PDB Chemical Component NPG
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 NPG
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| O61 |
C6 |
1.250 |
1.208 |
| O62 |
C6 |
1.253 |
1.342 |
| O62 |
H62 |
0.950 |
0.968 |
| C6 |
C5 |
1.531 |
1.506 |
| C5 |
C4 |
1.522 |
1.529 |
| C5 |
H51 |
1.115 |
1.090 |
| C5 |
H52 |
1.115 |
1.090 |
| C4 |
C3 |
1.493 |
1.506 |
| C4 |
H41 |
1.116 |
1.090 |
| C4 |
H42 |
1.115 |
1.090 |
| O31 |
C3 |
1.233 |
1.212 |
| C3 |
N1 |
1.380 |
1.347 |
| N1 |
C1 |
1.435 |
1.463 |
| N1 |
HN1 |
1.020 |
0.971 |
| O11 |
C2 |
1.255 |
1.207 |
| O12 |
C2 |
1.247 |
1.342 |
| O12 |
H12 |
0.950 |
0.967 |
| C2 |
C1 |
1.520 |
1.507 |
| C1 |
CG |
1.468 |
1.506 |
| C1 |
H1 |
1.115 |
1.091 |
| CG |
CD1 |
1.390 |
1.381 |
| CG |
CD2 |
1.399 |
1.383 |
| CD1 |
CE1 |
1.394 |
1.382 |
| CD1 |
HD1 |
1.103 |
1.079 |
| CD2 |
CE2 |
1.398 |
1.382 |
| CD2 |
HD2 |
1.103 |
1.079 |
| CE1 |
CZ |
1.399 |
1.383 |
| CE1 |
HE1 |
1.103 |
1.080 |
| CE2 |
CZ |
1.400 |
1.382 |
| CE2 |
HE2 |
1.103 |
1.080 |
| CZ |
HZ |
1.104 |
1.080 |
Bond Angles for NPG
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O61 |
C6 |
O62 |
120.4 |
120.0 |
| O61 |
C6 |
C5 |
119.0 |
119.9 |
| C6 |
O62 |
H62 |
120.4 |
120.0 |
| O62 |
C6 |
C5 |
120.6 |
120.1 |
| C6 |
C5 |
C4 |
108.0 |
109.6 |
| C6 |
C5 |
H51 |
112.8 |
109.5 |
| C6 |
C5 |
H52 |
112.8 |
109.5 |
| C4 |
C5 |
H51 |
112.8 |
109.4 |
| C4 |
C5 |
H52 |
112.8 |
109.4 |
| C5 |
C4 |
C3 |
103.2 |
109.6 |
| C5 |
C4 |
H41 |
114.6 |
109.5 |
| C5 |
C4 |
H42 |
114.6 |
109.4 |
| H51 |
C5 |
H52 |
97.7 |
109.4 |
| C3 |
C4 |
H41 |
114.6 |
109.5 |
| C3 |
C4 |
H42 |
114.6 |
109.4 |
| C4 |
C3 |
O31 |
124.4 |
120.0 |
| C4 |
C3 |
N1 |
115.6 |
120.1 |
| H41 |
C4 |
H42 |
95.9 |
109.4 |
| O31 |
C3 |
N1 |
120.0 |
119.9 |
| C3 |
N1 |
C1 |
111.0 |
120.1 |
| C3 |
N1 |
HN1 |
122.9 |
119.9 |
| C1 |
N1 |
HN1 |
126.1 |
120.0 |
| N1 |
C1 |
C2 |
116.3 |
