PDB Chemical Component AIR
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 AIR
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
N1 |
C2 |
1.489 |
1.361 |
N1 |
C5 |
1.454 |
1.370 |
N1 |
C1' |
1.567 |
1.464 |
C2 |
N3 |
1.397 |
1.304 |
C2 |
HC2 |
1.104 |
1.080 |
N3 |
C4 |
1.395 |
1.342 |
C4 |
C5 |
1.436 |
1.353 |
C4 |
HC4 |
1.103 |
1.080 |
C5 |
N6 |
1.476 |
1.396 |
N6 |
HN61 |
1.020 |
0.970 |
N6 |
HN62 |
1.020 |
0.970 |
C1' |
C2' |
1.536 |
1.545 |
C1' |
O4' |
1.434 |
1.444 |
C1' |
HC1' |
1.115 |
1.090 |
C2' |
C3' |
1.533 |
1.547 |
C2' |
O2' |
1.425 |
1.429 |
C2' |
HC2' |
1.115 |
1.090 |
C3' |
C4' |
1.544 |
1.544 |
C3' |
O3' |
1.429 |
1.429 |
C3' |
HC3' |
1.116 |
1.090 |
C4' |
O4' |
1.441 |
1.443 |
C4' |
C5' |
1.545 |
1.529 |
C4' |
HC4' |
1.115 |
1.090 |
O2' |
HO'2 |
0.950 |
0.966 |
O3' |
HO'3 |
0.950 |
0.967 |
C5' |
O5' |
1.447 |
1.428 |
C5' |
HC51 |
1.116 |
1.090 |
C5' |
HC52 |
1.116 |
1.090 |
O5' |
P |
1.612 |
1.610 |
P |
O6 |
1.515 |
1.610 |
P |
O7 |
1.522 |
1.609 |
P |
O8 |
1.514 |
1.479 |
O6 |
HO6 |
0.950 |
0.967 |
O7 |
HO7 |
0.950 |
0.966 |
Bond Angles for AIR
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
C2 |
N1 |
C5 |
96.0 |
107.1 |
C2 |
N1 |
C1' |
129.8 |
126.5 |
N1 |
C2 |
N3 |
120.5 |
108.6 |
N1 |
C2 |
HC2 |
122.9 |
125.7 |
C5 |
N1 |
C1' |
133.8 |
126.5 |
N1 |
C5 |
C4 |
111.0 |
106.8 |
N1 |
C5 |
N6 |
124.5 |
126.6 |
N1 |
C1' |
C2' |
112.4 |
110.4 |
N1 |
C1' |
O4' |
112.4 |
110.4 |
N1 |
C1' |
HC1' |
104.1 |
110.4 |
N3 |
C2 |
HC2 |
116.6 |
125.7 |
C2 |
N3 |
C4 |
99.4 |
109.4 |
N3 |
C4 |
C5 |
113.1 |
108.1 |
N3 |
C4 |
HC4 |
122.2 |
125.9 |
C5 |
C4 |
HC4 |
124.7 |
126.0 |
C4 |
C5 |
N6 |
124.5 |
126.6 |
C5 |
N6 |
HN61 |
124.5 |
120.0 |
C5 |
N6 |
HN62 |
106.9 |
120.0 |
HN61 |
N6 |
HN62 |
106.9 |
120.0 |
C2' |
C1' |
O4' |
104.6 |
104.9 |
C2' |
C1' |
HC1' |
111.9 |
110.3 |
C1' |
C2' |
C3' |
104.0 |
104.0 |
C1' |
C2' |
O2' |
112.2 |
110.8 |
C1' |
C2' |
