PDB Chemical Component 5DE
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 5DE
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
O19 |
C15 |
1.209 |
1.216 |
C15 |
O16 |
1.333 |
1.347 |
C15 |
C7 |
1.501 |
1.472 |
O16 |
C17 |
1.442 |
1.452 |
C17 |
C18 |
1.538 |
1.529 |
C17 |
H171 |
1.115 |
1.089 |
C17 |
H172 |
1.115 |
1.090 |
C18 |
H181 |
1.115 |
1.090 |
C18 |
H182 |
1.115 |
1.090 |
C18 |
H183 |
1.115 |
1.090 |
C7 |
C8 |
1.397 |
1.413 |
C7 |
C5 |
1.396 |
1.382 |
C8 |
N10 |
1.337 |
1.304 |
C8 |
C9 |
1.521 |
1.507 |
N10 |
N4 |
1.326 |
1.400 |
C9 |
H91 |
1.115 |
1.091 |
C9 |
H92 |
1.115 |
1.090 |
C9 |
H93 |
1.115 |
1.090 |
C5 |
C6 |
1.523 |
1.508 |
C5 |
N4 |
1.339 |
1.343 |
C6 |
H61 |
1.115 |
1.090 |
C6 |
H62 |
1.115 |
1.090 |
C6 |
H63 |
1.115 |
1.090 |
N4 |
C3 |
1.341 |
1.402 |
C3 |
C2 |
1.408 |
1.388 |
C3 |
C11 |
1.406 |
1.388 |
C2 |
C1 |
1.404 |
1.380 |
C2 |
H2 |
1.103 |
1.080 |
C1 |
C13 |
1.419 |
1.389 |
C1 |
H1 |
1.103 |
1.080 |
C11 |
C12 |
1.392 |
1.381 |
C11 |
H11 |
1.103 |
1.080 |
C12 |
C13 |
1.392 |
1.388 |
C12 |
H12 |
1.103 |
1.080 |
C13 |
N14 |
1.346 |
1.397 |
N14 |
H141 |
1.020 |
0.970 |
N14 |
H142 |
1.020 |
0.970 |
Bond Angles for 5DE
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
O19 |
C15 |
O16 |
122.9 |
120.0 |
O19 |
C15 |
C7 |
119.7 |
120.0 |
O16 |
C15 |
C7 |
117.3 |
120.1 |
C15 |
O16 |
C17 |
117.6 |
120.0 |
C15 |
C7 |
C8 |
128.1 |
126.4 |
C15 |
C7 |
C5 |
127.1 |
126.5 |
O16 |
C17 |
C18 |
110.2 |
109.5 |
O16 |
C17 |
H171 |
112.0 |
109.5 |
O16 |
C17 |
H172 |
111.9 |
109.4 |
C18 |
C17 |
H171 |
111.9 |
109.5 |
C18 |
C17 |
H172 |
112.0 |
109.5 |
C17 |
C18 |
H181 |
111.9 |
109.5 |
C17 |
C18 |
H182 |
110.1 |
109.5 |
C17 |
C18 |
H183 |
112.0 |
109.5 |
H171 |
C17 |
H172 |
98.5 |
109.5 |
H181 |
C18 |
H182 |
112.0 |
109.4 |
H181 |
C18 |
H183 |
98.5 |
109.5 |
H182 |
C18 |
H183 |
111.9 |
109.5 |
C8 |
C7 |
C5 |
104.8 |
107.1 |
C7 |
C8 |
N10 |
109.0 |
108.1 |
C7 |
C8 |
C9 |
129.9 |
126.0 |
C7 |
C5 |
C6 |
127.1 |
126.2 |
C7 |
C5 |
N4 |
107.5 |
107.5 |
N10 |
C8 |
C9 |
121.1 |
125.9 |
C8 |
N10 |
N4 |
108.1 |
108.9 |
C8 |
C9 |
H91 |
105.1 |
109.5 |
C8 |
