PDB Chemical Component 57D
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 57D
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C2 |
C3 |
1.400 |
1.359 |
| C2 |
O1 |
1.365 |
1.342 |
| C2 |
C1' |
1.395 |
1.477 |
| C3 |
C4 |
1.397 |
1.417 |
| C4 |
C5 |
1.401 |
1.472 |
| C4 |
O4 |
1.234 |
1.221 |
| C5 |
C6 |
1.399 |
1.400 |
| C5 |
C10 |
1.398 |
1.406 |
| C6 |
C7 |
1.394 |
1.383 |
| C6 |
O5 |
1.363 |
1.357 |
| C7 |
C8 |
1.391 |
1.390 |
| C8 |
C9 |
1.385 |
1.387 |
| C8 |
O7 |
1.358 |
1.358 |
| C9 |
C10 |
1.395 |
1.386 |
| C10 |
O1 |
1.357 |
1.350 |
| C2' |
C3' |
1.393 |
1.379 |
| C2' |
C1' |
1.401 |
1.396 |
| C3' |
C4' |
1.393 |
1.384 |
| C4' |
C5' |
1.396 |
1.383 |
| C5' |
C6' |
1.394 |
1.380 |
| C6' |
C1' |
1.398 |
1.396 |
| C3 |
H3 |
1.080 |
1.079 |
| C7 |
H7 |
1.080 |
1.080 |
| C9 |
H9 |
1.080 |
1.080 |
| O5 |
HO5 |
0.950 |
0.967 |
| O7 |
HO7 |
0.950 |
0.967 |
| C2' |
H2' |
1.080 |
1.080 |
| C3' |
H3' |
1.080 |
1.080 |
| C4' |
H4' |
1.080 |
1.080 |
| C5' |
H5' |
1.080 |
1.080 |
| C6' |
H6' |
1.080 |
1.080 |
Bond Angles for 57D
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C3 |
C2 |
O1 |
121.1 |
122.6 |
| C3 |
C2 |
C1' |
123.1 |
118.7 |
| C2 |
C3 |
C4 |
119.7 |
119.5 |
| C2 |
C3 |
H3 |
120.1 |
120.3 |
| O1 |
C2 |
C1' |
115.8 |
118.7 |
| C2 |
O1 |
C10 |
119.1 |
122.3 |
| C2 |
C1' |
C2' |
119.2 |
120.1 |
| C2 |
C1' |
C6' |
121.1 |
120.1 |
| C3 |
C4 |
C5 |
118.9 |
117.4 |
| C3 |
C4 |
O4 |
120.1 |
121.3 |
| C4 |
C3 |
H3 |
120.1 |
120.3 |
| C5 |
C4 |
O4 |
121.0 |
121.3 |
| C4 |
C5 |
C6 |
122.2 |
121.3 |
| C4 |
C5 |
C10 |
118.8 |
118.5 |
| C6 |
C5 |
C10 |
119.0 |
120.2 |
| C5 |
C6 |
C7 |
120.1 |
119.5 |
| C5 |
C6 |
O5 |
121.8 |
120.3 |
| C5 |
C10 |
C9 |
120.8 |
119.5 |
| C5 |
C10 |
O1 |
122.3 |
119.8 |
| C7 |
C6 |
O5 |
118.1 |
120.3 |
| C6 |
C7 |
C8 |
120.3 |
120.2 |
| C6 |
C7 |
H7 |
119.8 |
119.9 |
| C6 |
O5 |
HO5 |
109.5 |
113.9 |
| C7 |
C8 |
C9 |
120.1 |
120.7 |
| C7 |
C8 |
O7 |
120.2 |
119.7 |
| C8 |
C7 |
H7 |
119.9 |
119.9 |
| C9 |
C8 |
O7 |
119.7 |
119.6 |
| C8 |
C9 |
C10 |
119.7 |
120.0 |
| C8 |
C9 |
H9 |
120.1 |
120.0 |
| C8 |
O7 |
HO7 |
109.5 |
114.0 |
| C9 |
C10 |
O1 |
116.9 |
120.8 |
| C10 |
C9 |
H9 |
120.1 |
120.0 |
| C3' |
C2' |
C1' |
