PDB Chemical Component CPN
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 CPN
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C8' |
C7' |
1.556 |
1.507 |
| C8' |
N1 |
1.488 |
1.465 |
| C8' |
H8'1 |
1.100 |
1.090 |
| C8' |
H8'2 |
1.100 |
1.090 |
| C7' |
O7' |
1.238 |
1.212 |
| C7' |
N4' |
1.351 |
1.347 |
| C5' |
C |
1.547 |
1.507 |
| C5' |
N4' |
1.478 |
1.465 |
| C5' |
H5'1 |
1.100 |
1.090 |
| C5' |
H5'2 |
1.100 |
1.090 |
| C |
O |
1.241 |
1.208 |
| C |
OXT |
1.258 |
1.342 |
| OXT |
HXT |
0.950 |
0.967 |
| N4' |
C3' |
1.464 |
1.465 |
| C3' |
C2' |
1.545 |
1.530 |
| C3' |
H3'1 |
1.100 |
1.090 |
| C3' |
H3'2 |
1.100 |
1.090 |
| C2' |
N |
1.462 |
1.469 |
| C2' |
H2'1 |
1.100 |
1.090 |
| C2' |
H2'2 |
1.100 |
1.090 |
| N |
H |
1.000 |
1.009 |
| N |
H2 |
1.000 |
1.009 |
| N |
H3 |
1.000 |
1.009 |
| N1 |
C2 |
1.393 |
1.345 |
| N1 |
C6 |
1.368 |
1.363 |
| C2 |
N3 |
1.350 |
1.332 |
| C2 |
O2 |
1.226 |
1.220 |
| N3 |
C4 |
1.299 |
1.327 |
| C4 |
C5 |
1.399 |
1.410 |
| C4 |
N4 |
1.288 |
1.375 |
| C5 |
C6 |
1.353 |
1.354 |
| C5 |
H5 |
1.080 |
1.080 |
| C6 |
H6 |
1.080 |
1.080 |
| N4 |
HN41 |
1.000 |
0.970 |
| N4 |
HN42 |
1.000 |
0.970 |
Bond Angles for CPN
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C7' |
C8' |
N1 |
107.1 |
109.5 |
| C7' |
C8' |
H8'1 |
110.3 |
109.4 |
| C7' |
C8' |
H8'2 |
110.3 |
109.5 |
| C8' |
C7' |
O7' |
119.9 |
120.0 |
| C8' |
C7' |
N4' |
120.3 |
120.0 |
| N1 |
C8' |
H8'1 |
110.3 |
109.5 |
| N1 |
C8' |
H8'2 |
110.2 |
109.5 |
| C8' |
N1 |
C2 |
119.8 |
119.8 |
| C8' |
N1 |
C6 |
120.7 |
119.8 |
| H8'1 |
C8' |
H8'2 |
108.7 |
109.4 |
| O7' |
C7' |
N4' |
119.8 |
120.0 |
| C7' |
N4' |
C5' |
118.5 |
120.0 |
| C7' |
N4' |
C3' |
124.3 |
120.0 |
| C |
C5' |
N4' |
105.8 |
109.5 |
| C |
C5' |
H5'1 |
110.7 |
109.5 |
| C |
C5' |
H5'2 |
110.7 |
109.4 |
| C5' |
C |
O |
119.8 |
120.0 |
| C5' |
C |
OXT |
114.0 |
120.0 |
| N4' |
C5' |
H5'1 |
110.7 |
109.5 |
| N4' |
C5' |
H5'2 |
