PDB Chemical Component 4DN
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 4DN
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C28 |
C29 |
1.398 |
1.376 |
| C28 |
C27 |
1.374 |
1.394 |
| C29 |
C30 |
1.406 |
1.388 |
| C27 |
N26 |
1.365 |
1.371 |
| C27 |
C23 |
1.387 |
1.407 |
| N26 |
N25 |
1.361 |
1.400 |
| C30 |
C22 |
1.402 |
1.382 |
| C23 |
C22 |
1.406 |
1.407 |
| C23 |
C24 |
1.430 |
1.415 |
| N25 |
C24 |
1.319 |
1.302 |
| C22 |
N19 |
1.447 |
1.396 |
| C16 |
C15 |
1.371 |
1.382 |
| C16 |
C18 |
1.388 |
1.397 |
| C15 |
N14 |
1.336 |
1.324 |
| N19 |
C18 |
1.405 |
1.386 |
| N19 |
C20 |
1.462 |
1.465 |
| C18 |
N17 |
1.343 |
1.329 |
| C20 |
C21 |
1.539 |
1.530 |
| N14 |
C13 |
1.331 |
1.326 |
| N17 |
C13 |
1.334 |
1.325 |
| C21 |
C32 |
1.521 |
1.530 |
| O31 |
C32 |
1.418 |
1.429 |
| C13 |
N12 |
1.378 |
1.385 |
| N12 |
C11 |
1.386 |
1.398 |
| C11 |
C10 |
1.399 |
1.391 |
| C11 |
C9 |
1.403 |
1.389 |
| C10 |
C6 |
1.377 |
1.375 |
| O3 |
S2 |
1.428 |
1.421 |
| C9 |
C8 |
1.397 |
1.377 |
| C6 |
S2 |
1.730 |
1.772 |
| C6 |
C7 |
1.366 |
1.383 |
| S2 |
O1 |
1.435 |
1.421 |
| S2 |
N4 |
1.653 |
1.669 |
| C8 |
C7 |
1.385 |
1.395 |
| C7 |
C5 |
1.527 |
1.502 |
| N4 |
C5 |
1.467 |
1.467 |
| C10 |
H1 |
1.080 |
1.080 |
| C9 |
H2 |
1.080 |
1.080 |
| C8 |
H3 |
1.080 |
1.080 |
| C5 |
H4 |
1.100 |
1.090 |
| C5 |
H5 |
1.100 |
1.090 |
| N4 |
H6 |
1.000 |
0.971 |
| N12 |
H7 |
1.000 |
0.970 |
| C16 |
H8 |
1.080 |
1.080 |
| C15 |
H9 |
1.080 |
1.080 |
| C20 |
H10 |
1.100 |
1.090 |
| C20 |
H11 |
1.100 |
1.090 |
| C21 |
H12 |
1.100 |
1.090 |
| C21 |
H13 |
1.101 |
1.090 |
| C32 |
H14 |
1.100 |
1.090 |
| C32 |
H15 |
1.100 |
1.091 |
| O31 |
H16 |
0.950 |
0.967 |
| C30 |
H17 |
1.080 |
1.080 |
| C29 |
H18 |
1.080 |
1.080 |
| C28 |
H19 |
1.080 |
1.079 |
| N26 |
H20 |
1.000 |
0.970 |
| C24 |
H21 |
1.080 |
1.079 |
Bond Angles for 4DN
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C28 |
C29 |
H18 |
119.8 |
119.7 |
| C28 |
C27 |
N26 |
131.4 |
133.7 |
| C28 |
C27 |
C23 |
123.0 |
119.7 |
| C27 |
C28 |
H19 |
121.1 |
119.9 |
| C29 |
C30 |
H17 |
119.6 |
119.8 |
| C23 |
C27 |
N26 |
105.6 |
106.6 |
| C27 |
N26 |
N25 |
112.7 |
108.1 |
| C27 |
N26 |
H20 |