120.3 |
119.9 |
| C2' |
C3' |
C4' |
119.9 |
120.1 |
| C3' |
C2' |
H2' |
119.8 |
120.1 |
| C2' |
C3' |
H3' |
120.0 |
119.9 |
| C2' |
C1' |
C6' |
119.6 |
119.7 |
| C1' |
C2' |
H2' |
119.9 |
120.1 |
| C3' |
C4' |
C5' |
120.1 |
120.3 |
| C4' |
C3' |
H3' |
120.1 |
119.9 |
| C3' |
C4' |
H4' |
120.0 |
119.8 |
| C4' |
C5' |
C6' |
120.1 |
120.2 |
| C5' |
C4' |
H4' |
120.0 |
119.9 |
| C4' |
C5' |
H5' |
119.9 |
119.9 |
| C5' |
C6' |
C1' |
120.0 |
119.8 |
| C6' |
C5' |
H5' |
119.9 |
119.9 |
| C5' |
C6' |
H6' |
120.0 |
120.1 |
| C1' |
C6' |
H6' |
120.0 |
120.1 |
Torsion Angles for 57D
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O1 |
C2 |
C3 |
C1' |
180.2 |
180.2 |
| C3 |
C2 |
O1 |
C10 |
2.3 |
0.0 |
| C3 |
C2 |
C1' |
C2' |
153.5 |
180.0 |
| C3 |
C2 |
C1' |
C6' |
330.9 |
359.9 |
| C2 |
C3 |
C4 |
C5 |
359.3 |
360.0 |
| C2 |
C3 |
C4 |
O4 |
179.7 |
180.0 |
| C4 |
C3 |
C2 |
H3 |
180.0 |
180.0 |
| C3 |
C2 |
O1 |
C1' |
179.9 |
179.8 |
| O1 |
C2 |
C3 |
C4 |
359.1 |
360.0 |
| O1 |
C2 |
C3 |
H3 |
179.1 |
180.0 |
| O1 |
C2 |
C1' |
C2' |
333.4 |
359.8 |
| O1 |
C2 |
C1' |
C6' |
150.7 |
179.7 |
| C5 |
C10 |
O1 |
C2 |
357.8 |
360.0 |
| C9 |
C10 |
O1 |
C2 |
177.6 |
179.9 |
| C3 |
C2 |
C1' |
O1 |
180.1 |
180.2 |
| C1' |
C2 |
C3 |
C4 |
179.0 |
179.8 |
| C1' |
C2 |
C3 |
H3 |
359.0 |
359.8 |
| C1' |
C2 |
O1 |
C10 |
182.4 |
180.2 |
| C3' |
C2' |
C1' |
C2 |
178.8 |
179.9 |
| C2' |
C1' |
C2 |
C6' |
182.6 |
180.1 |
| C2 |
C1' |
C2' |
H2' |
358.8 |
0.2 |
| C5' |
C6' |
C1' |
C2 |
181.1 |
180.0 |
| C2 |
C1' |
C6' |
H6' |
1.0 |
0.2 |
| C4 |
C3 |
C2 |
O1 |
359.1 |
360.0 |
| C4 |
C3 |
C2 |
C1' |
179.0 |
179.8 |
| C2 |
C3 |
C4 |
H3 |
180.0 |
180.0 |
| C5 |
C4 |
C3 |
O4 |
179.6 |
180.0 |
| C3 |
C4 |
C5 |
C6 |
183.4 |
180.1 |
| C3 |
C4 |
C5 |
C10 |
0.9 |
0.0 |
| C3 |
C4 |
C5 |
O4 |
180.4 |
180.0 |
| C5 |
C4 |
C3 |
H3 |
179.3 |
180.0 |
| C6 |
C5 |
C4 |
C10 |
182.5 |
180.1 |
| C4 |
C5 |
C6 |
C7 |
179.3 |
180.0 |
| C4 |
C5 |
C6 |
O5 |
358.2 |
359.9 |
| C4 |
C5 |
C10 |
C9 |
180.8 |
180.0 |
| C4 |
C5 |
C10 |
O1 |
0.6 |
360.0 |
| C3 |
C4 |
O4 |
C5 |
179.6 |
180.0 |
| O4 |
C4 |
C3 |
H3 |
359.7 |
0.0 |
| O4 |
C4 |
C5 |
C6 |
2.9 |
0.1 |
| O4 |
C4 |
C5 |
C10 |
180.4 |
180.0 |
| C6 |
C5 |
C4 |
O4 |
