PDB Chemical Component 8AA
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 8AA
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| OP2 |
P |
1.528 |
1.610 |
| OP1 |
P |
1.505 |
1.610 |
| P |
O5' |
1.615 |
1.610 |
| C2 |
N1 |
1.331 |
1.316 |
| N1 |
C6 |
1.318 |
1.342 |
| N2 |
C2 |
1.333 |
1.369 |
| C2 |
N3 |
1.335 |
1.358 |
| N2 |
HN2 |
1.000 |
0.970 |
| N2 |
HN2A |
1.000 |
0.970 |
| C20 |
C3 |
1.375 |
1.411 |
| C3 |
C7 |
1.389 |
1.358 |
| C3 |
H3 |
1.080 |
1.081 |
| N3 |
C4 |
1.328 |
1.371 |
| N3 |
HN3 |
1.000 |
0.970 |
| C4 |
N9 |
1.324 |
1.363 |
| C4 |
C5 |
1.481 |
1.389 |
| C8 |
N4 |
1.391 |
1.390 |
| C9 |
N4 |
1.371 |
1.348 |
| N4 |
C12 |
1.404 |
1.400 |
| C6 |
C5 |
1.495 |
1.465 |
| C5 |
N7 |
1.367 |
1.355 |
| C6 |
O6 |
1.250 |
1.222 |
| C7 |
C11 |
1.405 |
1.395 |
| C7 |
H7 |
1.080 |
1.080 |
| C8 |
N7 |
1.359 |
1.309 |
| N9 |
C8 |
1.339 |
1.368 |
| O11 |
C9 |
1.230 |
1.213 |
| C9 |
C10 |
1.515 |
1.506 |
| C1' |
N9 |
1.479 |
1.465 |
| C2' |
C1' |
1.521 |
1.540 |
| O4' |
C1' |
1.438 |
1.438 |
| C1' |
H1' |
1.100 |
1.090 |
| C10 |
H10 |
1.100 |
1.090 |
| C10 |
H10A |
1.100 |
1.090 |
| C10 |
H10B |
1.100 |
1.090 |
| C22 |
C11 |
1.392 |
1.358 |
| C11 |
H11 |
1.080 |
1.080 |
| C12 |
C13 |
1.397 |
1.401 |
| C12 |
C17 |
1.396 |
1.363 |
| C13 |
C14 |
1.383 |
1.356 |
| C13 |
H13 |
1.080 |
1.080 |
| C14 |
C15 |
1.383 |
1.412 |
| C14 |
H14 |
1.080 |
1.080 |
| C16 |
C15 |
1.406 |
1.467 |
| C15 |
C18 |
1.375 |
1.392 |
| C17 |
C16 |
1.379 |
1.410 |
| C16 |
C21 |
1.377 |
1.394 |
| C17 |
H17 |
1.080 |
1.081 |
| C18 |
C19 |
1.371 |
1.394 |
| C18 |
H18 |
1.080 |
1.080 |
| C20 |
C19 |
1.492 |
1.467 |
| C19 |
C22 |
1.378 |
1.411 |
| C3' |
C2' |
1.520 |
1.548 |
| C2' |
H2' |
1.100 |
1.089 |
| C2' |
H2'A |
1.100 |
1.090 |
| C21 |
C20 |
1.366 |
1.393 |
| C21 |
H21 |
1.080 |
1.081 |
| C22 |
H22 |
1.080 |
1.080 |
| O3' |
C3' |
1.434 |
1.430 |
| C3' |
C4' |
1.525 |
1.549 |
| C3' |
H3' |
1.100 |
1.090 |
| O3' |
HO3' |
0.950 |
0.966 |
| C5' |
C4' |
1.522 |
1.530 |
| C4' |
O4' |
1.428 |
