PDB Chemical Component 9ZD
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 9ZD
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| N6 |
C6 |
1.356 |
1.383 |
| C6 |
N1 |
1.344 |
1.329 |
| C6 |
C5 |
1.465 |
1.406 |
| N1 |
C2 |
1.347 |
1.320 |
| C5 |
N7 |
1.337 |
1.355 |
| C5 |
C4 |
1.458 |
1.404 |
| C2 |
N3 |
1.344 |
1.316 |
| N7 |
C8 |
1.350 |
1.302 |
| C4 |
N3 |
1.348 |
1.330 |
| C4 |
N9 |
1.322 |
1.372 |
| C8 |
N9 |
1.342 |
1.364 |
| N9 |
C1' |
1.470 |
1.465 |
| C1' |
C2' |
1.520 |
1.545 |
| C1' |
O4' |
1.420 |
1.445 |
| O2' |
C2' |
1.438 |
1.429 |
| C2' |
C3' |
1.528 |
1.545 |
| O4' |
C4' |
1.425 |
1.444 |
| C3' |
C4' |
1.538 |
1.545 |
| C3' |
O3' |
1.440 |
1.430 |
| C4' |
C5' |
1.517 |
1.530 |
| C5' |
O5' |
1.416 |
1.429 |
| O11 |
C7 |
1.438 |
1.342 |
| O11 |
C12 |
1.427 |
1.452 |
| O10 |
C7 |
1.219 |
1.209 |
| O5' |
P |
1.594 |
1.610 |
| C7 |
C3 |
1.483 |
1.506 |
| O2P |
P |
1.503 |
1.480 |
| N2 |
P |
1.726 |
1.683 |
| N2 |
C3 |
1.454 |
1.469 |
| P |
O3P |
1.497 |
1.610 |
| C3 |
C9 |
1.524 |
1.531 |
| O3P |
H1 |
0.950 |
0.967 |
| C5' |
H2 |
1.100 |
1.091 |
| C5' |
H3 |
1.100 |
1.089 |
| C4' |
H4 |
1.100 |
1.090 |
| C3' |
H5 |
1.100 |
1.090 |
| O3' |
H6 |
0.950 |
0.967 |
| C2' |
H7 |
1.100 |
1.090 |
| O2' |
H8 |
0.950 |
0.967 |
| C1' |
H9 |
1.100 |
1.090 |
| C8 |
H10 |
1.080 |
1.079 |
| C2 |
H11 |
1.080 |
1.080 |
| N6 |
H12 |
1.000 |
0.971 |
| N6 |
H13 |
1.000 |
0.970 |
| N2 |
H14 |
1.000 |
1.009 |
| C3 |
H15 |
1.099 |
1.090 |
| C9 |
H16 |
1.100 |
1.089 |
| C9 |
H17 |
1.100 |
1.090 |
| C9 |
H18 |
1.100 |
1.089 |
| C12 |
H19 |
1.100 |
1.090 |
| C12 |
H20 |
1.100 |
1.090 |
| C12 |
H21 |
1.100 |
1.090 |
Bond Angles for 9ZD
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| N1 |
C2 |
H11 |
117.9 |
118.8 |
| C5 |
N7 |
C8 |
107.7 |
109.5 |
| C5 |
C4 |
N3 |
120.9 |
119.1 |
| N7 |
C8 |
H10 |
125.1 |
125.0 |
| N9 |
C1' |
H9 |
110.2 |
110.4 |
| C1' |
C2' |
H7 |
108.6 |
110.5 |
| O4' |
C1' |
H9 |
110.9 |
110.3 |
| O2' |
C2' |
H7 |
109.7 |
110.5 |
| C2' |
C3' |
H5 |
109.4 |
110.7 |
| O4' |
C4' |
H4 |
110.0 |
110.4 |
| C3' |
C4' |
H4 |
108.5 |
110.4 |
| O3' |
C3' |
H5 |
110.6 |
110.5 |
| C3' |
O3' |
H6 |
109.5 |
114.0 |
| C4' |
C5' |
H2 |
110.4 |
109.5 |
| C4' |
C5' |
H3 |
110.4 |
109.5 |