C9 |
H92 |
129.8 |
109.5 |
C8 |
C9 |
H93 |
105.1 |
109.5 |
N10 |
N4 |
C5 |
110.6 |
108.5 |
N10 |
N4 |
C3 |
123.5 |
125.7 |
H91 |
C9 |
H92 |
105.1 |
109.5 |
H91 |
C9 |
H93 |
104.1 |
109.4 |
H92 |
C9 |
H93 |
105.1 |
109.5 |
C6 |
C5 |
N4 |
125.4 |
126.3 |
C5 |
C6 |
H61 |
106.0 |
109.4 |
C5 |
C6 |
H62 |
127.1 |
109.5 |
C5 |
C6 |
H63 |
106.0 |
109.4 |
C5 |
N4 |
C3 |
125.9 |
125.8 |
H61 |
C6 |
H62 |
106.0 |
109.5 |
H61 |
C6 |
H63 |
103.4 |
109.5 |
H62 |
C6 |
H63 |
106.0 |
109.5 |
N4 |
C3 |
C2 |
123.3 |
120.0 |
N4 |
C3 |
C11 |
116.4 |
120.0 |
C2 |
C3 |
C11 |
120.3 |
120.0 |
C3 |
C2 |
C1 |
119.2 |
120.0 |
C3 |
C2 |
H2 |
120.5 |
120.0 |
C3 |
C11 |
C12 |
120.3 |
120.0 |
C3 |
C11 |
H11 |
120.3 |
120.0 |
C1 |
C2 |
H2 |
120.3 |
120.0 |
C2 |
C1 |
C13 |
120.0 |
120.0 |
C2 |
C1 |
H1 |
119.5 |
120.0 |
C13 |
C1 |
H1 |
120.5 |
120.0 |
C1 |
C13 |
C12 |
120.1 |
120.0 |
C1 |
C13 |
N14 |
121.5 |
120.0 |
C12 |
C11 |
H11 |
119.4 |
120.0 |
C11 |
C12 |
C13 |
120.1 |
120.0 |
C11 |
C12 |
H12 |
119.9 |
120.0 |
C13 |
C12 |
H12 |
120.0 |
120.0 |
C12 |
C13 |
N14 |
118.3 |
120.0 |
C13 |
N14 |
H141 |
107.9 |
120.0 |
C13 |
N14 |
H142 |
121.5 |
120.1 |
H141 |
N14 |
H142 |
108.0 |
120.0 |
Torsion Angles for 5DE
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
O16 |
C15 |
O19 |
C7 |
183.0 |
180.0 |
O19 |
C15 |
O16 |
C17 |
3.6 |
0.0 |
O19 |
C15 |
C7 |
C8 |
356.4 |
90.1 |
O19 |
C15 |
C7 |
C5 |
178.3 |
269.7 |
O19 |
C15 |
O16 |
C7 |
177.1 |
180.0 |
O16 |
C15 |
C7 |
C8 |
173.6 |
270.1 |
O16 |
C15 |
C7 |
C5 |
355.5 |
89.7 |
C15 |
O16 |
C17 |
C18 |
180.8 |
179.9 |
C15 |
O16 |
C17 |
H171 |
55.5 |
60.0 |
C15 |
O16 |
C17 |
H172 |
306.0 |
299.9 |
O19 |
C15 |
C7 |
O16 |
182.8 |
180.0 |
C7 |
C15 |
O16 |
C17 |
186.5 |
180.0 |
C8 |
C7 |
C15 |
C5 |
178.1 |
180.4 |
C15 |
C7 |
C8 |
N10 |
181.1 |
180.0 |
C15 |
C7 |
C8 |
C9 |
1.7 |
360.0 |
C15 |
C7 |
C5 |
C6 |
358.2 |
0.4 |
C15 |
C7 |
C5 |
N4 |
179.1 |
179.9 |
C17 |
O16 |
C15 |
C7 |
186.5 |
180.0 |
C18 |
C17 |
O16 |
H171 |
125.2 |
120.0 |
C18 |
C17 |
O16 |
H172 |
234.7 |
240.0 |
O16 |
C17 |
C18 |
H181 |
54.7 |
180.0 |
O16 |
C17 |
C18 |
H182 |
180.0 |
300.0 |
O16 |
C17 |