1.446 |
| C4' |
H4' |
1.100 |
1.089 |
| C5' |
O5' |
1.413 |
1.429 |
| C5' |
H5' |
1.100 |
1.090 |
| C5' |
H5'A |
1.099 |
1.090 |
| OP1 |
HOP1 |
0.950 |
0.967 |
| OP2 |
HOP2 |
0.950 |
0.967 |
Bond Angles for 8AA
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| P |
O5' |
C5' |
120.4 |
123.0 |
| C2 |
N1 |
C6 |
121.6 |
121.3 |
| N1 |
C6 |
C5 |
117.5 |
118.7 |
| N1 |
C6 |
O6 |
118.5 |
120.7 |
| N2 |
C2 |
N3 |
117.2 |
118.8 |
| C2 |
N3 |
C4 |
119.3 |
120.6 |
| C2 |
N3 |
HN3 |
120.3 |
119.8 |
| HN2 |
N2 |
HN2A |
120.0 |
120.0 |
| C20 |
C3 |
H3 |
121.0 |
120.2 |
| C7 |
C3 |
H3 |
121.0 |
120.2 |
| C3 |
C7 |
C11 |
121.8 |
121.7 |
| C3 |
C7 |
H7 |
119.1 |
119.1 |
| C4 |
N3 |
HN3 |
120.3 |
119.7 |
| N3 |
C4 |
N9 |
133.1 |
134.6 |
| N3 |
C4 |
C5 |
119.4 |
118.9 |
| C5 |
C4 |
N9 |
107.6 |
106.5 |
| C4 |
N9 |
C8 |
106.4 |
107.5 |
| C4 |
C5 |
N7 |
106.8 |
107.5 |
| C8 |
N4 |
C12 |
124.0 |
120.0 |
| C9 |
N4 |
C12 |
110.9 |
120.0 |
| N4 |
C12 |
C13 |
117.4 |
119.2 |
| N4 |
C12 |
C17 |
121.3 |
119.2 |
| C6 |
C5 |
N7 |
136.8 |
134.4 |
| C11 |
C7 |
H7 |
119.1 |
119.1 |
| C7 |
C11 |
H11 |
118.9 |
119.1 |
| C9 |
C10 |
H10 |
109.5 |
109.5 |
| C9 |
C10 |
H10A |
109.5 |
109.5 |
| C9 |
C10 |
H10B |
109.5 |
109.5 |
| C2' |
C1' |
H1' |
108.9 |
109.9 |
| O4' |
C1' |
H1' |
110.0 |
109.8 |
| H10 |
C10 |
H10A |
109.5 |
109.4 |
| H10 |
C10 |
H10B |
109.5 |
109.4 |
| H10A |
C10 |
H10B |
109.4 |
109.5 |
| C22 |
C11 |
H11 |
118.9 |
119.2 |
| C13 |
C12 |
C17 |
121.1 |
121.6 |
| C12 |
C13 |
C14 |
120.0 |
121.7 |
| C12 |
C13 |
H13 |
120.0 |
119.2 |
| C12 |
C17 |
C16 |
118.8 |
119.5 |
| C12 |
C17 |
H17 |
120.6 |
120.2 |
| C14 |
C13 |
H13 |
120.0 |
119.2 |
| C13 |
C14 |
C15 |
119.0 |
119.7 |
| C13 |
C14 |
H14 |
120.5 |
120.1 |
| C15 |
C14 |
H14 |
120.5 |
120.2 |
| C14 |
C15 |
C18 |
116.8 |
121.0 |
| C16 |
C15 |
C18 |
122.0 |
120.2 |
| C15 |
C18 |
C19 |
117.6 |
119.6 |
| C15 |
C18 |
H18 |
121.2 |
120.2 |
| C17 |
C16 |
C21 |
117.9 |
121.0 |
| C16 |
C21 |
C20 |
117.8 |
119.6 |
| C16 |
C21 |
H21 |
121.1 |
120.2 |
