PDB Chemical Component 9L8
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 9L8
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| O3' |
C3' |
1.479 |
1.429 |
| O4' |
C4' |
1.433 |
1.429 |
| C3' |
C4' |
1.473 |
1.531 |
| C3' |
C2' |
1.513 |
1.531 |
| C4' |
C5' |
1.561 |
1.531 |
| N2' |
C2' |
1.505 |
1.470 |
| C2' |
C1' |
1.553 |
1.531 |
| O6' |
C6' |
1.395 |
1.429 |
| C5' |
C6' |
1.548 |
1.530 |
| C5' |
O5' |
1.454 |
1.429 |
| C1' |
O5' |
1.460 |
1.429 |
| C1' |
C1 |
1.507 |
1.507 |
| N2 |
C1 |
1.319 |
1.345 |
| N2 |
N3 |
1.333 |
1.405 |
| C1 |
N5 |
1.339 |
1.307 |
| N3 |
C4 |
1.322 |
1.315 |
| N5 |
C4 |
1.345 |
1.340 |
| C4 |
C6 |
1.554 |
1.483 |
| C6 |
C7 |
1.417 |
1.382 |
| C6 |
C11 |
1.415 |
1.405 |
| C7 |
C8 |
1.429 |
1.404 |
| C11 |
C10 |
1.420 |
1.357 |
| C8 |
C12 |
1.445 |
1.405 |
| C8 |
C9 |
1.398 |
1.419 |
| C12 |
C13 |
1.411 |
1.362 |
| C10 |
C9 |
1.441 |
1.407 |
| C9 |
C15 |
1.420 |
1.405 |
| C13 |
C14 |
1.408 |
1.394 |
| C15 |
C14 |
1.410 |
1.361 |
| N2' |
H1 |
1.000 |
1.009 |
| N2' |
H2 |
1.000 |
1.009 |
| C2' |
H4 |
1.100 |
1.090 |
| C3' |
H5 |
1.100 |
1.090 |
| O3' |
H6 |
0.950 |
0.967 |
| C4' |
H7 |
1.100 |
1.090 |
| O4' |
H8 |
0.950 |
0.967 |
| C5' |
H9 |
1.100 |
1.090 |
| C6' |
H10 |
1.100 |
1.090 |
| C6' |
H11 |
1.100 |
1.091 |
| O6' |
H12 |
0.950 |
0.967 |
| C1' |
H13 |
1.100 |
1.090 |
| C7 |
H15 |
1.080 |
1.080 |
| C15 |
H16 |
1.080 |
1.080 |
| C14 |
H17 |
1.080 |
1.080 |
| C13 |
H18 |
1.080 |
1.079 |
| C12 |
H19 |
1.080 |
1.080 |
| C10 |
H20 |
1.080 |
1.080 |
| C11 |
H21 |
1.080 |
1.080 |
| N2 |
H3 |
1.000 |
0.970 |
Bond Angles for 9L8
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O3' |
C3' |
C4' |
110.0 |
109.6 |
| O3' |
C3' |
H5 |
107.3 |
109.6 |
| O4' |
C4' |
C5' |
108.0 |
109.5 |
| O4' |
C4' |
H7 |
111.1 |
109.5 |
| C3' |
C4' |
C5' |
113.5 |
109.2 |
| C4' |
C3' |
H5 |
107.4 |
109.5 |
| C3' |
C4' |
H7 |
110.5 |
109.5 |
| C3' |
C2' |
C1' |
109.6 |
109.2 |
| C3' |
C2' |
H4 |
109.1 |
109.6 |
| C4' |
C5' |
C6' |
114.8 |
109.5 |
| C4' |
C5' |
O5' |
110.9 |
109.4 |
| C5' |
C4' |
H7 |
109.3 |
109.5 |
| C4' |
C5' |
H9 |
108.3 |
109.5 |
| N2' |
C2' |
C1' |
108.4 |
109.5 |
| C2' |
N2' |
H1 |
109.5 |
111.0 |
| C2' |
N2' |
H2 |
109.5 |
111.0 |
| N2' |
C2' |
