PDB Chemical Component ZD2
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 ZD2
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| N6 |
C6 |
1.347 |
1.385 |
| N7 |
C8 |
1.355 |
1.301 |
| N7 |
C5 |
1.346 |
1.355 |
| C8 |
N9 |
1.343 |
1.364 |
| C6 |
C5 |
1.473 |
1.405 |
| C6 |
N1 |
1.343 |
1.329 |
| C5 |
C4 |
1.458 |
1.404 |
| N9 |
C4 |
1.327 |
1.372 |
| N9 |
C1' |
1.455 |
1.465 |
| N1 |
C2 |
1.349 |
1.320 |
| C4 |
N3 |
1.350 |
1.329 |
| C1' |
C2' |
1.522 |
1.530 |
| C2 |
N3 |
1.339 |
1.316 |
| C3' |
C2' |
1.527 |
1.530 |
| C3' |
C4' |
1.507 |
1.507 |
| C3' |
O3' |
1.432 |
1.429 |
| OXT |
C4' |
1.247 |
1.208 |
| C4' |
O |
1.242 |
1.342 |
| O |
H1 |
0.950 |
0.967 |
| C3' |
H2 |
1.100 |
1.090 |
| O3' |
H3 |
0.950 |
0.966 |
| C2' |
H4 |
1.100 |
1.089 |
| C2' |
H5 |
1.100 |
1.091 |
| C1' |
H6 |
1.100 |
1.090 |
| C1' |
H7 |
1.100 |
1.090 |
| C8 |
H8 |
1.080 |
1.079 |
| C2 |
H9 |
1.080 |
1.081 |
| N6 |
H10 |
1.000 |
0.970 |
| N6 |
H11 |
1.000 |
0.969 |
Bond Angles for ZD2
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| N7 |
C8 |
H8 |
124.8 |
125.1 |
| C5 |
C4 |
N3 |
119.4 |
119.1 |
| N9 |
C4 |
N3 |
134.5 |
134.9 |
| N9 |
C1' |
H6 |
109.2 |
109.4 |
| N9 |
C1' |
H7 |
109.1 |
109.5 |
| N1 |
C2 |
H9 |
118.5 |
118.7 |
| C1' |
C2' |
H4 |
109.1 |
109.5 |
| C1' |
C2' |
H5 |
109.1 |
109.4 |
| O3' |
C3' |
C2' |
108.8 |
109.4 |
| C2' |
C3' |
H2 |
108.4 |
109.5 |
| C3' |
C2' |
H4 |
109.1 |
109.5 |
| C3' |
C2' |
H5 |
109.1 |
109.5 |
| O3' |
C3' |
H2 |
109.7 |
109.5 |
| C3' |
O3' |
H3 |
109.5 |
114.0 |
| OXT |
C4' |
O |
121.2 |
120.0 |
| C4' |
O |
H1 |
109.5 |
117.0 |
| H4 |
C2' |
H5 |
109.5 |
109.5 |
| H6 |
C1' |
H7 |
109.5 |
109.5 |
| H10 |
N6 |
H11 |
109.5 |
120.1 |
Torsion Angles for ZD2
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| N7 |
C5 |
C4 |
N3 |
179.8 |
180.0 |
| C8 |
N9 |
C4 |
N3 |
180.4 |
180.2 |
| C8 |
N9 |
C1' |
H6 |
4.6 |
144.7 |
| C8 |
N9 |
C1' |
H7 |
124.2 |
24.7 |
| C6 |
N1 |
C2 |
H9 |
179.1 |
180.0 |
| N9 |
C4 |
C5 |
N3 |
180.4 |
179.9 |
| C5 |
C4 |
N9 |
N3 |
179.5 |
180.1 |
| C4 |
N9 |
C1' |
H6 |
184.7 |
325.0 |
| C4 |
N9 |
C1' |
H7 |
304.4 |
205.1 |
| N9 |
C1' |
C2' |
H4 |
224.5 |
60.0 |
| N9 |
C1' |
C2' |
H5 |
344.0 |
300.0 |
| H6 |
C1' |
N9 |
H7 |
240.4 |
120.0 |
| C1' |
C2' |
C3' |
H2 |
319.0 |
55.0 |
| C3' |
C2' |
C1' |
H4 |
239.7 |
120.1 |
| C3' |
C2' |
C1' |
H5 |
120.3 |
240.0 |
| H4 |
C2' |
C1' |
H5 |
240.5 |
120.0 |
| C1' |
C2' |
C3' |
H4 |
120.3 |
240.0 |
| C1' |
C2' |
C3' |
H5 |
239.7 |
119.9 |
| O3' |
C3' |
C2' |
H2 |
240.7 |
240.0 |
| C2' |
C3' |
O3' |
H3 |
180.0 |
300.1 |
| H4 |
C2' |
C3' |
H5 |
119.5 |
240.0 |
| C3' |
C4' |
O |
H1 |
179.4 |
180.3 |
| C2' |
C3' |
O3' |
H2 |
118.5 |
120.0 |
| O3' |
C3' |
C2' |
H4 |
79.5 |
55.0 |
| O3' |
C3' |
C2' |
H5 |
320.0 |
175.0 |
| OXT |
C4' |
O |
H1 |
0.0 |
0.0 |
| O3' |
C3' |
H2 |
C2' |
118.7 |
120.0 |
| H2 |
C3' |
C2' |
H4 |
198.8 |
175.0 |
| H2 |
C3' |
C2' |
H5 |
79.3 |
295.1 |
| H2 |
C3' |
O3' |
H3 |
61.5 |
180.0 |
| H3 |
O3' |
C3' |
C2' |
180.0 |
300.1 |
| H3 |
O3' |
C3' |
H2 |
61.5 |
180.0 |
| C1' |
C2' |
H4 |
H5 |
119.2 |
240.1 |
| H4 |
C2' |
C3' |
H2 |
198.8 |
175.0 |
| C3' |
C2' |
H4 |
H5 |
240.7 |
120.0 |
| C1' |
C2' |
H5 |
H4 |
240.8 |
120.0 |
| H5 |
C2' |
C3' |
H2 |
79.3 |
295.1 |
| C3' |
C2' |
H5 |
H4 |
119.3 |
239.9 |
| N9 |
C1' |
H6 |
H7 |
119.4 |
240.0 |
| H6 |
C1' |
C2' |
H4 |
104.3 |
179.9 |
| H6 |
C1' |
C2' |
H5 |
223.8 |
60.0 |
| N9 |
C1' |
H7 |
H6 |
240.6 |
119.9 |
| H7 |
C1' |
C2' |
H4 |
344.7 |
299.9 |
| H7 |
C1' |
C2' |
H5 |
104.1 |
180.0 |