PDB Chemical Component 9DB
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 9DB
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C |
N |
1.457 |
1.465 |
| N |
C1 |
1.339 |
1.348 |
| N |
N1 |
1.374 |
1.400 |
| C1 |
C2 |
1.388 |
1.378 |
| N4 |
C9 |
1.473 |
1.469 |
| N1 |
C3 |
1.328 |
1.306 |
| C2 |
C3 |
1.421 |
1.412 |
| C2 |
C4 |
1.432 |
1.476 |
| N2 |
C4 |
1.348 |
1.382 |
| N2 |
C5 |
1.384 |
1.380 |
| O |
C8 |
1.226 |
1.213 |
| C9 |
C8 |
1.522 |
1.507 |
| C9 |
C10 |
1.536 |
1.530 |
| C8 |
N3 |
1.346 |
1.348 |
| C4 |
C20 |
1.427 |
1.373 |
| C11 |
C10 |
1.520 |
1.529 |
| C11 |
C12 |
1.524 |
1.530 |
| C6 |
C5 |
1.394 |
1.392 |
| C6 |
C7 |
1.393 |
1.388 |
| C5 |
C21 |
1.368 |
1.394 |
| C10 |
C15 |
1.532 |
1.530 |
| C12 |
C13 |
1.528 |
1.530 |
| N3 |
C7 |
1.407 |
1.400 |
| C7 |
C16 |
1.390 |
1.395 |
| C20 |
C21 |
1.435 |
1.468 |
| C20 |
C19 |
1.335 |
1.472 |
| C21 |
C17 |
1.411 |
1.403 |
| C15 |
C14 |
1.531 |
1.531 |
| C13 |
C14 |
1.496 |
1.530 |
| C16 |
C17 |
1.395 |
1.386 |
| C19 |
N6 |
1.370 |
1.301 |
| C17 |
C18 |
1.499 |
1.479 |
| N6 |
N5 |
1.379 |
1.391 |
| C18 |
N5 |
1.352 |
1.351 |
| C18 |
O1 |
1.230 |
1.216 |
| C1 |
H1 |
1.080 |
1.080 |
| C3 |
H2 |
1.080 |
1.079 |
| C6 |
H3 |
1.080 |
1.080 |
| N5 |
H4 |
1.000 |
0.970 |
| C19 |
H5 |
1.080 |
1.080 |
| C |
H6 |
1.100 |
1.090 |
| C |
H7 |
1.100 |
1.090 |
| C |
H8 |
1.100 |
1.090 |
| N2 |
H9 |
1.000 |
0.970 |
| C16 |
H10 |
1.080 |
1.080 |
| N3 |
H11 |
1.000 |
0.970 |
| C9 |
H12 |
1.100 |
1.089 |
| N4 |
H13 |
1.000 |
1.008 |
| N4 |
H14 |
1.000 |
1.010 |
| C10 |
H16 |
1.100 |
1.090 |
| C15 |
H17 |
1.100 |
1.091 |
| C15 |
H18 |
1.100 |
1.089 |
| C14 |
H19 |
1.100 |
1.089 |
| C14 |
H20 |
1.100 |
1.090 |
| C13 |
H21 |
1.100 |
1.090 |
| C13 |
H22 |
1.100 |
1.090 |
| C12 |
H23 |
1.100 |
1.089 |
| C12 |
H24 |
1.100 |
1.091 |
| C11 |
H25 |
1.099 |
1.091 |
| C11 |
H26 |
1.100 |
1.090 |
Bond Angles for 9DB
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| N |
C1 |
H1 |