| C19 |
C18 |
H18 |
121.2 |
120.2 |
| C18 |
C19 |
C22 |
119.4 |
121.1 |
| C20 |
C19 |
C22 |
120.2 |
118.6 |
| C19 |
C22 |
H22 |
121.2 |
120.2 |
| C3' |
C2' |
H2' |
110.6 |
110.5 |
| C3' |
C2' |
H2'A |
110.6 |
110.6 |
| H2' |
C2' |
H2'A |
109.5 |
110.5 |
| O3' |
C3' |
C4' |
107.5 |
110.9 |
| O3' |
C3' |
H3' |
110.6 |
110.8 |
| C4' |
C3' |
H3' |
109.2 |
111.0 |
| C3' |
C4' |
O4' |
108.4 |
103.6 |
| C3' |
C4' |
H4' |
108.2 |
110.7 |
| C5' |
C4' |
H4' |
108.2 |
110.7 |
| O4' |
C4' |
H4' |
109.5 |
110.5 |
| O5' |
C5' |
H5' |
109.5 |
109.4 |
| O5' |
C5' |
H5'A |
109.6 |
109.5 |
| H5' |
C5' |
H5'A |
109.5 |
109.5 |
Torsion Angles for 8AA
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| P |
O5' |
C5' |
H5' |
30.3 |
60.0 |
| P |
O5' |
C5' |
H5'A |
270.2 |
300.1 |
| C2 |
N1 |
C6 |
C5 |
0.4 |
359.9 |
| C2 |
N1 |
C6 |
O6 |
179.8 |
180.0 |
| N1 |
C6 |
C5 |
N7 |
179.0 |
180.0 |
| N2 |
C2 |
N1 |
C6 |
179.0 |
180.0 |
| N2 |
C2 |
N3 |
C4 |
181.1 |
180.0 |
| N2 |
C2 |
N3 |
HN3 |
1.1 |
360.0 |
| N3 |
C2 |
N1 |
C6 |
359.7 |
0.0 |
| C4 |
N3 |
C2 |
HN3 |
180.0 |
180.0 |
| C2 |
N3 |
C4 |
N9 |
180.4 |
180.0 |
| C2 |
N3 |
C4 |
C5 |
359.5 |
0.0 |
| HN2 |
N2 |
C2 |
N3 |
179.3 |
180.0 |
| HN2A |
N2 |
C2 |
N3 |
359.3 |
0.0 |
| C7 |
C3 |
C20 |
H3 |
180.0 |
179.7 |
| C20 |
C3 |
C7 |
H7 |
180.2 |
180.3 |
| C20 |
C3 |
C7 |
H3 |
180.0 |
180.3 |
| C11 |
C7 |
C3 |
H7 |
180.0 |
180.0 |
| C3 |
C7 |
C11 |
H11 |
179.7 |
180.0 |
| H3 |
C3 |
C7 |
C11 |
180.2 |
179.9 |
| H3 |
C3 |
C7 |
H7 |
0.2 |
359.9 |
| C2 |
N3 |
C4 |
HN3 |
180.0 |
180.0 |
| C5 |
C4 |
N3 |
N9 |
179.1 |
180.0 |
| N3 |
C4 |
N9 |
C8 |
178.9 |
180.0 |
| N3 |
C4 |
C5 |
N7 |
180.9 |
180.0 |
| C2 |
N3 |
HN3 |
C4 |
180.0 |
180.0 |
| HN3 |
N3 |
C4 |
N9 |
0.3 |
0.0 |
| HN3 |
N3 |
C4 |
C5 |
179.4 |
180.1 |
| N9 |
C4 |
N3 |
HN3 |
0.3 |
0.0 |
| N3 |
C4 |
N9 |
C5 |
179.2 |
180.0 |
| N9 |
C4 |
C5 |
N7 |
0.2 |
0.0 |
| N1 |
C6 |
C5 |
C4 |
359.4 |
0.1 |
| C5 |
C4 |
N3 |
HN3 |
179.4 |
180.1 |
| N3 |
C4 |
C5 |
N9 |
180.7 |
180.0 |
| C5 |
C4 |
N9 |
C8 |
359.8 |