HC2' |
111.5 |
110.4 |
O4' |
C1' |
HC1' |
111.8 |
110.4 |
C1' |
O4' |
C4' |
107.5 |
105.3 |
C3' |
C2' |
O2' |
110.0 |
110.5 |
C3' |
C2' |
HC2' |
113.7 |
110.5 |
C2' |
C3' |
C4' |
104.9 |
104.1 |
C2' |
C3' |
O3' |
112.0 |
110.5 |
C2' |
C3' |
HC3' |
111.2 |
110.5 |
O2' |
C2' |
HC2' |
105.7 |
110.5 |
C2' |
O2' |
HO'2 |
112.2 |
106.8 |
C4' |
C3' |
O3' |
110.5 |
110.5 |
C4' |
C3' |
HC3' |
112.7 |
110.5 |
C3' |
C4' |
O4' |
105.8 |
104.8 |
C3' |
C4' |
C5' |
115.1 |
110.5 |
C3' |
C4' |
HC4' |
108.4 |
110.4 |
O3' |
C3' |
HC3' |
105.7 |
110.5 |
C3' |
O3' |
HO'3 |
112.0 |
106.8 |
O4' |
C4' |
C5' |
110.0 |
110.4 |
O4' |
C4' |
HC4' |
113.7 |
110.3 |
C5' |
C4' |
HC4' |
104.0 |
110.3 |
C4' |
C5' |
O5' |
112.5 |
109.5 |
C4' |
C5' |
HC51 |
111.1 |
109.5 |
C4' |
C5' |
HC52 |
111.1 |
109.5 |
O5' |
C5' |
HC51 |
111.1 |
109.4 |
O5' |
C5' |
HC52 |
111.1 |
109.5 |
C5' |
O5' |
P |
123.8 |
106.8 |
HC51 |
C5' |
HC52 |
99.2 |
109.5 |
O5' |
P |
O6 |
111.5 |
109.5 |
O5' |
P |
O7 |
111.0 |
109.5 |
O5' |
P |
O8 |
111.9 |
109.5 |
O6 |
P |
O7 |
108.5 |
109.4 |
O6 |
P |
O8 |
106.3 |
109.5 |
P |
O6 |
HO6 |
111.5 |
106.8 |
O7 |
P |
O8 |
107.4 |
109.5 |
P |
O7 |
HO7 |
111.0 |
106.9 |
Torsion Angles for AIR
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
C5 |
N1 |
C2 |
C1' |
173.9 |
180.3 |
C2 |
N1 |
C5 |
C4 |
360.0 |
359.6 |
C2 |
N1 |
C5 |
N6 |
180.5 |
179.9 |
C2 |
N1 |
C1' |
C2' |
239.4 |
271.4 |
C2 |
N1 |
C1' |
O4' |
357.0 |
26.9 |
C2 |
N1 |
C1' |
HC1' |
118.2 |
149.2 |
N3 |
C2 |
N1 |
HC2 |
180.0 |
180.2 |
N1 |
C2 |
N3 |
C4 |
0.1 |
359.9 |
C2 |
N1 |
C5 |
C1' |
186.5 |
179.7 |
C5 |
N1 |
C2 |
N3 |
360.0 |
0.3 |
C5 |
N1 |
C2 |
HC2 |
180.0 |
180.2 |
C5 |
N1 |
C1' |
C2' |
67.9 |
91.1 |
C5 |
N1 |
C1' |
O4' |
185.5 |
206.6 |
C5 |
N1 |
C1' |
HC1' |
306.7 |
328.9 |
N3 |
C4 |
C5 |
N1 |
0.1 |
0.3 |
N1 |
C5 |
C4 |
HC4 |
180.1 |
180.2 |
C4 |
C5 |
N1 |
N6 |
179.5 |
179.7 |
N1 |
C5 |
N6 |
HN61 |
180.0 |
179.7 |
