PDB Chemical Component SS3
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 SS3
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C8 |
N1 |
1.339 |
1.302 |
| N5 |
N1 |
1.346 |
1.398 |
| C19 |
N3 |
1.366 |
1.317 |
| C3 |
C4 |
1.456 |
1.409 |
| C4 |
C5 |
1.392 |
1.394 |
| C5 |
C6 |
1.428 |
1.364 |
| C1 |
C6 |
1.427 |
1.399 |
| C3 |
C8 |
1.465 |
1.460 |
| C17 |
C13 |
1.427 |
1.382 |
| C14 |
C15 |
1.415 |
1.382 |
| C26 |
C15 |
1.415 |
1.383 |
| C8 |
C9 |
1.512 |
1.507 |
| C25 |
C17 |
1.517 |
1.507 |
| C1 |
C20 |
1.515 |
1.484 |
| C20 |
C21 |
1.420 |
1.397 |
| C21 |
C22 |
1.435 |
1.389 |
| O1 |
C24 |
1.431 |
1.429 |
| C2 |
C1 |
1.431 |
1.387 |
| C3 |
C2 |
1.402 |
1.397 |
| C4 |
N5 |
1.378 |
1.371 |
| C13 |
C14 |
1.414 |
1.383 |
| C17 |
C16 |
1.421 |
1.382 |
| C22 |
C18 |
1.410 |
1.388 |
| N3 |
C18 |
1.368 |
1.319 |
| C20 |
C19 |
1.415 |
1.393 |
| C16 |
C26 |
1.419 |
1.382 |
| C22 |
O1 |
1.414 |
1.360 |
| C24 |
C23 |
1.555 |
1.529 |
| C23 |
C25 |
1.559 |
1.530 |
| C23 |
N4 |
1.461 |
1.469 |
| C2 |
H2 |
1.080 |
1.080 |
| C5 |
H5 |
1.080 |
1.080 |
| N5 |
HA |
1.000 |
0.970 |
| C9 |
H9C1 |
1.100 |
1.090 |
| C9 |
H9C2 |
1.100 |
1.090 |
| C9 |
H9C3 |
1.100 |
1.090 |
| C6 |
H6 |
1.080 |
1.080 |
| C21 |
H21 |
1.080 |
1.080 |
| C19 |
H19 |
1.080 |
1.079 |
| C18 |
H18 |
1.080 |
1.080 |
| C24 |
H241 |
1.100 |
1.090 |
| C24 |
H242 |
1.100 |
1.090 |
| C23 |
H23 |
1.100 |
1.090 |
| C25 |
H251 |
1.101 |
1.090 |
| C25 |
H252 |
1.101 |
1.090 |
| N4 |
H4N1 |
1.000 |
1.009 |
| N4 |
H4N2 |
1.000 |
1.010 |
| C13 |
H13 |
1.080 |
1.079 |
| C16 |
H16 |
1.080 |
1.080 |
| C14 |
H14 |
1.080 |
1.080 |
| C26 |
H26 |
1.080 |
1.080 |
| C15 |
H15 |
1.080 |
1.080 |
Bond Angles for SS3
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C3 |
C4 |
N5 |
103.5 |
106.7 |
| C4 |
C5 |
C6 |
119.8 |
120.1 |
| C5 |
C4 |
N5 |
136.6 |
133.6 |
| C4 |
C5 |
H5 |
120.1 |
119.9 |
| C6 |
C5 |
H5 |
120.1 |
119.9 |
| C5 |
C6 |
H6 |
119.1 |
119.6 |
| C1 |
C6 |
H6 |
119.1 |
119.7 |
| C17 |
C13 |
C14 |
120.7 |
120.0 |
| C17 |
C13 |
H13 |
119.6 |
120.0 |
| C13 |
C14 |
C15 |
119.9 |
120.0 |
| C14 |
C15 |
H15 |
120.0 |
120.0 |
