PDB Chemical Component 5B6
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 5B6
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| O4 |
P1 |
1.526 |
1.480 |
| O3 |
P1 |
1.532 |
1.611 |
| P1 |
O5 |
1.601 |
1.609 |
| P1 |
O2 |
1.501 |
1.609 |
| C1 |
C2 |
1.496 |
1.478 |
| C1 |
N1 |
1.275 |
1.293 |
| C2 |
C14 |
1.401 |
1.393 |
| C2 |
N3 |
1.379 |
1.328 |
| C14 |
C13 |
1.401 |
1.393 |
| C7 |
N1 |
1.480 |
1.464 |
| C7 |
C6 |
1.511 |
1.508 |
| N3 |
C11 |
1.367 |
1.324 |
| O5 |
C9 |
1.398 |
1.429 |
| C13 |
O6 |
1.372 |
1.357 |
| C13 |
C12 |
1.414 |
1.390 |
| C11 |
C12 |
1.418 |
1.394 |
| C11 |
C15 |
1.528 |
1.484 |
| N4 |
C15 |
1.367 |
1.326 |
| N4 |
C19 |
1.366 |
1.317 |
| O1 |
C5 |
1.366 |
1.359 |
| C15 |
C16 |
1.413 |
1.393 |
| C19 |
C18 |
1.379 |
1.383 |
| C6 |
C5 |
1.384 |
1.391 |
| C6 |
C8 |
1.389 |
1.386 |
| C5 |
C3 |
1.379 |
1.387 |
| C16 |
C17 |
1.395 |
1.385 |
| C18 |
C17 |
1.384 |
1.388 |
| C9 |
C8 |
1.491 |
1.508 |
| C8 |
C10 |
1.386 |
1.382 |
| C3 |
C4 |
1.490 |
1.507 |
| C3 |
N2 |
1.333 |
1.319 |
| C10 |
N2 |
1.330 |
1.318 |
| O3 |
H1 |
0.950 |
0.967 |
| O2 |
H2 |
0.950 |
0.967 |
| C9 |
H3 |
1.100 |
1.090 |
| C9 |
H4 |
1.100 |
1.090 |
| O1 |
H5 |
0.950 |
0.967 |
| C4 |
H6 |
1.100 |
1.090 |
| C4 |
H7 |
1.100 |
1.089 |
| C4 |
H8 |
1.100 |
1.090 |
| C10 |
H9 |
1.080 |
1.080 |
| C7 |
H10 |
1.100 |
1.091 |
| C7 |
H11 |
1.100 |
1.090 |
| C1 |
H12 |
1.080 |
1.079 |
| C12 |
H13 |
1.080 |
1.080 |
| O6 |
H14 |
0.951 |
0.967 |
| C14 |
H15 |
1.080 |
1.080 |
| C19 |
H16 |
1.080 |
1.080 |
| C18 |
H17 |
1.080 |
1.080 |
| C17 |
H18 |
1.081 |
1.080 |
| C16 |
H19 |
1.080 |
1.079 |
Bond Angles for 5B6
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O4 |
P1 |
O5 |
108.9 |
109.5 |
| O4 |
P1 |
O2 |
111.4 |
109.5 |
| O3 |
P1 |
O5 |
107.8 |
109.5 |
| O3 |
P1 |
O2 |
112.2 |
109.4 |
| P1 |
O3 |
H1 |
109.5 |
114.0 |
| O2 |
P1 |
O5 |
106.2 |
109.5 |
| P1 |
O5 |
C9 |
118.4 |
123.0 |
| P1 |
O2 |
H2 |
109.5 |
114.1 |
