PDB Chemical Component 4KD
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 4KD
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
C3 |
C16 |
1.414 |
1.383 |
C3 |
C4 |
1.423 |
1.390 |
C5 |
C4 |
1.522 |
1.509 |
C5 |
N |
1.455 |
1.467 |
C16 |
C17 |
1.407 |
1.391 |
O |
C9 |
1.244 |
1.216 |
C4 |
C8 |
1.420 |
1.377 |
N |
C9 |
1.335 |
1.348 |
N |
C6 |
1.451 |
1.472 |
C9 |
C10 |
1.501 |
1.478 |
C17 |
C18 |
1.400 |
1.382 |
C8 |
C18 |
1.415 |
1.390 |
C8 |
C7 |
1.476 |
1.506 |
C6 |
C7 |
1.488 |
1.528 |
C10 |
C11 |
1.413 |
1.396 |
C10 |
C15 |
1.352 |
1.395 |
C11 |
C12 |
1.407 |
1.379 |
C15 |
C14 |
1.382 |
1.380 |
C12 |
C13 |
1.374 |
1.383 |
C14 |
C13 |
1.411 |
1.383 |
C13 |
S |
1.702 |
1.762 |
N1 |
S |
1.590 |
1.656 |
O1 |
S |
1.455 |
1.421 |
S |
O2 |
1.429 |
1.421 |
C3 |
H1 |
1.080 |
1.080 |
C5 |
H2 |
1.100 |
1.090 |
C5 |
H3 |
1.100 |
1.090 |
C6 |
H4 |
1.100 |
1.089 |
C6 |
H5 |
1.099 |
1.090 |
C7 |
H6 |
1.100 |
1.090 |
C7 |
H7 |
1.100 |
1.090 |
C11 |
H8 |
1.080 |
1.080 |
C12 |
H9 |
1.080 |
1.080 |
C15 |
H10 |
1.080 |
1.081 |
C14 |
H11 |
1.081 |
1.080 |
N1 |
H12 |
1.000 |
0.970 |
N1 |
H13 |
1.001 |
0.970 |
C18 |
H14 |
1.080 |
1.080 |
C17 |
O4 |
1.032 |
1.360 |
C16 |
O3 |
1.032 |
1.360 |
O4 |
C1 |
|
1.429 |
O3 |
C2 |
|
1.429 |
C1 |
H15 |
|
1.090 |
C1 |
H16 |
|
1.091 |
C1 |
H17 |
|
1.089 |
C2 |
H18 |
|
1.091 |
C2 |
H19 |
|
1.089 |
C2 |
H20 |
|
1.090 |
Bond Angles for 4KD
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
C4 |
C3 |
C16 |
119.4 |
120.5 |
C3 |
C16 |
C17 |
120.8 |
119.6 |
C16 |
C3 |
H1 |
120.3 |
119.8 |
C3 |
C16 |
O3 |
119.6 |
120.2 |
C3 |
C4 |
C8 |
118.7 |
120.0 |
C4 |
C3 |
H1 |
120.3 |
119.8 |
C5 |
C4 |
C8 |
123.7 |
122.3 |
C5 |
N |
C6 |
115.4 |
117.4 |
N |
C5 |
H2 |
109.9 |
109.4 |
N |
C5 |
H3 |
109.9 |
109.4 |
C16 |
C17 |
O4 |
119.6 |
120.2 |
C4 |
C8 |
C18 |
121.6 |
119.6 |
C4 |
C8 |
C7 |
121.8 |
122.8 |
N |
C6 |
H4 |
108.4 |
109.8 |
N |
C6 |
H5 |
108.5 |
109.8 |
C9 |
C10 |
C11 |
120.6 |
120.1 |
C9 |
C10 |
C15 |
119.0 |