110.7 |
109.5 |
| C5' |
N4' |
C3' |
117.1 |
120.0 |
| H5'1 |
C5' |
H5'2 |
108.2 |
109.4 |
| O |
C |
OXT |
117.0 |
120.0 |
| C |
OXT |
HXT |
109.5 |
117.0 |
| N4' |
C3' |
C2' |
110.0 |
109.5 |
| N4' |
C3' |
H3'1 |
109.3 |
109.5 |
| N4' |
C3' |
H3'2 |
109.3 |
109.4 |
| C2' |
C3' |
H3'1 |
109.3 |
109.5 |
| C2' |
C3' |
H3'2 |
109.3 |
109.5 |
| C3' |
C2' |
N |
111.5 |
109.5 |
| C3' |
C2' |
H2'1 |
108.8 |
109.4 |
| C3' |
C2' |
H2'2 |
108.8 |
109.5 |
| H3'1 |
C3' |
H3'2 |
109.7 |
109.5 |
| N |
C2' |
H2'1 |
108.8 |
109.5 |
| N |
C2' |
H2'2 |
108.8 |
109.5 |
| C2' |
N |
H |
109.5 |
109.5 |
| C2' |
N |
H2 |
109.5 |
109.4 |
| C2' |
N |
H3 |
109.5 |
109.5 |
| H2'1 |
C2' |
H2'2 |
110.1 |
109.5 |
| H |
N |
H2 |
109.5 |
109.5 |
| H |
N |
H3 |
109.5 |
109.4 |
| H2 |
N |
H3 |
109.5 |
109.4 |
| C2 |
N1 |
C6 |
119.5 |
120.4 |
| N1 |
C2 |
N3 |
119.7 |
121.1 |
| N1 |
C2 |
O2 |
120.5 |
119.5 |
| N1 |
C6 |
C5 |
120.7 |
119.3 |
| N1 |
C6 |
H6 |
119.6 |
120.3 |
| N3 |
C2 |
O2 |
119.7 |
119.5 |
| C2 |
N3 |
C4 |
118.9 |
120.7 |
| N3 |
C4 |
C5 |
124.3 |
119.6 |
| N3 |
C4 |
N4 |
114.4 |
120.2 |
| C5 |
C4 |
N4 |
121.1 |
120.2 |
| C4 |
C5 |
C6 |
116.4 |
119.0 |
| C4 |
C5 |
H5 |
121.8 |
120.5 |
| C4 |
N4 |
HN41 |
120.0 |
120.0 |
| C4 |
N4 |
HN42 |
120.0 |
120.0 |
| C6 |
C5 |
H5 |
121.8 |
120.5 |
| C5 |
C6 |
H6 |
119.7 |
120.4 |
| HN41 |
N4 |
HN42 |
120.0 |
120.0 |
Torsion Angles for CPN
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| N1 |
C8' |
C7' |
H8'1 |
240.0 |
240.0 |
| N1 |
C8' |
C7' |
H8'2 |
120.0 |
120.0 |
| C7' |
C8' |
N1 |
C2 |
102.9 |
90.0 |
| C7' |
C8' |
N1 |
C6 |
284.7 |
269.7 |
| H8'1 |
C8' |
C7' |
H8'2 |
240.0 |
240.0 |
| O7' |
C7' |
C8' |
N4' |
179.9 |
180.0 |
| C8' |
C7' |
N4' |
C5' |
176.4 |
360.0 |
| C8' |
C7' |
N4' |
C3' |
359.8 |
180.0 |
| C7' |
C8' |
N1 |
H8'1 |
120.0 |
120.0 |
| C7' |
C8' |
N1 |
H8'2 |
240.0 |
240.0 |
| N1 |
C8' |
C7' |
O7' |
13.1 |
0.0 |
| N1 |
C8' |
C7' |
N4' |
193.1 |