359.9 |
| C6 |
C5 |
C4 |
N7 |
179.8 |
179.9 |
| C4 |
N9 |
C8 |
N4 |
180.3 |
180.0 |
| C9 |
N4 |
C8 |
C12 |
180.2 |
180.0 |
| C8 |
N4 |
C12 |
C13 |
101.2 |
352.2 |
| C8 |
N4 |
C12 |
C17 |
275.8 |
172.2 |
| C8 |
N4 |
C9 |
C12 |
179.9 |
180.0 |
| C9 |
N4 |
C12 |
C13 |
281.1 |
172.2 |
| C9 |
N4 |
C12 |
C17 |
95.7 |
352.3 |
| C13 |
C12 |
N4 |
C17 |
185.5 |
180.0 |
| N4 |
C12 |
C13 |
C14 |
176.8 |
180.0 |
| N4 |
C12 |
C13 |
H13 |
356.8 |
0.0 |
| N4 |
C12 |
C17 |
C16 |
183.3 |
180.0 |
| N4 |
C12 |
C17 |
H17 |
3.3 |
360.0 |
| N1 |
C6 |
C5 |
O6 |
179.3 |
180.1 |
| C6 |
C5 |
C4 |
N9 |
180.0 |
180.0 |
| C4 |
C5 |
C6 |
N7 |
180.3 |
180.1 |
| N7 |
C5 |
C4 |
N9 |
0.2 |
0.0 |
| N1 |
C6 |
O6 |
C5 |
180.7 |
179.9 |
| O6 |
C6 |
C5 |
N7 |
359.7 |
359.9 |
| C11 |
C7 |
C3 |
H3 |
180.2 |
179.9 |
| C3 |
C7 |
C11 |
H7 |
180.0 |
180.0 |
| C22 |
C11 |
C7 |
H11 |
180.0 |
180.1 |
| H7 |
C7 |
C3 |
H3 |
0.2 |
359.9 |
| C3 |
C7 |
H7 |
C11 |
180.0 |
180.0 |
| H7 |
C7 |
C11 |
H11 |
359.7 |
359.9 |
| C4 |
N9 |
C8 |
N7 |
0.2 |
0.1 |
| N7 |
C8 |
N4 |
C12 |
76.6 |
94.7 |
| N9 |
C8 |
N4 |
C12 |
256.5 |
274.9 |
| O11 |
C9 |
N4 |
C12 |
117.1 |
4.2 |
| O11 |
C9 |
C10 |
H10 |
0.0 |
175.0 |
| O11 |
C9 |
C10 |
H10A |
120.0 |
294.9 |
| O11 |
C9 |
C10 |
H10B |
240.0 |
55.0 |
| C10 |
C9 |
N4 |
C12 |
300.5 |
184.3 |
| H10 |
C10 |
C9 |
H10A |
240.0 |
240.0 |
| H10 |
C10 |
C9 |
H10B |
120.0 |
120.0 |
| H10A |
C10 |
C9 |
H10B |
240.0 |
239.9 |
| O4' |
C1' |
C2' |
H1' |
120.5 |
119.5 |
| C2' |
C1' |
O4' |
H1' |
240.2 |
240.5 |
| C9 |
C10 |
H10 |
H10A |
120.0 |
120.0 |
| C9 |
C10 |
H10 |
H10B |
240.0 |
240.0 |
| H10A |
C10 |
H10 |
H10B |
120.0 |
120.0 |
| C9 |
C10 |
H10A |
H10 |
240.0 |
240.0 |
| C9 |
C10 |
H10A |
H10B |
120.0 |
120.1 |
| H10 |
C10 |
H10A |
H10B |
240.0 |
240.0 |
| C9 |
C10 |
H10B |
H10 |
120.0 |
120.0 |
| C9 |
C10 |
H10B |
H10A |
240.0 |
240.0 |
| H10 |
C10 |
H10B |
H10A |
120.0 |
120.0 |
| C22 |
C11 |
C7 |
H7 |
179.7 |
180.0 |
| C7 |
C11 |
C22 |
H11 |
180.0 |
179.9 |
| H11 |
C11 |
C7 |
H7 |
359.7 |
359.9 |
| N4 |
