PDB Chemical Component RD8
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 RD8
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C24 |
C23 |
1.524 |
1.530 |
| C24 |
N25 |
1.452 |
1.465 |
| C23 |
O29 |
1.419 |
1.457 |
| C23 |
C22 |
1.486 |
1.540 |
| O29 |
C30 |
1.446 |
1.338 |
| O28 |
C26 |
1.183 |
1.214 |
| N25 |
C26 |
1.452 |
1.347 |
| C26 |
C27 |
1.529 |
1.506 |
| C22 |
N21 |
1.414 |
1.471 |
| C30 |
N21 |
1.465 |
1.340 |
| C30 |
O31 |
1.184 |
1.215 |
| N21 |
C20 |
1.457 |
1.399 |
| C20 |
C32 |
1.388 |
1.389 |
| C20 |
C19 |
1.386 |
1.390 |
| C32 |
C02 |
1.388 |
1.382 |
| C19 |
C18 |
1.389 |
1.378 |
| C02 |
F01 |
1.365 |
1.351 |
| C02 |
C03 |
1.388 |
1.396 |
| C18 |
C03 |
1.387 |
1.393 |
| C03 |
C04 |
1.536 |
1.483 |
| C04 |
C07 |
1.386 |
1.394 |
| C04 |
C05 |
1.386 |
1.394 |
| C07 |
C08 |
1.387 |
1.380 |
| C05 |
C06 |
1.387 |
1.380 |
| C08 |
C09 |
1.385 |
1.383 |
| C06 |
C09 |
1.384 |
1.384 |
| C09 |
C10 |
1.533 |
1.507 |
| C10 |
N11 |
1.454 |
1.469 |
| N11 |
C12 |
1.457 |
1.469 |
| N15 |
N16 |
1.352 |
1.287 |
| N15 |
C14 |
1.310 |
1.354 |
| N16 |
N17 |
1.368 |
1.286 |
| C14 |
C13 |
1.393 |
1.354 |
| N17 |
C13 |
1.334 |
1.338 |
| C13 |
C12 |
1.528 |
1.507 |
| C05 |
H1 |
1.080 |
1.080 |
| C06 |
H2 |
1.080 |
1.080 |
| C07 |
H3 |
1.080 |
1.080 |
| C08 |
H4 |
1.080 |
1.080 |
| C10 |
H5 |
1.100 |
1.089 |
| C10 |
H6 |
1.100 |
1.090 |
| C12 |
H7 |
1.100 |
1.090 |
| C12 |
H8 |
1.100 |
1.090 |
| C14 |
H9 |
1.080 |
1.079 |
| C18 |
H10 |
1.080 |
1.080 |
| C19 |
H11 |
1.080 |
1.080 |
| C22 |
H12 |
1.100 |
1.091 |
| C22 |
H13 |
1.100 |
1.090 |
| C23 |
H14 |
1.100 |
1.090 |
| C24 |
H15 |
1.100 |
1.090 |
| C24 |
H16 |
1.100 |
1.090 |
| C27 |
H17 |
1.099 |
1.090 |
| C27 |
H18 |
1.100 |
1.090 |
| C27 |
H19 |
1.100 |
1.090 |
| C32 |
H20 |
1.080 |
1.079 |
| N11 |
H21 |
1.000 |
1.009 |
| N15 |
H23 |
1.000 |
0.970 |
| N25 |
H24 |
1.000 |
0.970 |
Bond Angles for RD8
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C24 |
C23 |
O29 |
109.0 |
110.5 |
| C24 |
C23 |
H14 |
109.6 |
110.6 |
| C24 |
N25 |
C26 |
119.8 |
120.0 |