120.2 |
C17 |
C18 |
H14 |
120.6 |
119.7 |
C8 |
C18 |
H14 |
120.6 |
119.7 |
C8 |
C7 |
H6 |
109.6 |
109.2 |
C8 |
C7 |
H7 |
109.6 |
109.1 |
C7 |
C6 |
H4 |
108.4 |
109.8 |
C7 |
C6 |
H5 |
108.5 |
109.7 |
C6 |
C7 |
H6 |
109.6 |
109.2 |
C6 |
C7 |
H7 |
109.6 |
109.2 |
C11 |
C10 |
C15 |
120.3 |
119.7 |
C10 |
C11 |
C12 |
117.9 |
119.9 |
C10 |
C11 |
H8 |
121.0 |
120.1 |
C10 |
C15 |
C14 |
119.1 |
119.9 |
C10 |
C15 |
H10 |
120.4 |
120.1 |
C11 |
C12 |
C13 |
124.0 |
120.1 |
C12 |
C11 |
H8 |
121.1 |
120.0 |
C11 |
C12 |
H9 |
118.0 |
119.9 |
C15 |
C14 |
C13 |
124.5 |
120.1 |
C14 |
C15 |
H10 |
120.4 |
120.1 |
C15 |
C14 |
H11 |
117.7 |
119.9 |
C12 |
C13 |
C14 |
114.0 |
120.3 |
C12 |
C13 |
S |
125.8 |
119.9 |
C13 |
C12 |
H9 |
118.0 |
119.9 |
C14 |
C13 |
S |
120.2 |
119.8 |
C13 |
C14 |
H11 |
117.7 |
120.0 |
C13 |
S |
O2 |
108.9 |
106.4 |
N1 |
S |
O2 |
111.6 |
106.4 |
O1 |
S |
O2 |
115.8 |
123.2 |
H2 |
C5 |
H3 |
109.5 |
109.5 |
H4 |
C6 |
H5 |
109.5 |
109.8 |
H6 |
C7 |
H7 |
109.5 |
109.2 |
H12 |
N1 |
H13 |
109.5 |
120.0 |
C17 |
O4 |
C1 |
|
117.0 |
C16 |
O3 |
C2 |
|
117.0 |
O4 |
C1 |
H15 |
|
109.5 |
O4 |
C1 |
H16 |
|
109.4 |
O4 |
C1 |
H17 |
|
109.5 |
O3 |
C2 |
H18 |
|
109.5 |
O3 |
C2 |
H19 |
|
109.5 |
O3 |
C2 |
H20 |
|
109.4 |
H15 |
C1 |
H16 |
|
109.5 |
H15 |
C1 |
H17 |
|
109.5 |
H16 |
C1 |
H17 |
|
109.4 |
H18 |
C2 |
H19 |
|
109.5 |
H18 |
C2 |
H20 |
|
109.5 |
H19 |
C2 |
H20 |
|
109.5 |
Torsion Angles for 4KD
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
C16 |
C3 |
C4 |
C8 |
2.4 |
359.4 |
C4 |
C3 |
C16 |
H1 |
180.0 |
179.8 |
C3 |
C16 |
C17 |
O4 |
179.4 |
180.3 |
C3 |
C16 |
O3 |
C2 |
|
0.0 |
C4 |
C3 |
C16 |
C17 |
359.0 |
0.1 |
C16 |
C3 |
C4 |
H1 |
180.0 |
180.2 |
C4 |
C3 |
C16 |
O3 |
179.0 |
180.0 |
C5 |
C4 |
C3 |
C8 |
177.4 |
179.4 |
C3 |
C4 |
C8 |
C18 |
357.7 |
0.9 |
C3 |
C4 |
C8 |
C7 |
177.1 |
181.5 |
C5 |
C4 |
C3 |
C16 |
179.8 |
178.8 |
C3 |
C4 |
C5 |
C8 |
182.7 |
180.6 |
C5 |
C4 |
C3 |
H1 |
359.8 |
358.6 |
C5 |
C4 |
C8 |
C18 |
180.5 |
181.5 |
C5 |
C4 |
C8 |
