PDB Chemical Component NAG
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 NAG
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
C1 |
C2 |
1.513 |
1.531 |
C1 |
O1 |
1.450 |
1.429 |
C1 |
O5 |
1.428 |
1.429 |
C1 |
H1 |
1.100 |
1.090 |
C2 |
C3 |
1.534 |
1.532 |
C2 |
N2 |
1.455 |
1.464 |
C2 |
H2 |
1.100 |
1.090 |
C3 |
C4 |
1.550 |
1.532 |
C3 |
O3 |
1.422 |
1.429 |
C3 |
H3 |
1.100 |
1.090 |
C4 |
C5 |
1.532 |
1.531 |
C4 |
O4 |
1.441 |
1.430 |
C4 |
H4 |
1.100 |
1.090 |
C5 |
C6 |
1.512 |
1.530 |
C5 |
O5 |
1.442 |
1.430 |
C5 |
H5 |
1.100 |
1.090 |
C6 |
O6 |
1.422 |
1.429 |
C6 |
H61 |
1.100 |
1.091 |
C6 |
H62 |
1.100 |
1.090 |
C7 |
C8 |
1.513 |
1.507 |
C7 |
N2 |
1.329 |
1.348 |
C7 |
O7 |
1.232 |
1.213 |
C8 |
H81 |
1.100 |
1.090 |
C8 |
H82 |
1.100 |
1.091 |
C8 |
H83 |
1.100 |
1.090 |
N2 |
HN2 |
1.000 |
0.971 |
O1 |
HO1 |
0.950 |
0.967 |
O3 |
HO3 |
0.950 |
0.967 |
O4 |
HO4 |
0.950 |
0.967 |
O6 |
HO6 |
0.950 |
0.968 |
Bond Angles for NAG
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
C2 |
C1 |
O1 |
108.7 |
109.5 |
C2 |
C1 |
O5 |
109.5 |
109.4 |
C2 |
C1 |
H1 |
108.7 |
109.5 |
C1 |
C2 |
C3 |
111.4 |
109.1 |
C1 |
C2 |
N2 |
109.5 |
109.5 |
C1 |
C2 |
H2 |
108.3 |
109.5 |
O1 |
C1 |
O5 |
110.4 |
109.5 |
O1 |
C1 |
H1 |
109.6 |
109.5 |
C1 |
O1 |
HO1 |
109.5 |
114.0 |
O5 |
C1 |
H1 |
109.9 |
109.5 |
C1 |
O5 |
C5 |
111.8 |
114.1 |
C3 |
C2 |
N2 |
110.5 |
109.6 |
C3 |
C2 |
H2 |
108.0 |
109.5 |
C2 |
C3 |
C4 |
111.2 |
109.0 |
C2 |
C3 |
O3 |
108.6 |
109.5 |
C2 |
C3 |
H3 |
108.8 |
109.5 |
N2 |
C2 |
H2 |
109.1 |
109.6 |
C2 |
N2 |
C7 |
120.3 |
120.0 |
C2 |
N2 |
HN2 |
119.9 |
120.0 |
C4 |
C3 |
O3 |
109.3 |
109.6 |
C4 |
C3 |
H3 |
108.6 |
109.6 |
C3 |
C4 |
C5 |
111.8 |
109.2 |
C3 |
C4 |
O4 |
110.5 |
109.5 |
C3 |
C4 |
H4 |
108.3 |
109.5 |
O3 |
C3 |
H3 |
110.3 |
109.6 |
C3 |