| C1 |
C2 |
C14 |
121.4 |
119.7 |
| C1 |
C2 |
N3 |
117.9 |
119.7 |
| C2 |
C1 |
H12 |
119.1 |
120.0 |
| N3 |
C2 |
C14 |
120.1 |
120.7 |
| C2 |
C14 |
C13 |
119.4 |
119.2 |
| C2 |
C14 |
H15 |
120.3 |
120.4 |
| C2 |
N3 |
C11 |
122.0 |
121.7 |
| N1 |
C7 |
H10 |
108.7 |
109.5 |
| N1 |
C7 |
H11 |
108.7 |
109.5 |
| N3 |
C11 |
C12 |
119.1 |
120.7 |
| N3 |
C11 |
C15 |
119.0 |
119.6 |
| O5 |
C9 |
C8 |
109.6 |
109.5 |
| O5 |
C9 |
H3 |
109.5 |
109.5 |
| O5 |
C9 |
H4 |
109.5 |
109.5 |
| C13 |
O6 |
H14 |
109.5 |
114.0 |
| C13 |
C12 |
H13 |
120.2 |
120.4 |
| C12 |
C11 |
C15 |
121.9 |
119.7 |
| C11 |
C12 |
H13 |
120.2 |
120.3 |
| C11 |
C15 |
C16 |
121.4 |
119.7 |
| N4 |
C15 |
C16 |
118.9 |
120.6 |
| N4 |
C19 |
C18 |
121.1 |
120.9 |
| N4 |
C19 |
H16 |
119.4 |
119.5 |
| O1 |
C5 |
C3 |
119.6 |
120.5 |
| C15 |
C16 |
C17 |
119.7 |
119.0 |
| C15 |
C16 |
H19 |
120.2 |
120.5 |
| C19 |
C18 |
C17 |
119.4 |
119.4 |
| C18 |
C19 |
H16 |
119.5 |
119.5 |
| C19 |
C18 |
H17 |
120.3 |
120.4 |
| C6 |
C5 |
C3 |
119.4 |
119.0 |
| C6 |
C8 |
C10 |
119.7 |
119.2 |
| C5 |
C3 |
C4 |
119.9 |
119.7 |
| C5 |
C3 |
N2 |
121.1 |
120.7 |
| C16 |
C17 |
H18 |
120.1 |
120.7 |
| C17 |
C18 |
H17 |
120.3 |
120.3 |
| C18 |
C17 |
H18 |
120.1 |
120.8 |
| C9 |
C8 |
C10 |
118.4 |
120.4 |
| C8 |
C9 |
H3 |
109.4 |
109.4 |
| C8 |
C9 |
H4 |
109.5 |
109.5 |
| C8 |
C10 |
N2 |
120.4 |
120.9 |
| C8 |
C10 |
H9 |
119.8 |
119.6 |
| C4 |
C3 |
N2 |
119.0 |
119.7 |
| C3 |
C4 |
H6 |
109.5 |
109.4 |
| C3 |
C4 |
H7 |
109.5 |
109.5 |
| C3 |
C4 |
H8 |
109.5 |
109.4 |
| H3 |
C9 |
H4 |
109.5 |
109.4 |
| H6 |
C4 |
H7 |
109.5 |
109.5 |
| H6 |
C4 |
H8 |
109.5 |
109.5 |
| H7 |
C4 |
H8 |
109.5 |
109.6 |
| H10 |
C7 |
H11 |
109.5 |
109.4 |
Torsion Angles for 5B6
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O3 |
P1 |
O4 |
O5 |
118.1 |
240.0 |
| O3 |
P1 |
O4 |
O2 |
234.8 |
120.0 |
| O4 |
P1 |
O3 |
H1 |
360.0 |
299.9 |
| O2 |
P1 |
O4 |
O5 |
243.2 |
120.1 |
| O4 |
P1 |
O5 |
C9 |
177.6 |