C7 |
359.8 |
2.1 |
N |
C5 |
C4 |
C8 |
12.5 |
348.1 |
C5 |
N |
C6 |
H4 |
186.8 |
176.3 |
C5 |
N |
C6 |
H5 |
305.7 |
55.5 |
H2 |
C5 |
N |
H3 |
120.6 |
119.9 |
C17 |
C16 |
C3 |
H1 |
179.0 |
180.2 |
C3 |
C16 |
C17 |
O3 |
180.0 |
180.0 |
C16 |
C17 |
C18 |
H14 |
180.7 |
180.0 |
C16 |
C17 |
O4 |
C1 |
|
180.0 |
O |
C9 |
C10 |
C11 |
127.9 |
315.3 |
O |
C9 |
C10 |
C15 |
311.2 |
135.0 |
C8 |
C4 |
C3 |
C16 |
2.4 |
359.4 |
C8 |
C4 |
C3 |
H1 |
182.4 |
179.2 |
C4 |
C8 |
C18 |
H14 |
180.7 |
179.4 |
C4 |
C8 |
C7 |
H6 |
136.6 |
219.0 |
C4 |
C8 |
C7 |
H7 |
256.8 |
99.7 |
C6 |
N |
C5 |
H2 |
196.4 |
284.4 |
C6 |
N |
C5 |
H3 |
75.8 |
164.5 |
C7 |
C6 |
N |
H4 |
239.4 |
119.6 |
C7 |
C6 |
N |
H5 |
120.6 |
240.4 |
N |
C6 |
C7 |
H6 |
192.7 |
167.9 |
N |
C6 |
C7 |
H7 |
72.5 |
287.3 |
H4 |
C6 |
N |
H5 |
241.2 |
120.9 |
C11 |
C10 |
C9 |
C15 |
176.7 |
180.3 |
C9 |
C10 |
C11 |
C12 |
181.3 |
180.0 |
C9 |
C10 |
C11 |
H8 |
1.3 |
359.9 |
C9 |
C10 |
C15 |
C14 |
176.0 |
180.1 |
C9 |
C10 |
C15 |
H10 |
356.0 |
360.0 |
C3 |
C16 |
C17 |
C18 |
359.4 |
0.3 |
C8 |
C18 |
C17 |
H14 |
180.0 |
180.0 |
C4 |
C8 |
C18 |
C7 |
179.4 |
180.6 |
C17 |
C18 |
C8 |
H14 |
180.0 |
180.0 |
C18 |
C8 |
C7 |
H6 |
316.0 |
39.6 |
C18 |
C8 |
C7 |
H7 |
76.1 |
280.3 |
C4 |
C8 |
C7 |
C18 |
180.6 |
179.4 |
C8 |
C7 |
C6 |
H4 |
192.0 |
167.2 |
C8 |
C7 |
C6 |
H5 |
73.2 |
287.9 |
C6 |
C7 |
C8 |
H6 |
240.1 |
120.3 |
C6 |
C7 |
C8 |
H7 |
119.9 |
239.7 |
H6 |
C7 |
C8 |
H7 |
239.9 |
119.4 |
C5 |
N |
C6 |
C7 |
66.3 |
295.9 |
C4 |
C8 |
C7 |
C6 |
16.7 |
339.4 |
N |
C6 |
C7 |
H4 |
120.6 |
240.4 |
N |
C6 |
C7 |
H5 |
239.4 |
119.7 |
C8 |
C7 |
C6 |
H6 |
119.9 |
239.6 |
C8 |
C7 |
C6 |
H7 |
240.1 |
120.3 |
H4 |
C6 |
C7 |
H5 |
118.8 |
239.2 |
H6 |
C7 |
C6 |
H7 |
120.1 |
240.6 |
C9 |
C10 |
C11 |
C15 |
183.4 |
179.7 |
C11 |
C10 |
C15 |
C14 |
359.3 |
359.7 |
C11 |
C10 |
C15 |
H10 |
179.3 |
179.7 |
C10 |
C11 |
C12 |
C13 |
3.3 |
359.9 |
C12 |
C11 |
C10 |
H8 |
180.0 |
180.1 |
C10 |
C11 |
C12 |
H9 |
183.3 |
180.0 |
C9 |
C10 |
C15 |