O3 |
HO3 |
109.5 |
114.0 |
C5 |
C4 |
O4 |
107.9 |
109.5 |
C5 |
C4 |
H4 |
108.5 |
109.6 |
C4 |
C5 |
C6 |
111.3 |
109.5 |
C4 |
C5 |
O5 |
110.1 |
109.4 |
C4 |
C5 |
H5 |
108.8 |
109.5 |
O4 |
C4 |
H4 |
109.8 |
109.6 |
C4 |
O4 |
HO4 |
109.5 |
113.9 |
C6 |
C5 |
O5 |
107.5 |
109.5 |
C6 |
C5 |
H5 |
109.1 |
109.5 |
C5 |
C6 |
O6 |
110.7 |
109.5 |
C5 |
C6 |
H61 |
109.2 |
109.4 |
C5 |
C6 |
H62 |
109.2 |
109.5 |
O5 |
C5 |
H5 |
110.1 |
109.4 |
O6 |
C6 |
H61 |
109.2 |
109.5 |
O6 |
C6 |
H62 |
109.2 |
109.5 |
C6 |
O6 |
HO6 |
109.5 |
114.0 |
H61 |
C6 |
H62 |
109.4 |
109.5 |
C8 |
C7 |
N2 |
116.9 |
120.0 |
C8 |
C7 |
O7 |
120.1 |
120.1 |
C7 |
C8 |
H81 |
109.5 |
109.5 |
C7 |
C8 |
H82 |
109.4 |
109.5 |
C7 |
C8 |
H83 |
109.5 |
109.5 |
N2 |
C7 |
O7 |
123.0 |
120.0 |
C7 |
N2 |
HN2 |
119.9 |
120.0 |
H81 |
C8 |
H82 |
109.5 |
109.4 |
H81 |
C8 |
H83 |
109.4 |
109.5 |
H82 |
C8 |
H83 |
109.5 |
109.5 |
Torsion Angles for NAG
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
O1 |
C1 |
C2 |
O5 |
120.7 |
119.9 |
O1 |
C1 |
C2 |
H1 |
240.8 |
239.9 |
C2 |
C1 |
O1 |
HO1 |
180.0 |
180.0 |
O5 |
C1 |
C2 |
H1 |
120.1 |
120.0 |
C2 |
C1 |
O5 |
C5 |
294.0 |
298.8 |
C3 |
C2 |
C1 |
N2 |
237.5 |
240.1 |
C3 |
C2 |
C1 |
H2 |
118.7 |
119.9 |
C1 |
C2 |
C3 |
C4 |
311.9 |
303.0 |
C1 |
C2 |
C3 |
O3 |
191.5 |
183.1 |
C1 |
C2 |
C3 |
H3 |
71.5 |
62.9 |
N2 |
C2 |
C1 |
H2 |
241.2 |
239.8 |
C1 |
C2 |
N2 |
C7 |
104.0 |
85.0 |
C1 |
C2 |
N2 |
HN2 |
284.0 |
265.0 |
C2 |
C1 |
O1 |
O5 |
239.9 |
240.1 |
C2 |
C1 |
O1 |
H1 |
118.7 |
120.0 |
O1 |
C1 |
C2 |
C3 |
178.3 |
177.6 |
O1 |
C1 |
C2 |
N2 |
300.8 |
297.5 |
O1 |
C1 |
C2 |
H2 |
59.6 |
57.7 |
O5 |
C1 |
O1 |
H1 |
238.8 |
240.0 |
O1 |
C1 |
O5 |
C5 |
174.4 |
178.9 |
C2 |
C1 |
O5 |
O1 |
119.6 |
120.0 |
C2 |
C1 |
O5 |
H1 |
240.6 |
240.0 |
O5 |
C1 |
C2 |
C3 |
57.6 |
57.6 |
O5 |
