |
N1 |
360.0 |
180.1 |
| HN62 |
N6 |
C6 |
N1 |
120.0 |
0.0 |
| N1 |
C2 |
H2 |
N3 |
180.0 |
180.0 |