109.5 |
| N1 |
C1 |
CG |
105.3 |
109.6 |
| N1 |
C1 |
H1 |
116.3 |
109.4 |
| O11 |
C2 |
O12 |
119.1 |
120.0 |
| O11 |
C2 |
C1 |
123.3 |
120.1 |
| C2 |
O12 |
H12 |
119.1 |
120.0 |
| O12 |
C2 |
C1 |
117.1 |
119.9 |
| C2 |
C1 |
CG |
125.0 |
109.5 |
| C2 |
C1 |
H1 |
88.6 |
109.4 |
| CG |
C1 |
H1 |
104.2 |
109.5 |
| C1 |
CG |
CD1 |
113.5 |
120.0 |
| C1 |
CG |
CD2 |
124.7 |
120.0 |
| CD1 |
CG |
CD2 |
121.4 |
120.0 |
| CG |
CD1 |
CE1 |
119.5 |
120.0 |
| CG |
CD1 |
HD1 |
120.1 |
120.0 |
| CG |
CD2 |
CE2 |
119.0 |
120.0 |
| CG |
CD2 |
HD2 |
120.5 |
120.0 |
| CE1 |
CD1 |
HD1 |
120.4 |
120.0 |
| CD1 |
CE1 |
CZ |
119.5 |
120.0 |
| CD1 |
CE1 |
HE1 |
120.0 |
120.0 |
| CE2 |
CD2 |
HD2 |
120.4 |
120.0 |
| CD2 |
CE2 |
CZ |
119.5 |
120.0 |
| CD2 |
CE2 |
HE2 |
120.2 |
120.1 |
| CZ |
CE1 |
HE1 |
120.5 |
120.0 |
| CE1 |
CZ |
CE2 |
120.9 |
120.0 |
| CE1 |
CZ |
HZ |
119.6 |
120.0 |
| CZ |
CE2 |
HE2 |
120.3 |
119.9 |
| CE2 |
CZ |
HZ |
119.6 |
120.0 |
Torsion Angles for NPG
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O61 |
C6 |
O62 |
H62 |
180.0 |
360.0 |
| O62 |
C6 |
O61 |
C5 |
178.0 |
180.0 |
| O61 |
C6 |
C5 |
C4 |
183.1 |
360.0 |
| O61 |
C6 |
C5 |
H51 |
57.9 |
120.0 |
| O61 |
C6 |
C5 |
H52 |
308.4 |
240.0 |
| O61 |
C6 |
O62 |
C5 |
182.1 |
180.0 |
| O62 |
C6 |
C5 |
C4 |
5.2 |
180.0 |
| O62 |
C6 |
C5 |
H51 |
239.9 |
300.0 |
| O62 |
C6 |
C5 |
H52 |
130.4 |
59.9 |
| H62 |
O62 |
C6 |
C5 |
357.9 |
180.0 |
| O61 |
C6 |
C5 |
O62 |
177.9 |
180.0 |
| C5 |
C6 |
O62 |
H62 |
357.9 |
180.0 |
| C4 |
C5 |
C6 |
H51 |
125.3 |
240.0 |
| C4 |
C5 |
C6 |
H52 |
234.7 |
120.0 |
| C6 |
C5 |
C4 |
C3 |
96.6 |
180.0 |
| C6 |
C5 |
C4 |
H41 |
331.3 |
300.1 |
| C6 |
C5 |
C4 |
H42 |
221.8 |
60.0 |
| H51 |
C5 |
C6 |
H52 |
109.5 |
240.1 |
| C6 |
C5 |
C4 |
H51 |
234.7 |
120.1 |
| C6 |
C5 |
C4 |
H52 |
125.3 |
239.9 |
| H51 |
C5 |
C4 |
H52 |
250.6 |
119.8 |
| C3 |
C4 |
C5 |
H41 |
125.2 |
239.9 |