180.0 |
| H8'1 |
C8' |
N1 |
H8'2 |
120.0 |
120.0 |
| C2 |
N1 |
C8' |
C6 |
178.2 |
180.3 |
| C8' |
N1 |
C2 |
N3 |
178.6 |
180.1 |
| C8' |
N1 |
C2 |
O2 |
359.5 |
0.0 |
| C8' |
N1 |
C6 |
C5 |
178.0 |
179.7 |
| C8' |
N1 |
C6 |
H6 |
358.0 |
360.0 |
| C7' |
C8' |
H8'1 |
N1 |
241.9 |
240.0 |
| C7' |
C8' |
H8'1 |
H8'2 |
121.0 |
120.0 |
| H8'1 |
C8' |
C7' |
O7' |
133.1 |
120.0 |
| H8'1 |
C8' |
C7' |
N4' |
313.1 |
300.0 |
| N1 |
C8' |
H8'1 |
H8'2 |
239.1 |
240.0 |
| H8'1 |
C8' |
N1 |
C2 |
342.8 |
330.0 |
| H8'1 |
C8' |
N1 |
C6 |
164.7 |
149.7 |
| C7' |
C8' |
H8'2 |
N1 |
118.1 |
120.0 |
| C7' |
C8' |
H8'2 |
H8'1 |
239.0 |
240.0 |
| H8'2 |
C8' |
C7' |
O7' |
253.1 |
240.0 |
| H8'2 |
C8' |
C7' |
N4' |
73.1 |
60.0 |
| N1 |
C8' |
H8'2 |
H8'1 |
120.9 |
120.0 |
| H8'2 |
C8' |
N1 |
C2 |
222.9 |
210.0 |
| H8'2 |
C8' |
N1 |
C6 |
44.7 |
29.8 |
| O7' |
C7' |
C8' |
N1 |
13.1 |
0.0 |
| O7' |
C7' |
C8' |
H8'1 |
133.1 |
120.0 |
| O7' |
C7' |
C8' |
H8'2 |
253.1 |
240.0 |
| C8' |
C7' |
O7' |
N4' |
180.1 |
180.0 |
| O7' |
C7' |
N4' |
C5' |
356.4 |
180.0 |
| O7' |
C7' |
N4' |
C3' |
179.9 |
0.1 |
| N4' |
C7' |
C8' |
N1 |
193.1 |
180.0 |
| N4' |
C7' |
C8' |
H8'1 |
313.1 |
300.0 |
| N4' |
C7' |
C8' |
H8'2 |
73.1 |
60.0 |
| C8' |
C7' |
N4' |
O7' |
179.9 |
180.0 |
| C |
C5' |
N4' |
C7' |
292.2 |
90.0 |
| C7' |
N4' |
C5' |
H5'1 |
172.2 |
330.0 |
| C7' |
N4' |
C5' |
H5'2 |
52.2 |
210.0 |
| C5' |
N4' |
C7' |
C3' |
176.5 |
180.0 |
| C7' |
N4' |
C3' |
C2' |
241.2 |
90.0 |
| C7' |
N4' |
C3' |
H3'1 |
1.2 |
210.0 |
| C7' |
N4' |
C3' |
H3'2 |
121.2 |
330.0 |
| C7' |
N4' |
C5' |
C |
292.2 |
90.0 |
| N4' |
C5' |
C |
H5'1 |
240.0 |
240.0 |
| N4' |
C5' |
C |
H5'2 |
120.0 |
120.0 |
| C |
C5' |
N4' |
C3' |
108.9 |
270.0 |
| H5'1 |
C5' |
C |
H5'2 |
240.0 |
240.1 |
| O |
C |
C5' |
OXT |
214.0 |
180.1 |
| C5' |
C |
OXT |
HXT |
212.9 |
180.0 |
| C7' |
N4' |
C5' |
C3' |
183.2 |
180.0 |
| C |
C5' |
N4' |
H5'1 |
120.0 |
120.0 |
| C |
C5' |