C18 |
H183 |
305.2 |
60.0 |
H171 |
C17 |
O16 |
H172 |
109.5 |
120.0 |
O16 |
C17 |
C18 |
H171 |
234.7 |
240.0 |
O16 |
C17 |
C18 |
H172 |
125.2 |
120.0 |
H171 |
C17 |
C18 |
H172 |
250.5 |
239.9 |
H181 |
C18 |
C17 |
H182 |
234.7 |
240.1 |
H181 |
C18 |
C17 |
H183 |
109.5 |
120.0 |
H182 |
C18 |
C17 |
H183 |
234.8 |
240.0 |
O16 |
C17 |
H171 |
C18 |
124.3 |
120.0 |
O16 |
C17 |
H171 |
H172 |
242.1 |
240.0 |
C18 |
C17 |
H171 |
H172 |
117.9 |
120.0 |
H171 |
C17 |
C18 |
H181 |
180.0 |
300.0 |
H171 |
C17 |
C18 |
H182 |
305.3 |
59.9 |
H171 |
C17 |
C18 |
H183 |
70.5 |
180.0 |
O16 |
C17 |
H172 |
C18 |
235.7 |
240.0 |
O16 |
C17 |
H172 |
H171 |
117.9 |
120.0 |
C18 |
C17 |
H172 |
H171 |
242.1 |
240.0 |
H172 |
C17 |
C18 |
H181 |
289.5 |
60.1 |
H172 |
C17 |
C18 |
H182 |
54.8 |
180.0 |
H172 |
C17 |
C18 |
H183 |
180.0 |
300.0 |
H181 |
C18 |
C17 |
H171 |
180.0 |
300.0 |
H181 |
C18 |
C17 |
H172 |
289.5 |
60.1 |
C17 |
C18 |
H181 |
H182 |
124.2 |
120.0 |
C17 |
C18 |
H181 |
H183 |
242.1 |
240.0 |
H182 |
C18 |
H181 |
H183 |
117.9 |
119.9 |
H182 |
C18 |
C17 |
H171 |
305.3 |
59.9 |
H182 |
C18 |
C17 |
H172 |
54.8 |
180.0 |
C17 |
C18 |
H182 |
H181 |
234.8 |
240.0 |
C17 |
C18 |
H182 |
H183 |
125.3 |
120.1 |
H181 |
C18 |
H182 |
H183 |
250.5 |
240.1 |
H183 |
C18 |
C17 |
H171 |
70.5 |
180.0 |
H183 |
C18 |
C17 |
H172 |
180.0 |
300.0 |
C17 |
C18 |
H183 |
H181 |
117.9 |
120.0 |
C17 |
C18 |
H183 |
H182 |
235.8 |
239.9 |
H181 |
C18 |
H183 |
H182 |
117.9 |
119.9 |
C15 |
C7 |
C8 |
C5 |
181.5 |
179.7 |
C8 |
C7 |
C5 |
C6 |
179.7 |
180.0 |
C8 |
C7 |
C5 |
N4 |
0.6 |
359.6 |
N10 |
C8 |
C7 |
C9 |
179.5 |
180.0 |
C7 |
C8 |
N10 |
N4 |
0.1 |
360.0 |
C7 |
C8 |
C9 |
H91 |
54.8 |
90.0 |
C7 |
C8 |
C9 |
H92 |
180.0 |
210.0 |
C7 |
C8 |
C9 |
H93 |
305.3 |
330.1 |
C15 |
C7 |
C5 |
C8 |
178.5 |
180.3 |
C5 |
C7 |
C8 |
N10 |
359.6 |
0.3 |
C5 |
C7 |
C8 |
C9 |
180.1 |
180.3 |
N10 |
N4 |
C5 |
C7 |
359.4 |
0.4 |
C6 |
C5 |
C7 |
N4 |
179.1 |
180.5 |
C7 |
C5 |
C6 |
H61 |
54.7 |
269.4 |
C7 |
C5 |
C6 |
H62 |
180.0 |
29.5 |
C7 |
C5 |
C6 |
H63 |
305.3 |
149.5 |
C7 |
C5 |
N4 |
C3 |
182.0 |
180.2 |
N10 |
C8 |
C7 |
C5 |
359.6 |
0.3 |
C7 |