C12 |
C13 |
C17 |
174.6 |
180.0 |
| C13 |
C12 |
C17 |
C16 |
357.6 |
0.0 |
| C13 |
C12 |
C17 |
H17 |
177.6 |
180.0 |
| C14 |
C13 |
C12 |
H13 |
180.0 |
180.0 |
| C12 |
C13 |
C14 |
C15 |
359.0 |
0.1 |
| C12 |
C13 |
C14 |
H14 |
179.0 |
180.0 |
| N4 |
C12 |
C17 |
C13 |
185.7 |
180.0 |
| C17 |
C12 |
C13 |
C14 |
2.3 |
360.0 |
| C17 |
C12 |
C13 |
H13 |
182.3 |
180.0 |
| C12 |
C17 |
C16 |
C21 |
181.0 |
180.1 |
| C14 |
C13 |
C12 |
C17 |
2.3 |
360.0 |
| C12 |
C13 |
C14 |
H13 |
180.0 |
180.0 |
| C15 |
C14 |
C13 |
H14 |
180.0 |
180.0 |
| C13 |
C14 |
C15 |
C18 |
179.9 |
180.2 |
| H13 |
C13 |
C12 |
C17 |
182.3 |
180.0 |
| C12 |
C13 |
H13 |
C14 |
180.0 |
180.0 |
| H13 |
C13 |
C14 |
C15 |
179.0 |
180.0 |
| H13 |
C13 |
C14 |
H14 |
359.0 |
360.0 |
| C15 |
C14 |
C13 |
H13 |
179.0 |
180.0 |
| C13 |
C14 |
C15 |
H14 |
180.0 |
180.0 |
| C16 |
C15 |
C14 |
C18 |
180.1 |
179.7 |
| C14 |
C15 |
C18 |
C19 |
180.0 |
180.2 |
| C14 |
C15 |
C18 |
H18 |
0.0 |
0.0 |
| H14 |
C14 |
C13 |
H13 |
359.0 |
360.0 |
| C13 |
C14 |
H14 |
C15 |
180.0 |
180.0 |
| H14 |
C14 |
C15 |
C18 |
359.9 |
0.2 |
| C12 |
C17 |
C16 |
C15 |
1.3 |
360.0 |
| C16 |
C15 |
C14 |
H14 |
179.9 |
180.0 |
| C14 |
C15 |
C16 |
C18 |
179.9 |
180.3 |
| C16 |
C15 |
C18 |
C19 |
360.0 |
0.5 |
| C16 |
C15 |
C18 |
H18 |
180.0 |
180.3 |
| C18 |
C15 |
C14 |
H14 |
359.9 |
0.2 |
| C19 |
C18 |
C15 |
H18 |
180.0 |
180.2 |
| C15 |
C18 |
C19 |
C22 |
180.1 |
180.3 |
| C12 |
C17 |
C16 |
H17 |
180.0 |
180.0 |
| C17 |
C16 |
C15 |
C18 |
180.0 |
179.8 |
| C17 |
C16 |
C21 |
C20 |
179.9 |
180.0 |
| C17 |
C16 |
C21 |
H21 |
360.0 |
359.9 |
| C21 |
C16 |
C15 |
C18 |
0.3 |
359.7 |
| C12 |
C17 |
H17 |
C16 |
180.0 |
180.0 |
| H17 |
C17 |
C16 |
C21 |
1.0 |
0.1 |
| C15 |
C18 |
C19 |
H18 |
180.0 |
179.8 |
| C20 |
C19 |
C18 |
C22 |
179.7 |
179.2 |
| C18 |
C19 |
C22 |
H22 |
359.8 |
359.3 |
| C15 |
C18 |
H18 |
C19 |
180.0 |
180.2 |
| H18 |
C18 |
C19 |
C22 |
0.2 |
0.5 |
| C19 |
C20 |
C3 |
H3 |
180.0 |
180.3 |
| C16 |
C21 |
C20 |
C19 |
0.2 |
360.0 |
| C20 |
C19 |
C18 |
H18 |
179.9 |
