PDB Chemical Component 3JY
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 3JY
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
O18 |
P16 |
1.492 |
1.480 |
O19 |
P16 |
1.559 |
1.610 |
P16 |
O17 |
1.548 |
1.610 |
P16 |
C12 |
1.842 |
1.823 |
C20 |
C10 |
1.502 |
1.549 |
C20 |
C7 |
1.505 |
1.549 |
O11 |
C10 |
1.344 |
1.429 |
O11 |
C12 |
1.387 |
1.429 |
C10 |
C9 |
1.499 |
1.542 |
C12 |
C13 |
1.480 |
1.507 |
C7 |
N6 |
1.485 |
1.465 |
C7 |
C8 |
1.531 |
1.543 |
O14 |
C13 |
1.205 |
1.208 |
O23 |
C22 |
1.182 |
1.216 |
C13 |
O15 |
1.204 |
1.342 |
N6 |
C22 |
1.339 |
1.345 |
N6 |
C5 |
1.351 |
1.368 |
C22 |
N21 |
1.340 |
1.346 |
C9 |
C8 |
1.497 |
1.539 |
C5 |
C3 |
1.396 |
1.350 |
N21 |
C2 |
1.355 |
1.348 |
C3 |
C2 |
1.390 |
1.415 |
C3 |
C4 |
1.499 |
1.508 |
C2 |
O1 |
1.348 |
1.218 |
N21 |
H1 |
1.000 |
0.970 |
C7 |
H2 |
1.100 |
1.090 |
C20 |
H3 |
1.100 |
1.091 |
C20 |
H4 |
1.100 |
1.090 |
C10 |
H5 |
1.100 |
1.090 |
C12 |
H6 |
1.100 |
1.091 |
C9 |
H7 |
1.100 |
1.090 |
C9 |
H8 |
1.100 |
1.089 |
C8 |
H9 |
1.100 |
1.090 |
C8 |
H10 |
1.100 |
1.090 |
C5 |
H11 |
1.080 |
1.080 |
C4 |
H12 |
1.100 |
1.090 |
C4 |
H13 |
1.100 |
1.090 |
C4 |
H14 |
1.100 |
1.089 |
O19 |
H15 |
0.950 |
0.967 |
O17 |
H16 |
0.950 |
0.967 |
O15 |
C1 |
|
1.452 |
C1 |
H17 |
|
1.090 |
C1 |
H18 |
|
1.090 |
C1 |
H19 |
|
1.091 |
Bond Angles for 3JY
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
O18 |
P16 |
O19 |
109.3 |
109.5 |
O18 |
P16 |
O17 |
111.7 |
109.5 |
O19 |
P16 |
O17 |
110.1 |
109.5 |
P16 |
O19 |
H15 |
109.5 |
114.0 |
P16 |
O17 |
H16 |
109.5 |
114.0 |
P16 |
C12 |
H6 |
106.1 |
109.4 |
C20 |
C10 |
C9 |
105.6 |
104.2 |
C10 |
C20 |
H3 |
109.9 |
110.8 |
C10 |
C20 |
H4 |
109.9 |
110.7 |
C20 |
C10 |
H5 |
107.9 |
110.5 |
C20 |
C7 |
C8 |
106.6 |
104.2 |
C20 |
C7 |
H2 |
108.3 |
110.6 |
O11 |
C10 |
H5 |
110.0 |
110.5 |
O11 |
C12 |
H6 |
111.7 |
109.5 |
C10 |
C9 |
C8 |
106.5 |
106.6 |
C9 |
C10 |
H5 |