C8 |
N10 |
C9 |
180.5 |
180.0 |
N10 |
C8 |
C9 |
H91 |
235.4 |
270.0 |
N10 |
C8 |
C9 |
H92 |
0.6 |
30.0 |
N10 |
C8 |
C9 |
H93 |
125.9 |
150.1 |
C8 |
N10 |
N4 |
C5 |
0.3 |
359.7 |
C8 |
N10 |
N4 |
C3 |
177.8 |
180.0 |
C9 |
C8 |
C7 |
C5 |
180.1 |
180.3 |
C7 |
C8 |
C9 |
N10 |
179.4 |
180.0 |
C9 |
C8 |
N10 |
N4 |
179.6 |
180.0 |
H91 |
C9 |
C8 |
H92 |
234.7 |
240.0 |
H91 |
C9 |
C8 |
H93 |
109.5 |
119.9 |
H92 |
C9 |
C8 |
H93 |
234.8 |
239.9 |
C7 |
C5 |
N4 |
N10 |
359.4 |
0.4 |
N4 |
N10 |
C8 |
C9 |
179.6 |
180.0 |
C6 |
C5 |
N4 |
N10 |
180.3 |
179.9 |
C5 |
N4 |
N10 |
C3 |
182.5 |
179.8 |
N10 |
N4 |
C3 |
C2 |
84.2 |
139.7 |
N10 |
N4 |
C3 |
C11 |
264.9 |
320.1 |
C8 |
C9 |
H91 |
H92 |
139.5 |
120.0 |
C8 |
C9 |
H91 |
H93 |
249.7 |
240.0 |
H92 |
C9 |
H91 |
H93 |
110.2 |
120.0 |
C8 |
C9 |
H92 |
H91 |
234.8 |
240.0 |
C8 |
C9 |
H92 |
H93 |
125.3 |
120.1 |
H91 |
C9 |
H92 |
H93 |
250.5 |
240.1 |
C8 |
C9 |
H93 |
H91 |
110.3 |
120.0 |
C8 |
C9 |
H93 |
H92 |
220.5 |
239.9 |
H91 |
C9 |
H93 |
H92 |
110.2 |
119.9 |
C7 |
C5 |
C6 |
N4 |
181.0 |
179.4 |
N10 |
N4 |
C5 |
C6 |
180.3 |
179.9 |
C6 |
C5 |
N4 |
C3 |
2.8 |
359.7 |
H61 |
C6 |
C5 |
H62 |
234.7 |
240.0 |
H61 |
C6 |
C5 |
H63 |
109.4 |
119.9 |
H62 |
C6 |
C5 |
H63 |
234.8 |
240.0 |
C7 |
C5 |
N4 |
C6 |
179.2 |
180.5 |
N10 |
N4 |
C5 |
C3 |
177.5 |
180.2 |
N4 |
C5 |
C6 |
H61 |
233.7 |
90.0 |
N4 |
C5 |
C6 |
H62 |
359.0 |
210.0 |
N4 |
C5 |
C6 |
H63 |
124.3 |
330.0 |
C5 |
N4 |
C3 |
C2 |
261.3 |
320.0 |
C5 |
N4 |
C3 |
C11 |
82.0 |
140.4 |
H61 |
C6 |
C5 |
N4 |
233.7 |
90.0 |
C5 |
C6 |
H61 |
H62 |
137.4 |
120.1 |
C5 |
C6 |
H61 |
H63 |
248.7 |
240.1 |
H62 |
C6 |
H61 |
H63 |
111.3 |
120.0 |
H62 |
C6 |
C5 |
N4 |
359.0 |
210.0 |
C5 |
C6 |
H62 |
H61 |
234.7 |
240.0 |
C5 |
C6 |
H62 |
H63 |
125.3 |
120.0 |
H61 |
C6 |
H62 |
H63 |
250.6 |
240.0 |
H63 |
C6 |
C5 |
N4 |
124.3 |
330.0 |
C5 |
C6 |
H63 |
H61 |
111.3 |
119.9 |
C5 |
C6 |
H63 |
H62 |
222.6 |
240.0 |
H61 |
C6 |
H63 |
H62 |
111.3 |
120.0 |
N10 |
N4 |
C3 |
C5 |
182.9 |
179.7 |
C2 |
C3 |
N4 |
C11 |
179.3 |
179.7 |
N4 |
C3 |
C2 |
C1 |
180.7 |
179.7 |
N4 |
C3 |
C2 |
H2 |
0.7 |
0.2 |
N4 |
C3 |
C11 |
C12 |
180.2 |