| C26 |
C15 |
H15 |
120.0 |
120.0 |
| C8 |
C9 |
H9C1 |
109.5 |
109.5 |
| C8 |
C9 |
H9C2 |
109.4 |
109.4 |
| C8 |
C9 |
H9C3 |
109.5 |
109.5 |
| C1 |
C20 |
C19 |
121.9 |
120.5 |
| C20 |
C21 |
C22 |
122.0 |
118.2 |
| C21 |
C20 |
C19 |
116.6 |
119.0 |
| C20 |
C21 |
H21 |
119.0 |
120.9 |
| C21 |
C22 |
C18 |
116.3 |
119.2 |
| C21 |
C22 |
O1 |
127.0 |
120.4 |
| C22 |
C21 |
H21 |
119.0 |
120.9 |
| C22 |
O1 |
C24 |
120.5 |
117.0 |
| O1 |
C24 |
C23 |
109.0 |
109.5 |
| O1 |
C24 |
H241 |
109.6 |
109.4 |
| O1 |
C24 |
H242 |
109.7 |
109.5 |
| C3 |
C2 |
H2 |
119.1 |
120.3 |
| C4 |
N5 |
HA |
123.8 |
125.4 |
| C14 |
C13 |
H13 |
119.7 |
120.0 |
| C13 |
C14 |
H14 |
120.0 |
120.0 |
| C17 |
C16 |
C26 |
120.3 |
120.0 |
| C17 |
C16 |
H16 |
119.9 |
120.1 |
| N3 |
C18 |
C22 |
122.4 |
120.9 |
| C18 |
C22 |
O1 |
116.7 |
120.4 |
| C22 |
C18 |
H18 |
118.8 |
119.5 |
| N3 |
C18 |
H18 |
118.8 |
119.5 |
| C20 |
C19 |
H19 |
118.9 |
119.6 |
| C26 |
C16 |
H16 |
119.8 |
120.0 |
| C16 |
C26 |
H26 |
119.9 |
120.0 |
| C24 |
C23 |
C25 |
114.4 |
109.5 |
| C24 |
C23 |
N4 |
108.2 |
109.5 |
| C23 |
C24 |
H241 |
109.6 |
109.5 |
| C23 |
C24 |
H242 |
109.8 |
109.5 |
| C24 |
C23 |
H23 |
106.9 |
109.5 |
| C25 |
C23 |
N4 |
109.3 |
109.5 |
| C25 |
C23 |
H23 |
105.8 |
109.5 |
| C23 |
C25 |
H251 |
107.8 |
109.5 |
| C23 |
C25 |
H252 |
106.7 |
109.5 |
| N4 |
C23 |
H23 |
112.3 |
109.5 |
| C23 |
N4 |
H4N1 |
109.5 |
111.0 |
| C23 |
N4 |
H4N2 |
109.5 |
111.0 |
| H9C1 |
C9 |
H9C2 |
109.5 |
109.5 |
| H9C1 |
C9 |
H9C3 |
109.5 |
109.5 |
| H9C2 |
C9 |
H9C3 |
109.5 |
109.4 |
| H241 |
C24 |
H242 |
109.1 |
109.4 |
| H251 |
C25 |
H252 |
113.5 |
109.4 |
| H4N1 |
N4 |
H4N2 |
109.5 |
111.0 |
Torsion Angles for SS3
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C19 |
N3 |
C18 |
H18 |
180.2 |
180.0 |
| C5 |
C4 |
C3 |
N5 |
180.0 |
180.0 |
| C3 |
C4 |
C5 |
H5 |
180.0 |
180.0 |
| C3 |
C4 |
N5 |
HA |
179.9 |
180.1 |
| C3 |
C4 |
C5 |
N5 |
180.0 |
180.0 |
| C6 |
C5 |
C4 |
H5 |
180.0 |
180.0 |
| C4 |
C5 |
C6 |
H6 |
180.0 |
180.0 |
| C5 |
C4 |
N5 |
HA |
359.9 |
0.1 |
| C6 |
C5 |
C4 |
N5 |
180.0 |
180.0 |
| C4 |
C5 |
C6 |
H5 |
180.0 |
180.0 |
