PDB Chemical Component PD2
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 PD2
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
O42 |
C41 |
1.256 |
1.214 |
C41 |
O41 |
1.254 |
1.346 |
C41 |
C4 |
1.508 |
1.480 |
O41 |
H41 |
0.950 |
0.968 |
C4 |
C5 |
1.392 |
1.399 |
C4 |
C3 |
1.397 |
1.397 |
C5 |
C6 |
1.397 |
1.385 |
C5 |
H5 |
1.080 |
1.080 |
C6 |
N1 |
1.330 |
1.314 |
C6 |
H6 |
1.080 |
1.080 |
C3 |
C2 |
1.402 |
1.393 |
C3 |
H3 |
1.080 |
1.080 |
C2 |
N1 |
1.351 |
1.327 |
C2 |
C21 |
1.507 |
1.481 |
C21 |
O21 |
1.260 |
1.214 |
C21 |
O22 |
1.251 |
1.346 |
O22 |
H22 |
0.950 |
0.967 |
Bond Angles for PD2
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
O42 |
C41 |
O41 |
121.9 |
120.0 |
O42 |
C41 |
C4 |
120.0 |
120.0 |
O41 |
C41 |
C4 |
118.1 |
120.0 |
C41 |
O41 |
H41 |
109.5 |
120.0 |
C41 |
C4 |
C5 |
119.9 |
120.9 |
C41 |
C4 |
C3 |
121.5 |
120.9 |
C5 |
C4 |
C3 |
118.6 |
118.2 |
C4 |
C5 |
C6 |
120.1 |
119.2 |
C4 |
C5 |
H5 |
120.0 |
120.4 |
C4 |
C3 |
C2 |
119.0 |
118.9 |
C4 |
C3 |
H3 |
120.5 |
120.6 |
C6 |
C5 |
H5 |
119.9 |
120.5 |
C5 |
C6 |
N1 |
120.1 |
121.1 |
C5 |
C6 |
H6 |
120.0 |
119.5 |
N1 |
C6 |
H6 |
119.9 |
119.4 |
C6 |
N1 |
C2 |
121.8 |
122.0 |
C2 |
C3 |
H3 |
120.5 |
120.5 |
C3 |
C2 |
N1 |
120.4 |
120.7 |
C3 |
C2 |
C21 |
121.2 |
119.6 |
N1 |
C2 |
C21 |
118.4 |
119.7 |
C2 |
C21 |
O21 |
119.3 |
120.0 |
C2 |
C21 |
O22 |
117.8 |
120.0 |
O21 |
C21 |
O22 |
122.8 |
120.0 |
C21 |
O22 |
H22 |
109.5 |
120.0 |
Torsion Angles for PD2
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
O41 |
C41 |
O42 |
C4 |
178.9 |
180.0 |
O42 |
C41 |
O41 |
H41 |
0.0 |
-0.0 |
O42 |
C41 |
C4 |
C5 |
202.2 |
180.0 |
O42 |
C41 |
C4 |
C3 |
23.3 |
359.8 |
O42 |
C41 |
O41 |
C4 |
181.1 |
180.0 |
O41 |
C41 |
C4 |
C5 |
23.3 |
360.0 |
O41 |
C41 |
C4 |
C3 |
204.3 |
179.7 |
O42 |
C41 |
C4 |
O41 |
178.9 |
180.0 |
C4 |
C41 |
O41 |
H41 |
178.9 |
180.0 |
C5 |
C4 |
C41 |
C3 |
179.0 |
180.2 |
C41 |
C4 |
C5 |
C6 |
181.0 |
180.0 |
C41 |
C4 |
C5 |
H5 |
1.0 |
0.0 |
C41 |
C4 |
C3 |
C2 |
180.0 |
179.7 |
C41 |
C4 |
C3 |
H3 |
360.0 |
0.2 |
H41 |
O41 |
C41 |
C4 |
178.9 |
180.0 |
C41 |
C4 |
C5 |
C3 |
181.0 |
179.8 |
C5 |
C4 |
C3 |
C2 |
1.0 |
359.5 |
C5 |
C4 |
C3 |
H3 |
181.0 |
180.0 |
C6 |
C5 |
C4 |
H5 |
180.0 |
180.0 |
C4 |
C5 |
C6 |
N1 |
359.5 |
-0.0 |
C4 |
C5 |
C6 |
H6 |
179.5 |
180.0 |
C41 |
C4 |
C3 |
C5 |
179.0 |
180.2 |
C3 |
C4 |
C5 |
C6 |
360.0 |
0.3 |
C3 |
C4 |
C5 |
H5 |
180.0 |
180.3 |
C2 |
C3 |
C4 |
H3 |
180.0 |
179.4 |
C4 |
C3 |
C2 |
N1 |
358.5 |
0.6 |
C4 |
C3 |
C2 |
C21 |
180.1 |
180.3 |
C6 |
C5 |
C4 |
C3 |
360.0 |
0.3 |
C4 |
C5 |
C6 |
H5 |
180.0 |
180.0 |
N1 |
C6 |
C5 |
H6 |
180.0 |
180.0 |
C5 |
C6 |
N1 |
C2 |
0.0 |
360.0 |
H5 |
C5 |
C4 |
C3 |
180.0 |
180.3 |
C4 |
C5 |
H5 |
C6 |
180.0 |
180.0 |
H5 |
C5 |
C6 |
N1 |
179.5 |
180.0 |
H5 |
C5 |
C6 |
H6 |
359.5 |
360.0 |
N1 |
C6 |
C5 |
H5 |
179.5 |
180.0 |
C5 |
C6 |
N1 |
H6 |
180.0 |
180.0 |
C3 |
C2 |
N1 |
C6 |
1.0 |
359.7 |
C6 |
N1 |
C2 |
C21 |
179.5 |
180.0 |
H6 |
C6 |
C5 |
H5 |
359.5 |
-0.0 |
C5 |
C6 |
H6 |
N1 |
180.0 |
180.0 |
H6 |
C6 |
N1 |
C2 |
180.0 |
180.0 |
C4 |
C3 |
C2 |
H3 |
180.0 |
180.6 |
C6 |
N1 |
C2 |
C3 |
1.0 |
359.7 |
N1 |
C2 |
C3 |
C21 |
178.4 |
180.2 |
C3 |
C2 |
C21 |
O21 |
1.7 |
0.2 |
C3 |
C2 |
C21 |
O22 |
181.5 |
180.3 |
C4 |
C3 |
H3 |
C2 |
180.0 |
179.4 |
H3 |
C3 |
C2 |
N1 |
178.5 |
180.0 |
H3 |
C3 |
C2 |
C21 |
0.1 |
359.8 |
C2 |
N1 |
C6 |
H6 |
180.0 |
180.0 |
N1 |
C2 |
C3 |
H3 |
178.5 |
180.0 |
C3 |
C2 |
N1 |
C21 |
181.5 |
179.8 |
N1 |
C2 |
C21 |
O21 |
183.2 |
180.0 |
N1 |
C2 |
C21 |
O22 |
3.1 |
0.0 |
C21 |
C2 |
C3 |
H3 |
0.1 |
359.8 |
C3 |
C2 |
C21 |
N1 |
178.5 |
180.2 |
O21 |
C21 |
C2 |
O22 |
180.1 |
180.0 |
C2 |
C21 |
O22 |
H22 |
180.2 |
180.0 |
C2 |
C21 |
O21 |
O22 |
179.9 |
180.0 |
O21 |
C21 |
O22 |
H22 |
0.0 |
360.0 |
C2 |
C21 |
O22 |
O21 |
180.1 |
180.0 |