| N25 |
C24 |
H15 |
109.2 |
109.4 |
| N25 |
C24 |
H16 |
109.2 |
109.5 |
| C24 |
N25 |
H24 |
120.1 |
120.0 |
| C23 |
O29 |
C30 |
107.2 |
109.5 |
| O29 |
C23 |
H14 |
111.1 |
110.5 |
| C23 |
C22 |
N21 |
107.4 |
103.8 |
| C23 |
C22 |
H12 |
110.0 |
110.6 |
| C23 |
C22 |
H13 |
110.0 |
110.7 |
| O29 |
C30 |
O31 |
126.0 |
123.1 |
| C26 |
C27 |
H17 |
109.5 |
109.5 |
| C26 |
C27 |
H18 |
109.4 |
109.5 |
| C26 |
C27 |
H19 |
109.4 |
109.5 |
| C22 |
N21 |
C30 |
107.5 |
108.9 |
| N21 |
C22 |
H12 |
110.0 |
110.5 |
| N21 |
C22 |
H13 |
110.0 |
110.6 |
| N21 |
C30 |
O31 |
126.2 |
123.1 |
| C20 |
C32 |
H20 |
119.9 |
120.0 |
| C20 |
C19 |
H11 |
120.0 |
119.9 |
| C32 |
C02 |
F01 |
119.6 |
120.0 |
| C19 |
C18 |
H10 |
119.9 |
120.0 |
| C03 |
C02 |
F01 |
120.3 |
120.1 |
| C02 |
C03 |
C04 |
120.5 |
120.0 |
| C03 |
C04 |
C07 |
120.2 |
120.1 |
| C03 |
C04 |
C05 |
119.9 |
120.1 |
| C05 |
C04 |
C07 |
119.8 |
119.7 |
| C04 |
C07 |
C08 |
120.1 |
119.9 |
| C04 |
C07 |
H3 |
119.9 |
120.0 |
| C04 |
C05 |
C06 |
120.0 |
119.9 |
| C04 |
C05 |
H1 |
120.0 |
120.1 |
| C07 |
C08 |
C09 |
120.0 |
120.1 |
| C08 |
C07 |
H3 |
119.9 |
120.1 |
| C07 |
C08 |
H4 |
120.0 |
119.9 |
| C05 |
C06 |
C09 |
120.1 |
120.1 |
| C06 |
C05 |
H1 |
120.0 |
120.1 |
| C05 |
C06 |
H2 |
120.0 |
119.9 |
| C06 |
C09 |
C08 |
120.0 |
120.2 |
| C08 |
C09 |
C10 |
119.8 |
119.9 |
| C09 |
C08 |
H4 |
120.0 |
120.0 |
| C06 |
C09 |
C10 |
120.1 |
119.9 |
| C09 |
C06 |
H2 |
120.0 |
119.9 |
| C09 |
C10 |
N11 |
110.2 |
109.5 |
| C09 |
C10 |
H5 |
109.3 |
109.4 |
| C09 |
C10 |
H6 |
109.3 |
109.4 |
| C10 |
N11 |
C12 |
109.7 |
111.0 |
| N11 |
C10 |
H5 |
109.3 |
109.5 |
| N11 |
C10 |
H6 |
109.3 |
109.5 |
| C10 |
N11 |
H21 |
109.4 |
111.0 |
| N11 |
C12 |
H7 |
109.3 |
109.5 |
| N11 |
C12 |
H8 |
109.3 |
109.4 |
| N15 |
N16 |
N17 |
107.7 |
110.2 |
| N16 |
N15 |
H23 |
125.3 |
126.0 |
| N15 |
C14 |
H9 |
126.1 |
127.0 |
| C13 |
C12 |
H7 |
109.3 |
109.5 |
| C13 |
C12 |
H8 |
109.3 |
109.4 |
| H5 |
C10 |
H6 |
109.5 |
109.5 |
| H7 |
C12 |
H8 |
109.5 |
109.5 |
| H12 |
C22 |
H13 |
109.5 |
110.5 |
| H15 |
C24 |
