PDB Chemical Component PXY
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 PXY
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C1 |
C2 |
1.318 |
1.382 |
| C1 |
C6 |
1.364 |
1.382 |
| C1 |
C1' |
1.520 |
1.507 |
| C2 |
C3 |
1.378 |
1.382 |
| C2 |
H2 |
1.103 |
1.080 |
| C3 |
C4 |
1.363 |
1.382 |
| C3 |
H3 |
1.104 |
1.080 |
| C4 |
C5 |
1.353 |
1.382 |
| C4 |
C4' |
1.532 |
1.507 |
| C5 |
C6 |
1.387 |
1.382 |
| C5 |
H5 |
1.102 |
1.080 |
| C6 |
H6 |
1.102 |
1.080 |
| C1' |
H1'1 |
1.114 |
1.090 |
| C1' |
H1'2 |
1.115 |
1.089 |
| C1' |
H1'3 |
1.114 |
1.089 |
| C4' |
H4'1 |
1.114 |
1.088 |
| C4' |
H4'2 |
1.115 |
1.090 |
| C4' |
H4'3 |
1.115 |
1.090 |
Bond Angles for PXY
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
C1 |
C6 |
120.2 |
120.0 |
| C2 |
C1 |
C1' |
119.5 |
120.0 |
| C1 |
C2 |
C3 |
120.6 |
120.0 |
| C1 |
C2 |
H2 |
117.5 |
120.0 |
| C6 |
C1 |
C1' |
120.3 |
120.0 |
| C1 |
C6 |
C5 |
120.1 |
120.0 |
| C1 |
C6 |
H6 |
119.1 |
120.0 |
| C1 |
C1' |
H1'1 |
119.6 |
109.4 |
| C1 |
C1' |
H1'2 |
108.6 |
109.5 |
| C1 |
C1' |
H1'3 |
108.6 |
109.5 |
| C3 |
C2 |
H2 |
121.9 |
120.0 |
| C2 |
C3 |
C4 |
120.1 |
120.0 |
| C2 |
C3 |
H3 |
120.4 |
120.0 |
| C4 |
C3 |
H3 |
119.4 |
120.0 |
| C3 |
C4 |
C5 |
119.6 |
120.0 |
| C3 |
C4 |
C4' |
119.8 |
120.0 |
| C5 |
C4 |
C4' |
120.7 |
120.0 |
| C4 |
C5 |
C6 |
119.4 |
120.0 |
| C4 |
C5 |
H5 |
119.1 |
120.0 |
| C4 |
C4' |
H4'1 |
119.8 |
109.5 |
| C4 |
C4' |
H4'2 |
108.5 |
109.5 |
| C4 |
C4' |
H4'3 |
108.5 |
109.5 |
| C6 |
C5 |
H5 |
121.5 |
120.0 |
| C5 |
C6 |
H6 |
120.8 |
120.0 |
| H1'1 |
C1' |
H1'2 |
108.6 |
109.5 |
| H1'1 |
C1' |
H1'3 |
108.6 |
109.5 |
| H1'2 |
C1' |
H1'3 |
101.4 |
109.5 |
| H4'1 |
C4' |
H4'2 |
108.5 |
109.5 |
| H4'1 |
C4' |
H4'3 |
108.5 |
109.5 |
| H4'2 |
C4' |
H4'3 |
101.4 |
109.4 |
Torsion Angles for PXY
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C6 |
C1 |
C2 |
C1' |
178.9 |
180.2 |
| C2 |
C1 |
C6 |
C5 |
1.1 |
359.7 |
| C2 |
C1 |
C6 |
H6 |
181.1 |
180.0 |
| C2 |
C1 |
C1' |
H1'1 |
180.0 |
90.0 |
| C2 |
C1 |
C1' |
H1'2 |
305.3 |
210.0 |
| C2 |
C1 |
C1' |
H1'3 |
54.7 |
330.0 |
| C3 |
C2 |
C1 |
H2 |
180.0 |
180.0 |
| C1 |
C2 |
C3 |
C4 |
358.1 |
360.0 |
| C1 |
C2 |
C3 |
H3 |
178.2 |
180.0 |
| C2 |
C1 |
C6 |
C1' |
181.1 |
179.8 |
| C6 |
C1 |
C2 |
C3 |
0.5 |
0.2 |
| C6 |
C1 |
C2 |
H2 |
180.5 |
180.2 |
| C6 |
C1 |
C1' |
H1'1 |
1.1 |
269.8 |
| C6 |
C1 |
C1' |
H1'2 |
126.4 |
29.8 |
| C6 |
C1 |
C1' |
H1'3 |
235.8 |
149.8 |
| C4 |
C5 |
C6 |
C1 |
358.7 |
0.2 |
| C1 |
C6 |
C5 |
H5 |
178.7 |
180.2 |
| C5 |
C6 |
C1 |
H6 |
180.0 |
179.8 |
| C2 |
C1 |
C1' |
C6 |
178.9 |
180.2 |
| C1' |
C1 |
C2 |
C3 |
181.6 |
180.0 |
| C1' |
C1 |
C2 |
H2 |
1.6 |
0.0 |
| C1' |
C1 |
C6 |
C5 |
180.0 |
179.9 |
| C1' |
C1 |
C6 |
H6 |
360.0 |
0.1 |
| H1'1 |
C1' |
C1 |