126.6 |
126.3 |
| C1 |
C2 |
C3 |
104.1 |
107.3 |
| C1 |
C2 |
C4 |
127.1 |
126.4 |
| C2 |
C1 |
H1 |
126.6 |
126.3 |
| N4 |
C9 |
C10 |
114.3 |
109.5 |
| N4 |
C9 |
H12 |
106.1 |
109.5 |
| N1 |
C3 |
H2 |
123.8 |
125.9 |
| C3 |
C2 |
C4 |
128.7 |
126.4 |
| C2 |
C3 |
H2 |
123.9 |
125.9 |
| C2 |
C4 |
C20 |
128.4 |
125.5 |
| C9 |
C10 |
C15 |
113.4 |
109.5 |
| C10 |
C9 |
H12 |
105.5 |
109.5 |
| C9 |
C10 |
H16 |
107.2 |
109.4 |
| C8 |
N3 |
H11 |
116.4 |
120.0 |
| C4 |
C20 |
C21 |
102.9 |
106.0 |
| C4 |
C20 |
C19 |
133.2 |
127.9 |
| C11 |
C10 |
H16 |
107.4 |
109.5 |
| C11 |
C12 |
H23 |
109.0 |
109.5 |
| C11 |
C12 |
H24 |
109.0 |
109.5 |
| C6 |
C5 |
C21 |
121.0 |
117.8 |
| C6 |
C7 |
C16 |
119.9 |
121.7 |
| C7 |
C6 |
H3 |
120.2 |
119.9 |
| C5 |
C21 |
C20 |
106.9 |
107.7 |
| C5 |
C21 |
C17 |
119.8 |
122.4 |
| C10 |
C15 |
C14 |
112.5 |
109.4 |
| C15 |
C10 |
H16 |
107.3 |
109.4 |
| C10 |
C15 |
H17 |
108.7 |
109.5 |
| C10 |
C15 |
H18 |
108.7 |
109.5 |
| C12 |
C13 |
H21 |
109.1 |
109.5 |
| C12 |
C13 |
H22 |
109.2 |
109.5 |
| C7 |
C16 |
C17 |
120.1 |
119.0 |
| C7 |
C16 |
H10 |
119.9 |
120.5 |
| C20 |
C21 |
C17 |
133.3 |
129.9 |
| C20 |
C19 |
H5 |
114.6 |
116.5 |
| C14 |
C15 |
H17 |
108.7 |
109.4 |
| C14 |
C15 |
H18 |
108.7 |
109.5 |
| C15 |
C14 |
H19 |
109.0 |
109.5 |
| C15 |
C14 |
H20 |
109.0 |
109.4 |
| C13 |
C14 |
H19 |
109.0 |
109.5 |
| C13 |
C14 |
H20 |
109.0 |
109.5 |
| N6 |
N5 |
H4 |
114.9 |
114.1 |
| C18 |
N5 |
H4 |
115.0 |
114.0 |
| H6 |
C |
H7 |
109.4 |
109.4 |
| H6 |
C |
H8 |
109.5 |
109.6 |
| H7 |
C |
H8 |
109.5 |
109.4 |
| H13 |
N4 |
H14 |
109.5 |
111.0 |
| H17 |
C15 |
H18 |
109.4 |
109.5 |
| H19 |
C14 |
H20 |
109.5 |
109.5 |
| H21 |
C13 |
H22 |
109.5 |
109.5 |
| H23 |
C12 |
H24 |
109.4 |
109.5 |
| H25 |
C11 |
H26 |
109.5 |
109.5 |
Torsion Angles for 9DB
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C |
N |
C1 |
H1 |
6.2 |
0.2 |
| C2 |
C1 |
N |
H1 |
180.0 |
179.7 |
| N1 |
N |
C1 |
H1 |
181.5 |
179.9 |
| N |
N1 |
C3 |
H2 |
