PDB Chemical Component VBP
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 VBP
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C11 |
C10 |
1.517 |
1.507 |
| C11 |
C12 |
1.538 |
1.383 |
| C13 |
C12 |
1.536 |
1.379 |
| C14 |
C13 |
1.541 |
1.396 |
| C15 |
C14 |
1.556 |
1.396 |
| C15 |
C16 |
1.551 |
1.380 |
| C16 |
C11 |
1.549 |
1.384 |
| C17 |
C14 |
1.526 |
1.477 |
| C17 |
O19 |
1.430 |
1.214 |
| C20 |
N09 |
1.523 |
1.346 |
| C22 |
C02 |
1.537 |
1.507 |
| C02 |
N01 |
1.460 |
1.469 |
| C02 |
C03 |
1.540 |
1.530 |
| C03 |
N04 |
1.443 |
1.466 |
| N04 |
C20 |
1.515 |
1.346 |
| N04 |
C05 |
1.487 |
1.368 |
| C05 |
C06 |
1.505 |
1.350 |
| C06 |
C07 |
1.531 |
1.415 |
| C07 |
O08 |
1.402 |
1.218 |
| N09 |
C10 |
1.466 |
1.465 |
| N09 |
C07 |
1.477 |
1.348 |
| O18 |
C17 |
1.191 |
1.347 |
| O21 |
C20 |
1.394 |
1.216 |
| O23 |
C22 |
1.178 |
1.342 |
| O24 |
C22 |
1.430 |
1.208 |
| C10 |
H10 |
1.100 |
1.090 |
| C10 |
H10A |
1.100 |
1.090 |
| C12 |
H12 |
1.080 |
1.080 |
| C13 |
H13 |
1.080 |
1.081 |
| C15 |
H15 |
1.080 |
1.080 |
| C16 |
H16 |
1.081 |
1.080 |
| N01 |
HN01 |
1.000 |
1.010 |
| N01 |
HN0A |
1.000 |
1.009 |
| C02 |
H02 |
1.100 |
1.090 |
| C03 |
H03 |
1.100 |
1.090 |
| C03 |
H03A |
1.100 |
1.090 |
| C05 |
H05 |
1.080 |
1.080 |
| C06 |
H06 |
1.080 |
1.080 |
| O18 |
HO18 |
0.950 |
0.967 |
| O23 |
HO23 |
0.950 |
0.968 |
Bond Angles for VBP
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C11 |
C10 |
H10 |
108.8 |
109.5 |
| C11 |
C10 |
H10A |
108.4 |
109.5 |
| C11 |
C12 |
H12 |
119.9 |
119.9 |
| C13 |
C12 |
H12 |
119.8 |
120.0 |
| C14 |
C13 |
H13 |
120.1 |
120.1 |
| C16 |
C15 |
H15 |
119.9 |
120.0 |
| C15 |
C16 |
H16 |
120.7 |
120.0 |
| O18 |
C17 |
O19 |
101.6 |
120.0 |
| N04 |
C20 |
N09 |
120.5 |
120.9 |
| C20 |
N09 |
C07 |
119.5 |
120.3 |
| C22 |
C02 |
N01 |
109.5 |
109.5 |
| C22 |
C02 |
C03 |
109.6 |
109.5 |
| C22 |
C02 |
H02 |
109.3 |
109.4 |
| C02 |
N01 |
HN01 |
109.5 |
111.0 |
| C02 |
N01 |
HN0A |
109.5 |
111.0 |
| C02 |
C03 |
N04 |
118.8 |
109.4 |
| C03 |
C02 |
H02 |
109.7 |
109.5 |
| C02 |
C03 |
H03 |
106.5 |
109.5 |
| C02 |
C03 |
H03A |
104.3 |
109.5 |
| C03 |
N04 |
C05 |
118.6 |
119.7 |
| N04 |
C03 |
H03 |
106.5 |
109.4 |
| N04 |
C03 |
H03A |
104.3 |
109.5 |
| N04 |
C05 |
C06 |