| C3 |
C4 |
C5 |
H42 |
234.7 |
120.0 |
| C5 |
C4 |
C3 |
O31 |
6.9 |
0.0 |
| C5 |
C4 |
C3 |
N1 |
185.8 |
180.0 |
| H41 |
C4 |
C5 |
H42 |
109.5 |
240.1 |
| C6 |
C5 |
H51 |
C4 |
122.6 |
239.9 |
| C6 |
C5 |
H51 |
H52 |
241.3 |
120.0 |
| C4 |
C5 |
H51 |
H52 |
118.7 |
240.1 |
| H51 |
C5 |
C4 |
C3 |
221.8 |
59.9 |
| H51 |
C5 |
C4 |
H41 |
96.6 |
180.0 |
| H51 |
C5 |
C4 |
H42 |
347.1 |
299.9 |
| C6 |
C5 |
H52 |
C4 |
237.4 |
120.1 |
| C6 |
C5 |
H52 |
H51 |
118.7 |
240.0 |
| C4 |
C5 |
H52 |
H51 |
241.3 |
119.9 |
| H52 |
C5 |
C4 |
C3 |
331.3 |
300.1 |
| H52 |
C5 |
C4 |
H41 |
206.0 |
60.1 |
| H52 |
C5 |
C4 |
H42 |
96.5 |
180.1 |
| C3 |
C4 |
C5 |
H51 |
221.8 |
59.9 |
| C3 |
C4 |
C5 |
H52 |
331.3 |
300.1 |
| C5 |
C4 |
C3 |
H41 |
234.8 |
120.1 |
| C5 |
C4 |
C3 |
H42 |
125.3 |
240.0 |
| H41 |
C4 |
C3 |
H42 |
250.5 |
119.9 |
| O31 |
C3 |
C4 |
N1 |
181.0 |
180.0 |
| C4 |
C3 |
N1 |
C1 |
191.6 |
180.0 |
| C4 |
C3 |
N1 |
HN1 |
11.6 |
0.0 |
| H41 |
C4 |
C5 |
H51 |
96.6 |
180.0 |
| H41 |
C4 |
C5 |
H52 |
206.0 |
60.1 |
| C5 |
C4 |
H41 |
C3 |
119.0 |
239.9 |
| C5 |
C4 |
H41 |
H42 |
239.5 |
119.9 |
| C3 |
C4 |
H41 |
H42 |
120.5 |
240.1 |
| H41 |
C4 |
C3 |
O31 |
132.1 |
240.0 |
| H41 |
C4 |
C3 |
N1 |
311.1 |
59.9 |
| H42 |
C4 |
C5 |
H51 |
347.1 |
299.9 |
| H42 |
C4 |
C5 |
H52 |
96.5 |
180.1 |
| C5 |
C4 |
H42 |
C3 |
241.0 |
120.1 |
| C5 |
C4 |
H42 |
H41 |
120.5 |
240.0 |
| C3 |
C4 |
H42 |
H41 |
239.5 |
120.0 |
| H42 |
C4 |
C3 |
O31 |
241.6 |
120.0 |
| H42 |
C4 |
C3 |
N1 |
60.5 |
300.0 |
| O31 |
C3 |
C4 |
H41 |
132.1 |
240.0 |
| O31 |
C3 |
C4 |
H42 |
241.6 |
120.0 |
| C4 |
C3 |
O31 |
N1 |
178.9 |
180.0 |
| O31 |
C3 |
N1 |
C1 |
10.6 |
360.0 |
| O31 |
C3 |
N1 |
HN1 |
190.6 |
180.0 |
| N1 |
C3 |
C4 |
H41 |
311.1 |
59.9 |
| N1 |
C3 |
C4 |
H42 |
60.5 |
300.0 |
| C4 |
C3 |
N1 |
O31 |
181.0 |
180.0 |
| C1 |
N1 |
C3 |
HN1 |
180.0 |
180.0 |
| C3 |
N1 |
C1 |
C2 |
62.6 |
89.9 |
| C3 |
N1 |