N4' |
H5'2 |
240.0 |
240.0 |
| N4' |
C5' |
C |
O |
183.3 |
0.0 |
| N4' |
C5' |
C |
OXT |
329.3 |
180.0 |
| H5'1 |
C5' |
N4' |
H5'2 |
120.0 |
120.0 |
| C5' |
N4' |
C3' |
C2' |
64.7 |
270.0 |
| C5' |
N4' |
C3' |
H3'1 |
184.7 |
30.0 |
| C5' |
N4' |
C3' |
H3'2 |
304.7 |
150.0 |
| C |
C5' |
H5'1 |
N4' |
243.0 |
240.0 |
| C |
C5' |
H5'1 |
H5'2 |
121.5 |
119.9 |
| H5'1 |
C5' |
C |
O |
303.3 |
120.1 |
| H5'1 |
C5' |
C |
OXT |
89.3 |
300.0 |
| N4' |
C5' |
H5'1 |
H5'2 |
238.5 |
240.0 |
| H5'1 |
C5' |
N4' |
C3' |
348.9 |
150.0 |
| C |
C5' |
H5'2 |
N4' |
117.0 |
120.0 |
| C |
C5' |
H5'2 |
H5'1 |
238.5 |
240.1 |
| H5'2 |
C5' |
C |
O |
63.3 |
240.0 |
| H5'2 |
C5' |
C |
OXT |
209.3 |
59.9 |
| N4' |
C5' |
H5'2 |
H5'1 |
121.5 |
120.0 |
| H5'2 |
C5' |
N4' |
C3' |
229.0 |
30.0 |
| O |
C |
C5' |
N4' |
183.3 |
0.0 |
| O |
C |
C5' |
H5'1 |
303.3 |
120.1 |
| O |
C |
C5' |
H5'2 |
63.3 |
240.0 |
| C5' |
C |
O |
OXT |
145.1 |
179.9 |
| O |
C |
OXT |
HXT |
360.0 |
359.9 |
| OXT |
C |
C5' |
N4' |
329.3 |
180.0 |
| OXT |
C |
C5' |
H5'1 |
89.3 |
300.0 |
| OXT |
C |
C5' |
H5'2 |
209.3 |
59.9 |
| C5' |
C |
OXT |
O |
213.0 |
180.1 |
| C7' |
N4' |
C3' |
C5' |
176.6 |
180.0 |
| C3' |
N4' |
C5' |
H5'1 |
348.9 |
150.0 |
| C3' |
N4' |
C5' |
H5'2 |
229.0 |
30.0 |
| C2' |
C3' |
N4' |
H3'1 |
240.0 |
240.0 |
| C2' |
C3' |
N4' |
H3'2 |
120.0 |
120.0 |
| N4' |
C3' |
C2' |
N |
64.0 |
180.0 |
| N4' |
C3' |
C2' |
H2'1 |
184.0 |
300.0 |
| N4' |
C3' |
C2' |
H2'2 |
304.0 |
60.0 |
| H3'1 |
C3' |
N4' |
H3'2 |
240.0 |
240.0 |
| N4' |
C3' |
C2' |
H3'1 |
120.0 |
120.0 |
| N4' |
C3' |
C2' |
H3'2 |
240.0 |
240.0 |
| H3'1 |
C3' |
C2' |
H3'2 |
120.0 |
120.0 |
| N |
C2' |
C3' |
H2'1 |
240.0 |
240.0 |
| N |
C2' |
C3' |
H2'2 |
120.0 |
120.0 |
| C3' |
C2' |
N |
H |
180.0 |
180.0 |
| C3' |
C2' |
N |
H2 |
300.0 |
300.0 |
| C3' |
C2' |
N |
H3 |
60.0 |
60.0 |
| H2'1 |
C2' |
C3' |
H2'2 |
240.0 |
240.0 |
| N4' |
C3' |
H3'1 |
C2' |
239.5 |
240.0 |
| N4' |