123.7 |
125.9 |
| C27 |
C23 |
C24 |
105.4 |
107.0 |
| N26 |
N25 |
C24 |
105.6 |
109.7 |
| N25 |
N26 |
H20 |
123.7 |
126.0 |
| C23 |
C24 |
N25 |
110.7 |
108.6 |
| C23 |
C24 |
H21 |
124.6 |
125.7 |
| N25 |
C24 |
H21 |
124.6 |
125.7 |
| C16 |
C15 |
N14 |
123.0 |
119.3 |
| C15 |
C16 |
H8 |
121.5 |
120.8 |
| C16 |
C15 |
H9 |
118.5 |
120.3 |
| N14 |
C15 |
H9 |
118.5 |
120.4 |
| N19 |
C20 |
C21 |
108.3 |
109.5 |
| N19 |
C20 |
H10 |
109.7 |
109.5 |
| N19 |
C20 |
H11 |
109.8 |
109.5 |
| C20 |
C21 |
C32 |
113.3 |
109.5 |
| C21 |
C20 |
H10 |
109.8 |
109.5 |
| C21 |
C20 |
H11 |
109.8 |
109.4 |
| C20 |
C21 |
H12 |
108.5 |
109.5 |
| C20 |
C21 |
H13 |
108.5 |
109.5 |
| C32 |
C21 |
H12 |
108.5 |
109.5 |
| C32 |
C21 |
H13 |
108.5 |
109.5 |
| C21 |
C32 |
H14 |
110.0 |
109.5 |
| C21 |
C32 |
H15 |
109.9 |
109.5 |
| O31 |
C32 |
H14 |
109.9 |
109.5 |
| O31 |
C32 |
H15 |
109.9 |
109.5 |
| C13 |
N12 |
H7 |
116.0 |
119.9 |
| C11 |
C10 |
H1 |
120.6 |
120.1 |
| C11 |
C9 |
C8 |
121.9 |
120.5 |
| C11 |
C9 |
H2 |
119.0 |
119.8 |
| C10 |
C6 |
C7 |
124.1 |
121.8 |
| O3 |
S2 |
O1 |
116.7 |
124.0 |
| O3 |
S2 |
N4 |
109.5 |
107.3 |
| C9 |
C8 |
C7 |
119.3 |
120.7 |
| C8 |
C9 |
H2 |
119.0 |
119.8 |
| C9 |
C8 |
H3 |
120.3 |
119.6 |
| C6 |
S2 |
N4 |
92.7 |
101.3 |
| C6 |
C7 |
C8 |
118.2 |
118.1 |
| C6 |
C7 |
C5 |
113.0 |
113.3 |
| O1 |
S2 |
N4 |
112.1 |
107.3 |
| S2 |
N4 |
C5 |
112.4 |
104.8 |
| S2 |
N4 |
H6 |
108.7 |
127.5 |
| C8 |
C7 |
C5 |
128.9 |
128.6 |
| C7 |
C8 |
H3 |
120.3 |
119.7 |
| C7 |
C5 |
H4 |
110.8 |
108.4 |
| C7 |
C5 |
H5 |
110.9 |
108.5 |
| N4 |
C5 |
H4 |
110.9 |
108.5 |
| N4 |
C5 |
H5 |
110.9 |
108.2 |
| H4 |
C5 |
H5 |
109.5 |
108.4 |
| H10 |
C20 |
H11 |
109.5 |
109.5 |
| H12 |
C21 |
H13 |
109.5 |
109.5 |
| H14 |
C32 |
H15 |
109.5 |
109.4 |
Torsion Angles for 4DN
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C28 |
C29 |
C30 |
H17 |
181.2 |
180.0 |
| C27 |
C28 |
C29 |
H18 |
179.3 |
180.0 |
| C23 |
C27 |
C28 |
N26 |
181.2 |
179.7 |
| C28 |
C27 |
N26 |
N25 |
180.2 |
180.0 |
| C28 |
C27 |
N26 |
H20 |
0.2 |
359.9 |
| C28 |
C27 |
C23 |
C24 |
179.5 |
180.0 |
| C28 |
C27 |
N26 |
C23 |
181.0 |
179.7 |
| N26 |
C27 |
C28 |
H19 |
359.3 |
0.1 |