N1 |
C5 |
N6 |
HN62 |
54.7 |
359.5 |
C2 |
N1 |
C1' |
C5 |
171.5 |
180.3 |
C1' |
N1 |
C2 |
N3 |
186.1 |
180.0 |
C1' |
N1 |
C2 |
HC2 |
6.1 |
359.9 |
C1' |
N1 |
C5 |
C4 |
173.4 |
179.9 |
C1' |
N1 |
C5 |
N6 |
354.0 |
0.2 |
C2' |
C1' |
N1 |
O4' |
242.4 |
244.5 |
C2' |
C1' |
N1 |
HC1' |
121.2 |
122.2 |
N1 |
C1' |
C2' |
C3' |
151.4 |
142.7 |
N1 |
C1' |
C2' |
O2' |
270.2 |
261.5 |
N1 |
C1' |
C2' |
HC2' |
28.5 |
24.2 |
O4' |
C1' |
N1 |
HC1' |
238.8 |
237.7 |
N1 |
C1' |
O4' |
C4' |
200.0 |
200.7 |
N3 |
C2 |
N1 |
C5 |
360.0 |
0.3 |
N3 |
C2 |
N1 |
C1' |
186.1 |
180.0 |
N1 |
C2 |
N3 |
HC2 |
180.0 |
179.8 |
C2 |
N3 |
C4 |
C5 |
359.9 |
359.9 |
C2 |
N3 |
C4 |
HC4 |
179.9 |
180.0 |
HC2 |
C2 |
N1 |
C5 |
180.0 |
180.2 |
HC2 |
C2 |
N1 |
C1' |
6.1 |
359.9 |
N1 |
C2 |
HC2 |
N3 |
180.0 |
180.2 |
HC2 |
C2 |
N3 |
C4 |
180.1 |
180.0 |
N1 |
C5 |
C4 |
N3 |
0.1 |
0.3 |
C4 |
N3 |
C2 |
HC2 |
180.1 |
180.0 |
C5 |
C4 |
N3 |
HC4 |
180.0 |
179.9 |
N3 |
C4 |
C5 |
N6 |
179.6 |
180.0 |
C4 |
C5 |
N1 |
C1' |
173.4 |
179.9 |
N1 |
C5 |
C4 |
N6 |
180.5 |
180.3 |
N3 |
C4 |
C5 |
HC4 |
180.0 |
180.1 |
C4 |
C5 |
N6 |
HN61 |
0.6 |
0.1 |
C4 |
C5 |
N6 |
HN62 |
235.3 |
179.9 |
N3 |
C4 |
HC4 |
C5 |
180.0 |
179.9 |
HC4 |
C4 |
C5 |
N6 |
359.5 |
359.9 |
N6 |
C5 |
N1 |
C1' |
354.0 |
0.2 |
N1 |
C5 |
N6 |
C4 |
179.4 |
179.6 |
N6 |
C5 |
C4 |
HC4 |
359.5 |
359.9 |
HN61 |
N6 |
C5 |
HN62 |
125.3 |
180.2 |
C5 |
N6 |
HN61 |
HN62 |
234.7 |
179.8 |
C5 |
N6 |
HN62 |
HN61 |
135.4 |
180.2 |
N1 |
C1' |
C2' |
O4' |
122.1 |
118.9 |
N1 |
C1' |
C2' |
HC1' |
243.4 |
237.8 |
O4' |
C1' |
C2' |
HC1' |
121.2 |
118.8 |
C2' |
C1' |
O4' |
C4' |
322.1 |
319.6 |
C3' |
C2' |
C1' |
O2' |
241.2 |
241.3 |
C3' |
C2' |
C1' |
HC2' |
122.8 |
118.5 |
C1' |
C2' |
C3' |
C4' |
349.2 |
0.1 |
C1' |
C2' |
C3' |
O3' |
109.1 |
118.8 |
C1' |
C2' |
C3' |
HC3' |
227.1 |
241.5 |
O2' |
C2' |
C1' |
HC2' |
241.7 |
237.3 |
C1' |
C2' |
O2' |
HO'2 |
180.0 |
183.8 |
N1 |
C1' |