C1 |
C2 |
N2 |
180.1 |
177.5 |
O5 |
C1 |
C2 |
H2 |
298.9 |
297.8 |
O1 |
C1 |
O5 |
H1 |
121.0 |
120.1 |
O5 |
C1 |
O1 |
HO1 |
300.1 |
299.9 |
C4 |
C5 |
O5 |
C1 |
63.2 |
61.2 |
C6 |
C5 |
O5 |
C1 |
184.6 |
181.1 |
C1 |
O5 |
C5 |
H5 |
303.3 |
301.2 |
C2 |
C1 |
H1 |
O1 |
241.4 |
240.0 |
C2 |
C1 |
H1 |
O5 |
119.8 |
119.9 |
H1 |
C1 |
C2 |
C3 |
297.5 |
297.6 |
H1 |
C1 |
C2 |
N2 |
60.0 |
57.5 |
H1 |
C1 |
C2 |
H2 |
178.8 |
177.8 |
O1 |
C1 |
H1 |
O5 |
238.5 |
240.0 |
H1 |
C1 |
O1 |
HO1 |
61.3 |
59.9 |
H1 |
C1 |
O5 |
C5 |
53.4 |
58.8 |
C3 |
C2 |
C1 |
O1 |
178.3 |
177.6 |
C3 |
C2 |
C1 |
O5 |
57.6 |
57.6 |
C3 |
C2 |
C1 |
H1 |
297.5 |
297.6 |
C1 |
C2 |
C3 |
N2 |
122.0 |
119.9 |
C1 |
C2 |
C3 |
H2 |
241.2 |
240.1 |
N2 |
C2 |
C3 |
H2 |
119.2 |
120.2 |
C3 |
C2 |
N2 |
C7 |
227.1 |
204.7 |
C3 |
C2 |
N2 |
HN2 |
47.1 |
24.7 |
C4 |
C3 |
C2 |
O3 |
120.4 |
119.9 |
C4 |
C3 |
C2 |
H3 |
240.5 |
240.1 |
C2 |
C3 |
C4 |
C5 |
45.5 |
57.0 |
C2 |
C3 |
C4 |
O4 |
165.7 |
176.9 |
C2 |
C3 |
C4 |
H4 |
286.0 |
297.0 |
O3 |
C3 |
C2 |
H3 |
120.1 |
120.2 |
C2 |
C3 |
O3 |
HO3 |
180.0 |
180.0 |
N2 |
C2 |
C1 |
O1 |
300.8 |
297.5 |
N2 |
C2 |
C1 |
O5 |
180.1 |
177.5 |
N2 |
C2 |
C1 |
H1 |
60.0 |
57.5 |
C1 |
C2 |
N2 |
C3 |
236.9 |
240.3 |
C1 |
C2 |
N2 |
H2 |
118.3 |
120.2 |
C3 |
C2 |
N2 |
H2 |
241.4 |
239.8 |
N2 |
C2 |
C3 |
C4 |
190.0 |
183.1 |
N2 |
C2 |
C3 |
O3 |
69.6 |
63.3 |
N2 |
C2 |
C3 |
H3 |
309.5 |
303.0 |
C8 |
C7 |
N2 |
C2 |
180.1 |
180.0 |
C2 |
N2 |
C7 |
O7 |
359.0 |
0.0 |
C7 |
N2 |
C2 |
HN2 |
180.0 |
180.0 |
H2 |
C2 |
C1 |
O1 |
59.6 |
57.7 |
H2 |
C2 |
C1 |
O5 |
298.9 |
297.8 |
H2 |
C2 |
C1 |
H1 |
178.8 |
177.8 |
C1 |
C2 |
H2 |
C3 |
120.8 |
119.6 |
C1 |
C2 |
H2 |
N2 |
240.9 |
239.8 |
C3 |
C2 |
H2 |
N2 |
120.1 |
120.2 |
H2 |
C2 |
C3 |
C4 |
70.7 |
62.9 |
H2 |
C2 |
C3 |
O3 |
310.4 |
303.0 |
H2 |
C2 |