107.9 |
110.5 |
C10 |
C9 |
H7 |
110.2 |
110.0 |
C10 |
C9 |
H8 |
110.2 |
110.0 |
C12 |
C13 |
O15 |
119.0 |
120.0 |
C13 |
C12 |
H6 |
110.3 |
109.4 |
C7 |
N6 |
C5 |
119.8 |
119.7 |
C7 |
C8 |
C9 |
105.9 |
106.6 |
C8 |
C7 |
H2 |
108.0 |
110.5 |
C7 |
C8 |
H9 |
110.3 |
110.1 |
C7 |
C8 |
H10 |
110.3 |
110.0 |
O14 |
C13 |
O15 |
117.4 |
120.0 |
C13 |
O15 |
C1 |
|
117.0 |
C22 |
N6 |
C5 |
120.6 |
120.6 |
N6 |
C5 |
C3 |
120.0 |
119.7 |
N6 |
C5 |
H11 |
120.0 |
120.2 |
C22 |
N21 |
H1 |
119.4 |
119.9 |
C8 |
C9 |
H7 |
110.2 |
110.0 |
C8 |
C9 |
H8 |
110.2 |
110.0 |
C9 |
C8 |
H9 |
110.4 |
110.0 |
C9 |
C8 |
H10 |
110.4 |
110.0 |
C5 |
C3 |
C4 |
122.0 |
120.4 |
C3 |
C5 |
H11 |
120.0 |
120.2 |
N21 |
C2 |
O1 |
121.1 |
120.3 |
C2 |
N21 |
H1 |
119.4 |
119.9 |
C3 |
C2 |
O1 |
119.5 |
120.3 |
C3 |
C4 |
H12 |
109.5 |
109.4 |
C3 |
C4 |
H13 |
109.5 |
109.5 |
C3 |
C4 |
H14 |
109.4 |
109.5 |
H3 |
C20 |
H4 |
109.5 |
110.8 |
H7 |
C9 |
H8 |
109.5 |
110.1 |
H9 |
C8 |
H10 |
109.5 |
110.0 |
H12 |
C4 |
H13 |
109.4 |
109.4 |
H12 |
C4 |
H14 |
109.5 |
109.6 |
H13 |
C4 |
H14 |
109.5 |
109.5 |
O15 |
C1 |
H17 |
|
109.4 |
O15 |
C1 |
H18 |
|
109.5 |
O15 |
C1 |
H19 |
|
109.4 |
H17 |
C1 |
H18 |
|
109.6 |
H17 |
C1 |
H19 |
|
109.4 |
H18 |
C1 |
H19 |
|
109.5 |
Torsion Angles for 3JY
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
O19 |
P16 |
O18 |
O17 |
122.0 |
120.0 |
O18 |
P16 |
O19 |
H15 |
0.0 |
49.8 |
O18 |
P16 |
O17 |
H16 |
0.0 |
300.0 |
O18 |
P16 |
C12 |
H6 |
236.8 |
163.3 |
O18 |
P16 |
O19 |
O17 |
237.0 |
240.0 |
O19 |
P16 |
O17 |
H16 |
238.4 |
180.0 |
O19 |
P16 |
C12 |
H6 |
356.3 |
283.3 |
O18 |
P16 |
O17 |
O19 |
121.6 |
120.0 |
O17 |
P16 |
O19 |
H15 |
123.0 |
169.9 |
O17 |
P16 |
C12 |
H6 |
116.1 |
43.3 |
O11 |
C12 |
P16 |
H6 |
115.9 |
120.0 |
C13 |
C12 |
P16 |
H6 |
242.2 |
240.0 |
C10 |
C20 |
C7 |
C8 |
5.8 |
38.0 |
C10 |
C20 |
C7 |
H2 |
249.8 |
279.2 |
O11 |
C10 |
C20 |
H5 |
123.3 |
122.6 |
C20 |
C10 |