C1 |
CG |
205.6 |
210.0 |
| C3 |
N1 |
C1 |
H1 |
320.3 |
330.0 |
| C3 |
N1 |
C1 |
HN1 |
180.0 |
180.0 |
| O11 |
C2 |
C1 |
N1 |
29.2 |
210.0 |
| O12 |
C2 |
C1 |
N1 |
217.5 |
30.1 |
| C2 |
C1 |
N1 |
CG |
217.0 |
239.9 |
| C2 |
C1 |
N1 |
H1 |
102.3 |
119.9 |
| CG |
C1 |
N1 |
H1 |
245.3 |
240.0 |
| N1 |
C1 |
CG |
CD1 |
113.3 |
329.7 |
| N1 |
C1 |
CG |
CD2 |
300.7 |
150.0 |
| C3 |
N1 |
HN1 |
C1 |
180.0 |
180.0 |
| HN1 |
N1 |
C1 |
C2 |
242.5 |
269.9 |
| HN1 |
N1 |
C1 |
CG |
25.5 |
30.0 |
| HN1 |
N1 |
C1 |
H1 |
140.2 |
150.0 |
| N1 |
C1 |
C2 |
O11 |
29.2 |
210.0 |
| O11 |
C2 |
O12 |
H12 |
180.0 |
360.0 |
| O12 |
C2 |
O11 |
C1 |
171.6 |
180.0 |
| O11 |
C2 |
C1 |
CG |
254.4 |
89.9 |
| O11 |
C2 |
C1 |
H1 |
148.0 |
330.0 |
| N1 |
C1 |
C2 |
O12 |
217.5 |
30.1 |
| O11 |
C2 |
O12 |
C1 |
187.9 |
180.0 |
| O12 |
C2 |
C1 |
CG |
82.6 |
269.9 |
| O12 |
C2 |
C1 |
H1 |
336.3 |
150.0 |
| H12 |
O12 |
C2 |
C1 |
352.1 |
180.0 |
| C2 |
C1 |
N1 |
HN1 |
242.5 |
269.9 |
| N1 |
C1 |
C2 |
CG |
134.9 |
120.1 |
| N1 |
C1 |
C2 |
H1 |
241.2 |
240.1 |
| O11 |
C2 |
C1 |
O12 |
171.8 |
180.0 |
| C1 |
C2 |
O12 |
H12 |
352.1 |
180.0 |
| CG |
C1 |
C2 |
H1 |
106.4 |
119.9 |
| C2 |
C1 |
CG |
CD1 |
252.1 |
89.8 |
| C2 |
C1 |
CG |
CD2 |
79.5 |
270.1 |
| CG |
C1 |
N1 |
HN1 |
25.5 |
30.0 |
| N1 |
C1 |
CG |
C2 |
221.2 |
239.9 |
| N1 |
C1 |
CG |
H1 |
122.8 |
120.0 |
| C2 |
C1 |
CG |
H1 |
261.7 |
240.1 |
| CD1 |
CG |
C1 |
CD2 |
172.6 |
179.8 |
| C1 |
CG |
CD1 |
CE1 |
183.4 |
179.8 |
| C1 |
CG |
CD1 |
HD1 |
3.4 |
0.2 |
| C1 |
CG |
CD2 |
CE2 |
177.2 |
180.0 |
| C1 |
CG |
CD2 |
HD2 |
357.2 |
360.0 |
| H1 |
C1 |
N1 |
HN1 |
140.2 |
150.0 |
| N1 |
C1 |
H1 |
C2 |
118.8 |
120.0 |
| N1 |
C1 |
H1 |
CG |
244.6 |
239.9 |
| C2 |
C1 |
H1 |
CG |
125.8 |
119.9 |
| H1 |
C1 |
CG |
CD1 |
350.4 |
209.7 |
| H1 |
C1 |
CG |
CD2 |
177.8 |
30.0 |
| CD1 |
CG |
C1 |
H1 |
350.4 |
209.7 |
| C1 |
CG |
CD1 |
CD2 |
187.1 |
180.2 |