180.0 |
N4 |
C3 |
C11 |
H11 |
0.2 |
359.9 |
N4 |
C3 |
C2 |
C11 |
180.7 |
180.3 |
C2 |
C3 |
C11 |
C12 |
0.8 |
0.4 |
C2 |
C3 |
C11 |
H11 |
180.8 |
180.3 |
C1 |
C2 |
C3 |
H2 |
180.0 |
179.5 |
C3 |
C2 |
C1 |
C13 |
359.2 |
0.5 |
C3 |
C2 |
C1 |
H1 |
179.2 |
180.3 |
N4 |
C3 |
C11 |
C2 |
179.4 |
179.7 |
C11 |
C3 |
C2 |
C1 |
360.0 |
359.4 |
C11 |
C3 |
C2 |
H2 |
180.0 |
179.9 |
C12 |
C11 |
C3 |
H11 |
180.0 |
180.1 |
C3 |
C11 |
C12 |
C13 |
359.2 |
359.9 |
C3 |
C11 |
C12 |
H12 |
179.2 |
179.9 |
C1 |
C2 |
C3 |
C11 |
360.0 |
359.4 |
C3 |
C2 |
C1 |
H2 |
180.0 |
180.5 |
C13 |
C1 |
C2 |
H1 |
180.0 |
180.2 |
C2 |
C1 |
C13 |
C12 |
0.9 |
359.8 |
C2 |
C1 |
C13 |
N14 |
180.6 |
179.7 |
H2 |
C2 |
C3 |
C11 |
180.0 |
179.9 |
C3 |
C2 |
H2 |
C1 |
180.0 |
179.5 |
H2 |
C2 |
C1 |
C13 |
179.2 |
180.0 |
H2 |
C2 |
C1 |
H1 |
359.2 |
359.8 |
C13 |
C1 |
C2 |
H2 |
179.2 |
180.0 |
C2 |
C1 |
C13 |
H1 |
180.0 |
179.8 |
C11 |
C12 |
C13 |
C1 |
359.9 |
360.0 |
C1 |
C13 |
C12 |
H12 |
179.9 |
180.0 |
C12 |
C13 |
C1 |
N14 |
180.3 |
180.0 |
C1 |
C13 |
N14 |
H141 |
54.7 |
0.1 |
C1 |
C13 |
N14 |
H142 |
180.0 |
180.1 |
H1 |
C1 |
C2 |
H2 |
359.2 |
359.8 |
C2 |
C1 |
H1 |
C13 |
180.0 |
180.2 |
H1 |
C1 |
C13 |
C12 |
180.9 |
180.0 |
H1 |
C1 |
C13 |
N14 |
0.6 |
359.9 |
C3 |
C11 |
C12 |
H11 |
180.0 |
179.9 |
C1 |
C13 |
C12 |
C11 |
359.9 |
360.0 |
C13 |
C12 |
C11 |
H12 |
180.0 |
180.1 |
C11 |
C12 |
C13 |
N14 |
180.2 |
180.0 |
C3 |
C11 |
H11 |
C12 |
180.0 |
180.1 |
H11 |
C11 |
C12 |
C13 |
179.2 |
180.0 |
H11 |
C11 |
C12 |
H12 |
359.2 |
360.0 |
C12 |
C13 |
C1 |
H1 |
180.9 |
180.0 |
C1 |
C13 |
C12 |
N14 |
179.7 |
180.0 |
C13 |
C12 |
C11 |
H11 |
179.2 |
180.0 |
C11 |
C12 |
C13 |
H12 |
180.0 |
179.9 |
C12 |
C13 |
N14 |
H141 |
234.4 |
180.0 |
C12 |
C13 |
N14 |
H142 |
359.7 |
0.0 |
H12 |
C12 |
C11 |
H11 |
359.2 |
360.0 |
C11 |
C12 |
H12 |
C13 |
180.0 |
180.1 |
H12 |
C12 |
C13 |
N14 |
0.2 |
0.1 |
N14 |
C13 |
C1 |
H1 |
0.6 |
359.9 |
C1 |
C13 |
N14 |
C12 |
180.3 |
180.0 |
N14 |
C13 |
C12 |
H12 |
0.2 |
0.1 |
H141 |
N14 |
C13 |
H142 |
234.7 |
180.0 |
C13 |
N14 |
H141 |
H142 |
133.0 |
180.0 |
C13 |
N14 |
H142 |
H141 |
234.7 |
180.0 |