| N26 |
C27 |
C23 |
C24 |
0.4 |
359.8 |
| C27 |
N26 |
N25 |
C24 |
0.9 |
359.8 |
| N25 |
N26 |
C27 |
H20 |
180.0 |
180.1 |
| C28 |
C27 |
C23 |
N26 |
179.1 |
180.2 |
| C23 |
C27 |
C28 |
H19 |
180.4 |
179.8 |
| C23 |
C27 |
N26 |
N25 |
359.2 |
0.3 |
| C23 |
C27 |
N26 |
H20 |
179.2 |
180.2 |
| C27 |
C23 |
C24 |
N25 |
0.1 |
0.1 |
| C27 |
C23 |
C24 |
H21 |
180.1 |
180.0 |
| C27 |
N26 |
N25 |
H20 |
180.0 |
179.9 |
| C23 |
C24 |
N25 |
N26 |
359.4 |
0.1 |
| N26 |
N25 |
C24 |
H21 |
179.4 |
180.2 |
| C24 |
C23 |
C27 |
N26 |
0.4 |
359.8 |
| N26 |
N25 |
C24 |
C23 |
359.4 |
0.1 |
| N25 |
C24 |
C23 |
H21 |
180.0 |
180.1 |
| C24 |
N25 |
N26 |
H20 |
180.9 |
179.9 |
| C23 |
C24 |
N25 |
H21 |
180.0 |
179.9 |
| C22 |
N19 |
C20 |
H10 |
31.1 |
30.0 |
| C22 |
N19 |
C20 |
H11 |
151.4 |
150.1 |
| N14 |
C15 |
C16 |
H9 |
180.0 |
179.8 |
| N14 |
C15 |
C16 |
H8 |
180.0 |
180.0 |
| C16 |
C15 |
N14 |
H9 |
180.0 |
180.2 |
| N19 |
C20 |
C21 |
C32 |
160.0 |
180.0 |
| C21 |
C20 |
N19 |
H10 |
240.2 |
240.0 |
| C21 |
C20 |
N19 |
H11 |
119.8 |
119.9 |
| N19 |
C20 |
C21 |
H12 |
280.6 |
300.1 |
| N19 |
C20 |
C21 |
H13 |
39.4 |
60.1 |
| H10 |
C20 |
N19 |
H11 |
239.6 |
240.0 |
| N19 |
C20 |
C21 |
H10 |
119.8 |
120.1 |
| N19 |
C20 |
C21 |
H11 |
240.2 |
240.1 |
| C32 |
C21 |
C20 |
H12 |
239.4 |
240.0 |
| C32 |
C21 |
C20 |
H13 |
120.6 |
120.0 |
| C20 |
C21 |
C32 |
H14 |
2.5 |
300.1 |
| C20 |
C21 |
C32 |
H15 |
123.1 |
60.0 |
| H10 |
C20 |
C21 |
H11 |
120.4 |
120.0 |
| H12 |
C21 |
C20 |
H13 |
241.2 |
240.0 |
| N14 |
C13 |
N12 |
H7 |
0.0 |
174.1 |
| N17 |
C13 |
N12 |
H7 |
181.5 |
354.4 |
| C32 |
C21 |
C20 |
H10 |
40.2 |
60.0 |
| C32 |
C21 |
C20 |
H11 |
279.8 |
300.0 |
| C20 |
C21 |
C32 |
H12 |
120.6 |
120.0 |
| C20 |
C21 |
C32 |
H13 |
239.4 |
240.0 |
| O31 |
C32 |
C21 |
H14 |
240.3 |
240.0 |
| O31 |
C32 |
C21 |
H15 |
119.7 |
120.0 |
| H12 |
C21 |
C32 |
H13 |
118.9 |
120.0 |
| H14 |
C32 |
C21 |
H15 |
239.4 |
240.0 |
| O31 |
C32 |
C21 |
H12 |
122.2 |
60.0 |
| O31 |
C32 |
C21 |
H13 |
3.4 |
300.0 |
| C21 |
C32 |
O31 |
H14 |
119.7 |
120.0 |
| C21 |
C32 |
O31 |
H15 |
240.3 |
240.0 |
| H14 |
C32 |
O31 |
H15 |
120.5 |
119.9 |
| N12 |
C11 |
C10 |
H1 |
0.7 |
360.0 |
| N12 |