| CD1 |
CG |
CD2 |
CE2 |
5.1 |
0.3 |
| CD1 |
CG |
CD2 |
HD2 |
185.1 |
180.2 |
| CE1 |
CD1 |
CG |
HD1 |
180.0 |
179.6 |
| CG |
CD1 |
CE1 |
CZ |
0.9 |
0.4 |
| CG |
CD1 |
CE1 |
HE1 |
180.8 |
180.2 |
| CD2 |
CG |
C1 |
H1 |
177.8 |
30.0 |
| C1 |
CG |
CD2 |
CD1 |
172.1 |
179.8 |
| CD2 |
CG |
CD1 |
CE1 |
356.3 |
359.5 |
| CD2 |
CG |
CD1 |
HD1 |
176.3 |
179.9 |
| CE2 |
CD2 |
CG |
HD2 |
180.0 |
180.1 |
| CG |
CD2 |
CE2 |
CZ |
356.3 |
359.9 |
| CG |
CD2 |
CE2 |
HE2 |
176.4 |
179.9 |
| CE1 |
CD1 |
CG |
CD2 |
356.3 |
359.5 |
| CG |
CD1 |
CE1 |
HD1 |
180.0 |
180.4 |
| CZ |
CE1 |
CD1 |
HE1 |
180.0 |
180.2 |
| CD1 |
CE1 |
CZ |
CE2 |
0.5 |
359.8 |
| CD1 |
CE1 |
CZ |
HZ |
180.5 |
179.9 |
| HD1 |
CD1 |
CG |
CD2 |
176.3 |
179.9 |
| CG |
CD1 |
HD1 |
CE1 |
180.0 |
179.6 |
| HD1 |
CD1 |
CE1 |
CZ |
180.8 |
180.0 |
| HD1 |
CD1 |
CE1 |
HE1 |
0.8 |
359.8 |
| CG |
CD2 |
CE2 |
HD2 |
180.0 |
179.9 |
| CE1 |
CZ |
CE2 |
CD2 |
0.9 |
0.0 |
| CZ |
CE2 |
CD2 |
HE2 |
180.0 |
180.0 |
| CD2 |
CE2 |
CZ |
HZ |
180.9 |
179.9 |
| CG |
CD2 |
HD2 |
CE2 |
180.0 |
180.1 |
| HD2 |
CD2 |
CE2 |
CZ |
176.3 |
180.0 |
| HD2 |
CD2 |
CE2 |
HE2 |
356.4 |
0.0 |
| CZ |
CE1 |
CD1 |
HD1 |
180.8 |
180.0 |
| CD1 |
CE1 |
CZ |
HE1 |
180.0 |
179.8 |
| CD2 |
CE2 |
CZ |
CE1 |
0.9 |
0.0 |
| CE1 |
CZ |
CE2 |
HE2 |
180.9 |
180.0 |
| CE2 |
CZ |
CE1 |
HZ |
180.0 |
179.9 |
| HE1 |
CE1 |
CD1 |
HD1 |
0.8 |
359.8 |
| CD1 |
CE1 |
HE1 |
CZ |
180.0 |
180.2 |
| HE1 |
CE1 |
CZ |
CE2 |
180.5 |
180.0 |
| HE1 |
CE1 |
CZ |
HZ |
0.5 |
0.1 |
| CZ |
CE2 |
CD2 |
HD2 |
176.3 |
180.0 |
| CD2 |
CE2 |
CZ |
HE2 |
180.0 |
180.0 |
| CE2 |
CZ |
CE1 |
HE1 |
180.5 |
180.0 |
| CE1 |
CZ |
CE2 |
HZ |
180.0 |
180.1 |
| HE2 |
CE2 |
CD2 |
HD2 |
356.4 |
0.0 |
| CD2 |
CE2 |
HE2 |
CZ |
180.0 |
180.0 |
| HE2 |
CE2 |
CZ |
HZ |
0.9 |
359.9 |
| HZ |
CZ |
CE1 |
HE1 |
0.5 |
0.1 |
| CE1 |
CZ |
HZ |
CE2 |
180.0 |
179.9 |
| HZ |
CZ |
CE2 |
HE2 |
0.9 |
359.9 |