H16 |
109.5 |
109.5 |
| H17 |
C27 |
H18 |
109.5 |
109.5 |
| H17 |
C27 |
H19 |
109.5 |
109.4 |
| H18 |
C27 |
H19 |
109.5 |
109.5 |
Torsion Angles for RD8
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C24 |
C23 |
O29 |
C30 |
259.5 |
241.4 |
| O29 |
C23 |
C24 |
H14 |
238.2 |
237.3 |
| C24 |
C23 |
C22 |
N21 |
102.7 |
118.7 |
| C24 |
C23 |
C22 |
H12 |
222.4 |
237.2 |
| C24 |
C23 |
C22 |
H13 |
343.0 |
360.0 |
| N25 |
C24 |
C23 |
O29 |
118.5 |
298.6 |
| N25 |
C24 |
C23 |
H14 |
240.3 |
61.2 |
| H15 |
C24 |
N25 |
H16 |
119.7 |
120.0 |
| C24 |
C23 |
O29 |
H14 |
120.9 |
122.7 |
| O29 |
C23 |
C22 |
N21 |
344.4 |
0.1 |
| O29 |
C23 |
C22 |
H12 |
104.1 |
118.6 |
| O29 |
C23 |
C22 |
H13 |
224.7 |
241.4 |
| C23 |
O29 |
C30 |
O31 |
165.5 |
180.0 |
| C23 |
C22 |
N21 |
C30 |
6.5 |
359.9 |
| N21 |
C22 |
C23 |
H12 |
240.3 |
241.5 |
| N21 |
C22 |
C23 |
H13 |
119.7 |
118.7 |
| H12 |
C22 |
C23 |
H13 |
239.4 |
237.2 |
| C30 |
O29 |
C23 |
H14 |
138.6 |
118.7 |
| N21 |
C30 |
O29 |
O31 |
179.8 |
179.9 |
| O28 |
C26 |
C27 |
H17 |
0.0 |
179.9 |
| O28 |
C26 |
C27 |
H18 |
120.0 |
300.0 |
| O28 |
C26 |
C27 |
H19 |
240.0 |
60.0 |
| C26 |
N25 |
C24 |
H15 |
73.5 |
60.0 |
| C26 |
N25 |
C24 |
H16 |
313.8 |
300.0 |
| C24 |
N25 |
C26 |
H24 |
180.0 |
180.0 |
| N25 |
C26 |
C27 |
H17 |
180.4 |
360.0 |
| N25 |
C26 |
C27 |
H18 |
300.4 |
120.0 |
| N25 |
C26 |
C27 |
H19 |
60.4 |
240.1 |
| C24 |
N25 |
C26 |
C27 |
180.0 |
180.0 |
| H17 |
C27 |
C26 |
H18 |
240.0 |
240.0 |
| H17 |
C27 |
C26 |
H19 |
120.0 |
119.9 |
| H18 |
C27 |
C26 |
H19 |
240.0 |
240.0 |
| C23 |
C22 |
N21 |
H12 |
119.7 |
118.6 |
| C23 |
C22 |
N21 |
H13 |
240.3 |
241.2 |
| C22 |
N21 |
C30 |
O31 |
184.6 |
180.0 |
| H12 |
C22 |
N21 |
H13 |
120.7 |
122.7 |
| C23 |
O29 |
C30 |
N21 |
345.4 |
360.0 |
| O29 |
C30 |
N21 |
O31 |
180.2 |
180.1 |
| C30 |
N21 |
C22 |
H12 |
246.8 |
241.4 |
| C30 |
N21 |
C22 |
H13 |
126.2 |
118.7 |
| N21 |
C20 |
C32 |
H20 |
0.0 |
359.6 |
| N21 |
C20 |
C19 |
H11 |
360.0 |
0.2 |
| C32 |
C20 |
C19 |
H11 |
180.1 |
179.8 |
| C20 |
C32 |
C02 |
F01 |
180.0 |
179.8 |
| C20 |
