PDB Chemical Component PPY
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 PPY
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C1 |
O1 |
1.255 |
1.213 |
| C1 |
O2 |
1.254 |
1.345 |
| C1 |
C2 |
1.430 |
1.491 |
| O2 |
HO2 |
0.949 |
0.966 |
| C2 |
O3 |
1.256 |
1.208 |
| C2 |
C3 |
1.546 |
1.506 |
| C3 |
C1' |
1.516 |
1.506 |
| C3 |
H31 |
1.114 |
1.090 |
| C3 |
H32 |
1.114 |
1.089 |
| C1' |
C2' |
1.389 |
1.383 |
| C1' |
C6' |
1.381 |
1.381 |
| C2' |
C3' |
1.381 |
1.382 |
| C2' |
H2' |
1.102 |
1.080 |
| C3' |
C4' |
1.373 |
1.381 |
| C3' |
H3' |
1.103 |
1.080 |
| C4' |
C5' |
1.384 |
1.382 |
| C4' |
H4' |
1.104 |
1.080 |
| C5' |
C6' |
1.373 |
1.382 |
| C5' |
H5' |
1.103 |
1.080 |
| C6' |
H6' |
1.103 |
1.081 |
Bond Angles for PPY
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O1 |
C1 |
O2 |
118.1 |
120.0 |
| O1 |
C1 |
C2 |
121.5 |
120.0 |
| O2 |
C1 |
C2 |
118.9 |
120.0 |
| C1 |
O2 |
HO2 |
118.1 |
120.0 |
| C1 |
C2 |
O3 |
117.8 |
120.0 |
| C1 |
C2 |
C3 |
120.4 |
120.0 |
| O3 |
C2 |
C3 |
117.5 |
120.0 |
| C2 |
C3 |
C1' |
106.0 |
109.4 |
| C2 |
C3 |
H31 |
113.5 |
109.4 |
| C2 |
C3 |
H32 |
113.5 |
109.5 |
| C1' |
C3 |
H31 |
113.5 |
109.5 |
| C1' |
C3 |
H32 |
113.5 |
109.5 |
| C3 |
C1' |
C2' |
119.5 |
120.0 |
| C3 |
C1' |
C6' |
119.9 |
120.0 |
| H31 |
C3 |
H32 |
97.0 |
109.5 |
| C2' |
C1' |
C6' |
120.6 |
119.9 |
| C1' |
C2' |
C3' |
120.1 |
120.0 |
| C1' |
C2' |
H2' |
120.3 |
120.0 |
| C1' |
C6' |
C5' |
118.7 |
120.1 |
| C1' |
C6' |
H6' |
121.0 |
119.9 |
| C3' |
C2' |
H2' |
119.6 |
120.0 |
| C2' |
C3' |
C4' |
119.3 |
120.0 |
| C2' |
C3' |
H3' |
120.7 |
120.0 |
| C4' |
C3' |
H3' |
120.1 |
120.0 |
| C3' |
C4' |
C5' |
120.3 |
120.0 |
| C3' |
C4' |
H4' |
119.5 |
120.0 |
| C5' |
C4' |
H4' |
120.2 |
120.0 |
| C4' |
C5' |
C6' |
121.0 |
120.0 |
| C4' |
C5' |
H5' |
119.9 |
120.0 |
| C6' |
C5' |
H5' |
119.1 |
120.0 |
| C5' |
C6' |
H6' |
120.3 |
120.0 |
Torsion Angles for PPY
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O2 |
C1 |
O1 |
C2 |
166.1 |
180.1 |
| O1 |
C1 |
O2 |
HO2 |
180.0 |
360.0 |
| O1 |
C1 |
C2 |
O3 |
3.1 |
179.9 |
| O1 |
C1 |
C2 |
C3 |
206.9 |
0.1 |
| O1 |
C1 |
O2 |
C2 |
193.5 |
179.9 |
| O2 |
C1 |
C2 |
O3 |
197.1 |
359.9 |
| O2 |
C1 |
C2 |
C3 |
40.9 |
180.0 |
| O1 |
C1 |
C2 |
O2 |
166.0 |
180.1 |
| C2 |
C1 |
O2 |
HO2 |
346.5 |
180.0 |
| O3 |
C2 |
C1 |
C3 |
156.2 |
179.9 |
| C1 |
C2 |
C3 |
C1' |
196.6 |
179.9 |
| C1 |
C2 |
C3 |
H31 |
321.8 |
299.9 |
| C1 |
C2 |
C3 |
H32 |
71.4 |
59.9 |
| HO2 |
O2 |
C1 |
C2 |
346.5 |
180.0 |
| C1 |
C2 |
O3 |
C3 |
203.1 |
180.1 |
| O3 |
C2 |
C3 |
C1' |
40.3 |
0.1 |
| O3 |
C2 |
C3 |
H31 |
165.6 |
120.0 |
| O3 |
C2 |
C3 |
H32 |
275.1 |
240.0 |
| C1 |
C2 |
C3 |
O3 |
156.3 |
179.9 |
| C1' |
C3 |
C2 |
H31 |
234.7 |
240.0 |
| C1' |
C3 |
C2 |
H32 |
125.2 |
120.0 |
| C2 |
C3 |
C1' |
C2' |
90.8 |
90.0 |
| C2 |
C3 |
C1' |
C6' |
274.1 |
269.6 |
| H31 |
C3 |
C2 |