H1'2 |
234.7 |
240.0 |
| H1'1 |
C1' |
C1 |
H1'3 |
125.3 |
120.0 |
| H1'2 |
C1' |
C1 |
H1'3 |
250.6 |
239.9 |
| C3 |
C2 |
C1 |
C6 |
0.5 |
0.2 |
| C3 |
C2 |
C1 |
C1' |
181.6 |
180.0 |
| C1 |
C2 |
C3 |
H2 |
180.0 |
180.0 |
| C4 |
C3 |
C2 |
H3 |
179.9 |
179.9 |
| C2 |
C3 |
C4 |
C5 |
1.7 |
360.0 |
| C2 |
C3 |
C4 |
C4' |
181.1 |
180.0 |
| H2 |
C2 |
C1 |
C6 |
180.5 |
180.2 |
| H2 |
C2 |
C1 |
C1' |
1.6 |
0.0 |
| C1 |
C2 |
H2 |
C3 |
180.0 |
180.0 |
| H2 |
C2 |
C3 |
C4 |
178.1 |
179.9 |
| H2 |
C2 |
C3 |
H3 |
358.1 |
360.0 |
| C4 |
C3 |
C2 |
H2 |
178.1 |
179.9 |
| C2 |
C3 |
C4 |
H3 |
180.1 |
180.1 |
| C5 |
C4 |
C3 |
C4' |
180.6 |
180.0 |
| C3 |
C4 |
C5 |
C6 |
359.9 |
359.9 |
| C3 |
C4 |
C5 |
H5 |
179.9 |
179.9 |
| C3 |
C4 |
C4' |
H4'1 |
180.0 |
90.1 |
| C3 |
C4 |
C4' |
H4'2 |
305.3 |
210.1 |
| C3 |
C4 |
C4' |
H4'3 |
54.7 |
330.0 |
| H3 |
C3 |
C2 |
H2 |
358.1 |
360.0 |
| C2 |
C3 |
H3 |
C4 |
179.9 |
179.9 |
| H3 |
C3 |
C4 |
C5 |
181.6 |
179.9 |
| H3 |
C3 |
C4 |
C4' |
1.0 |
359.9 |
| C1 |
C6 |
C5 |
C4 |
358.7 |
0.2 |
| C5 |
C4 |
C3 |
H3 |
181.6 |
179.9 |
| C3 |
C4 |
C5 |
C4' |
179.4 |
180.0 |
| C5 |
C4 |
C4' |
H4'1 |
359.4 |
270.1 |
| C5 |
C4 |
C4' |
H4'2 |
124.7 |
30.1 |
| C5 |
C4 |
C4' |
H4'3 |
234.2 |
150.0 |
| C6 |
C5 |
C4 |
H5 |
180.0 |
180.0 |
| C4 |
C5 |
C6 |
H6 |
178.7 |
180.0 |
| C4' |
C4 |
C3 |
H3 |
1.0 |
359.9 |
| C3 |
C4 |
C4' |
C5 |
180.6 |
180.0 |
| C4' |
C4 |
C5 |
C6 |
180.5 |
179.9 |
| C4' |
C4 |
C5 |
H5 |
0.5 |
359.9 |
| H4'1 |
C4' |
C4 |
H4'2 |
234.7 |
240.0 |
| H4'1 |
C4' |
C4 |
H4'3 |
125.3 |
120.0 |
| H4'2 |
C4' |
C4 |
H4'3 |
250.6 |
240.0 |
| C5 |
C6 |
C1 |
C1' |
180.0 |
179.9 |
| C1 |
C6 |
C5 |
H6 |
180.0 |
180.2 |
| C6 |
C5 |
C4 |
C4' |
180.5 |
179.9 |
| C4 |
C5 |
C6 |
H5 |
180.0 |
180.0 |
| H5 |
C5 |
C4 |
C4' |
0.5 |
359.9 |
| C4 |
C5 |
H5 |
C6 |
180.0 |
180.0 |
| H5 |
C5 |
C6 |
H6 |
358.7 |
360.0 |
| H6 |
C6 |
C1 |
C1' |
360.0 |
0.1 |
| C1 |
C6 |
H6 |
C5 |
180.0 |
179.8 |
| H6 |
C6 |
C5 |
H5 |
358.7 |
360.0 |
| C1 |
C1' |
H1'1 |
H1'2 |
125.3 |
120.0 |
| C1 |
C1' |
H1'1 |
H1'3 |
234.7 |
240.0 |
| H1'2 |
C1' |
H1'1 |
H1'3 |
109.4 |
120.0 |
| C1 |
C1' |
H1'2 |
H1'1 |
228.5 |
240.0 |
| C1 |
C1' |
H1'2 |
H1'3 |
114.3 |
120.0 |
| H1'1 |
C1' |
H1'2 |
H1'3 |
245.8 |
240.0 |
| C1 |
C1' |
H1'3 |
H1'1 |
131.5 |
120.0 |
| C1 |
C1' |
H1'3 |
H1'2 |
245.8 |
240.0 |
| H1'1 |
C1' |
H1'3 |
H1'2 |
114.3 |
120.0 |
| C4 |
C4' |
H4'1 |
H4'2 |
125.3 |
120.0 |
| C4 |
C4' |
H4'1 |
H4'3 |
234.7 |
240.0 |
| H4'2 |
C4' |
H4'1 |
H4'3 |
109.4 |
120.0 |
| C4 |
C4' |
H4'2 |
H4'1 |
228.4 |
240.0 |
| C4 |
C4' |
H4'2 |
H4'3 |
114.2 |
120.0 |
| H4'1 |
C4' |
H4'2 |
H4'3 |
245.8 |
240.0 |
| C4 |
C4' |
H4'3 |
H4'1 |
131.6 |
120.0 |
| C4 |
C4' |
H4'3 |
H4'2 |
245.8 |
240.0 |
| H4'1 |
C4' |
H4'3 |
H4'2 |
114.2 |
120.0 |