2.9 |
0.1 |
| C4 |
C5 |
C6 |
C10 |
177.5 |
179.9 |
| C6 |
C5 |
C10 |
C9 |
358.4 |
360.0 |
| C6 |
C5 |
C10 |
O1 |
178.1 |
179.9 |
| C7 |
C6 |
C5 |
O5 |
181.0 |
180.1 |
| C5 |
C6 |
C7 |
C8 |
359.0 |
360.0 |
| C5 |
C6 |
C7 |
H7 |
179.0 |
179.9 |
| C5 |
C6 |
O5 |
HO5 |
126.4 |
90.0 |
| C2 |
O1 |
C10 |
C5 |
357.8 |
360.0 |
| C10 |
C5 |
C4 |
O4 |
180.4 |
180.0 |
| C4 |
C5 |
C10 |
C6 |
182.4 |
180.1 |
| C10 |
C5 |
C6 |
C7 |
1.8 |
0.0 |
| C10 |
C5 |
C6 |
O5 |
180.8 |
180.0 |
| C8 |
C9 |
C10 |
C5 |
0.6 |
0.0 |
| C9 |
C10 |
C5 |
O1 |
180.2 |
180.0 |
| C5 |
C10 |
C9 |
H9 |
180.6 |
180.1 |
| C7 |
C6 |
C5 |
C10 |
1.8 |
0.0 |
| C5 |
C6 |
C7 |
O5 |
179.0 |
179.9 |
| C7 |
C6 |
O5 |
HO5 |
305.4 |
269.9 |
| C6 |
C7 |
C8 |
C9 |
360.0 |
0.0 |
| C6 |
C7 |
C8 |
O7 |
180.1 |
180.0 |
| C8 |
C7 |
C6 |
H7 |
180.0 |
180.0 |
| O5 |
C6 |
C5 |
C10 |
180.8 |
180.0 |
| C5 |
C6 |
O5 |
C7 |
181.0 |
180.1 |
| O5 |
C6 |
C7 |
C8 |
180.0 |
180.0 |
| O5 |
C6 |
C7 |
H7 |
0.0 |
0.0 |
| C8 |
C7 |
C6 |
O5 |
180.0 |
180.0 |
| C6 |
C7 |
C8 |
H7 |
180.0 |
180.0 |
| C9 |
C8 |
C7 |
O7 |
179.8 |
180.0 |
| C7 |
C8 |
C9 |
C10 |
0.2 |
360.0 |
| C7 |
C8 |
C9 |
H9 |
180.2 |
179.9 |
| C7 |
C8 |
O7 |
HO7 |
27.8 |
90.0 |
| C5 |
C10 |
C9 |
C8 |
0.6 |
0.0 |
| C7 |
C8 |
C9 |
O7 |
180.2 |
180.0 |
| C9 |
C8 |
C7 |
H7 |
179.9 |
180.1 |
| C9 |
C8 |
O7 |
HO7 |
207.9 |
269.9 |
| C8 |
C9 |
C10 |
O1 |
180.9 |
180.1 |
| C10 |
C9 |
C8 |
H9 |
180.0 |
180.0 |
| C7 |
C8 |
O7 |
C9 |
179.8 |
180.0 |
| O7 |
C8 |
C7 |
H7 |
0.1 |
0.0 |
| O7 |
C8 |
C9 |
C10 |
180.1 |
180.0 |
| O7 |
C8 |
C9 |
H9 |
0.1 |
360.0 |
| C2 |
O1 |
C10 |
C9 |
177.6 |
179.9 |
| C5 |
C10 |
C9 |
O1 |
179.8 |
180.0 |
| C10 |
C9 |
C8 |
O7 |
180.1 |
180.0 |
| C8 |
C9 |
C10 |
H9 |
180.0 |
180.0 |
| C10 |
O1 |
C2 |
C1' |
182.4 |
180.2 |
| C5 |
C10 |
O1 |
C9 |
180.2 |
180.0 |
| O1 |
C10 |
C9 |
H9 |
0.8 |
0.1 |
| C2 |
C1' |
C2' |
C3' |
178.8 |
179.9 |
| C3' |
C2' |
C1' |
C6' |
1.4 |
0.0 |
| C1' |
C2' |
C3' |
H2' |
180.0 |
180.3 |
| C2' |
C3' |
C4' |
C5' |
0.0 |
0.0 |
| C4' |
C3' |
C2' |
H3' |
180.0 |
180.0 |
| C2' |
C3' |
C4' |
H4' |
180.0 |
180.0 |
| C2 |
C1' |
C2' |
C6' |
177.4 |
179.9 |
| C1' |
C2' |
C3' |
C4' |
359.4 |
0.0 |
| C3' |
C2' |
C1' |
H2' |
180.0 |
179.7 |