C11 |
C9 |
H2 |
359.8 |
0.0 |
| C11 |
C10 |
C6 |
C7 |
359.3 |
359.9 |
| C9 |
C11 |
C10 |
H1 |
180.7 |
180.0 |
| C11 |
C9 |
C8 |
C7 |
359.6 |
359.9 |
| C8 |
C9 |
C11 |
H2 |
180.0 |
180.1 |
| C11 |
C9 |
C8 |
H3 |
179.6 |
180.0 |
| C10 |
C6 |
S2 |
N4 |
165.6 |
180.0 |
| C10 |
C6 |
C7 |
C8 |
0.1 |
0.0 |
| C10 |
C6 |
C7 |
C5 |
180.2 |
180.0 |
| C6 |
S2 |
O3 |
N4 |
101.5 |
108.2 |
| O1 |
S2 |
O3 |
N4 |
231.3 |
234.0 |
| O3 |
S2 |
N4 |
C5 |
140.0 |
112.2 |
| O3 |
S2 |
N4 |
H6 |
260.5 |
292.2 |
| C11 |
C9 |
C8 |
H2 |
180.0 |
179.9 |
| C6 |
C7 |
C8 |
C9 |
0.5 |
0.0 |
| C9 |
C8 |
C7 |
C5 |
180.3 |
180.0 |
| C7 |
C8 |
C9 |
H3 |
180.0 |
179.9 |
| O3 |
S2 |
C6 |
N4 |
247.6 |
247.6 |
| O1 |
S2 |
C6 |
N4 |
114.9 |
112.4 |
| C6 |
S2 |
N4 |
C5 |
24.9 |
359.9 |
| C6 |
S2 |
N4 |
H6 |
145.4 |
179.9 |
| C9 |
C8 |
C7 |
C6 |
0.5 |
0.0 |
| C7 |
C6 |
S2 |
N4 |
345.8 |
0.1 |
| C8 |
C7 |
C6 |
C5 |
179.8 |
180.0 |
| C6 |
C7 |
C8 |
H3 |
180.5 |
180.0 |
| C6 |
C7 |
C5 |
H4 |
135.6 |
121.4 |
| C6 |
C7 |
C5 |
H5 |
257.4 |
238.9 |
| O3 |
S2 |
O1 |
N4 |
127.4 |
126.0 |
| C6 |
S2 |
O1 |
N4 |
258.0 |
251.8 |
| O1 |
S2 |
N4 |
C5 |
271.1 |
247.5 |
| O1 |
S2 |
N4 |
H6 |
31.6 |
67.5 |
| O3 |
S2 |
N4 |
O1 |
228.9 |
224.7 |
| S2 |
N4 |
C5 |
H4 |
213.7 |
238.8 |
| S2 |
N4 |
C5 |
H5 |
91.9 |
121.3 |
| C7 |
C8 |
C9 |
H2 |
179.6 |
180.0 |
| C9 |
C8 |
C7 |
H3 |
180.0 |
180.1 |
| C6 |
C7 |
C8 |
C5 |
180.2 |
180.0 |
| C8 |
C7 |
C5 |
H4 |
315.8 |
301.4 |
| C8 |
C7 |
C5 |
H5 |
77.5 |
58.9 |
| C6 |
C7 |
C5 |
C8 |
179.8 |
180.0 |
| S2 |
N4 |
C5 |
C7 |
332.8 |
0.1 |
| C5 |
C7 |
C8 |
H3 |
0.3 |
360.0 |
| N4 |
C5 |
C7 |
H4 |
240.9 |
238.6 |
| N4 |
C5 |
C7 |
H5 |
119.1 |
121.1 |
| H4 |
C5 |
C7 |
H5 |
238.2 |
242.5 |
| S2 |
N4 |
C5 |
H6 |
120.4 |
180.0 |
| C7 |
C5 |
N4 |
H4 |
119.1 |
121.3 |
| C7 |
C5 |
N4 |
H5 |
240.9 |
238.8 |
| H4 |
C5 |
N4 |
H5 |
121.8 |
117.4 |
| H1 |
C10 |
C6 |
C7 |
179.3 |
179.9 |
| C11 |
C9 |
H2 |
C8 |
180.0 |
180.1 |
| H2 |
C9 |
C8 |
C7 |
179.6 |
180.0 |
| H2 |
C9 |
C8 |
H3 |
359.6 |
0.1 |
| C9 |
C8 |
H3 |
C7 |
180.0 |
179.9 |
| H3 |
C8 |
C9 |
H2 |
359.6 |
0.1 |
| H3 |
C8 |
C7 |
C5 |
0.3 |
360.0 |
| C7 |
C5 |
H4 |
H5 |
122.6 |
117.6 |
| N4 |
C5 |