| O11 |
C12 |
H19 |
109.5 |
109.5 |
| O11 |
C12 |
H20 |
109.5 |
109.4 |
| O11 |
C12 |
H21 |
109.5 |
109.5 |
| C7 |
C3 |
C9 |
108.6 |
109.5 |
| C7 |
C3 |
H15 |
108.9 |
109.5 |
| N2 |
C3 |
C9 |
110.9 |
109.4 |
| C3 |
N2 |
H14 |
107.7 |
111.0 |
| N2 |
C3 |
H15 |
109.2 |
109.5 |
| P |
O3P |
H1 |
109.5 |
114.0 |
| C9 |
C3 |
H15 |
108.3 |
109.5 |
| C3 |
C9 |
H16 |
109.5 |
109.5 |
| C3 |
C9 |
H17 |
109.4 |
109.5 |
| C3 |
C9 |
H18 |
109.5 |
109.4 |
| H2 |
C5' |
H3 |
109.5 |
109.4 |
| H12 |
N6 |
H13 |
109.5 |
119.9 |
| H16 |
C9 |
H17 |
109.5 |
109.5 |
| H16 |
C9 |
H18 |
109.4 |
109.5 |
| H17 |
C9 |
H18 |
109.5 |
109.5 |
| H19 |
C12 |
H20 |
109.5 |
109.4 |
| H19 |
C12 |
H21 |
109.5 |
109.4 |
| H20 |
C12 |
H21 |
109.5 |
109.5 |
Torsion Angles for 9ZD
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C6 |
N1 |
C2 |
H11 |
180.2 |
180.2 |
| N7 |
C5 |
C4 |
N3 |
181.5 |
180.0 |
| C5 |
N7 |
C8 |
H10 |
181.8 |
180.0 |
| C4 |
N9 |
C1' |
H9 |
12.1 |
322.7 |
| C8 |
N9 |
C1' |
H9 |
190.2 |
142.4 |
| N9 |
C1' |
C2' |
H7 |
41.6 |
24.2 |
| O4' |
C1' |
N9 |
H9 |
238.9 |
237.8 |
| O2' |
C2' |
C1' |
H7 |
238.5 |
237.3 |
| C1' |
C2' |
C3' |
H5 |
222.2 |
241.3 |
| N9 |
C1' |
O4' |
H9 |
120.7 |
122.3 |
| O4' |
C1' |
C2' |
H7 |
284.5 |
265.3 |
| C1' |
O4' |
C4' |
H4 |
269.9 |
281.4 |
| C1' |
C2' |
O2' |
H7 |
120.8 |
122.7 |
| O2' |
C2' |
C3' |
H5 |
100.3 |
122.5 |
| C2' |
C3' |
C4' |
H4 |
116.4 |
95.0 |
| O3' |
C3' |
C2' |
H5 |
236.6 |
237.3 |
| C2' |
C3' |
O3' |
H6 |
180.0 |
65.4 |
| C3' |
C4' |
O4' |
H4 |
117.8 |
118.9 |
| O4' |
C4' |
C5' |
H2 |
286.5 |
308.0 |
| O4' |
C4' |
C5' |
H3 |
47.7 |
188.0 |
| O4' |
C4' |
C3' |
H4 |
241.2 |
241.1 |
| C3' |
C4' |
C5' |
H2 |
45.7 |
63.4 |
| C3' |
C4' |
C5' |
H3 |
166.9 |
303.5 |
| C2' |
C3' |
O3' |
H5 |
122.7 |
122.8 |
| O3' |
C3' |
C4' |
H4 |
355.3 |
336.4 |
| H2 |
C5' |
C4' |
H3 |
238.8 |
120.0 |
| O11 |
C7 |
C3 |
H15 |
146.1 |
300.0 |
| H19 |
C12 |
O11 |
H20 |
240.0 |
240.0 |
| H19 |
C12 |
O11 |
H21 |
120.0 |
120.0 |
| H20 |
C12 |
O11 |
H21 |
240.0 |
240.0 |
| O10 |
C7 |
C3 |
H15 |
323.3 |
120.0 |
| O5' |
P |
O3P |
H1 |
235.1 |
60.0 |
| N2 |
C3 |
C7 |
C9 |
122.1 |
119.9 |
| C7 |
C3 |
N2 |
H14 |
18.9 |
21.1 |
| N2 |
C3 |
C7 |
H15 |
239.8 |
239.9 |
| C9 |
C3 |
C7 |
H15 |
117.8 |