180.7 |
179.8 |
| N |
C1 |
C2 |
H1 |
180.0 |
180.3 |
| C3 |
C2 |
C1 |
C4 |
182.9 |
180.1 |
| C1 |
C2 |
C3 |
H2 |
180.2 |
180.0 |
| C1 |
C2 |
C4 |
C20 |
188.0 |
135.0 |
| N4 |
C9 |
C10 |
C15 |
202.5 |
60.0 |
| C10 |
C9 |
N4 |
H12 |
244.2 |
240.0 |
| N4 |
C9 |
C10 |
H16 |
84.4 |
300.1 |
| C2 |
C3 |
N1 |
H2 |
180.0 |
180.1 |
| C1 |
C2 |
C3 |
C4 |
177.1 |
179.9 |
| C3 |
C2 |
C1 |
H1 |
179.1 |
180.0 |
| N1 |
C3 |
C2 |
H2 |
180.0 |
179.9 |
| C3 |
C2 |
C4 |
C20 |
4.4 |
314.9 |
| C1 |
C2 |
C4 |
C3 |
183.6 |
180.1 |
| C4 |
C2 |
C1 |
H1 |
356.2 |
359.9 |
| C4 |
C2 |
C3 |
H2 |
3.1 |
0.1 |
| C2 |
C4 |
C20 |
C21 |
176.3 |
180.0 |
| C2 |
C4 |
C20 |
C19 |
357.8 |
360.0 |
| N2 |
C5 |
C21 |
C17 |
180.5 |
180.0 |
| O |
C8 |
N3 |
H11 |
146.5 |
184.6 |
| C9 |
C8 |
N3 |
H11 |
336.0 |
4.6 |
| N4 |
C9 |
C10 |
H12 |
116.2 |
120.0 |
| C11 |
C10 |
C9 |
H16 |
242.3 |
239.9 |
| C9 |
C10 |
C15 |
C14 |
181.8 |
180.0 |
| C15 |
C10 |
C9 |
H16 |
118.2 |
119.9 |
| C9 |
C10 |
C15 |
H17 |
302.2 |
300.0 |
| C9 |
C10 |
C15 |
H18 |
61.3 |
60.0 |
| C5 |
C21 |
C20 |
C4 |
359.5 |
0.0 |
| C4 |
C20 |
C21 |
C17 |
179.4 |
179.8 |
| C4 |
C20 |
C19 |
H5 |
355.8 |
0.5 |
| C11 |
C10 |
C9 |
H12 |
210.5 |
60.0 |
| C9 |
C10 |
C11 |
H16 |
117.6 |
120.0 |
| C15 |
C10 |
C11 |
H16 |
244.1 |
240.0 |
| C11 |
C10 |
C15 |
H17 |
176.4 |
180.0 |
| C11 |
C10 |
C15 |
H18 |
295.4 |
300.0 |
| C12 |
C11 |
C10 |
H16 |
58.5 |
60.0 |
| C11 |
C12 |
C13 |
H21 |
63.4 |
180.0 |
| C11 |
C12 |
C13 |
H22 |
183.0 |
60.0 |
| H23 |
C12 |
C11 |
H24 |
240.6 |
120.0 |
| C6 |
C5 |
C21 |
C20 |
180.8 |
180.0 |
| C6 |
C5 |
C21 |
C17 |
0.9 |
0.3 |
| C7 |
C6 |
C5 |
C21 |
0.6 |
359.4 |
| C6 |
C7 |
C16 |
C17 |
5.7 |
359.7 |
| C6 |
C7 |
C16 |
H10 |
185.7 |
179.7 |
| C4 |
C20 |
C21 |
C5 |
359.5 |
0.0 |
| C20 |
C21 |
C5 |
C17 |
179.9 |
179.8 |
| C15 |
C10 |
C9 |
H12 |
86.3 |
300.0 |
| C9 |
C10 |
C15 |
H16 |
241.9 |
240.1 |
| C11 |
C10 |
C15 |
H16 |
116.0 |
120.0 |
| C14 |
C15 |
C10 |
H17 |
239.5 |
240.0 |
| C14 |