| C1 |
C6 |
C5 |
H6 |
180.0 |
180.1 |
| C1 |
C6 |
C5 |
H5 |
180.0 |
180.0 |
| C5 |
C6 |
C1 |
H6 |
180.0 |
179.9 |
| C8 |
C3 |
C4 |
N5 |
0.1 |
360.0 |
| C3 |
C8 |
C9 |
H9C1 |
281.7 |
270.1 |
| C3 |
C8 |
C9 |
H9C2 |
41.7 |
30.1 |
| C3 |
C8 |
C9 |
H9C3 |
161.7 |
150.0 |
| C17 |
C13 |
C14 |
C15 |
0.1 |
359.8 |
| C14 |
C13 |
C17 |
H13 |
180.0 |
180.2 |
| C17 |
C13 |
C14 |
H14 |
180.1 |
179.7 |
| C26 |
C15 |
C14 |
H15 |
180.0 |
180.4 |
| C15 |
C14 |
C13 |
H13 |
180.1 |
180.0 |
| C13 |
C14 |
C15 |
H14 |
180.0 |
180.0 |
| C14 |
C15 |
C26 |
H15 |
180.0 |
179.6 |
| H9C1 |
C9 |
C8 |
H9C2 |
240.0 |
240.0 |
| H9C1 |
C9 |
C8 |
H9C3 |
120.0 |
120.0 |
| H9C2 |
C9 |
C8 |
H9C3 |
240.0 |
240.1 |
| C25 |
C17 |
C13 |
H13 |
359.9 |
359.8 |
| C25 |
C17 |
C16 |
H16 |
0.1 |
0.0 |
| C20 |
C1 |
C6 |
H6 |
0.1 |
0.1 |
| C21 |
C20 |
C1 |
C19 |
179.8 |
180.0 |
| C1 |
C20 |
C21 |
H21 |
0.3 |
360.0 |
| C1 |
C20 |
C19 |
H19 |
359.8 |
360.0 |
| C1 |
C20 |
C21 |
C19 |
180.2 |
180.0 |
| C20 |
C21 |
C22 |
C18 |
359.9 |
0.0 |
| C20 |
C21 |
C22 |
O1 |
179.7 |
180.0 |
| C22 |
C21 |
C20 |
H21 |
180.0 |
180.0 |
| C21 |
C20 |
C19 |
H19 |
179.9 |
180.0 |
| C22 |
C21 |
C20 |
C19 |
0.2 |
360.0 |
| C20 |
C21 |
C22 |
H21 |
180.0 |
180.0 |
| C21 |
C22 |
O1 |
C24 |
21.0 |
180.0 |
| N3 |
C18 |
C22 |
C21 |
359.9 |
360.0 |
| C18 |
C22 |
C21 |
O1 |
180.2 |
180.1 |
| C21 |
C22 |
C18 |
H18 |
179.9 |
180.0 |
| C18 |
C22 |
O1 |
C24 |
200.8 |
360.0 |
| O1 |
C24 |
C23 |
C25 |
60.7 |
185.0 |
| O1 |
C24 |
C23 |
N4 |
298.7 |
65.0 |
| C23 |
C24 |
O1 |
H241 |
240.0 |
240.0 |
| C23 |
C24 |
O1 |
H242 |
120.2 |
120.0 |
| O1 |
C24 |
C23 |
H23 |
177.5 |
305.0 |
| H241 |
C24 |
O1 |
H242 |
240.2 |
240.0 |
| C2 |
C1 |
C6 |
H6 |
179.9 |
180.0 |
| C2 |
C1 |
C20 |
C19 |
213.3 |
0.1 |
| C2 |
C3 |
C4 |
N5 |
180.0 |
180.0 |
| N5 |
C4 |
C5 |
C6 |
180.0 |
180.0 |
| N5 |
C4 |
C5 |
H5 |
360.0 |
0.0 |
| C17 |
C13 |
C14 |
H13 |
180.0 |
179.8 |
| C13 |
C14 |
C15 |
H15 |
180.1 |
180.0 |
| C16 |
C17 |
C13 |
C14 |
359.8 |
0.1 |
| C16 |
C17 |
C13 |
H13 |
179.8 |
179.8 |
| C26 |
C16 |
C17 |
H16 |
180.0 |
180.0 |
| C17 |
C16 |
C26 |
H26 |
180.1 |
180.0 |
| C21 |
C22 |