C19 |
C18 |
H10 |
180.0 |
180.1 |
| C03 |
C02 |
C32 |
F01 |
180.0 |
179.8 |
| F01 |
C02 |
C03 |
C04 |
360.0 |
0.0 |
| C32 |
C02 |
C03 |
F01 |
180.0 |
180.2 |
| C02 |
C03 |
C04 |
C07 |
54.9 |
129.9 |
| C02 |
C03 |
C04 |
C05 |
234.6 |
310.3 |
| C18 |
C03 |
C02 |
F01 |
180.2 |
180.0 |
| C04 |
C03 |
C02 |
F01 |
360.0 |
0.0 |
| C05 |
C04 |
C03 |
C07 |
179.7 |
180.3 |
| C03 |
C04 |
C07 |
C08 |
179.9 |
180.0 |
| C03 |
C04 |
C07 |
H3 |
359.9 |
0.0 |
| C03 |
C04 |
C05 |
C06 |
180.1 |
180.0 |
| C03 |
C04 |
C05 |
H1 |
0.0 |
359.9 |
| C03 |
C04 |
C07 |
C05 |
179.7 |
180.3 |
| C07 |
C04 |
C05 |
C06 |
359.7 |
0.3 |
| C07 |
C04 |
C05 |
H1 |
179.7 |
180.3 |
| C04 |
C07 |
C08 |
C09 |
359.9 |
360.0 |
| C08 |
C07 |
C04 |
H3 |
180.0 |
180.0 |
| C04 |
C07 |
C08 |
H4 |
179.9 |
180.0 |
| C03 |
C04 |
C05 |
C07 |
180.3 |
179.7 |
| C05 |
C04 |
C07 |
C08 |
0.2 |
359.7 |
| C05 |
C04 |
C07 |
H3 |
180.2 |
179.7 |
| C04 |
C05 |
C06 |
C09 |
0.2 |
0.0 |
| C06 |
C05 |
C04 |
H1 |
180.0 |
180.0 |
| C04 |
C05 |
C06 |
H2 |
180.2 |
180.0 |
| C04 |
C07 |
C08 |
H3 |
180.0 |
180.0 |
| C06 |
C09 |
C08 |
C07 |
0.0 |
0.3 |
| C07 |
C08 |
C09 |
C10 |
179.9 |
180.0 |
| C09 |
C08 |
C07 |
H4 |
180.0 |
180.0 |
| C06 |
C05 |
C04 |
C07 |
359.7 |
0.3 |
| C04 |
C05 |
C06 |
H1 |
180.0 |
180.0 |
| C05 |
C06 |
C09 |
C08 |
359.9 |
359.7 |
| C05 |
C06 |
C09 |
C10 |
180.0 |
180.0 |
| C09 |
C06 |
C05 |
H2 |
180.0 |
180.1 |
| C09 |
C08 |
C07 |
H3 |
179.9 |
180.0 |
| C07 |
C08 |
C09 |
H4 |
180.0 |
180.0 |
| C06 |
C09 |
C08 |
C10 |
180.1 |
180.3 |
| C08 |
C09 |
C06 |
H2 |
179.9 |
179.7 |
| C08 |
C09 |
C10 |
N11 |
55.2 |
270.3 |
| C08 |
C09 |
C10 |
H5 |
175.3 |
30.4 |
| C08 |
C09 |
C10 |
H6 |
295.1 |
150.3 |
| C07 |
C08 |
C09 |
C06 |
0.0 |
0.3 |
| C09 |
C06 |
C05 |
H1 |
180.2 |
180.0 |
| C05 |
C06 |
C09 |
H2 |
180.0 |
179.9 |
| C08 |
C09 |
C06 |
C10 |
179.9 |
179.7 |
| C06 |
C09 |
C08 |
H4 |
180.0 |
180.3 |
| C06 |
C09 |
C10 |
N11 |
235.2 |
90.0 |
| C06 |
C09 |
C10 |
H5 |
355.3 |
210.0 |
| C06 |
C09 |
C10 |
H6 |
115.1 |
330.0 |
| C06 |
C09 |
C10 |
C08 |
179.9 |
179.7 |