C15 |
C10 |
H18 |
120.5 |
120.0 |
| C10 |
C15 |
C14 |
H19 |
65.4 |
60.0 |
| C10 |
C15 |
C14 |
H20 |
184.9 |
180.0 |
| H17 |
C15 |
C10 |
H18 |
240.9 |
240.0 |
| C12 |
C13 |
C14 |
H19 |
293.7 |
300.0 |
| C12 |
C13 |
C14 |
H20 |
174.2 |
180.0 |
| H21 |
C13 |
C12 |
H22 |
240.4 |
120.0 |
| N3 |
C7 |
C6 |
H3 |
355.3 |
359.4 |
| N3 |
C7 |
C16 |
H10 |
6.6 |
0.3 |
| C16 |
C7 |
C6 |
H3 |
176.1 |
180.0 |
| C4 |
C20 |
C21 |
C19 |
181.3 |
180.0 |
| C5 |
C21 |
C20 |
C17 |
180.1 |
180.3 |
| C21 |
C20 |
C19 |
H5 |
177.6 |
180.5 |
| C4 |
C20 |
C19 |
C21 |
178.2 |
180.0 |
| C5 |
C21 |
C20 |
C19 |
178.2 |
180.1 |
| C5 |
C21 |
C17 |
C20 |
179.9 |
179.7 |
| C7 |
C16 |
C17 |
C21 |
355.8 |
360.0 |
| C14 |
C15 |
C10 |
H16 |
299.9 |
300.0 |
| C10 |
C15 |
C14 |
H17 |
120.5 |
120.0 |
| C10 |
C15 |
C14 |
H18 |
239.5 |
240.0 |
| C13 |
C14 |
C15 |
H19 |
239.7 |
240.0 |
| C13 |
C14 |
C15 |
H20 |
120.3 |
120.0 |
| H17 |
C15 |
C14 |
H18 |
119.1 |
120.0 |
| H19 |
C14 |
C15 |
H20 |
240.5 |
240.0 |
| C13 |
C14 |
C15 |
H17 |
184.7 |
180.0 |
| C13 |
C14 |
C15 |
H18 |
65.6 |
60.0 |
| C15 |
C14 |
C13 |
H19 |
120.3 |
120.0 |
| C15 |
C14 |
C13 |
H20 |
239.7 |
240.0 |
| H19 |
C14 |
C13 |
H20 |
119.5 |
120.0 |
| C7 |
C16 |
C17 |
H10 |
180.0 |
180.0 |
| C4 |
C20 |
C19 |
N6 |
175.8 |
179.8 |
| C19 |
N6 |
N5 |
H4 |
178.7 |
179.5 |
| C5 |
C21 |
C17 |
C18 |
184.7 |
179.9 |
| C7 |
C16 |
C17 |
C18 |
172.3 |
180.1 |
| C17 |
C18 |
N5 |
H4 |
181.2 |
180.0 |
| C18 |
N5 |
N6 |
H4 |
180.0 |
180.0 |
| N6 |
N5 |
C18 |
H4 |
180.0 |
180.0 |
| H1 |
C1 |
C2 |
C3 |
179.1 |
180.0 |
| H1 |
C1 |
C2 |
C4 |
356.2 |
359.9 |
| H2 |
C3 |
C2 |
C4 |
3.1 |
0.1 |
| H3 |
C6 |
C5 |
C21 |
180.5 |
180.0 |
| H3 |
C6 |
C7 |
C16 |
176.1 |
180.0 |
| H7 |
C |
H6 |
H8 |
120.0 |
120.0 |
| H6 |
C |
H7 |
H8 |
240.0 |
240.0 |
| H6 |
C |
H8 |
H7 |
120.0 |
120.0 |
| C7 |
C16 |
H10 |
C17 |
180.0 |
180.0 |
| N4 |
C9 |
H12 |
C10 |
238.3 |
240.0 |
| H12 |
C9 |
C10 |
C15 |
86.3 |
300.0 |
| H12 |
C9 |
C10 |
H16 |