C18 |
O1 |
179.8 |
179.9 |
| C18 |
C22 |
C21 |
H21 |
179.9 |
180.0 |
| N3 |
C18 |
C22 |
H18 |
180.0 |
180.0 |
| C21 |
C22 |
C18 |
N3 |
359.9 |
360.0 |
| N3 |
C18 |
C22 |
O1 |
180.1 |
180.0 |
| C22 |
C18 |
N3 |
H18 |
180.0 |
180.0 |
| C19 |
C20 |
C21 |
C22 |
0.2 |
360.0 |
| C19 |
C20 |
C21 |
H21 |
180.2 |
180.0 |
| C16 |
C26 |
C15 |
H15 |
179.8 |
180.0 |
| C17 |
C16 |
C26 |
H16 |
180.0 |
180.0 |
| C21 |
C22 |
O1 |
C18 |
180.2 |
180.1 |
| O1 |
C22 |
C21 |
H21 |
359.7 |
360.0 |
| C22 |
O1 |
C24 |
C23 |
208.8 |
180.0 |
| C22 |
O1 |
C24 |
H241 |
328.8 |
300.0 |
| C22 |
O1 |
C24 |
H242 |
88.6 |
60.0 |
| O1 |
C22 |
C18 |
H18 |
0.1 |
0.1 |
| O1 |
C24 |
C23 |
H241 |
120.0 |
120.0 |
| O1 |
C24 |
C23 |
H242 |
239.8 |
240.0 |
| C25 |
C23 |
C24 |
N4 |
122.1 |
120.0 |
| C25 |
C23 |
C24 |
H23 |
243.3 |
240.0 |
| C24 |
C23 |
C25 |
H251 |
299.4 |
55.0 |
| C24 |
C23 |
C25 |
H252 |
177.2 |
295.0 |
| N4 |
C23 |
C24 |
H23 |
121.2 |
120.0 |
| C24 |
C23 |
N4 |
H4N1 |
279.7 |
296.0 |
| C24 |
C23 |
N4 |
H4N2 |
39.7 |
60.0 |
| H241 |
C24 |
C23 |
H242 |
119.8 |
120.0 |
| C24 |
C23 |
C25 |
N4 |
238.5 |
240.0 |
| C25 |
C23 |
C24 |
H241 |
300.8 |
65.0 |
| C25 |
C23 |
C24 |
H242 |
180.9 |
305.0 |
| C24 |
C23 |
C25 |
H23 |
117.4 |
120.0 |
| N4 |
C23 |
C25 |
H23 |
238.9 |
240.0 |
| C25 |
C23 |
N4 |
H4N1 |
154.5 |
176.0 |
| C25 |
C23 |
N4 |
H4N2 |
274.5 |
300.0 |
| H251 |
C25 |
C23 |
H252 |
122.3 |
120.0 |
| C24 |
C23 |
N4 |
C25 |
125.2 |
120.0 |
| N4 |
C23 |
C24 |
H241 |
178.7 |
305.0 |
| N4 |
C23 |
C24 |
H242 |
58.9 |
185.0 |
| C24 |
C23 |
N4 |
H23 |
242.2 |
240.0 |
| C25 |
C23 |
N4 |
H23 |
117.1 |
120.0 |
| N4 |
C23 |
C25 |
H251 |
60.9 |
175.0 |
| N4 |
C23 |
C25 |
H252 |
298.6 |
55.0 |
| H4N1 |
N4 |
C23 |
H4N2 |
240.0 |
236.1 |
| C4 |
C5 |
H5 |
C6 |
180.0 |
180.0 |
| H5 |
C5 |
C4 |
N5 |
360.0 |
0.0 |
| H5 |
C5 |
C6 |
H6 |
0.0 |
360.0 |
| C8 |
C9 |
H9C1 |
H9C2 |
120.0 |
120.0 |
| C8 |
C9 |
H9C1 |
H9C3 |
240.0 |
239.9 |
| H9C2 |
C9 |
H9C1 |
H9C3 |
120.0 |
119.9 |
| C8 |
C9 |
H9C2 |
H9C1 |
240.0 |
240.0 |
| C8 |
C9 |
H9C2 |
H9C3 |
120.0 |
120.0 |
| H9C1 |
C9 |
H9C2 |
H9C3 |
240.0 |
240.0 |
| C8 |
C9 |