C3 |
H3 |
190.3 |
182.8 |
H2 |
C2 |
N2 |
C7 |
345.7 |
324.8 |
H2 |
C2 |
N2 |
HN2 |
165.7 |
144.8 |
C4 |
C3 |
C2 |
N2 |
190.0 |
183.1 |
C4 |
C3 |
C2 |
H2 |
70.7 |
62.9 |
C2 |
C3 |
C4 |
O3 |
240.1 |
240.1 |
C2 |
C3 |
C4 |
H3 |
119.7 |
119.9 |
O3 |
C3 |
C4 |
H3 |
239.6 |
239.7 |
C4 |
C3 |
O3 |
HO3 |
58.5 |
60.5 |
C5 |
C4 |
C3 |
O4 |
239.8 |
240.1 |
C5 |
C4 |
C3 |
H4 |
119.5 |
120.0 |
C3 |
C4 |
C5 |
C6 |
188.9 |
182.4 |
C3 |
C4 |
C5 |
O5 |
307.9 |
302.4 |
C3 |
C4 |
C5 |
H5 |
68.6 |
62.3 |
O4 |
C4 |
C3 |
H4 |
239.8 |
239.8 |
C3 |
C4 |
O4 |
HO4 |
180.0 |
180.0 |
O3 |
C3 |
C2 |
N2 |
69.6 |
63.3 |
O3 |
C3 |
C2 |
H2 |
310.4 |
303.0 |
C2 |
C3 |
O3 |
C4 |
121.5 |
119.6 |
C2 |
C3 |
O3 |
H3 |
240.9 |
239.8 |
C4 |
C3 |
O3 |
H3 |
119.3 |
120.3 |
O3 |
C3 |
C4 |
C5 |
165.4 |
176.9 |
O3 |
C3 |
C4 |
O4 |
285.7 |
296.7 |
O3 |
C3 |
C4 |
H4 |
45.9 |
56.9 |
H3 |
C3 |
C2 |
N2 |
309.5 |
303.0 |
H3 |
C3 |
C2 |
H2 |
190.3 |
182.8 |
C2 |
C3 |
H3 |
C4 |
238.8 |
240.4 |
C2 |
C3 |
H3 |
O3 |
119.0 |
120.2 |
C4 |
C3 |
H3 |
O3 |
240.2 |
239.7 |
H3 |
C3 |
C4 |
C5 |
285.8 |
297.2 |
H3 |
C3 |
C4 |
O4 |
46.1 |
57.0 |
H3 |
C3 |
C4 |
H4 |
166.3 |
177.2 |
H3 |
C3 |
O3 |
HO3 |
299.2 |
300.2 |
C1 |
O5 |
C5 |
C4 |
63.2 |
61.2 |
C5 |
C4 |
C3 |
O3 |
165.4 |
176.9 |
C5 |
C4 |
C3 |
H3 |
285.8 |
297.2 |
C3 |
C4 |
C5 |
O4 |
121.7 |
119.8 |
C3 |
C4 |
C5 |
H4 |
240.6 |
240.0 |
O4 |
C4 |
C5 |
H4 |
118.9 |
120.2 |
C5 |
C4 |
O4 |
HO4 |
302.6 |
299.6 |
C6 |
C5 |
C4 |
O5 |
241.0 |
240.0 |
C6 |
C5 |
C4 |
H5 |
120.2 |
120.1 |
C4 |
C5 |
C6 |
O6 |
58.0 |
185.0 |
C4 |
C5 |
C6 |
H61 |
178.2 |
305.0 |
C4 |
C5 |
C6 |
H62 |
297.8 |
64.9 |
O5 |
C5 |
C4 |
H5 |
239.3 |
240.1 |
O4 |
C4 |
C3 |
O3 |
285.7 |
296.7 |
O4 |
C4 |
C3 |
H3 |
46.1 |
57.0 |
C3 |
C4 |
O4 |
C5 |
237.5 |
240.3 |
C3 |
C4 |
O4 |
H4 |
119.4 |
120.1 |
C5 |