328.1 |
180.1 |
| H13 |
N4 |
C9 |
C10 |
309.5 |
60.0 |
| H13 |
N4 |
C9 |
H12 |
65.3 |
180.0 |
| H14 |
N4 |
C9 |
C10 |
69.5 |
184.0 |
| H14 |
N4 |
C9 |
H12 |
185.3 |
304.0 |
| C9 |
C10 |
H16 |
C15 |
122.1 |
119.9 |
| H16 |
C10 |
C9 |
H12 |
328.1 |
180.1 |
| H16 |
C10 |
C15 |
C14 |
299.9 |
300.0 |
| H16 |
C10 |
C15 |
H17 |
60.4 |
59.9 |
| H16 |
C10 |
C15 |
H18 |
179.4 |
179.9 |
| C10 |
C15 |
H17 |
C14 |
237.2 |
240.0 |
| H17 |
C15 |
C10 |
H16 |
60.4 |
59.9 |
| C10 |
C15 |
H17 |
H18 |
118.6 |
120.0 |
| C14 |
C15 |
H17 |
H18 |
241.4 |
240.0 |
| H17 |
C15 |
C14 |
H19 |
305.0 |
300.0 |
| H17 |
C15 |
C14 |
H20 |
64.4 |
60.0 |
| C10 |
C15 |
H18 |
C14 |
122.8 |
120.0 |
| H18 |
C15 |
C10 |
H16 |
179.4 |
179.9 |
| C10 |
C15 |
H18 |
H17 |
241.4 |
240.0 |
| C14 |
C15 |
H18 |
H17 |
118.6 |
120.0 |
| H18 |
C15 |
C14 |
H19 |
185.9 |
180.0 |
| H18 |
C15 |
C14 |
H20 |
305.4 |
300.0 |
| H19 |
C14 |
C15 |
H17 |
305.0 |
300.0 |
| H19 |
C14 |
C15 |
H18 |
185.9 |
180.0 |
| C15 |
C14 |
H19 |
H20 |
119.1 |
120.0 |
| C13 |
C14 |
H19 |
H20 |
240.8 |
239.9 |
| H20 |
C14 |
C15 |
H17 |
64.4 |
60.0 |
| H20 |
C14 |
C15 |
H18 |
305.4 |
300.0 |
| C15 |
C14 |
H20 |
H19 |
240.8 |
240.0 |
| C13 |
C14 |
H20 |
H19 |
119.2 |
120.0 |
| C12 |
C13 |
H21 |
H22 |
119.4 |
239.9 |
| H21 |
C13 |
C14 |
H19 |
173.5 |
60.1 |
| H21 |
C13 |
C14 |
H20 |
54.1 |
300.0 |
| C12 |
C13 |
H22 |
H21 |
240.6 |
120.1 |
| H22 |
C13 |
C14 |
H19 |
53.9 |
180.0 |
| H22 |
C13 |
C14 |
H20 |
294.5 |
60.0 |
| C11 |
C12 |
H23 |
H24 |
119.1 |
240.0 |
| H23 |
C12 |
C13 |
H21 |
303.1 |
300.0 |
| H23 |
C12 |
C13 |
H22 |
62.7 |
180.0 |
| C11 |
C12 |
H24 |
H23 |
240.9 |
120.0 |
| H24 |
C12 |
C13 |
H21 |
183.7 |
60.0 |
| H24 |
C12 |
C13 |
H22 |
303.3 |
300.0 |
| H25 |
C11 |
C10 |
H16 |
178.6 |
180.0 |
| H25 |
C11 |
C12 |
H23 |
59.1 |
180.0 |
| H25 |
C11 |
C12 |
H24 |
178.5 |
60.0 |
| H26 |
C11 |
C10 |
H16 |
298.4 |
300.0 |
| H26 |
C11 |
C12 |
H23 |
299.3 |
60.0 |
| H26 |
C11 |
C12 |
H24 |
58.7 |
300.0 |