| C10 |
C09 |
C08 |
H4 |
359.9 |
360.0 |
| C10 |
C09 |
C06 |
H2 |
360.0 |
0.1 |
| C09 |
C10 |
N11 |
C12 |
192.7 |
180.0 |
| N11 |
C10 |
C09 |
H5 |
239.9 |
239.9 |
| N11 |
C10 |
C09 |
H6 |
120.1 |
120.0 |
| C09 |
C10 |
N11 |
H21 |
312.7 |
303.9 |
| H5 |
C10 |
C09 |
H6 |
240.2 |
240.0 |
| C09 |
C10 |
N11 |
H5 |
120.1 |
120.0 |
| C09 |
C10 |
N11 |
H6 |
239.9 |
240.0 |
| C10 |
N11 |
C12 |
H7 |
215.8 |
60.0 |
| C10 |
N11 |
C12 |
H8 |
335.6 |
300.0 |
| H5 |
C10 |
N11 |
H6 |
119.8 |
120.1 |
| C12 |
N11 |
C10 |
H5 |
72.6 |
60.0 |
| C12 |
N11 |
C10 |
H6 |
312.8 |
300.0 |
| C10 |
N11 |
C12 |
H21 |
120.0 |
123.9 |
| C13 |
C12 |
N11 |
H7 |
239.9 |
120.1 |
| C13 |
C12 |
N11 |
H8 |
120.1 |
240.1 |
| H7 |
C12 |
N11 |
H8 |
240.2 |
120.0 |
| N16 |
N15 |
C14 |
H9 |
180.0 |
180.0 |
| N17 |
N16 |
N15 |
H23 |
180.1 |
180.1 |
| C14 |
C13 |
C12 |
H7 |
140.5 |
215.0 |
| C14 |
C13 |
C12 |
H8 |
20.7 |
335.0 |
| N17 |
C13 |
C12 |
H7 |
320.4 |
34.7 |
| N17 |
C13 |
C12 |
H8 |
200.6 |
154.7 |
| C10 |
N11 |
C12 |
C13 |
95.7 |
180.0 |
| N11 |
C12 |
C13 |
H7 |
120.1 |
239.9 |
| N11 |
C12 |
C13 |
H8 |
239.9 |
119.9 |
| H7 |
C12 |
C13 |
H8 |
119.8 |
240.0 |
| H1 |
C05 |
C04 |
C07 |
179.7 |
180.3 |
| C04 |
C05 |
H1 |
C06 |
180.0 |
180.0 |
| H1 |
C05 |
C06 |
C09 |
180.2 |
180.0 |
| H1 |
C05 |
C06 |
H2 |
0.2 |
360.0 |
| C05 |
C06 |
H2 |
C09 |
180.0 |
180.1 |
| H2 |
C06 |
C05 |
H1 |
0.2 |
360.0 |
| H2 |
C06 |
C09 |
C08 |
179.9 |
179.7 |
| H2 |
C06 |
C09 |
C10 |
360.0 |
0.1 |
| C04 |
C07 |
H3 |
C08 |
180.0 |
180.0 |
| H3 |
C07 |
C08 |
C09 |
179.9 |
180.0 |
| H3 |
C07 |
C08 |
H4 |
359.9 |
0.0 |
| C07 |
C08 |
H4 |
C09 |
180.0 |
180.0 |
| H4 |
C08 |
C07 |
H3 |
359.9 |
0.0 |
| H4 |
C08 |
C09 |
C10 |
359.9 |
360.0 |
| C09 |
C10 |
H5 |
N11 |
239.4 |
240.0 |
| C09 |
C10 |
H5 |
H6 |
119.7 |
120.0 |
| H5 |
C10 |
N11 |
C12 |
72.6 |
60.0 |
| N11 |
C10 |
H5 |
H6 |
240.3 |
240.0 |
| H5 |
C10 |
N11 |
H21 |
192.6 |
183.9 |
| C09 |
C10 |
H6 |
N11 |
120.6 |
120.0 |
| C09 |
C10 |
H6 |
H5 |
240.3 |
240.1 |
| H6 |
C10 |
N11 |
C12 |
312.8 |
300.0 |
| N11 |
C10 |
H6 |
H5 |