H4 |
109.2 |
109.5 |
| C2' |
C1' |
O5' |
114.2 |
109.4 |
| C2' |
C1' |
C1 |
112.0 |
109.5 |
| C1' |
C2' |
H4 |
108.6 |
109.5 |
| C2' |
C1' |
H13 |
107.3 |
109.5 |
| O6' |
C6' |
H10 |
108.6 |
109.5 |
| O6' |
C6' |
H11 |
108.6 |
109.4 |
| C6' |
C5' |
O5' |
104.5 |
109.5 |
| C6' |
C5' |
H9 |
108.5 |
109.4 |
| C5' |
C6' |
H10 |
108.6 |
109.5 |
| C5' |
C6' |
H11 |
108.6 |
109.5 |
| O5' |
C5' |
H9 |
109.7 |
109.5 |
| C1' |
C1 |
N5 |
125.0 |
125.8 |
| C1 |
C1' |
H13 |
107.8 |
109.4 |
| C1 |
N5 |
C4 |
108.0 |
109.7 |
| N5 |
C4 |
C6 |
128.4 |
125.6 |
| C4 |
C6 |
C7 |
117.9 |
119.7 |
| C4 |
C6 |
C11 |
120.6 |
119.7 |
| C7 |
C6 |
C11 |
121.4 |
120.6 |
| C6 |
C7 |
C8 |
118.7 |
119.5 |
| C6 |
C7 |
H15 |
120.6 |
120.3 |
| C6 |
C11 |
C10 |
120.0 |
120.9 |
| C6 |
C11 |
H21 |
120.0 |
119.5 |
| C7 |
C8 |
C12 |
118.9 |
121.2 |
| C7 |
C8 |
C9 |
120.2 |
119.5 |
| C8 |
C7 |
H15 |
120.6 |
120.3 |
| C11 |
C10 |
H20 |
120.8 |
120.0 |
| C9 |
C8 |
C12 |
120.9 |
119.4 |
| C8 |
C12 |
C13 |
119.6 |
119.7 |
| C8 |
C12 |
H19 |
120.2 |
120.2 |
| C8 |
C9 |
C15 |
119.4 |
119.3 |
| C12 |
C13 |
H18 |
120.7 |
119.5 |
| C9 |
C15 |
C14 |
119.2 |
119.8 |
| C9 |
C15 |
H16 |
120.4 |
120.1 |
| C13 |
C14 |
H17 |
118.8 |
119.5 |
| C14 |
C15 |
H16 |
120.4 |
120.1 |
| C15 |
C14 |
H17 |
118.8 |
119.5 |
| H1 |
N2' |
H2 |
109.5 |
111.0 |
| H10 |
C6' |
H11 |
109.5 |
109.4 |
Torsion Angles for 9L8
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O3' |
C3' |
C4' |
C5' |
181.2 |
176.8 |
| C4' |
C3' |
O3' |
H5 |
116.5 |
120.2 |
| O3' |
C3' |
C4' |
H7 |
58.0 |
56.9 |
| O3' |
C3' |
C2' |
C1' |
182.8 |
183.1 |
| O3' |
C3' |
C2' |
H4 |
301.6 |
303.1 |
| C3' |
C4' |
O4' |
C5' |
238.9 |
240.3 |
| O4' |
C4' |
C3' |
H5 |
55.0 |
57.0 |
| C3' |
C4' |
O4' |
H7 |
119.1 |
120.1 |
| O4' |
C4' |
C5' |
C6' |
73.2 |
62.5 |
| O4' |
C4' |
C5' |
O5' |
191.3 |
182.5 |
| C5' |
C4' |
O4' |
H7 |
240.1 |
239.9 |
| O4' |
C4' |
C5' |
H9 |
311.8 |
302.5 |
| O3' |
C3' |
C4' |
H5 |
243.5 |
239.7 |
| O4' |
C4' |
C3' |
C5' |
117.3 |
119.9 |
| O4' |
C4' |
C3' |
H7 |
240.5 |
239.9 |
| C4' |
C3' |
C2' |
C1' |
307.5 |
303.0 |
| C4' |
C3' |
C2' |
H4 |
66.4 |
63.0 |
| C3' |
C4' |
C5' |
C6' |
188.4 |
182.4 |
| C3' |
C4' |
C5' |
O5' |
306.5 |
302.4 |
| C5' |
C4' |
C3' |
H7 |