H9C3 |
H9C1 |
120.0 |
120.1 |
| C8 |
C9 |
H9C3 |
H9C2 |
240.0 |
240.0 |
| H9C1 |
C9 |
H9C3 |
H9C2 |
120.0 |
120.0 |
| H6 |
C6 |
C5 |
H5 |
0.0 |
360.0 |
| C20 |
C21 |
H21 |
C22 |
180.0 |
180.0 |
| H21 |
C21 |
C20 |
C19 |
180.2 |
180.0 |
| H21 |
C21 |
C22 |
C18 |
179.9 |
180.0 |
| H21 |
C21 |
C22 |
O1 |
359.7 |
360.0 |
| N3 |
C18 |
H18 |
C22 |
180.0 |
180.0 |
| H18 |
C18 |
C22 |
O1 |
0.1 |
0.1 |
| O1 |
C24 |
H241 |
C23 |
240.4 |
240.0 |
| O1 |
C24 |
H241 |
H242 |
120.2 |
120.0 |
| H241 |
C24 |
C23 |
C25 |
300.8 |
65.0 |
| H241 |
C24 |
C23 |
N4 |
178.7 |
305.0 |
| C23 |
C24 |
H241 |
H242 |
239.8 |
240.0 |
| H241 |
C24 |
C23 |
H23 |
57.5 |
185.0 |
| O1 |
C24 |
H242 |
C23 |
119.7 |
120.0 |
| O1 |
C24 |
H242 |
H241 |
239.8 |
240.0 |
| H242 |
C24 |
C23 |
C25 |
180.9 |
305.0 |
| H242 |
C24 |
C23 |
N4 |
58.9 |
185.0 |
| C23 |
C24 |
H242 |
H241 |
120.1 |
120.0 |
| H242 |
C24 |
C23 |
H23 |
297.7 |
65.0 |
| C24 |
C23 |
H23 |
C25 |
237.7 |
240.0 |
| C24 |
C23 |
H23 |
N4 |
118.5 |
120.0 |
| H23 |
C23 |
C24 |
H241 |
57.5 |
185.0 |
| H23 |
C23 |
C24 |
H242 |
297.7 |
65.0 |
| C25 |
C23 |
H23 |
N4 |
240.9 |
240.0 |
| H23 |
C23 |
C25 |
H251 |
182.0 |
295.0 |
| H23 |
C23 |
C25 |
H252 |
59.8 |
175.0 |
| H23 |
C23 |
N4 |
H4N1 |
37.4 |
56.1 |
| H23 |
C23 |
N4 |
H4N2 |
157.4 |
180.0 |
| H251 |
C25 |
C23 |
N4 |
60.9 |
175.0 |
| H251 |
C25 |
C23 |
H23 |
182.0 |
295.0 |
| C23 |
C25 |
H251 |
H252 |
242.1 |
240.0 |
| H252 |
C25 |
C23 |
N4 |
298.6 |
55.0 |
| H252 |
C25 |
C23 |
H23 |
59.8 |
175.0 |
| C23 |
C25 |
H252 |
H251 |
118.6 |
120.0 |
| H4N1 |
N4 |
C23 |
H23 |
37.4 |
56.1 |
| C23 |
N4 |
H4N1 |
H4N2 |
120.0 |
124.0 |
| H4N2 |
N4 |
C23 |
H23 |
157.4 |
180.0 |
| C23 |
N4 |
H4N2 |
H4N1 |
240.0 |
236.0 |
| C17 |
C13 |
H13 |
C14 |
180.0 |
180.2 |
| H13 |
C13 |
C14 |
C15 |
180.1 |
180.0 |
| H13 |
C13 |
C14 |
H14 |
0.1 |
359.9 |
| C17 |
C16 |
H16 |
C26 |
180.0 |
180.0 |
| H16 |
C16 |
C26 |
H26 |
0.1 |
359.9 |
| C13 |
C14 |
H14 |
C15 |
180.0 |
180.0 |
| H14 |
C14 |
C15 |
H15 |
0.1 |
0.0 |
| H14 |
C14 |
C13 |
H13 |
0.1 |
359.9 |
| H26 |
C26 |
C15 |
H15 |
359.8 |
0.3 |
| H26 |
C26 |
C16 |
H16 |
0.1 |
359.9 |