PDB Chemical Component PM6
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 PM6
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| N9 |
C4 |
1.325 |
1.373 |
| N9 |
C8 |
1.333 |
1.362 |
| C4 |
N3 |
1.341 |
1.329 |
| C4 |
C5 |
1.380 |
1.405 |
| N3 |
C2 |
1.324 |
1.316 |
| C2 |
N1 |
1.329 |
1.320 |
| N1 |
C6 |
1.339 |
1.330 |
| C6 |
C5 |
1.384 |
1.405 |
| C6 |
S6 |
1.756 |
1.762 |
| C5 |
N7 |
1.326 |
1.354 |
| N7 |
C8 |
1.330 |
1.301 |
| N9 |
HN9 |
0.999 |
0.970 |
| C2 |
H2 |
1.080 |
1.080 |
| C8 |
H8 |
1.080 |
1.081 |
| S6 |
HS6 |
1.300 |
1.410 |
Bond Angles for PM6
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C4 |
N9 |
C8 |
108.4 |
107.4 |
| N9 |
C4 |
N3 |
133.5 |
134.9 |
| N9 |
C4 |
C5 |
106.8 |
106.0 |
| C4 |
N9 |
HN9 |
125.8 |
126.2 |
| N9 |
C8 |
N7 |
109.1 |
110.0 |
| C8 |
N9 |
HN9 |
125.8 |
126.4 |
| N9 |
C8 |
H8 |
125.5 |
125.0 |
| N3 |
C4 |
C5 |
119.6 |
119.1 |
| C4 |
N3 |
C2 |
120.1 |
120.7 |
| C4 |
C5 |
C6 |
119.0 |
118.2 |
| C4 |
C5 |
N7 |
107.8 |
107.1 |
| N3 |
C2 |
N1 |
121.7 |
122.5 |
| N3 |
C2 |
H2 |
119.1 |
118.7 |
| C2 |
N1 |
C6 |
120.9 |
121.2 |
| N1 |
C2 |
H2 |
119.1 |
118.8 |
| N1 |
C6 |
C5 |
118.7 |
118.5 |
| N1 |
C6 |
S6 |
121.3 |
120.8 |
| C5 |
C6 |
S6 |
120.0 |
120.8 |
| C6 |
C5 |
N7 |
133.2 |
134.7 |
| C6 |
S6 |
HS6 |
109.5 |
100.0 |
| C5 |
N7 |
C8 |
107.8 |
109.5 |
| N7 |
C8 |
H8 |
125.4 |
125.0 |
Torsion Angles for PM6
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C4 |
N9 |
C8 |
N7 |
0.0 |
0.0 |
| C8 |
N9 |
C4 |
HN9 |
180.0 |
180.2 |
| C4 |
N9 |
C8 |
H8 |
180.0 |
180.0 |
| N3 |
C4 |
N9 |
C5 |
179.7 |
180.0 |
| N9 |
C4 |
N3 |
C2 |
180.1 |
180.0 |
| N9 |
C4 |
C5 |
C6 |
180.0 |
180.0 |
| N9 |
C4 |
C5 |
N7 |
359.9 |
0.0 |
| C8 |
N9 |
C4 |
N3 |
179.8 |
180.0 |
| C8 |
N9 |
C4 |
C5 |
0.1 |
360.0 |
| C4 |
N9 |
C8 |
HN9 |
180.0 |
179.8 |
| C5 |
N7 |
C8 |
N9 |
359.9 |
360.0 |
| N7 |
C8 |
N9 |
H8 |
180.0 |
180.0 |
| N3 |
C4 |
N9 |
C8 |
179.8 |
180.0 |
| N9 |
C4 |
N3 |
C5 |
180.3 |
180.0 |
| N3 |
C4 |
N9 |
HN9 |
359.8 |
359.8 |
| N3 |
C4 |
C5 |
C6 |
0.3 |
0.0 |
| N3 |
C4 |
C5 |
N7 |
180.1 |
180.0 |
| C4 |
N3 |
C2 |
N1 |
0.3 |
0.1 |
| C4 |
N3 |
C2 |
H2 |
180.3 |
180.0 |
| C5 |
C4 |
N9 |
C8 |
0.1 |
360.0 |
| N9 |
C4 |
C5 |
N3 |
179.7 |
180.0 |
| C5 |
C4 |
N9 |
HN9 |
180.1 |
179.8 |
| C5 |
C4 |
N3 |
C2 |
359.7 |
359.9 |
| N1 |
C6 |
C5 |
C4 |
359.6 |
360.0 |
| C4 |
C5 |
C6 |
S6 |
179.8 |
180.0 |
| C6 |
C5 |
C4 |
N7 |
180.2 |
180.0 |
| C4 |
C5 |
N7 |
C8 |
0.1 |
360.0 |
| C2 |
N3 |
C4 |
C5 |
359.7 |
359.9 |
| N3 |
C2 |
N1 |
C6 |
359.6 |
359.9 |
| N1 |
C2 |
N3 |
H2 |
180.0 |
180.1 |
| N3 |
C2 |
N1 |
H2 |
180.0 |
179.9 |
| C2 |
N1 |
C6 |
C5 |
0.4 |
0.0 |
| C2 |
N1 |
C6 |
S6 |
180.3 |
180.0 |
| C4 |
C5 |
C6 |
N1 |
359.6 |
360.0 |
| C6 |
N1 |
C2 |
H2 |
179.6 |
180.0 |
| C5 |
C6 |
N1 |
S6 |
180.1 |
180.0 |
| N1 |
C6 |
C5 |
N7 |
179.8 |
180.0 |
| N1 |
C6 |
S6 |
HS6 |
102.0 |
90.0 |
| C4 |
C5 |
C6 |
N7 |
179.8 |
180.0 |
| N1 |
C6 |
C5 |
S6 |
179.9 |
180.0 |
| C5 |
C6 |
S6 |
HS6 |
281.8 |
270.0 |
| C6 |
C5 |
N7 |
C8 |
180.0 |
180.0 |
| N1 |
C6 |
S6 |
C5 |
180.1 |
180.0 |
| S6 |
C6 |
C5 |
N7 |
360.0 |
360.0 |
| N9 |
C8 |
N7 |
C5 |
359.9 |
360.0 |
| C4 |
C5 |
N7 |
C6 |
180.2 |
180.0 |
| N7 |
C5 |
C6 |
S6 |
360.0 |
360.0 |
| C5 |
N7 |
C8 |
H8 |
179.9 |
180.0 |
| N7 |
C8 |
N9 |
HN9 |
180.0 |
180.2 |
| N9 |
C8 |
N7 |
H8 |
180.0 |
180.0 |
| C4 |
N9 |
HN9 |
C8 |
180.0 |
180.2 |
| HN9 |
N9 |
C4 |
N3 |
359.8 |
359.8 |
| HN9 |
N9 |
C4 |
C5 |
180.1 |
179.8 |
| HN9 |
N9 |
C8 |
N7 |
180.0 |
180.2 |
| HN9 |
N9 |
C8 |
H8 |
0.0 |
0.2 |
| N3 |
C2 |
H2 |
N1 |
180.0 |
180.1 |
| H2 |
C2 |
N1 |
C6 |
179.6 |
180.0 |
| N9 |
C8 |
H8 |
N7 |
180.0 |
180.0 |
| H8 |
C8 |
N9 |
HN9 |
0.0 |
0.2 |