55.1 |
| O4 |
P1 |
O2 |
H2 |
0.0 |
180.0 |
| O4 |
P1 |
O3 |
O5 |
241.3 |
120.0 |
| O4 |
P1 |
O3 |
O2 |
124.8 |
240.0 |
| O2 |
P1 |
O3 |
O5 |
116.5 |
240.0 |
| O3 |
P1 |
O5 |
C9 |
58.0 |
175.0 |
| O3 |
P1 |
O2 |
H2 |
124.1 |
60.0 |
| O4 |
P1 |
O5 |
O2 |
240.0 |
120.1 |
| O3 |
P1 |
O5 |
O2 |
120.4 |
240.0 |
| O5 |
P1 |
O3 |
H1 |
118.7 |
180.0 |
| O5 |
P1 |
O2 |
H2 |
241.6 |
300.0 |
| P1 |
O5 |
C9 |
C8 |
212.4 |
180.0 |
| P1 |
O5 |
C9 |
H3 |
332.4 |
300.0 |
| P1 |
O5 |
C9 |
H4 |
92.4 |
60.0 |
| O4 |
P1 |
O2 |
O5 |
118.4 |
239.9 |
| O3 |
P1 |
O2 |
O5 |
242.5 |
120.0 |
| O2 |
P1 |
O3 |
H1 |
235.2 |
59.9 |
| O2 |
P1 |
O5 |
C9 |
297.6 |
295.0 |
| N3 |
C2 |
C1 |
C14 |
188.6 |
180.2 |
| C1 |
C2 |
C14 |
C13 |
185.6 |
179.7 |
| C1 |
C2 |
C14 |
H15 |
5.6 |
359.9 |
| C1 |
C2 |
N3 |
C11 |
174.4 |
180.1 |
| C1 |
N1 |
C7 |
H10 |
320.1 |
355.0 |
| C1 |
N1 |
C7 |
H11 |
79.2 |
235.0 |
| C1 |
C2 |
C14 |
N3 |
188.8 |
180.2 |
| C14 |
C2 |
C1 |
H12 |
200.9 |
360.0 |
| C14 |
C2 |
N3 |
C11 |
2.9 |
0.3 |
| C1 |
C2 |
N3 |
C14 |
171.5 |
179.8 |
| N3 |
C2 |
C1 |
H12 |
29.5 |
180.2 |
| N3 |
C2 |
C14 |
C13 |
356.8 |
359.5 |
| N3 |
C2 |
C14 |
H15 |
176.7 |
179.7 |
| C2 |
N3 |
C11 |
C12 |
359.0 |
359.9 |
| C2 |
N3 |
C11 |
C15 |
180.1 |
180.0 |
| C2 |
C14 |
C13 |
H15 |
180.0 |
180.2 |
| C14 |
C13 |
O6 |
H14 |
180.0 |
270.2 |
| C14 |
C13 |
C12 |
H13 |
180.1 |
179.7 |
| H10 |
C7 |
N1 |
H11 |
240.9 |
120.0 |
| C11 |
N3 |
C2 |
C14 |
2.9 |
0.3 |
| C12 |
C11 |
N3 |
C15 |
178.9 |
179.9 |
| N3 |
C11 |
C12 |
H13 |
179.5 |
180.0 |
| N3 |
C11 |
C15 |
C16 |
170.2 |
359.9 |
| O5 |
C9 |
C8 |
C10 |
252.5 |
359.9 |
| C8 |
C9 |
O5 |
H3 |
240.0 |
240.0 |
| C8 |
C9 |
O5 |
H4 |
120.0 |
120.1 |
| H3 |
C9 |
O5 |
H4 |
240.0 |
240.0 |
| C2 |
C14 |
C13 |
O6 |
182.3 |
180.2 |
| O6 |
C13 |
C12 |
H13 |
359.5 |
360.0 |
| C2 |
C14 |
C13 |
C12 |
1.8 |
0.5 |
| C13 |
C12 |
C11 |
C15 |
178.4 |
180.0 |
| C11 |
C12 |
C13 |
H13 |
180.0 |
180.0 |
| N3 |
C11 |
C12 |
C15 |