H4 |
H5 |
237.4 |
242.7 |
| C7 |
C5 |
H5 |
H4 |
237.4 |
242.4 |
| N4 |
C5 |
H5 |
H4 |
122.6 |
117.5 |
| S2 |
N4 |
H6 |
C5 |
237.4 |
180.0 |
| H6 |
N4 |
C5 |
H4 |
93.3 |
58.8 |
| H6 |
N4 |
C5 |
H5 |
331.5 |
301.3 |
| H8 |
C16 |
C15 |
N14 |
180.0 |
180.0 |
| H8 |
C16 |
C15 |
H9 |
359.9 |
0.2 |
| C16 |
C15 |
H9 |
N14 |
180.0 |
179.8 |
| H9 |
C15 |
C16 |
H8 |
359.9 |
0.2 |
| N19 |
C20 |
H10 |
C21 |
241.1 |
240.0 |
| N19 |
C20 |
H10 |
H11 |
120.5 |
120.0 |
| H10 |
C20 |
C21 |
C32 |
40.2 |
60.0 |
| C21 |
C20 |
H10 |
H11 |
239.4 |
240.0 |
| H10 |
C20 |
C21 |
H12 |
160.8 |
180.0 |
| H10 |
C20 |
C21 |
H13 |
279.6 |
300.0 |
| N19 |
C20 |
H11 |
C21 |
118.9 |
120.0 |
| N19 |
C20 |
H11 |
H10 |
239.5 |
239.9 |
| H11 |
C20 |
C21 |
C32 |
279.8 |
300.0 |
| C21 |
C20 |
H11 |
H10 |
120.6 |
120.0 |
| H11 |
C20 |
C21 |
H12 |
40.4 |
60.0 |
| H11 |
C20 |
C21 |
H13 |
159.2 |
180.0 |
| C20 |
C21 |
H12 |
C32 |
236.5 |
240.0 |
| H12 |
C21 |
C20 |
H10 |
160.8 |
180.0 |
| H12 |
C21 |
C20 |
H11 |
40.4 |
60.0 |
| C20 |
C21 |
H12 |
H13 |
118.2 |
120.0 |
| C32 |
C21 |
H12 |
H13 |
241.7 |
240.0 |
| H12 |
C21 |
C32 |
H14 |
242.0 |
180.1 |
| H12 |
C21 |
C32 |
H15 |
2.5 |
300.0 |
| C20 |
C21 |
H13 |
C32 |
123.5 |
120.0 |
| H13 |
C21 |
C20 |
H10 |
279.6 |
300.0 |
| H13 |
C21 |
C20 |
H11 |
159.2 |
180.0 |
| C20 |
C21 |
H13 |
H12 |
241.8 |
240.0 |
| C32 |
C21 |
H13 |
H12 |
118.3 |
120.0 |
| H13 |
C21 |
C32 |
H14 |
123.1 |
60.0 |
| H13 |
C21 |
C32 |
H15 |
243.7 |
180.0 |
| H14 |
C32 |
C21 |
H12 |
242.0 |
180.1 |
| H14 |
C32 |
C21 |
H13 |
123.1 |
60.0 |
| C21 |
C32 |
H14 |
H15 |
120.9 |
120.0 |
| O31 |
C32 |
H14 |
H15 |
239.2 |
240.0 |
| H15 |
C32 |
C21 |
H12 |
2.5 |
300.0 |
| H15 |
C32 |
C21 |
H13 |
243.7 |
180.0 |
| C21 |
C32 |
H15 |
H14 |
239.1 |
240.0 |
| O31 |
C32 |
H15 |
H14 |
120.8 |
120.0 |
| H16 |
O31 |
C32 |
H14 |
60.3 |
60.0 |
| H16 |
O31 |
C32 |
H15 |
299.7 |
300.0 |
| H18 |
C29 |
C30 |
H17 |
1.2 |
0.0 |
| H19 |
C28 |
C29 |
H18 |
359.3 |
359.9 |
| H19 |
C28 |
C27 |
N26 |
359.3 |
0.1 |
| H19 |
C28 |
C27 |
C23 |
180.4 |
179.8 |
| C27 |
N26 |
H20 |
N25 |
180.0 |
180.1 |
| H20 |
N26 |
N25 |
C24 |
180.9 |
179.9 |
| C23 |
C24 |
H21 |
N25 |
180.0 |
180.1 |