C11 |
176.7 |
180.3 |
C15 |
C10 |
C11 |
C12 |
357.9 |
0.3 |
C15 |
C10 |
C11 |
H8 |
177.9 |
180.2 |
C10 |
C15 |
C14 |
C13 |
2.7 |
360.0 |
C14 |
C15 |
C10 |
H10 |
180.0 |
180.1 |
C10 |
C15 |
C14 |
H11 |
182.7 |
180.0 |
C12 |
C11 |
C10 |
C15 |
357.9 |
0.3 |
C10 |
C11 |
C12 |
H8 |
180.0 |
179.9 |
C11 |
C12 |
C13 |
C14 |
358.6 |
359.8 |
C11 |
C12 |
C13 |
S |
178.2 |
180.0 |
C13 |
C12 |
C11 |
H9 |
180.0 |
179.9 |
C10 |
C15 |
C14 |
H10 |
180.0 |
179.9 |
C12 |
C13 |
C14 |
C15 |
358.3 |
0.3 |
C15 |
C14 |
C13 |
S |
178.8 |
180.1 |
C13 |
C14 |
C15 |
H11 |
180.0 |
180.0 |
C13 |
C12 |
C11 |
H8 |
183.3 |
180.1 |
C11 |
C12 |
C13 |
H9 |
180.0 |
180.1 |
C15 |
C14 |
C13 |
C12 |
358.3 |
0.3 |
C14 |
C13 |
C12 |
S |
180.4 |
179.8 |
C12 |
C13 |
C14 |
H11 |
178.4 |
180.2 |
C12 |
C13 |
S |
O2 |
91.9 |
336.5 |
C13 |
C14 |
C15 |
H10 |
182.7 |
180.0 |
C15 |
C14 |
C13 |
H11 |
180.0 |
180.0 |
C12 |
C13 |
C14 |
S |
179.6 |
180.2 |
C14 |
C13 |
C12 |
H9 |
178.6 |
179.7 |
C14 |
C13 |
S |
O2 |
271.4 |
156.7 |
C12 |
C13 |
S |
C14 |
180.5 |
179.8 |
S |
C13 |
C12 |
H9 |
358.2 |
359.9 |
S |
C13 |
C14 |
H11 |
358.8 |
0.1 |
N1 |
S |
C13 |
O2 |
240.4 |
113.5 |
O1 |
S |
C13 |
O2 |
123.9 |
227.0 |
C13 |
S |
N1 |
O2 |
117.8 |
246.4 |
O1 |
S |
N1 |
O2 |
229.2 |
132.9 |
C13 |
S |
O1 |
O2 |
240.7 |
123.0 |
N1 |
S |
O1 |
O2 |
128.6 |
237.1 |
C4 |
C3 |
H1 |
C16 |
180.0 |
180.2 |
H1 |
C3 |
C16 |
C17 |
179.0 |
180.2 |
H1 |
C3 |
C16 |
O3 |
359.0 |
0.2 |
H1 |
C3 |
C4 |
C8 |
182.4 |
179.2 |
H2 |
C5 |
C4 |
C8 |
132.2 |
108.1 |
H2 |
C5 |
N |
C6 |
196.4 |
284.4 |
N |
C5 |
H2 |
H3 |
239.1 |
240.1 |
H3 |
C5 |
C4 |
C8 |
252.8 |
228.1 |
H3 |
C5 |
N |
C6 |
75.8 |
164.5 |
N |
C5 |
H3 |
H2 |
120.9 |
119.9 |
N |
C6 |
H4 |
H5 |
118.2 |
239.1 |
C7 |
C6 |
H4 |
H5 |
241.8 |
120.7 |
H4 |
C6 |
C7 |
H6 |
72.1 |
287.5 |
H4 |
C6 |
C7 |
H7 |
312.0 |
46.9 |
N |
C6 |
H5 |
H4 |
241.8 |
120.8 |
C7 |
C6 |
H5 |
H4 |
118.1 |
239.3 |
H5 |
C6 |
C7 |
H6 |
313.3 |
48.3 |
H5 |
C6 |
C7 |
H7 |
193.1 |
167.7 |
C8 |
C7 |
H6 |
H7 |