181.1 |
180.1 |
| C13 |
C12 |
C11 |
H13 |
180.0 |
180.0 |
| C12 |
C11 |
C15 |
C16 |
351.3 |
180.0 |
| N3 |
C11 |
C15 |
C12 |
178.9 |
179.9 |
| C15 |
C11 |
C12 |
H13 |
358.4 |
360.0 |
| N4 |
C15 |
C11 |
C16 |
183.0 |
180.3 |
| C11 |
C15 |
C16 |
C17 |
182.7 |
179.8 |
| C11 |
C15 |
C16 |
H19 |
2.7 |
0.0 |
| C11 |
C15 |
N4 |
C16 |
177.1 |
179.7 |
| N4 |
C15 |
C16 |
C17 |
359.7 |
359.5 |
| N4 |
C15 |
C16 |
H19 |
179.7 |
179.7 |
| C19 |
N4 |
C15 |
C16 |
1.3 |
0.2 |
| N4 |
C19 |
C18 |
C17 |
2.0 |
0.0 |
| C18 |
C19 |
N4 |
H16 |
180.0 |
180.0 |
| N4 |
C19 |
C18 |
H17 |
182.0 |
179.9 |
| C6 |
C5 |
O1 |
C3 |
176.9 |
180.0 |
| O1 |
C5 |
C3 |
C4 |
354.8 |
360.0 |
| O1 |
C5 |
C3 |
N2 |
176.0 |
180.0 |
| C15 |
C16 |
C17 |
H18 |
180.1 |
180.2 |
| N4 |
C19 |
C18 |
H16 |
180.0 |
180.0 |
| C17 |
C18 |
C19 |
H17 |
180.0 |
180.1 |
| C19 |
C18 |
C17 |
H18 |
179.1 |
180.0 |
| O1 |
C5 |
C6 |
C3 |
183.1 |
180.0 |
| C5 |
C6 |
C8 |
C10 |
359.5 |
0.4 |
| C6 |
C5 |
C3 |
C4 |
177.8 |
180.0 |
| C6 |
C5 |
C3 |
N2 |
359.1 |
0.0 |
| C9 |
C8 |
C6 |
C10 |
176.9 |
179.6 |
| C6 |
C8 |
C9 |
H3 |
315.6 |
60.3 |
| C6 |
C8 |
C9 |
H4 |
195.6 |
300.4 |
| C6 |
C8 |
C10 |
N2 |
0.5 |
359.3 |
| C6 |
C8 |
C10 |
H9 |
180.5 |
179.7 |
| C4 |
C3 |
C5 |
N2 |
178.7 |
180.0 |
| C5 |
C3 |
C4 |
H6 |
181.2 |
90.0 |
| C5 |
C3 |
C4 |
H7 |
301.2 |
210.0 |
| C5 |
C3 |
C4 |
H8 |
61.2 |
330.1 |
| C15 |
C16 |
C17 |
H19 |
180.0 |
180.3 |
| C16 |
C17 |
C18 |
H17 |
179.1 |
179.8 |
| C18 |
C17 |
C16 |
H18 |
180.0 |
180.3 |
| C15 |
C16 |
C17 |
C18 |
0.1 |
0.6 |
| C17 |
C18 |
C19 |
H16 |
182.0 |
180.1 |
| C19 |
C18 |
C17 |
H17 |
180.0 |
179.9 |
| C16 |
C17 |
C18 |
H18 |
180.0 |
179.7 |
| O5 |
C9 |
C8 |
H3 |
120.0 |
120.0 |
| O5 |
C9 |
C8 |
H4 |
240.0 |
239.9 |
| C6 |
C8 |
C9 |
C10 |
183.0 |
180.4 |
| C9 |
C8 |
C10 |
N2 |
183.4 |
179.7 |
| C9 |
C8 |
C10 |
H9 |
3.4 |
0.1 |
| H3 |
C9 |
C8 |
H4 |
120.0 |
119.9 |
| C10 |
C8 |
C9 |
H3 |
132.5 |
239.9 |
| C10 |
C8 |
C9 |
H4 |
12.6 |