C9 |
C8 |
28.8 |
23.6 |
C9 |
C10 |
C20 |
H5 |
244.8 |
241.3 |
C20 |
C10 |
C9 |
H7 |
148.3 |
142.9 |
C20 |
C10 |
C9 |
H8 |
269.3 |
264.4 |
H3 |
C20 |
C10 |
H4 |
239.4 |
123.3 |
C20 |
C7 |
N6 |
C5 |
308.4 |
124.4 |
C20 |
C7 |
C8 |
C9 |
11.9 |
336.4 |
C8 |
C7 |
C20 |
H2 |
116.0 |
118.7 |
C20 |
C7 |
C8 |
H9 |
131.3 |
95.7 |
C20 |
C7 |
C8 |
H10 |
252.4 |
217.1 |
O11 |
C10 |
C20 |
H3 |
337.0 |
85.0 |
O11 |
C10 |
C20 |
H4 |
97.6 |
321.7 |
C20 |
C10 |
O11 |
H5 |
237.8 |
237.4 |
C9 |
C10 |
O11 |
H5 |
118.7 |
122.6 |
O11 |
C10 |
C9 |
H7 |
273.2 |
261.6 |
O11 |
C10 |
C9 |
H8 |
34.1 |
23.1 |
P16 |
C12 |
O11 |
H6 |
248.4 |
240.0 |
C12 |
O11 |
C10 |
H5 |
168.8 |
20.3 |
O11 |
C12 |
C13 |
O15 |
234.7 |
155.0 |
C13 |
C12 |
O11 |
H6 |
132.1 |
120.0 |
C9 |
C10 |
C20 |
H3 |
98.5 |
203.7 |
C9 |
C10 |
C20 |
H4 |
219.1 |
80.4 |
C20 |
C10 |
C9 |
H5 |
115.1 |
118.7 |
O11 |
C10 |
C9 |
H5 |
240.0 |
237.4 |
C7 |
C8 |
C9 |
C10 |
334.9 |
0.0 |
C8 |
C9 |
C10 |
H7 |
240.4 |
240.7 |
C8 |
C9 |
C10 |
H8 |
119.5 |
119.2 |
C10 |
C9 |
C8 |
H9 |
215.5 |
240.7 |
C10 |
C9 |
C8 |
H10 |
94.3 |
119.3 |
H7 |
C9 |
C10 |
H8 |
239.1 |
238.5 |
P16 |
C12 |
C13 |
H6 |
115.0 |
120.0 |
O11 |
C12 |
C13 |
H6 |
227.3 |
240.0 |
O14 |
C13 |
C12 |
O15 |
181.6 |
180.0 |
C12 |
C13 |
O15 |
C1 |
|
180.0 |
C22 |
N6 |
C7 |
C5 |
178.5 |
179.3 |
C7 |
N6 |
C5 |
C3 |
179.1 |
180.2 |
C7 |
N6 |
C5 |
H11 |
359.2 |
359.4 |
C20 |
C7 |
C8 |
H2 |
243.8 |
241.2 |
C10 |
C9 |
C8 |
C7 |
334.9 |
0.0 |
C8 |
C7 |
N6 |
C5 |
68.8 |
239.1 |
C7 |
C8 |
C9 |
H7 |
215.3 |
240.7 |
C7 |
C8 |
C9 |
H8 |
94.4 |
119.3 |
C9 |
C8 |
C7 |
H9 |
240.6 |
240.7 |
C9 |
C8 |
C7 |
H10 |
119.5 |
119.3 |
H9 |
C8 |
C7 |
H10 |
238.9 |
238.6 |
C12 |
C13 |
O14 |
O15 |
178.4 |
180.0 |
O14 |
C13 |
C12 |
H6 |
189.1 |
95.0 |
O14 |
C13 |
O15 |
C1 |
|
0.0 |
O23 |
C22 |
N21 |
H1 |
359.9 |
0.3 |
O15 |
C13 |
C12 |
H6 |
7.5 |
275.0 |
C13 |
O15 |
C1 |
H17 |
|
299.9 |
C13 |
O15 |
C1 |