123.2 |
119.9 |
| C3' |
C4' |
C5' |
H9 |
67.0 |
62.4 |
| N2' |
C2' |
C3' |
C1' |
239.7 |
240.1 |
| C3' |
C2' |
N2' |
H1 |
180.0 |
299.6 |
| C3' |
C2' |
N2' |
H2 |
300.0 |
63.6 |
| N2' |
C2' |
C3' |
H4 |
120.9 |
120.2 |
| C3' |
C2' |
C1' |
O5' |
53.0 |
57.6 |
| C3' |
C2' |
C1' |
C1 |
174.8 |
177.6 |
| C1' |
C2' |
C3' |
H4 |
241.2 |
240.0 |
| C3' |
C2' |
C1' |
H13 |
292.9 |
297.6 |
| O4' |
C4' |
C5' |
H7 |
121.0 |
120.1 |
| C5' |
C4' |
C3' |
H5 |
297.6 |
297.1 |
| C3' |
C4' |
C5' |
H7 |
236.2 |
240.1 |
| C6' |
C5' |
C4' |
O5' |
241.9 |
240.0 |
| C6' |
C5' |
C4' |
H9 |
121.4 |
120.0 |
| C4' |
C5' |
C6' |
H10 |
284.4 |
305.0 |
| C4' |
C5' |
C6' |
H11 |
165.4 |
65.0 |
| O5' |
C5' |
C4' |
H9 |
239.5 |
240.0 |
| C3' |
C2' |
N2' |
C1' |
121.0 |
119.7 |
| C3' |
C2' |
N2' |
H4 |
239.2 |
239.8 |
| N2' |
C2' |
C1' |
O5' |
175.3 |
177.5 |
| N2' |
C2' |
C1' |
C1 |
297.1 |
297.5 |
| C1' |
C2' |
N2' |
H4 |
118.2 |
120.1 |
| N2' |
C2' |
C1' |
H13 |
55.2 |
57.5 |
| H1 |
N2' |
C2' |
H2 |
240.0 |
236.0 |
| C3' |
C2' |
C1' |
H4 |
119.1 |
120.0 |
| C1' |
C2' |
N2' |
H1 |
59.0 |
180.0 |
| C1' |
C2' |
N2' |
H2 |
179.0 |
304.0 |
| N2' |
C2' |
C1' |
H4 |
241.5 |
239.9 |
| C2' |
C1' |
C1 |
N5 |
143.4 |
305.0 |
| C1 |
C1' |
C2' |
H13 |
241.9 |
240.0 |
| O6' |
C6' |
C5' |
O5' |
283.2 |
65.0 |
| O6' |
C6' |
C5' |
H9 |
166.2 |
305.0 |
| C5' |
C6' |
O6' |
H10 |
239.5 |
120.0 |
| C5' |
C6' |
O6' |
H11 |
120.5 |
240.0 |
| H10 |
C6' |
O6' |
H11 |
241.1 |
119.9 |
| C4' |
C5' |
C6' |
O5' |
121.7 |
120.0 |
| C6' |
C5' |
C4' |
H7 |
312.2 |
302.3 |
| C4' |
C5' |
C6' |
H9 |
238.7 |
240.0 |
| O6' |
C6' |
C5' |
H10 |
120.5 |
240.0 |
| O6' |
C6' |
C5' |
H11 |
239.5 |
120.0 |
| O5' |
C5' |
C6' |
H9 |
117.0 |
120.1 |
| H10 |
C6' |
C5' |
H11 |
119.0 |
240.0 |
| C4' |
C5' |
O5' |
C6' |
235.8 |
240.0 |
| O5' |
C5' |
C4' |
H7 |
70.4 |
62.4 |
| C4' |
C5' |
O5' |
H9 |
119.6 |
120.0 |
| C2' |
C1' |
O5' |
C5' |
306.1 |
298.8 |
| C6' |
C5' |
O5' |
H9 |
243.9 |
240.0 |
| O5' |
C5' |
C6' |
H10 |
162.7 |
185.1 |
| O5' |
C5' |
C6' |
H11 |
43.7 |
305.1 |
| C2' |
C1' |
O5' |
C1 |
124.5 |
120.0 |
| O5' |
C1' |
C2' |
H4 |
293.9 |
297.6 |
| C2' |
C1' |
O5' |
H13 |
240.5 |
240.0 |
| C1' |
O5' |
C5' |
H9 |
292.2 |
301.1 |
| C2' |
C1' |
C1 |
O5' |
234.1 |