C3' |
H3'1 |
H3'2 |
119.8 |
120.0 |
| C2' |
C3' |
H3'1 |
H3'2 |
240.2 |
240.0 |
| H3'1 |
C3' |
C2' |
N |
304.0 |
60.0 |
| H3'1 |
C3' |
C2' |
H2'1 |
64.0 |
180.0 |
| H3'1 |
C3' |
C2' |
H2'2 |
184.0 |
300.0 |
| N4' |
C3' |
H3'2 |
C2' |
120.5 |
120.0 |
| N4' |
C3' |
H3'2 |
H3'1 |
240.2 |
240.0 |
| C2' |
C3' |
H3'2 |
H3'1 |
119.8 |
120.0 |
| H3'2 |
C3' |
C2' |
N |
184.0 |
300.0 |
| H3'2 |
C3' |
C2' |
H2'1 |
304.0 |
60.0 |
| H3'2 |
C3' |
C2' |
H2'2 |
64.0 |
180.0 |
| N |
C2' |
C3' |
H3'1 |
304.0 |
60.0 |
| N |
C2' |
C3' |
H3'2 |
184.0 |
300.0 |
| C3' |
C2' |
N |
H2'1 |
120.0 |
120.0 |
| C3' |
C2' |
N |
H2'2 |
240.0 |
240.0 |
| H2'1 |
C2' |
N |
H2'2 |
120.0 |
120.1 |
| H |
N |
C2' |
H2 |
240.0 |
239.9 |
| H |
N |
C2' |
H3 |
120.0 |
120.0 |
| H2 |
N |
C2' |
H3 |
240.0 |
240.0 |
| H2'1 |
C2' |
C3' |
H3'1 |
64.0 |
180.0 |
| H2'1 |
C2' |
C3' |
H3'2 |
304.0 |
60.0 |
| C3' |
C2' |
H2'1 |
N |
238.4 |
240.0 |
| C3' |
C2' |
H2'1 |
H2'2 |
119.2 |
120.0 |
| N |
C2' |
H2'1 |
H2'2 |
240.8 |
240.0 |
| H2'1 |
C2' |
N |
H |
60.0 |
60.0 |
| H2'1 |
C2' |
N |
H2 |
180.0 |
180.1 |
| H2'1 |
C2' |
N |
H3 |
300.0 |
300.0 |
| H2'2 |
C2' |
C3' |
H3'1 |
184.0 |
300.0 |
| H2'2 |
C2' |
C3' |
H3'2 |
64.0 |
180.0 |
| C3' |
C2' |
H2'2 |
N |
121.6 |
120.0 |
| C3' |
C2' |
H2'2 |
H2'1 |
240.8 |
240.0 |
| N |
C2' |
H2'2 |
H2'1 |
119.2 |
120.0 |
| H2'2 |
C2' |
N |
H |
300.0 |
300.0 |
| H2'2 |
C2' |
N |
H2 |
60.0 |
60.0 |
| H2'2 |
C2' |
N |
H3 |
180.0 |
180.0 |
| H |
N |
C2' |
H2'1 |
60.0 |
60.0 |
| H |
N |
C2' |
H2'2 |
300.0 |
300.0 |
| C2' |
N |
H |
H2 |
120.0 |
120.0 |
| C2' |
N |
H |
H3 |
240.0 |
240.0 |
| H2 |
N |
H |
H3 |
120.0 |
120.0 |
| H2 |
N |
C2' |
H2'1 |
180.0 |
180.1 |
| H2 |
N |
C2' |
H2'2 |
60.0 |
60.0 |
| C2' |
N |
H2 |
H |
240.0 |
240.0 |
| C2' |
N |
H2 |
H3 |
120.0 |
120.0 |
| H |
N |
H2 |
H3 |
240.0 |
240.0 |
| H3 |
N |
C2' |
H2'1 |
300.0 |
300.0 |
| H3 |
N |
C2' |
H2'2 |
180.0 |
180.0 |
| C2' |
N |
H3 |
H |