120.2 |
240.7 |
H6 |
C7 |
C6 |
H4 |
72.1 |
287.5 |
H6 |
C7 |
C6 |
H5 |
313.3 |
48.3 |
C6 |
C7 |
H6 |
H7 |
239.8 |
119.3 |
C8 |
C7 |
H7 |
H6 |
239.8 |
119.3 |
H7 |
C7 |
C6 |
H4 |
312.0 |
46.9 |
H7 |
C7 |
C6 |
H5 |
193.1 |
167.7 |
C6 |
C7 |
H7 |
H6 |
120.2 |
240.7 |
H8 |
C11 |
C10 |
C15 |
177.9 |
180.2 |
C10 |
C11 |
H8 |
C12 |
180.0 |
180.1 |
H8 |
C11 |
C12 |
C13 |
183.3 |
180.1 |
H8 |
C11 |
C12 |
H9 |
3.3 |
0.1 |
C11 |
C12 |
H9 |
C13 |
180.0 |
179.9 |
H9 |
C12 |
C11 |
H8 |
3.3 |
0.1 |
H9 |
C12 |
C13 |
C14 |
178.6 |
179.7 |
H9 |
C12 |
C13 |
S |
358.2 |
359.9 |
C10 |
C15 |
H10 |
C14 |
180.0 |
180.1 |
H10 |
C15 |
C14 |
C13 |
182.7 |
180.0 |
H10 |
C15 |
C14 |
H11 |
2.7 |
0.1 |
C15 |
C14 |
H11 |
C13 |
180.0 |
180.0 |
H11 |
C14 |
C15 |
H10 |
2.7 |
0.1 |
H11 |
C14 |
C13 |
S |
358.8 |
0.1 |
H12 |
N1 |
S |
O2 |
62.2 |
263.6 |
H13 |
N1 |
S |
O2 |
182.2 |
83.6 |
O4 |
C17 |
C18 |
H14 |
0.7 |
360.0 |
C17 |
O4 |
C1 |
H15 |
|
60.0 |
C17 |
O4 |
C1 |
H16 |
|
180.0 |
C17 |
O4 |
C1 |
H17 |
|
300.0 |
C3 |
C16 |
O3 |
C17 |
180.0 |
180.0 |
O3 |
C16 |
C3 |
H1 |
359.0 |
0.2 |
O3 |
C16 |
C17 |
O4 |
359.4 |
0.3 |
C16 |
O3 |
C2 |
H18 |
|
300.0 |
C16 |
O3 |
C2 |
H19 |
|
60.0 |
C16 |
O3 |
C2 |
H20 |
|
180.0 |
H15 |
C1 |
O4 |
H16 |
|
240.0 |
H15 |
C1 |
O4 |
H17 |
|
120.1 |
H16 |
C1 |
O4 |
H17 |
|
240.0 |
H18 |
C2 |
O3 |
H19 |
|
240.0 |
H18 |
C2 |
O3 |
H20 |
|
120.0 |
H19 |
C2 |
O3 |
H20 |
|
240.0 |
O4 |
C1 |
H15 |
H16 |
|
120.0 |
O4 |
C1 |
H15 |
H17 |
|
239.9 |
H16 |
C1 |
H15 |
H17 |
|
120.0 |
O4 |
C1 |
H16 |
H15 |
|
240.0 |
O4 |
C1 |
H16 |
H17 |
|
120.0 |
H15 |
C1 |
H16 |
H17 |
|
240.0 |
O4 |
C1 |
H17 |
H15 |
|
120.0 |
O4 |
C1 |
H17 |
H16 |
|
240.0 |
H15 |
C1 |
H17 |
H16 |
|
120.0 |
O3 |
C2 |
H18 |
H19 |
|
120.0 |
O3 |
C2 |
H18 |
H20 |
|
240.1 |
H19 |
C2 |
H18 |
H20 |
|
120.0 |
O3 |
C2 |
H19 |
H18 |
|
240.0 |
O3 |
C2 |
H19 |
H20 |
|
120.0 |
H18 |
C2 |
H19 |
H20 |
|
240.0 |
O3 |
C2 |
H20 |
H18 |
|
120.0 |
O3 |
C2 |
H20 |
H19 |
|
240.0 |
H18 |
C2 |
H20 |
H19 |
|
120.0 |