C4 |
O4 |
H4 |
241.9 |
239.8 |
O4 |
C4 |
C5 |
C6 |
67.2 |
62.6 |
O4 |
C4 |
C5 |
O5 |
186.2 |
182.5 |
O4 |
C4 |
C5 |
H5 |
306.9 |
302.5 |
H4 |
C4 |
C3 |
O3 |
45.9 |
56.9 |
H4 |
C4 |
C3 |
H3 |
166.3 |
177.2 |
C3 |
C4 |
H4 |
C5 |
121.6 |
119.7 |
C3 |
C4 |
H4 |
O4 |
239.3 |
239.9 |
C5 |
C4 |
H4 |
O4 |
117.7 |
120.2 |
H4 |
C4 |
C5 |
C6 |
308.3 |
302.4 |
H4 |
C4 |
C5 |
O5 |
67.3 |
62.3 |
H4 |
C4 |
C5 |
H5 |
188.0 |
182.3 |
H4 |
C4 |
O4 |
HO4 |
60.6 |
59.8 |
C1 |
O5 |
C5 |
C6 |
184.6 |
181.1 |
C6 |
C5 |
C4 |
O4 |
67.2 |
62.6 |
C6 |
C5 |
C4 |
H4 |
308.3 |
302.4 |
C4 |
C5 |
C6 |
O5 |
120.6 |
119.9 |
C4 |
C5 |
C6 |
H5 |
239.9 |
239.9 |
O5 |
C5 |
C6 |
H5 |
119.3 |
120.0 |
O6 |
C6 |
C5 |
H61 |
239.8 |
240.0 |
O6 |
C6 |
C5 |
H62 |
120.2 |
120.1 |
C5 |
C6 |
O6 |
HO6 |
180.0 |
180.0 |
H61 |
C6 |
C5 |
H62 |
240.4 |
240.0 |
C5 |
O5 |
C1 |
H1 |
53.4 |
58.8 |
O5 |
C5 |
C4 |
O4 |
186.2 |
182.5 |
O5 |
C5 |
C4 |
H4 |
67.3 |
62.3 |
C4 |
C5 |
O5 |
C6 |
238.7 |
240.0 |
C4 |
C5 |
O5 |
H5 |
120.0 |
120.0 |
C6 |
C5 |
O5 |
H5 |
241.3 |
240.0 |
O5 |
C5 |
C6 |
O6 |
297.4 |
65.1 |
O5 |
C5 |
C6 |
H61 |
57.6 |
185.0 |
O5 |
C5 |
C6 |
H62 |
177.2 |
305.0 |
H5 |
C5 |
C4 |
O4 |
306.9 |
302.5 |
H5 |
C5 |
C4 |
H4 |
188.0 |
182.3 |
C4 |
C5 |
H5 |
C6 |
121.6 |
120.1 |
C4 |
C5 |
H5 |
O5 |
239.3 |
240.1 |
C6 |
C5 |
H5 |
O5 |
117.7 |
120.0 |
H5 |
C5 |
C6 |
O6 |
178.1 |
305.1 |
H5 |
C5 |
C6 |
H61 |
298.3 |
65.1 |
H5 |
C5 |
C6 |
H62 |
57.8 |
185.0 |
O6 |
C6 |
C5 |
O5 |
297.4 |
65.1 |
O6 |
C6 |
C5 |
H5 |
178.1 |
305.1 |
C5 |
C6 |
O6 |
H61 |
120.2 |
120.0 |
C5 |
C6 |
O6 |
H62 |
239.8 |
240.0 |
H61 |
C6 |
O6 |
H62 |
119.6 |
120.0 |
H61 |
C6 |
C5 |
O5 |
57.6 |
185.0 |
H61 |
C6 |
C5 |
H5 |
298.3 |
65.1 |
C5 |
C6 |
H61 |
O6 |
238.9 |
240.0 |
C5 |
C6 |
H61 |
H62 |
119.4 |
120.0 |
O6 |
C6 |
H61 |
H62 |
240.6 |