240.0 |
| C1 |
C1' |
C2' |
H4 |
55.7 |
57.6 |
| C2' |
C1' |
C1 |
H13 |
117.8 |
120.1 |
| C1' |
C1 |
N5 |
C4 |
181.1 |
180.0 |
| N2 |
C1 |
C1' |
H13 |
202.8 |
4.7 |
| N5 |
C1 |
C1' |
H13 |
25.6 |
184.9 |
| C1 |
N5 |
C4 |
C6 |
181.4 |
180.1 |
| N5 |
C4 |
C6 |
C7 |
184.2 |
180.0 |
| N5 |
C4 |
C6 |
C11 |
8.5 |
359.7 |
| C7 |
C6 |
C4 |
C11 |
175.8 |
180.3 |
| C4 |
C6 |
C7 |
C8 |
182.5 |
180.0 |
| C4 |
C6 |
C7 |
H15 |
2.5 |
360.0 |
| C4 |
C6 |
C11 |
C10 |
176.8 |
179.7 |
| C4 |
C6 |
C11 |
H21 |
356.8 |
0.0 |
| C4 |
C6 |
C7 |
C11 |
184.2 |
179.7 |
| C7 |
C6 |
C11 |
C10 |
1.2 |
359.4 |
| C7 |
C6 |
C11 |
H21 |
181.2 |
179.7 |
| C6 |
C7 |
C8 |
C12 |
181.0 |
180.0 |
| C6 |
C7 |
C8 |
C9 |
1.6 |
0.0 |
| C8 |
C7 |
C6 |
H15 |
180.0 |
180.0 |
| C4 |
C6 |
C11 |
C7 |
175.6 |
180.3 |
| C11 |
C6 |
C7 |
C8 |
358.3 |
0.3 |
| C11 |
C6 |
C7 |
H15 |
178.2 |
180.3 |
| C6 |
C11 |
C10 |
H20 |
179.6 |
180.3 |
| C8 |
C7 |
C6 |
C11 |
358.3 |
0.3 |
| C6 |
C7 |
C8 |
H15 |
180.0 |
180.0 |
| C9 |
C8 |
C7 |
C12 |
180.6 |
180.0 |
| C7 |
C8 |
C12 |
C13 |
180.5 |
180.0 |
| C7 |
C8 |
C12 |
H19 |
0.5 |
360.0 |
| C7 |
C8 |
C9 |
C15 |
179.8 |
180.0 |
| C6 |
C11 |
C10 |
H21 |
180.0 |
180.3 |
| C7 |
C8 |
C12 |
C9 |
180.6 |
180.0 |
| C12 |
C8 |
C7 |
H15 |
1.0 |
0.0 |
| C12 |
C8 |
C9 |
C15 |
0.4 |
0.0 |
| C8 |
C12 |
C13 |
H18 |
179.8 |
180.0 |
| C7 |
C8 |
C9 |
C12 |
179.4 |
180.0 |
| C9 |
C8 |
C7 |
H15 |
181.6 |
180.0 |
| C9 |
C8 |
C12 |
C13 |
359.9 |
360.0 |
| C9 |
C8 |
C12 |
H19 |
179.9 |
180.0 |
| C8 |
C9 |
C15 |
C14 |
359.7 |
360.0 |
| C8 |
C9 |
C15 |
H16 |
179.7 |
180.0 |
| C8 |
C12 |
C13 |
H19 |
180.0 |
180.0 |
| C12 |
C13 |
C14 |
H17 |
180.2 |
180.0 |
| C6 |
C11 |
C10 |
C9 |
359.6 |
0.6 |
| C10 |
C9 |
C15 |
H16 |
0.4 |
0.0 |
| C15 |
C9 |
C8 |
C12 |
0.4 |
0.0 |
| C14 |
C15 |
C9 |
H16 |
180.0 |
180.0 |
| C9 |
C15 |
C14 |
H17 |
180.0 |
180.0 |
| C8 |
C12 |
C13 |
C14 |
359.8 |
0.0 |
| C13 |
C14 |
C15 |
H16 |
180.0 |
180.0 |
| C15 |
C14 |
C13 |
H17 |
180.0 |
180.0 |
| C9 |
C15 |
C14 |
H16 |
180.0 |
180.0 |
| C13 |
C14 |
C15 |
H17 |
180.0 |
180.0 |
| H1 |
N2' |
C2' |
C1' |
59.0 |
180.0 |
| C2' |
N2' |
H1 |
H2 |
120.0 |
124.0 |
| H1 |
N2' |
C2' |
H4 |
300.9 |
59.9 |
| H2 |
N2' |
C2' |
C1' |
179.0 |
304.0 |
| C2' |
N2' |
H2 |
H1 |