120.0 |
| C5 |
C3 |
C4 |
N2 |
181.2 |
180.0 |
| H6 |
C4 |
C3 |
H7 |
240.0 |
240.1 |
| H6 |
C4 |
C3 |
H8 |
120.0 |
120.0 |
| H7 |
C4 |
C3 |
H8 |
240.0 |
239.9 |
| C5 |
C3 |
N2 |
C4 |
178.8 |
180.0 |
| C8 |
C10 |
N2 |
C3 |
359.3 |
0.7 |
| N2 |
C3 |
C4 |
H6 |
0.0 |
270.0 |
| N2 |
C3 |
C4 |
H7 |
120.0 |
29.9 |
| N2 |
C3 |
C4 |
H8 |
240.0 |
150.0 |
| C8 |
C10 |
N2 |
H9 |
180.0 |
180.3 |
| H1 |
O3 |
P1 |
O5 |
118.7 |
180.0 |
| H1 |
O3 |
P1 |
O2 |
235.2 |
59.9 |
| H2 |
O2 |
P1 |
O5 |
241.6 |
300.0 |
| O5 |
C9 |
H3 |
C8 |
239.9 |
240.0 |
| O5 |
C9 |
H3 |
H4 |
120.0 |
120.0 |
| H3 |
C9 |
C8 |
C10 |
132.5 |
239.9 |
| C8 |
C9 |
H3 |
H4 |
240.0 |
240.0 |
| O5 |
C9 |
H4 |
C8 |
120.1 |
120.0 |
| O5 |
C9 |
H4 |
H3 |
240.0 |
240.0 |
| H4 |
C9 |
C8 |
C10 |
12.6 |
120.0 |
| C8 |
C9 |
H4 |
H3 |
119.9 |
119.9 |
| H5 |
O1 |
C5 |
C3 |
3.1 |
270.1 |
| H6 |
C4 |
C3 |
N2 |
0.0 |
270.0 |
| C3 |
C4 |
H6 |
H7 |
120.0 |
120.0 |
| C3 |
C4 |
H6 |
H8 |
240.0 |
240.1 |
| H7 |
C4 |
H6 |
H8 |
120.0 |
120.1 |
| H7 |
C4 |
C3 |
N2 |
120.0 |
29.9 |
| C3 |
C4 |
H7 |
H6 |
240.0 |
240.1 |
| C3 |
C4 |
H7 |
H8 |
120.0 |
120.0 |
| H6 |
C4 |
H7 |
H8 |
240.0 |
240.0 |
| H8 |
C4 |
C3 |
N2 |
240.0 |
150.0 |
| C3 |
C4 |
H8 |
H6 |
120.0 |
119.9 |
| C3 |
C4 |
H8 |
H7 |
240.0 |
240.0 |
| H6 |
C4 |
H8 |
H7 |
120.0 |
120.0 |
| C8 |
C10 |
H9 |
N2 |
180.0 |
179.7 |
| N1 |
C7 |
H10 |
H11 |
118.6 |
240.0 |
| N1 |
C7 |
H11 |
H10 |
241.4 |
120.0 |
| H12 |
C1 |
C2 |
C14 |
200.9 |
360.0 |
| H12 |
C1 |
C2 |
N3 |
29.5 |
180.2 |
| H13 |
C12 |
C11 |
C15 |
358.4 |
360.0 |
| C2 |
C14 |
H15 |
C13 |
180.0 |
179.8 |
| N4 |
C19 |
H16 |
C18 |
180.0 |
180.0 |
| H16 |
C19 |
C18 |
C17 |
182.0 |
180.1 |
| H16 |
C19 |
C18 |
H17 |
2.0 |
359.9 |
| C19 |
C18 |
H17 |
C17 |
180.0 |
180.1 |
| H17 |
C18 |
C19 |
H16 |
2.0 |
359.9 |
| H17 |
C18 |
C17 |
H18 |
359.1 |
0.1 |
| H18 |
C17 |
C18 |
H17 |
359.1 |
0.1 |
| C15 |
C16 |
H19 |
C17 |
180.0 |
179.7 |
| H19 |
C16 |
C17 |
H18 |
0.0 |
360.0 |