O4' |
C2' |
237.9 |
241.1 |
N1 |
C1' |
O4' |
HC1' |
116.6 |
122.3 |
C2' |
C1' |
O4' |
HC1' |
238.8 |
241.2 |
O4' |
C1' |
C2' |
C3' |
29.2 |
23.8 |
O4' |
C1' |
C2' |
O2' |
148.1 |
142.5 |
O4' |
C1' |
C2' |
HC2' |
266.4 |
265.3 |
C3' |
C4' |
O4' |
C1' |
30.8 |
40.5 |
C1' |
O4' |
C4' |
C5' |
155.7 |
159.5 |
C1' |
O4' |
C4' |
HC4' |
271.9 |
281.7 |
N1 |
C1' |
HC1' |
C2' |
121.5 |
122.2 |
N1 |
C1' |
HC1' |
O4' |
238.5 |
237.6 |
C2' |
C1' |
HC1' |
O4' |
116.9 |
115.4 |
HC1' |
C1' |
C2' |
C3' |
268.0 |
265.0 |
HC1' |
C1' |
C2' |
O2' |
26.8 |
23.7 |
HC1' |
C1' |
C2' |
HC2' |
145.2 |
146.4 |
HC1' |
C1' |
O4' |
C4' |
83.3 |
78.4 |
C3' |
C2' |
C1' |
O4' |
29.2 |
23.8 |
C3' |
C2' |
C1' |
HC1' |
268.0 |
265.0 |
C1' |
C2' |
C3' |
O2' |
120.3 |
118.9 |
C1' |
C2' |
C3' |
HC2' |
238.6 |
241.5 |
O2' |
C2' |
C3' |
HC2' |
118.2 |
122.6 |
C3' |
C2' |
O2' |
HO'2 |
295.2 |
298.5 |
C4' |
C3' |
C2' |
O3' |
240.1 |
241.3 |
C4' |
C3' |
C2' |
HC3' |
122.1 |
118.7 |
C2' |
C3' |
C4' |
O4' |
348.9 |
336.0 |
C2' |
C3' |
C4' |
C5' |
227.2 |
217.1 |
C2' |
C3' |
C4' |
HC4' |
111.3 |
94.8 |
O3' |
C3' |
C2' |
HC3' |
242.0 |
237.4 |
C2' |
C3' |
O3' |
HO'3 |
180.0 |
65.3 |
O2' |
C2' |
C1' |
O4' |
148.1 |
142.5 |
O2' |
C2' |
C1' |
HC1' |
26.8 |
23.7 |
C1' |
C2' |
O2' |
C3' |
244.8 |
245.3 |
C1' |
C2' |
O2' |
HC2' |
121.7 |
122.7 |
C3' |
C2' |
O2' |
HC2' |
236.9 |
237.4 |
O2' |
C2' |
C3' |
C4' |
228.9 |
241.2 |
O2' |
C2' |
C3' |
O3' |
348.7 |
359.9 |
O2' |
C2' |
C3' |
HC3' |
106.7 |
122.5 |
HC2' |
C2' |
C1' |
O4' |
266.4 |
265.3 |
HC2' |
C2' |
C1' |
HC1' |
145.2 |
146.4 |
C1' |
C2' |
HC2' |
C3' |
117.1 |
114.5 |
C1' |
C2' |
HC2' |
O2' |
237.8 |
237.1 |
C3' |
C2' |
HC2' |
O2' |
120.7 |
122.6 |
HC2' |
C2' |
C3' |
C4' |
110.6 |
118.6 |
HC2' |
C2' |
C3' |
O3' |
230.5 |
237.3 |
HC2' |
C2' |
C3' |
HC3' |
348.5 |
359.9 |
HC2' |
C2' |
O2' |
HO'2 |
58.3 |
61.1 |
C1' |
O4' |
C4' |
C3' |
30.8 |
40.5 |
C4' |
C3' |
C2' |