H32 |
250.5 |
240.0 |
| C2 |
C3 |
C1' |
H31 |
125.2 |
120.0 |
| C2 |
C3 |
C1' |
H32 |
234.8 |
239.9 |
| H31 |
C3 |
C1' |
H32 |
109.5 |
120.0 |
| C2' |
C1' |
C3 |
C6' |
176.7 |
180.3 |
| C3 |
C1' |
C2' |
C3' |
183.8 |
179.9 |
| C3 |
C1' |
C2' |
H2' |
3.8 |
359.9 |
| C3 |
C1' |
C6' |
C5' |
176.2 |
179.8 |
| C3 |
C1' |
C6' |
H6' |
356.3 |
0.3 |
| C2 |
C3 |
H31 |
C1' |
238.9 |
240.0 |
| C2 |
C3 |
H31 |
H32 |
119.5 |
120.0 |
| C1' |
C3 |
H31 |
H32 |
240.6 |
240.0 |
| H31 |
C3 |
C1' |
C2' |
325.5 |
330.0 |
| H31 |
C3 |
C1' |
C6' |
148.8 |
149.7 |
| C2 |
C3 |
H32 |
C1' |
121.1 |
120.0 |
| C2 |
C3 |
H32 |
H31 |
240.5 |
240.0 |
| C1' |
C3 |
H32 |
H31 |
119.4 |
120.0 |
| H32 |
C3 |
C1' |
C2' |
216.0 |
210.0 |
| H32 |
C3 |
C1' |
C6' |
39.3 |
29.7 |
| C2' |
C1' |
C3 |
H31 |
325.5 |
330.0 |
| C2' |
C1' |
C3 |
H32 |
216.0 |
210.0 |
| C3 |
C1' |
C2' |
C6' |
183.3 |
179.7 |
| C2' |
C1' |
C6' |
C5' |
359.5 |
359.5 |
| C2' |
C1' |
C6' |
H6' |
179.6 |
180.0 |
| C3' |
C2' |
C1' |
H2' |
180.0 |
180.0 |
| C1' |
C2' |
C3' |
C4' |
359.8 |
0.0 |
| C1' |
C2' |
C3' |
H3' |
179.7 |
179.9 |
| C6' |
C1' |
C3 |
H31 |
148.8 |
149.7 |
| C6' |
C1' |
C3 |
H32 |
39.3 |
29.7 |
| C3 |
C1' |
C6' |
C2' |
176.7 |
180.3 |
| C6' |
C1' |
C2' |
C3' |
0.5 |
0.3 |
| C6' |
C1' |
C2' |
H2' |
180.5 |
180.3 |
| C4' |
C5' |
C6' |
C1' |
0.2 |
0.5 |
| C1' |
C6' |
C5' |
H5' |
180.2 |
180.3 |
| C5' |
C6' |
C1' |
H6' |
179.9 |
179.5 |
| C3' |
C2' |
C1' |
C6' |
0.5 |
0.3 |
| C1' |
C2' |
C3' |
H2' |
180.0 |
180.0 |
| C4' |
C3' |
C2' |
H3' |
180.0 |
180.1 |
| C2' |
C3' |
C4' |
C5' |
360.0 |
359.9 |
| C2' |
C3' |
C4' |
H4' |
179.9 |
179.9 |
| H2' |
C2' |
C1' |
C6' |
180.5 |
180.3 |
| C1' |
C2' |
H2' |
C3' |
180.0 |
180.0 |
| H2' |
C2' |
C3' |
C4' |
179.8 |
180.0 |
| H2' |
C2' |
C3' |
H3' |
359.8 |
359.9 |
| C4' |
C3' |
C2' |
H2' |
179.8 |
180.0 |
| C2' |
C3' |
C4' |
H3' |
180.0 |
179.9 |
| C5' |
C4' |
C3' |
H4' |
180.0 |
180.0 |
| C3' |
C4' |
C5' |
C6' |
0.1 |
359.8 |
| C3' |
C4' |
C5' |
H5' |
180.1 |
180.0 |
| H3' |
C3' |
C2' |
H2' |
359.8 |
359.9 |
| C2' |
C3' |
H3' |
C4' |
180.0 |
180.1 |
| H3' |
C3' |
C4' |
C5' |
180.0 |
180.0 |
| H3' |
C3' |
C4' |
H4' |
360.0 |
0.0 |
| C1' |
C6' |
C5' |
C4' |
0.2 |
0.5 |
| C5' |
C4' |
C3' |
H3' |
180.0 |
180.0 |
| C3' |
C4' |
C5' |
H4' |
180.0 |
180.0 |
| C6' |
C5' |
C4' |
H5' |
180.0 |
179.8 |
| C4' |
C5' |
C6' |
H6' |
180.1 |
180.0 |
| H4' |
C4' |
C3' |
H3' |
360.0 |
0.0 |
| C3' |
C4' |
H4' |
C5' |
180.0 |
180.0 |
| H4' |
C4' |
C5' |
C6' |
180.1 |
179.8 |
| H4' |
C4' |
C5' |
H5' |
0.1 |
0.0 |
| C1' |
C6' |
C5' |
H6' |
180.1 |
180.5 |
| C6' |
C5' |
C4' |
H4' |
180.1 |
179.8 |
| C4' |
C5' |
C6' |
H5' |
180.0 |
180.2 |
| H5' |
C5' |
C4' |
H4' |
0.1 |
0.0 |
| C4' |
C5' |
H5' |
C6' |
180.0 |
179.8 |
| H5' |
C5' |
C6' |
H6' |
0.1 |
359.8 |
| C1' |
C6' |
H6' |
C5' |
179.9 |
179.5 |
| H6' |
C6' |
C5' |
H5' |
0.1 |
359.8 |