119.9 |
119.7 |
| N04 |
C05 |
H05 |
120.0 |
120.1 |
| C05 |
C06 |
C07 |
120.3 |
119.1 |
| C06 |
C05 |
H05 |
120.1 |
120.2 |
| C05 |
C06 |
H06 |
119.8 |
120.4 |
| C06 |
C07 |
O08 |
121.0 |
120.3 |
| C07 |
C06 |
H06 |
119.9 |
120.5 |
| N09 |
C10 |
H10 |
108.8 |
109.5 |
| N09 |
C10 |
H10A |
108.4 |
109.4 |
| H10 |
C10 |
H10A |
111.1 |
109.5 |
| HN01 |
N01 |
HN0A |
109.5 |
111.0 |
| H03 |
C03 |
H03A |
117.1 |
109.5 |
Torsion Angles for VBP
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| N09 |
C10 |
C11 |
H10 |
240.0 |
240.0 |
| N09 |
C10 |
C11 |
H10A |
119.1 |
120.0 |
| H10 |
C10 |
C11 |
H10A |
239.1 |
240.0 |
| C12 |
C11 |
C10 |
H10 |
195.1 |
210.0 |
| C12 |
C11 |
C10 |
H10A |
316.0 |
330.0 |
| C13 |
C12 |
C11 |
H12 |
180.0 |
180.0 |
| C11 |
C12 |
C13 |
H12 |
180.0 |
180.0 |
| C14 |
C13 |
C12 |
H12 |
180.1 |
180.0 |
| C15 |
C14 |
C13 |
H13 |
180.0 |
180.0 |
| C16 |
C11 |
C10 |
H10 |
15.8 |
29.7 |
| C16 |
C11 |
C10 |
H10A |
136.6 |
149.7 |
| C16 |
C11 |
C12 |
H12 |
179.9 |
180.3 |
| C17 |
C14 |
C13 |
H13 |
0.2 |
360.0 |
| C20 |
N09 |
C10 |
H10 |
304.0 |
330.0 |
| C20 |
N09 |
C10 |
H10A |
183.1 |
210.0 |
| C22 |
C02 |
N01 |
HN01 |
9.2 |
300.0 |
| C22 |
C02 |
N01 |
HN0A |
129.2 |
63.9 |
| C22 |
C02 |
C03 |
N04 |
176.4 |
175.0 |
| C03 |
C02 |
C22 |
H02 |
120.2 |
120.0 |
| C22 |
C02 |
C03 |
H03 |
296.4 |
295.0 |
| C22 |
C02 |
C03 |
H03A |
60.8 |
55.0 |
| C22 |
C02 |
N01 |
C03 |
240.1 |
240.0 |
| C22 |
C02 |
N01 |
H02 |
119.9 |
120.0 |
| HN01 |
N01 |
C02 |
HN0A |
240.0 |
236.1 |
| C22 |
C02 |
C03 |
N01 |
119.8 |
120.0 |
| C22 |
C02 |
C03 |
H02 |
240.1 |
240.1 |
| C03 |
C02 |
N01 |
HN01 |
129.1 |
60.0 |
| C03 |
C02 |
N01 |
HN0A |
249.1 |
183.9 |
| C02 |
C03 |
N04 |
C05 |
53.2 |
270.0 |
| N04 |
C03 |
C02 |
H03 |
240.0 |
240.0 |
| N04 |
C03 |
C02 |
H03A |
115.5 |
120.0 |
| H03 |
C03 |
C02 |
H03A |
235.6 |
239.9 |
| C03 |
N04 |
C20 |
N09 |
179.5 |
180.0 |
| N04 |
C03 |
C02 |
H02 |
296.3 |
295.0 |
| C02 |
C03 |
N04 |
H03 |
120.0 |
120.0 |
| C02 |
C03 |
N04 |
H03A |
244.5 |
240.0 |
| C03 |
N04 |
C05 |
C06 |
180.2 |
180.0 |
| C03 |
N04 |
C05 |
H05 |
0.2 |
0.0 |
| H03 |
C03 |
N04 |
H03A |
124.5 |
120.0 |
| N04 |
C20 |
N09 |
C07 |
0.3 |
359.9 |
| C05 |
N04 |
C20 |
N09 |
359.5 |
0.1 |
| C05 |
N04 |
C03 |
H03 |