240.0 |
236.0 |
| H2 |
N2' |
C2' |
H4 |
60.9 |
183.9 |
| C3' |
C2' |
H4 |
C1' |
240.5 |
240.3 |
| N2' |
C2' |
H4 |
C1' |
118.1 |
120.1 |
| H4 |
C2' |
N2' |
H1 |
300.9 |
59.9 |
| H4 |
C2' |
N2' |
H2 |
60.9 |
183.9 |
| H4 |
C2' |
C1' |
O5' |
293.9 |
297.6 |
| H4 |
C2' |
C1' |
C1 |
55.7 |
57.6 |
| H4 |
C2' |
C1' |
H13 |
173.7 |
177.6 |
| O3' |
C3' |
H5 |
C4' |
118.2 |
120.3 |
| H5 |
C3' |
C4' |
C5' |
297.6 |
297.1 |
| H5 |
C3' |
C4' |
H7 |
174.5 |
177.2 |
| H5 |
C3' |
C2' |
C1' |
64.5 |
62.9 |
| H5 |
C3' |
C2' |
H4 |
183.3 |
182.9 |
| H6 |
O3' |
C3' |
C4' |
180.0 |
60.0 |
| H6 |
O3' |
C3' |
H5 |
63.4 |
299.8 |
| O4' |
C4' |
H7 |
C5' |
240.9 |
239.9 |
| C3' |
C4' |
H7 |
C5' |
125.6 |
119.7 |
| H7 |
C4' |
C3' |
H5 |
174.5 |
177.2 |
| H7 |
C4' |
C5' |
C6' |
312.2 |
302.3 |
| H7 |
C4' |
C5' |
O5' |
70.4 |
62.4 |
| H7 |
C4' |
C5' |
H9 |
190.8 |
182.4 |
| H8 |
O4' |
C4' |
C5' |
301.0 |
299.7 |
| H8 |
O4' |
C4' |
H7 |
60.9 |
59.8 |
| C4' |
C5' |
H9 |
C6' |
125.2 |
120.0 |
| C4' |
C5' |
H9 |
O5' |
238.8 |
240.1 |
| H9 |
C5' |
C4' |
H7 |
190.8 |
182.4 |
| C6' |
C5' |
H9 |
O5' |
113.6 |
120.0 |
| H9 |
C5' |
C6' |
H10 |
45.7 |
65.0 |
| H9 |
C5' |
C6' |
H11 |
286.7 |
185.0 |
| O6' |
C6' |
H10 |
H11 |
118.4 |
240.1 |
| H10 |
C6' |
C5' |
O5' |
162.7 |
185.1 |
| H10 |
C6' |
C5' |
H9 |
45.7 |
65.0 |
| C5' |
C6' |
H10 |
H11 |
241.6 |
120.0 |
| O6' |
C6' |
H11 |
H10 |
241.6 |
120.0 |
| H11 |
C6' |
C5' |
O5' |
43.7 |
305.1 |
| H11 |
C6' |
C5' |
H9 |
286.7 |
185.0 |
| C5' |
C6' |
H11 |
H10 |
118.4 |
240.0 |
| H12 |
O6' |
C6' |
H10 |
300.5 |
60.0 |
| H12 |
O6' |
C6' |
H11 |
59.4 |
300.0 |
| C2' |
C1' |
H13 |
O5' |
123.8 |
120.0 |
| C2' |
C1' |
H13 |
C1 |
239.2 |
239.9 |
| H13 |
C1' |
C2' |
H4 |
173.7 |
177.6 |
| H13 |
C1' |
C1 |
N5 |
25.6 |
184.9 |
| H15 |
C7 |
C6 |
C11 |
178.2 |
180.3 |
| C6 |
C7 |
H15 |
C8 |
180.0 |
180.0 |
| H15 |
C7 |
C8 |
C12 |
1.0 |
0.0 |
| H15 |
C7 |
C8 |
C9 |
181.6 |
180.0 |
| C9 |
C15 |
H16 |
C14 |
180.0 |
180.0 |
| H16 |
C15 |
C14 |
H17 |
0.0 |
0.0 |
| H17 |
C14 |
C15 |
H16 |
0.0 |
0.0 |
| H18 |
C13 |
C14 |
H17 |
0.2 |
360.0 |
| C8 |
C12 |
H19 |
C13 |
180.0 |
180.0 |
| H19 |
C12 |
C13 |
H18 |
359.8 |
0.0 |
| C6 |
C11 |
H21 |
C10 |
180.0 |
179.7 |
| H21 |
C11 |
C10 |
H20 |
359.6 |
0.0 |