120.0 |
120.0 |
| C2' |
N |
H3 |
H2 |
240.0 |
240.0 |
| H |
N |
H3 |
H2 |
120.0 |
120.0 |
| C2 |
N1 |
C8' |
H8'1 |
342.8 |
330.0 |
| C2 |
N1 |
C8' |
H8'2 |
222.9 |
210.0 |
| C8' |
N1 |
C2 |
C6 |
181.8 |
179.7 |
| C2 |
N1 |
C6 |
C5 |
359.8 |
359.5 |
| C2 |
N1 |
C6 |
H6 |
179.8 |
179.7 |
| N3 |
C2 |
N1 |
O2 |
179.1 |
180.1 |
| N1 |
C2 |
N3 |
C4 |
7.3 |
359.9 |
| C6 |
N1 |
C8' |
H8'1 |
164.7 |
149.7 |
| C6 |
N1 |
C8' |
H8'2 |
44.7 |
29.8 |
| C8' |
N1 |
C6 |
C2 |
178.2 |
180.3 |
| C6 |
N1 |
C2 |
N3 |
356.8 |
0.3 |
| C6 |
N1 |
C2 |
O2 |
177.7 |
180.3 |
| C4 |
C5 |
C6 |
N1 |
359.5 |
0.5 |
| N1 |
C6 |
C5 |
H5 |
179.5 |
180.3 |
| C5 |
C6 |
N1 |
H6 |
180.0 |
179.7 |
| N3 |
C2 |
N1 |
C6 |
356.8 |
0.3 |
| N1 |
C2 |
N3 |
O2 |
180.9 |
179.9 |
| C2 |
N3 |
C4 |
C5 |
351.6 |
0.0 |
| C2 |
N3 |
C4 |
N4 |
176.2 |
180.0 |
| O2 |
C2 |
N1 |
C6 |
177.7 |
180.3 |
| N1 |
C2 |
O2 |
N3 |
179.1 |
180.1 |
| O2 |
C2 |
N3 |
C4 |
186.4 |
180.0 |
| C4 |
N3 |
C2 |
O2 |
186.4 |
180.0 |
| C5 |
C4 |
N3 |
N4 |
175.3 |
180.0 |
| N3 |
C4 |
C5 |
C6 |
5.0 |
359.8 |
| N3 |
C4 |
C5 |
H5 |
184.9 |
179.9 |
| N3 |
C4 |
N4 |
HN41 |
360.0 |
0.0 |
| N3 |
C4 |
N4 |
HN42 |
180.0 |
180.0 |
| N1 |
C6 |
C5 |
C4 |
359.5 |
0.5 |
| N3 |
C4 |
C5 |
N4 |
185.0 |
180.0 |
| C5 |
C4 |
N4 |
HN41 |
184.5 |
180.0 |
| C5 |
C4 |
N4 |
HN42 |
4.5 |
0.0 |
| C6 |
C5 |
C4 |
H5 |
180.0 |
179.9 |
| C4 |
C5 |
C6 |
H6 |
179.5 |
180.2 |
| N3 |
C4 |
N4 |
C5 |
175.5 |
180.0 |
| N4 |
C4 |
C5 |
C6 |
180.0 |
179.8 |
| N4 |
C4 |
C5 |
H5 |
360.0 |
359.9 |
| HN41 |
N4 |
C4 |
HN42 |
180.0 |
180.0 |
| N1 |
C6 |
C5 |
H6 |
180.0 |
180.3 |
| C6 |
C5 |
C4 |
N4 |
180.0 |
179.8 |
| C4 |
C5 |
C6 |
H5 |
180.0 |
180.1 |
| H5 |
C5 |
C4 |
N4 |
360.0 |
359.9 |
| C4 |
C5 |
H5 |
C6 |
180.0 |
179.9 |
| H5 |
C5 |
C6 |
H6 |
359.5 |
0.1 |
| N1 |
C6 |
H6 |
C5 |
180.0 |
179.7 |
| H6 |
C6 |
C5 |
H5 |
359.5 |
0.1 |
| C4 |
N4 |
HN41 |
HN42 |
180.0 |
180.0 |
| C4 |
N4 |
HN42 |
HN41 |
180.0 |
180.0 |