| C1' |
C2' |
C3' |
H3' |
179.4 |
180.0 |
| C5' |
C6' |
C1' |
C2' |
358.4 |
359.9 |
| C2' |
C1' |
C6' |
H6' |
178.4 |
180.1 |
| C4' |
C3' |
C2' |
C1' |
359.4 |
0.0 |
| C4' |
C3' |
C2' |
H2' |
179.4 |
179.7 |
| C2' |
C3' |
C4' |
H3' |
180.0 |
180.0 |
| C3' |
C4' |
C5' |
C6' |
359.7 |
360.0 |
| C5' |
C4' |
C3' |
H4' |
180.0 |
180.0 |
| C3' |
C4' |
C5' |
H5' |
179.7 |
179.9 |
| C5' |
C4' |
C3' |
H3' |
180.0 |
180.0 |
| C3' |
C4' |
C5' |
H4' |
180.0 |
180.0 |
| C4' |
C5' |
C6' |
C1' |
1.0 |
0.1 |
| C6' |
C5' |
C4' |
H5' |
180.0 |
180.0 |
| C4' |
C5' |
C6' |
H6' |
181.1 |
180.0 |
| C2 |
C1' |
C6' |
C5' |
181.1 |
180.0 |
| C2' |
C1' |
C6' |
C5' |
358.4 |
359.9 |
| C6' |
C5' |
C4' |
H4' |
179.8 |
180.0 |
| C4' |
C5' |
C6' |
H5' |
180.0 |
180.0 |
| C1' |
C6' |
C5' |
H6' |
180.0 |
180.1 |
| C2 |
C1' |
C6' |
C2' |
182.6 |
180.1 |
| C6' |
C1' |
C2' |
H2' |
181.4 |
180.4 |
| C1' |
C6' |
C5' |
H5' |
181.1 |
180.1 |
| C5' |
C6' |
C1' |
H6' |
180.0 |
179.9 |
| H3 |
C3 |
C2 |
O1 |
179.1 |
180.0 |
| H3 |
C3 |
C2 |
C1' |
359.0 |
359.8 |
| C2 |
C3 |
H3 |
C4 |
180.0 |
180.0 |
| H3 |
C3 |
C4 |
C5 |
179.3 |
180.0 |
| H3 |
C3 |
C4 |
O4 |
359.7 |
0.0 |
| H7 |
C7 |
C6 |
O5 |
0.0 |
0.0 |
| C6 |
C7 |
H7 |
C8 |
180.0 |
180.0 |
| H7 |
C7 |
C8 |
C9 |
179.9 |
180.1 |
| H7 |
C7 |
C8 |
O7 |
0.1 |
0.0 |
| H9 |
C9 |
C8 |
O7 |
0.1 |
360.0 |
| C8 |
C9 |
H9 |
C10 |
180.0 |
180.0 |
| H9 |
C9 |
C10 |
O1 |
0.8 |
0.1 |
| C3' |
C2' |
H2' |
C1' |
180.0 |
180.3 |
| H2' |
C2' |
C3' |
C4' |
179.4 |
179.7 |
| H2' |
C2' |
C3' |
H3' |
359.4 |
359.7 |
| H2' |
C2' |
C1' |
C6' |
181.4 |
180.4 |
| H3' |
C3' |
C2' |
C1' |
179.4 |
180.0 |
| C2' |
C3' |
H3' |
C4' |
180.0 |
180.0 |
| H3' |
C3' |
C2' |
H2' |
359.4 |
359.7 |
| H3' |
C3' |
C4' |
C5' |
180.0 |
180.0 |
| H3' |
C3' |
C4' |
H4' |
360.0 |
360.0 |
| C3' |
C4' |
H4' |
C5' |
180.0 |
180.0 |
| H4' |
C4' |
C3' |
H3' |
360.0 |
360.0 |
| H4' |
C4' |
C5' |
C6' |
179.8 |
180.0 |
| H4' |
C4' |
C5' |
H5' |
359.7 |
360.0 |
| C4' |
C5' |
H5' |
C6' |
180.0 |
180.0 |
| H5' |
C5' |
C4' |
H4' |
359.7 |
360.0 |
| H5' |
C5' |
C6' |
C1' |
181.1 |
180.1 |
| H5' |
C5' |
C6' |
H6' |
1.1 |
360.0 |
| C5' |
C6' |
H6' |
C1' |
180.0 |
180.1 |
| H6' |
C6' |
C5' |
H5' |
1.1 |
360.0 |