120.0 |
| C7 |
C3 |
C9 |
H16 |
180.0 |
60.0 |
| C7 |
C3 |
C9 |
H17 |
300.0 |
180.0 |
| C7 |
C3 |
C9 |
H18 |
60.0 |
300.0 |
| O2P |
P |
O3P |
H1 |
0.0 |
180.0 |
| N2 |
P |
O3P |
H1 |
123.0 |
300.0 |
| C7 |
C3 |
N2 |
C9 |
239.3 |
240.0 |
| C7 |
C3 |
N2 |
H15 |
119.9 |
120.1 |
| C9 |
C3 |
N2 |
H15 |
240.7 |
240.0 |
| N2 |
C3 |
C9 |
H16 |
58.0 |
300.0 |
| N2 |
C3 |
C9 |
H17 |
178.0 |
60.0 |
| N2 |
C3 |
C9 |
H18 |
298.0 |
180.0 |
| C7 |
C3 |
C9 |
H15 |
241.9 |
240.0 |
| C9 |
C3 |
N2 |
H14 |
139.6 |
141.1 |
| N2 |
C3 |
C9 |
H15 |
119.9 |
120.0 |
| H16 |
C9 |
C3 |
H17 |
240.0 |
240.0 |
| H16 |
C9 |
C3 |
H18 |
120.0 |
120.0 |
| H17 |
C9 |
C3 |
H18 |
240.0 |
240.0 |
| C4' |
C5' |
H2 |
H3 |
121.7 |
240.0 |
| C4' |
C5' |
H3 |
H2 |
238.3 |
120.0 |
| H4 |
C4' |
C5' |
H2 |
167.1 |
185.7 |
| H4 |
C4' |
C5' |
H3 |
288.2 |
65.7 |
| H5 |
C3' |
C4' |
H4 |
232.7 |
213.8 |
| H5 |
C3' |
O3' |
H6 |
57.3 |
302.6 |
| H6 |
O3' |
C3' |
H5 |
57.3 |
302.6 |
| H7 |
C2' |
C3' |
H5 |
336.9 |
359.9 |
| H8 |
O2' |
C2' |
H7 |
59.2 |
61.1 |
| H9 |
C1' |
C2' |
H7 |
166.0 |
146.5 |
| H14 |
N2 |
C3 |
C9 |
139.6 |
141.1 |
| H14 |
N2 |
C3 |
H15 |
259.0 |
261.1 |
| C7 |
C3 |
H15 |
C9 |
118.0 |
120.0 |
| N2 |
C3 |
H15 |
C9 |
239.1 |
240.0 |
| H15 |
C3 |
N2 |
H14 |
259.0 |
261.1 |
| H15 |
C3 |
C9 |
H16 |
298.1 |
180.0 |
| H15 |
C3 |
C9 |
H17 |
58.1 |
300.0 |
| H15 |
C3 |
C9 |
H18 |
178.1 |
60.0 |
| H16 |
C9 |
C3 |
H15 |
298.1 |
180.0 |
| C3 |
C9 |
H16 |
H17 |
120.0 |
120.0 |
| C3 |
C9 |
H16 |
H18 |
240.0 |
240.0 |
| H17 |
C9 |
H16 |
H18 |
120.0 |
120.0 |
| H17 |
C9 |
C3 |
H15 |
58.1 |
300.0 |
| C3 |
C9 |
H17 |
H16 |
240.0 |
240.0 |
| C3 |
C9 |
H17 |
H18 |
120.0 |
119.9 |
| H16 |
C9 |
H17 |
H18 |
240.0 |
239.9 |
| H18 |
C9 |
C3 |
H15 |
178.1 |
60.0 |
| C3 |
C9 |
H18 |
H16 |
120.0 |
120.0 |
| C3 |
C9 |
H18 |
H17 |
240.0 |
240.0 |
| H16 |
C9 |
H18 |
H17 |
120.0 |
120.0 |
| O11 |
C12 |
H19 |
H20 |
120.0 |
120.0 |
| O11 |
C12 |
H19 |
H21 |
240.0 |
239.9 |
| H20 |
C12 |
H19 |
H21 |
120.0 |
120.0 |
| O11 |
C12 |
H20 |
H19 |
240.0 |
240.0 |
| O11 |
C12 |
H20 |
H21 |
120.0 |
120.1 |
| H19 |
C12 |
H20 |
H21 |
240.0 |
240.1 |
| O11 |
C12 |
H21 |
H19 |
120.0 |
120.0 |
| O11 |
C12 |
H21 |
H20 |
240.0 |
240.0 |
| H19 |
C12 |
H21 |
H20 |
120.0 |
120.0 |