293.2 |
150.0 |
| C05 |
N04 |
C03 |
H03A |
168.7 |
30.0 |
| N04 |
C05 |
C06 |
C07 |
0.1 |
0.1 |
| C06 |
C05 |
N04 |
H05 |
180.0 |
180.0 |
| N04 |
C05 |
C06 |
H06 |
180.1 |
180.0 |
| N04 |
C05 |
C06 |
H05 |
180.0 |
180.0 |
| C05 |
C06 |
C07 |
O08 |
179.5 |
180.1 |
| C07 |
C06 |
C05 |
H06 |
180.0 |
180.1 |
| C20 |
N09 |
C07 |
C06 |
0.1 |
0.1 |
| C07 |
C06 |
C05 |
H05 |
180.1 |
180.1 |
| C05 |
C06 |
C07 |
H06 |
180.0 |
179.9 |
| C20 |
N09 |
C07 |
O08 |
180.3 |
179.9 |
| O08 |
C07 |
C06 |
H06 |
359.5 |
0.2 |
| C11 |
C10 |
N09 |
H10 |
120.0 |
120.0 |
| C11 |
C10 |
N09 |
H10A |
240.9 |
240.0 |
| H10 |
C10 |
N09 |
H10A |
120.9 |
120.0 |
| N09 |
C07 |
C06 |
H06 |
179.7 |
180.0 |
| C07 |
N09 |
C10 |
H10 |
124.1 |
150.0 |
| C07 |
N09 |
C10 |
H10A |
3.2 |
30.0 |
| O23 |
C22 |
C02 |
H02 |
175.9 |
320.0 |
| O24 |
C22 |
C02 |
H02 |
318.7 |
140.0 |
| C11 |
C10 |
H10 |
H10A |
119.2 |
120.0 |
| N09 |
C10 |
H10 |
H10A |
240.8 |
240.0 |
| C11 |
C10 |
H10A |
H10 |
240.6 |
239.9 |
| N09 |
C10 |
H10A |
H10 |
119.5 |
120.0 |
| H13 |
C13 |
C12 |
H12 |
0.1 |
360.0 |
| H15 |
C15 |
C16 |
H16 |
0.0 |
359.7 |
| H16 |
C16 |
C15 |
H15 |
0.0 |
359.7 |
| C02 |
N01 |
HN01 |
HN0A |
120.0 |
123.9 |
| C02 |
N01 |
HN0A |
HN01 |
240.0 |
236.1 |
| C22 |
C02 |
H02 |
N01 |
239.9 |
240.0 |
| C22 |
C02 |
H02 |
C03 |
120.1 |
120.0 |
| H02 |
C02 |
N01 |
HN01 |
249.3 |
180.0 |
| H02 |
C02 |
N01 |
HN0A |
9.3 |
303.9 |
| H02 |
C02 |
C03 |
N04 |
296.3 |
295.0 |
| H02 |
C02 |
C03 |
H03 |
56.3 |
54.9 |
| H02 |
C02 |
C03 |
H03A |
180.7 |
175.0 |
| C02 |
C03 |
H03 |
N04 |
232.3 |
240.1 |
| H03 |
C03 |
C02 |
H02 |
56.3 |
54.9 |
| C02 |
C03 |
H03 |
H03A |
116.1 |
120.1 |
| H03 |
C03 |
N04 |
C05 |
293.2 |
150.0 |
| N04 |
C03 |
H03 |
H03A |
243.8 |
240.0 |
| C02 |
C03 |
H03A |
N04 |
125.4 |
119.9 |
| H03A |
C03 |
C02 |
H02 |
180.7 |
175.0 |
| C02 |
C03 |
H03A |
H03 |
242.7 |
239.9 |
| H03A |
C03 |
N04 |
C05 |
168.7 |
30.0 |
| N04 |
C03 |
H03A |
H03 |
117.3 |
120.0 |
| N04 |
C05 |
H05 |
C06 |
180.0 |
180.0 |
| H05 |
C05 |
C06 |
C07 |
180.1 |
180.1 |
| H05 |
C05 |
C06 |
H06 |
0.2 |
359.9 |
| C05 |
C06 |
H06 |
C07 |
180.0 |
180.1 |
| H06 |
C06 |
C05 |
H05 |
0.2 |
359.9 |
| H06 |
C06 |
C07 |
O08 |
359.5 |
0.2 |
| HO18 |
O18 |
C17 |
O19 |
360.0 |
360.0 |