O2' |
228.9 |
241.2 |
C4' |
C3' |
C2' |
HC2' |
110.6 |
118.6 |
C2' |
C3' |
C4' |
O3' |
120.9 |
118.7 |
C2' |
C3' |
C4' |
HC3' |
238.9 |
241.3 |
O3' |
C3' |
C4' |
HC3' |
118.0 |
122.6 |
C4' |
C3' |
O3' |
HO'3 |
296.6 |
180.0 |
O4' |
C4' |
C3' |
C5' |
121.7 |
118.9 |
O4' |
C4' |
C3' |
HC4' |
237.7 |
241.2 |
C5' |
C4' |
C3' |
HC4' |
116.0 |
122.3 |
C3' |
C4' |
C5' |
O5' |
136.2 |
177.0 |
C3' |
C4' |
C5' |
HC51 |
261.5 |
296.9 |
C3' |
C4' |
C5' |
HC52 |
10.9 |
56.9 |
O3' |
C3' |
C2' |
O2' |
348.7 |
359.9 |
O3' |
C3' |
C2' |
HC2' |
230.5 |
237.3 |
C2' |
C3' |
O3' |
C4' |
243.4 |
245.3 |
C2' |
C3' |
O3' |
HC3' |
121.2 |
122.7 |
C4' |
C3' |
O3' |
HC3' |
237.8 |
237.3 |
O3' |
C3' |
C4' |
O4' |
228.0 |
217.3 |
O3' |
C3' |
C4' |
C5' |
106.3 |
98.4 |
O3' |
C3' |
C4' |
HC4' |
350.4 |
336.1 |
HC3' |
C3' |
C2' |
O2' |
106.7 |
122.5 |
HC3' |
C3' |
C2' |
HC2' |
348.5 |
359.9 |
C2' |
C3' |
HC3' |
C4' |
117.5 |
114.7 |
C2' |
C3' |
HC3' |
O3' |
238.2 |
237.3 |
C4' |
C3' |
HC3' |
O3' |
120.7 |
122.7 |
HC3' |
C3' |
C4' |
O4' |
110.0 |
94.6 |
HC3' |
C3' |
C4' |
C5' |
348.3 |
335.7 |
HC3' |
C3' |
C4' |
HC4' |
232.4 |
213.4 |
HC3' |
C3' |
O3' |
HO'3 |
58.8 |
302.7 |
C4' |
O4' |
C1' |
HC1' |
83.3 |
78.4 |
O4' |
C4' |
C3' |
O3' |
228.0 |
217.3 |
O4' |
C4' |
C3' |
HC3' |
110.0 |
94.6 |
C3' |
C4' |
O4' |
C5' |
235.1 |
241.0 |
C3' |
C4' |
O4' |
HC4' |
118.9 |
118.8 |
C5' |
C4' |
O4' |
HC4' |
243.8 |
237.8 |
O4' |
C4' |
C5' |
O5' |
16.8 |
61.5 |
O4' |
C4' |
C5' |
HC51 |
142.1 |
181.5 |
O4' |
C4' |
C5' |
HC52 |
251.5 |
301.4 |
C5' |
C4' |
C3' |
O3' |
106.3 |
98.4 |
C5' |
C4' |
C3' |
HC3' |
348.3 |
335.7 |
C3' |
C4' |
C5' |
O4' |
119.4 |
115.5 |
C3' |
C4' |
C5' |
HC4' |
241.6 |
237.7 |
O4' |
C4' |
C5' |
HC4' |
122.2 |
122.2 |
O5' |
C5' |
C4' |
HC51 |
234.7 |
240.0 |
O5' |
C5' |
C4' |
HC52 |
125.3 |
120.0 |
C4' |
C5' |
O5' |
P |
236.8 |
180.0 |
HC51 |
C5' |
C4' |
HC52 |
250.6 |
240.0 |
HC4' |
C4' |