239.9 |
H61 |
C6 |
O6 |
HO6 |
59.8 |
60.0 |
H62 |
C6 |
C5 |
O5 |
177.2 |
305.0 |
H62 |
C6 |
C5 |
H5 |
57.8 |
185.0 |
C5 |
C6 |
H62 |
O6 |
121.1 |
120.0 |
C5 |
C6 |
H62 |
H61 |
240.6 |
240.1 |
O6 |
C6 |
H62 |
H61 |
119.4 |
120.0 |
H62 |
C6 |
O6 |
HO6 |
300.2 |
300.0 |
C2 |
N2 |
C7 |
C8 |
180.1 |
180.0 |
N2 |
C7 |
C8 |
O7 |
179.0 |
180.1 |
C8 |
C7 |
N2 |
HN2 |
0.1 |
360.0 |
H81 |
C8 |
C7 |
H82 |
240.0 |
240.1 |
H81 |
C8 |
C7 |
H83 |
119.9 |
120.0 |
H82 |
C8 |
C7 |
H83 |
240.0 |
240.0 |
C7 |
N2 |
C2 |
H2 |
345.7 |
324.8 |
C2 |
N2 |
C7 |
HN2 |
180.0 |
180.0 |
C8 |
C7 |
N2 |
O7 |
181.0 |
179.9 |
N2 |
C7 |
C8 |
H81 |
179.0 |
60.1 |
N2 |
C7 |
C8 |
H82 |
299.0 |
180.0 |
N2 |
C7 |
C8 |
H83 |
59.0 |
300.0 |
C8 |
C7 |
O7 |
N2 |
178.9 |
180.1 |
O7 |
C7 |
C8 |
H81 |
360.0 |
240.0 |
O7 |
C7 |
C8 |
H82 |
120.0 |
359.9 |
O7 |
C7 |
C8 |
H83 |
240.0 |
120.0 |
O7 |
C7 |
N2 |
HN2 |
179.0 |
180.0 |
H81 |
C8 |
C7 |
N2 |
179.0 |
60.1 |
H81 |
C8 |
C7 |
O7 |
360.0 |
240.0 |
C7 |
C8 |
H81 |
H82 |
120.0 |
120.0 |
C7 |
C8 |
H81 |
H83 |
240.0 |
239.9 |
H82 |
C8 |
H81 |
H83 |
120.0 |
120.0 |
H82 |
C8 |
C7 |
N2 |
299.0 |
180.0 |
H82 |
C8 |
C7 |
O7 |
120.0 |
359.9 |
C7 |
C8 |
H82 |
H81 |
240.0 |
240.0 |
C7 |
C8 |
H82 |
H83 |
120.0 |
120.1 |
H81 |
C8 |
H82 |
H83 |
240.0 |
240.0 |
H83 |
C8 |
C7 |
N2 |
59.0 |
300.0 |
H83 |
C8 |
C7 |
O7 |
240.0 |
120.0 |
C7 |
C8 |
H83 |
H81 |
120.0 |
120.0 |
C7 |
C8 |
H83 |
H82 |
240.0 |
240.0 |
H81 |
C8 |
H83 |
H82 |
120.0 |
119.9 |
HN2 |
N2 |
C2 |
H2 |
165.7 |
144.8 |
C2 |
N2 |
HN2 |
C7 |
180.0 |
180.0 |
HN2 |
N2 |
C7 |
O7 |
179.0 |
180.0 |
HO1 |
O1 |
C1 |
O5 |
300.1 |
299.9 |
HO1 |
O1 |
C1 |
H1 |
61.3 |
59.9 |
HO3 |
O3 |
C3 |
H3 |
299.2 |
300.2 |
HO4 |
O4 |
C4 |
H4 |
60.6 |
59.8 |
HO6 |
O6 |
C6 |
H61 |
59.8 |
60.0 |
HO6 |
O6 |
C6 |
H62 |
300.2 |
300.0 |