179.7 |
| C18 |
C19 |
C20 |
C22 |
180.3 |
180.7 |
| C20 |
C19 |
C22 |
H22 |
180.0 |
180.0 |
| C19 |
C22 |
C11 |
H11 |
180.2 |
179.5 |
| C22 |
C19 |
C18 |
H18 |
0.2 |
0.5 |
| C3' |
C2' |
C1' |
H1' |
237.8 |
242.4 |
| H2' |
C2' |
C3' |
H2'A |
121.5 |
122.6 |
| H2' |
C2' |
C1' |
H1' |
357.0 |
1.1 |
| C3' |
C2' |
H2' |
H2'A |
237.8 |
237.3 |
| H2'A |
C2' |
C1' |
H1' |
118.5 |
123.7 |
| C3' |
C2' |
H2'A |
H2' |
122.2 |
122.6 |
| C21 |
C20 |
C3 |
H3 |
0.1 |
0.3 |
| C16 |
C21 |
C20 |
H21 |
180.0 |
179.9 |
| C21 |
C20 |
C19 |
C22 |
179.8 |
179.5 |
| C16 |
C21 |
H21 |
C20 |
180.0 |
180.1 |
| H22 |
C22 |
C11 |
H11 |
0.2 |
0.3 |
| O3' |
C3' |
C2' |
H2' |
359.9 |
20.4 |
| O3' |
C3' |
C2' |
H2'A |
238.4 |
257.8 |
| C4' |
C3' |
O3' |
H3' |
240.9 |
236.3 |
| O3' |
C3' |
C4' |
O4' |
238.3 |
204.9 |
| O3' |
C3' |
C4' |
H4' |
357.0 |
323.3 |
| C4' |
C3' |
C2' |
H2' |
241.7 |
262.2 |
| C4' |
C3' |
C2' |
H2'A |
120.2 |
139.6 |
| O3' |
C3' |
C4' |
H3' |
120.0 |
123.6 |
| C5' |
C4' |
C3' |
H4' |
118.4 |
123.1 |
| O4' |
C4' |
C3' |
H4' |
241.4 |
241.6 |
| H3' |
C3' |
C2' |
H2' |
123.6 |
144.0 |
| H3' |
C3' |
C2' |
H2'A |
2.1 |
21.4 |
| O3' |
C3' |
H3' |
C4' |
241.9 |
236.3 |
| H3' |
C3' |
C4' |
O4' |
118.3 |
81.2 |
| H3' |
C3' |
C4' |
H4' |
237.0 |
199.6 |
| HO3' |
O3' |
C3' |
C4' |
297.9 |
174.1 |
| HO3' |
O3' |
C3' |
H3' |
57.0 |
297.8 |
| P |
O5' |
C5' |
C4' |
150.2 |
180.0 |
| C5' |
C4' |
C3' |
H3' |
355.3 |
322.7 |
| C3' |
C4' |
C5' |
H4' |
241.7 |
237.0 |
| O4' |
C4' |
C5' |
H4' |
120.7 |
122.8 |
| C4' |
O4' |
C1' |
H1' |
121.7 |
93.2 |
| O4' |
C4' |
C3' |
H3' |
118.3 |
81.2 |
| C3' |
C4' |
O4' |
H4' |
117.8 |
118.5 |
| C5' |
C4' |
O4' |
H4' |
240.0 |
237.1 |
| H4' |
C4' |
C3' |
H3' |
237.0 |
199.6 |
| C3' |
C4' |
H4' |
O4' |
242.1 |
245.9 |
| O5' |
C5' |
C4' |
H4' |
218.5 |
308.0 |
| H5' |
C5' |
O5' |
H5'A |
120.1 |
120.0 |
| H5' |
C5' |
C4' |
H4' |
338.4 |
67.9 |
| O5' |
C5' |
H5' |
H5'A |
239.8 |
240.0 |
| H5'A |
C5' |
C4' |
H4' |
98.5 |
188.0 |
| O5' |
C5' |
H5'A |
H5' |
120.1 |
119.9 |