H18 |
|
60.0 |
C13 |
O15 |
C1 |
H19 |
|
180.0 |
C7 |
N6 |
C22 |
C5 |
181.5 |
180.7 |
C22 |
N6 |
C5 |
C3 |
0.6 |
0.9 |
C22 |
N6 |
C5 |
H11 |
180.6 |
180.1 |
N6 |
C22 |
N21 |
H1 |
180.1 |
180.4 |
N6 |
C5 |
C3 |
C4 |
179.6 |
180.0 |
C3 |
C5 |
N6 |
H11 |
180.0 |
180.8 |
C22 |
N21 |
C2 |
O1 |
180.0 |
180.2 |
C2 |
N21 |
C22 |
H1 |
180.0 |
179.7 |
C8 |
C9 |
C10 |
H5 |
273.6 |
264.9 |
C10 |
C9 |
C8 |
H7 |
119.5 |
119.3 |
C10 |
C9 |
C8 |
H8 |
240.5 |
240.8 |
C9 |
C8 |
C7 |
H2 |
128.1 |
95.2 |
C7 |
C8 |
C9 |
H9 |
119.4 |
119.3 |
C7 |
C8 |
C9 |
H10 |
240.6 |
240.8 |
H7 |
C9 |
C8 |
H8 |
120.9 |
121.5 |
H9 |
C8 |
C9 |
H10 |
121.2 |
121.4 |
N6 |
C5 |
C3 |
H11 |
180.0 |
179.2 |
C5 |
C3 |
C2 |
O1 |
180.2 |
180.0 |
C5 |
C3 |
C4 |
H12 |
180.0 |
90.1 |
C5 |
C3 |
C4 |
H13 |
300.0 |
210.0 |
C5 |
C3 |
C4 |
H14 |
60.0 |
330.0 |
C22 |
N21 |
C2 |
H1 |
180.0 |
180.3 |
C3 |
C2 |
N21 |
O1 |
179.9 |
180.0 |
N6 |
C5 |
C3 |
C2 |
359.4 |
359.4 |
N21 |
C2 |
C3 |
O1 |
180.1 |
180.0 |
C3 |
C2 |
N21 |
H1 |
179.9 |
180.0 |
C4 |
C3 |
C5 |
H11 |
359.6 |
0.8 |
C4 |
C3 |
C2 |
O1 |
0.0 |
359.5 |
H12 |
C4 |
C3 |
H13 |
240.0 |
240.1 |
H12 |
C4 |
C3 |
H14 |
120.0 |
120.1 |
H13 |
C4 |
C3 |
H14 |
240.0 |
240.0 |
O1 |
C2 |
N21 |
H1 |
0.0 |
359.9 |
H1 |
N21 |
C2 |
O1 |
0.0 |
359.9 |
C20 |
C7 |
H2 |
C8 |
115.1 |
114.8 |
H2 |
C7 |
N6 |
C5 |
190.4 |
1.7 |
H2 |
C7 |
C8 |
C9 |
128.1 |
95.2 |
H2 |
C7 |
C8 |
H9 |
247.6 |
214.5 |
H2 |
C7 |
C8 |
H10 |
8.7 |
335.9 |
H3 |
C20 |
C10 |
C9 |
98.5 |
203.7 |
C10 |
C20 |
H3 |
H4 |
120.9 |
236.7 |
H3 |
C20 |
C10 |
H5 |
213.7 |
322.4 |
H3 |
C20 |
C7 |
C8 |
246.1 |
156.3 |
H3 |
C20 |
C7 |
H2 |
130.0 |
37.6 |
H4 |
C20 |
C10 |
C9 |
219.1 |
80.4 |
C10 |
C20 |
H4 |
H3 |
239.1 |
123.3 |
H4 |
C20 |
C10 |
H5 |
334.3 |
199.1 |
H4 |
C20 |
C7 |
C8 |
125.5 |
279.7 |
H4 |
C20 |
C7 |
H2 |
9.5 |
160.9 |
C20 |
C10 |
H5 |
C9 |
246.4 |
245.2 |
H5 |
C10 |
C20 |
H3 |
213.7 |
322.4 |
H5 |
C10 |
C20 |