C3' |
O3' |
350.4 |
336.1 |
HC4' |
C4' |
C3' |
HC3' |
232.4 |
213.4 |
C3' |
C4' |
HC4' |
O4' |
242.6 |
244.6 |
C3' |
C4' |
HC4' |
C5' |
123.0 |
122.4 |
O4' |
C4' |
HC4' |
C5' |
240.3 |
237.8 |
HC4' |
C4' |
C5' |
O5' |
254.6 |
299.3 |
HC4' |
C4' |
C5' |
HC51 |
19.9 |
59.3 |
HC4' |
C4' |
C5' |
HC52 |
129.3 |
179.2 |
HO'2 |
O2' |
C2' |
HC2' |
58.3 |
61.1 |
HO'3 |
O3' |
C3' |
HC3' |
58.8 |
302.7 |
O5' |
C5' |
C4' |
HC4' |
254.6 |
299.3 |
C4' |
C5' |
O5' |
HC51 |
125.3 |
120.0 |
C4' |
C5' |
O5' |
HC52 |
234.7 |
240.0 |
HC51 |
C5' |
O5' |
HC52 |
109.4 |
120.0 |
C5' |
O5' |
P |
O6 |
57.2 |
180.0 |
C5' |
O5' |
P |
O7 |
296.0 |
299.9 |
C5' |
O5' |
P |
O8 |
176.1 |
60.0 |
HC51 |
C5' |
C4' |
HC4' |
19.9 |
59.3 |
C4' |
C5' |
HC51 |
O5' |
233.9 |
240.0 |
C4' |
C5' |
HC51 |
HC52 |
116.9 |
120.0 |
O5' |
C5' |
HC51 |
HC52 |
243.0 |
240.0 |
HC51 |
C5' |
O5' |
P |
111.6 |
60.0 |
HC52 |
C5' |
C4' |
HC4' |
129.3 |
179.2 |
C4' |
C5' |
HC52 |
O5' |
126.1 |
120.1 |
C4' |
C5' |
HC52 |
HC51 |
243.1 |
240.0 |
O5' |
C5' |
HC52 |
HC51 |
117.0 |
120.0 |
HC52 |
C5' |
O5' |
P |
2.1 |
300.0 |
P |
O5' |
C5' |
HC51 |
111.6 |
60.0 |
P |
O5' |
C5' |
HC52 |
2.1 |
300.0 |
O6 |
P |
O5' |
O7 |
121.1 |
240.0 |
O6 |
P |
O5' |
O8 |
241.0 |
120.0 |
O5' |
P |
O6 |
HO6 |
180.0 |
180.0 |
O7 |
P |
O5' |
O8 |
119.9 |
240.0 |
O5' |
P |
O7 |
HO7 |
180.0 |
300.0 |
O5' |
P |
O6 |
O7 |
237.5 |
120.0 |
O5' |
P |
O6 |
O8 |
122.3 |
240.0 |
O7 |
P |
O6 |
O8 |
244.8 |
120.0 |
O6 |
P |
O7 |
HO7 |
57.1 |
60.1 |
O5' |
P |
O7 |
O6 |
122.9 |
240.0 |
O5' |
P |
O7 |
O8 |
237.4 |
120.0 |
O6 |
P |
O7 |
O8 |
114.5 |
240.0 |
O7 |
P |
O6 |
HO6 |
302.6 |
60.0 |
O5' |
P |
O8 |
O6 |
238.0 |
120.0 |
O5' |
P |
O8 |
O7 |
122.0 |
240.0 |
O6 |
P |
O8 |
O7 |
244.0 |
120.0 |
O8 |
P |
O6 |
HO6 |
57.8 |
300.0 |
O8 |
P |
O7 |
HO7 |
302.6 |
180.0 |
HO6 |
O6 |
P |
O7 |
302.6 |
60.0 |
HO6 |
O6 |
P |
O8 |
57.8 |
300.0 |
HO7 |
O7 |
P |
O8 |
302.6 |
180.0 |