119.7 |
120.1 |
| H6 |
C10 |
N11 |
H21 |
72.8 |
63.9 |
| N11 |
C12 |
H7 |
H8 |
119.7 |
240.0 |
| C13 |
C12 |
H7 |
H8 |
240.3 |
120.0 |
| N11 |
C12 |
H8 |
H7 |
240.3 |
120.0 |
| C13 |
C12 |
H8 |
H7 |
119.7 |
240.0 |
| H11 |
C19 |
C18 |
H10 |
0.0 |
0.1 |
| C23 |
C22 |
H12 |
N21 |
241.9 |
245.6 |
| C23 |
C22 |
H12 |
H13 |
120.9 |
122.9 |
| H12 |
C22 |
N21 |
C30 |
246.8 |
241.4 |
| N21 |
C22 |
H12 |
H13 |
239.0 |
237.3 |
| C23 |
C22 |
H13 |
N21 |
118.1 |
114.5 |
| C23 |
C22 |
H13 |
H12 |
239.1 |
237.1 |
| H13 |
C22 |
N21 |
C30 |
126.2 |
118.7 |
| N21 |
C22 |
H13 |
H12 |
121.0 |
122.6 |
| C24 |
C23 |
H14 |
O29 |
239.5 |
237.3 |
| H14 |
C23 |
O29 |
C30 |
138.6 |
118.7 |
| H14 |
C23 |
C22 |
N21 |
223.6 |
241.4 |
| H14 |
C23 |
C22 |
H12 |
343.3 |
359.9 |
| H14 |
C23 |
C22 |
H13 |
103.9 |
122.7 |
| H15 |
C24 |
C23 |
O29 |
238.7 |
58.5 |
| H15 |
C24 |
C23 |
H14 |
0.4 |
181.2 |
| H15 |
C24 |
N25 |
C26 |
73.5 |
60.0 |
| N25 |
C24 |
H15 |
H16 |
240.5 |
240.0 |
| H15 |
C24 |
N25 |
H24 |
253.5 |
240.0 |
| H16 |
C24 |
C23 |
O29 |
358.3 |
178.6 |
| H16 |
C24 |
C23 |
H14 |
120.1 |
301.2 |
| H16 |
C24 |
N25 |
C26 |
313.8 |
300.0 |
| N25 |
C24 |
H16 |
H15 |
119.5 |
120.0 |
| H16 |
C24 |
N25 |
H24 |
133.9 |
120.0 |
| C26 |
C27 |
H17 |
H18 |
120.0 |
120.0 |
| C26 |
C27 |
H17 |
H19 |
240.0 |
240.0 |
| H18 |
C27 |
H17 |
H19 |
120.0 |
120.0 |
| C26 |
C27 |
H18 |
H17 |
240.0 |
240.0 |
| C26 |
C27 |
H18 |
H19 |
120.0 |
120.0 |
| H17 |
C27 |
H18 |
H19 |
240.0 |
240.0 |
| C26 |
C27 |
H19 |
H17 |
120.0 |
120.0 |
| C26 |
C27 |
H19 |
H18 |
240.0 |
240.0 |
| H17 |
C27 |
H19 |
H18 |
120.0 |
120.0 |
| H20 |
C32 |
C02 |
F01 |
360.0 |
0.2 |
| C10 |
N11 |
H21 |
C12 |
239.8 |
236.1 |
| H21 |
N11 |
C10 |
H5 |
192.6 |
183.9 |
| H21 |
N11 |
C10 |
H6 |
72.8 |
63.9 |
| H21 |
N11 |
C12 |
H7 |
95.8 |
296.0 |
| H21 |
N11 |
C12 |
H8 |
215.6 |
176.0 |
| H23 |
N15 |
N16 |
N17 |
180.1 |
180.1 |
| H23 |
N15 |
C14 |
H9 |
359.9 |
359.6 |
| C24 |
N25 |
H24 |
C26 |
180.0 |
180.0 |
| H24 |
N25 |
C24 |
H15 |
253.5 |
240.0 |
| H24 |
N25 |
C24 |
H16 |
133.9 |
120.0 |