H4 |
334.3 |
199.1 |
H5 |
C10 |
C9 |
C8 |
273.6 |
264.9 |
H5 |
C10 |
C9 |
H7 |
33.2 |
24.2 |
H5 |
C10 |
C9 |
H8 |
154.1 |
145.7 |
H6 |
C12 |
C13 |
O15 |
7.5 |
275.0 |
C10 |
C9 |
H7 |
C8 |
242.8 |
242.9 |
H7 |
C9 |
C10 |
H5 |
33.2 |
24.2 |
C10 |
C9 |
H7 |
H8 |
121.4 |
121.5 |
C8 |
C9 |
H7 |
H8 |
238.6 |
238.6 |
H7 |
C9 |
C8 |
H9 |
95.9 |
121.4 |
H7 |
C9 |
C8 |
H10 |
334.8 |
360.0 |
C10 |
C9 |
H8 |
C8 |
117.2 |
117.1 |
H8 |
C9 |
C10 |
H5 |
154.1 |
145.7 |
C10 |
C9 |
H8 |
H7 |
238.6 |
238.5 |
C8 |
C9 |
H8 |
H7 |
121.4 |
121.4 |
H8 |
C9 |
C8 |
H9 |
335.0 |
359.9 |
H8 |
C9 |
C8 |
H10 |
213.8 |
238.5 |
C7 |
C8 |
H9 |
C9 |
243.3 |
242.8 |
H9 |
C8 |
C7 |
H2 |
247.6 |
214.5 |
C7 |
C8 |
H9 |
H10 |
121.6 |
121.4 |
H9 |
C8 |
C9 |
H7 |
95.9 |
121.4 |
H9 |
C8 |
C9 |
H8 |
335.0 |
359.9 |
C9 |
C8 |
H9 |
H10 |
238.3 |
238.6 |
C7 |
C8 |
H10 |
C9 |
116.7 |
117.2 |
H10 |
C8 |
C7 |
H2 |
8.7 |
335.9 |
C7 |
C8 |
H10 |
H9 |
238.4 |
238.6 |
H10 |
C8 |
C9 |
H7 |
334.8 |
360.0 |
H10 |
C8 |
C9 |
H8 |
213.8 |
238.5 |
C9 |
C8 |
H10 |
H9 |
121.7 |
121.4 |
N6 |
C5 |
H11 |
C3 |
180.0 |
180.9 |
H11 |
C5 |
C3 |
C4 |
359.6 |
0.8 |
C3 |
C4 |
H12 |
H13 |
120.0 |
119.9 |
C3 |
C4 |
H12 |
H14 |
240.0 |
239.9 |
H13 |
C4 |
H12 |
H14 |
120.0 |
120.0 |
C3 |
C4 |
H13 |
H12 |
239.9 |
240.1 |
C3 |
C4 |
H13 |
H14 |
120.0 |
120.0 |
H12 |
C4 |
H13 |
H14 |
240.0 |
239.9 |
C3 |
C4 |
H14 |
H12 |
120.0 |
120.0 |
C3 |
C4 |
H14 |
H13 |
240.0 |
240.0 |
H12 |
C4 |
H14 |
H13 |
120.0 |
120.0 |
H15 |
O19 |
P16 |
O17 |
123.0 |
169.9 |
H17 |
C1 |
O15 |
H18 |
|
239.9 |
H17 |
C1 |
O15 |
H19 |
|
119.9 |
H18 |
C1 |
O15 |
H19 |
|
240.0 |
O15 |
C1 |
H17 |
H18 |
|
120.0 |
O15 |
C1 |
H17 |
H19 |
|
240.1 |
H18 |
C1 |
H17 |
H19 |
|
120.1 |
O15 |
C1 |
H18 |
H17 |
|
240.0 |
O15 |
C1 |
H18 |
H19 |
|
119.9 |
H17 |
C1 |
H18 |
H19 |
|
240.0 |
O15 |
C1 |
H19 |
H17 |
|
119.9 |
O15 |
C1 |
H19 |
H18 |
|
240.0 |
H17 |
C1 |
H19 |
H18 |
|
120.1 |