PDB Chemical Component HCX
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 HCX
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| P |
O1P |
1.483 |
1.506 |
| P |
O2P |
1.485 |
1.626 |
| P |
O5' |
1.588 |
1.627 |
| O2P |
H2P |
0.950 |
0.981 |
| O5' |
C5' |
1.421 |
1.415 |
| C4 |
C7 |
1.506 |
1.507 |
| C4 |
C4' |
1.508 |
1.513 |
| C4 |
C1' |
1.492 |
1.491 |
| C4 |
H4 |
1.115 |
1.080 |
| C7 |
C1' |
1.508 |
1.505 |
| C7 |
H71 |
1.115 |
1.084 |
| C7 |
H72 |
1.115 |
1.082 |
| C2' |
C1' |
1.521 |
1.503 |
| C2' |
C3' |
1.526 |
1.537 |
| C2' |
H2'1 |
1.115 |
1.094 |
| C2' |
H2'2 |
1.116 |
1.096 |
| C5' |
C4' |
1.509 |
1.527 |
| C5' |
H5'1 |
1.116 |
1.091 |
| C5' |
H5'2 |
1.114 |
1.089 |
| C4' |
C3' |
1.528 |
1.546 |
| C4' |
H4' |
1.115 |
1.096 |
| C1' |
H1' |
1.116 |
1.080 |
| C3' |
O3' |
1.425 |
1.426 |
| C3' |
H1 |
1.114 |
1.095 |
| O3' |
H3' |
0.950 |
0.970 |
| HP1 |
P |
1.420 |
1.412 |
Bond Angles for HCX
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O1P |
P |
O2P |
119.7 |
111.5 |
| O1P |
P |
O5' |
108.7 |
112.0 |
| O2P |
P |
O5' |
107.3 |
101.5 |
| P |
O2P |
H2P |
119.7 |
118.6 |
| P |
O5' |
C5' |
120.7 |
118.4 |
| O5' |
C5' |
C4' |
109.8 |
108.5 |
| O5' |
C5' |
H5'1 |
112.0 |
109.3 |
| O5' |
C5' |
H5'2 |
112.1 |
109.4 |
| C7 |
C4 |
C4' |
119.4 |
122.2 |
| C7 |
C4 |
C1' |
60.4 |
60.3 |
| C7 |
C4 |
H4 |
130.4 |
118.1 |
| C4 |
C7 |
C1' |
59.3 |
59.3 |
| C4 |
C7 |
H71 |
135.4 |
117.4 |
| C4 |
C7 |
H72 |
135.4 |
119.3 |
| C4' |
C4 |
C1' |
107.9 |
108.8 |
| C4' |
C4 |
H4 |
97.5 |
115.1 |
| C4 |
C4' |
C5' |
111.6 |
110.5 |
| C4 |
C4' |
C3' |
105.4 |
104.9 |
| C4 |
C4' |
H4' |
112.7 |
109.8 |
| C1' |
C4 |
H4 |
140.1 |
120.2 |
| C4 |
C1' |
C7 |
60.3 |
60.4 |
| C4 |
C1' |
C2' |
107.4 |
108.7 |
| C4 |
C1' |
H1' |
141.3 |
119.8 |
| C1' |
C7 |
H71 |
135.4 |
117.4 |
| C1' |
C7 |
H72 |
135.3 |
119.3 |
| C7 |
C1' |
C2' |
121.4 |
122.4 |
| C7 |
C1' |
H1' |
129.5 |
118.9 |
| H71 |
C7 |
H72 |
70.0 |
113.7 |
| C1' |
C2' |
C3' |
104.8 |
105.5 |
| C1' |
C2' |
H2'1 |
114.0 |
111.1 |
| C1' |
C2' |
H2'2 |
114.0 |
108.6 |
| C2' |
C1' |
H1' |
96.8 |
114.5 |
| C3' |
C2' |
H2'1 |
114.0 |
112.6 |
| C3' |
C2' |
H2'2 |
114.0 |
109.8 |
| C2' |
C3' |
C4' |
104.4 |
105.9 |
| C2' |
C3' |
O3' |
110.8 |
108.8 |
| C2' |
C3' |
H1 |
111.8 |
112.1 |
| H2'1 |
C2' |
H2'2 |
96.5 |
109.1 |
| C4' |
C5' |
H5'1 |
112.1 |
109.9 |
| C4' |
C5' |
H5'2 |
112.1 |
110.0 |
| C5' |
C4' |
C3' |
114.7 |
111.1 |
| C5' |
C4' |
H4' |
103.0 |
109.2 |
| H5'1 |
C5' |
H5'2 |
98.4 |
109.8 |
| C3' |
C4' |
H4' |
109.5 |
111.4 |
| C4' |
C3' |
O3' |
109.3 |
110.0 |
| C4' |
C3' |
H1 |
113.3 |
113.2 |
| O3' |
C3' |
H1 |
107.2 |
106.9 |
| C3' |
O3' |
H3' |
110.8 |
106.5 |
Torsion Angles for HCX
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O2P |
P |
O1P |
O5' |
236.3 |
247.0 |
| O1P |
P |
O2P |
H2P |
180.0 |
45.8 |
| O1P |
P |
O5' |
C5' |
23.7 |
193.7 |
| O1P |
P |
O2P |
O5' |
124.4 |
119.4 |
| O2P |
P |
O5' |
C5' |
154.5 |
312.8 |
| O1P |
P |
O5' |
O2P |
229.2 |
240.9 |
| O5' |
P |
O2P |
H2P |
55.6 |
286.4 |
| P |
O5' |
C5' |
C4' |
90.9 |
210.0 |
| P |
O5' |
C5' |
H5'1 |
216.1 |
329.8 |
| P |
O5' |
C5' |
H5'2 |
325.6 |
90.1 |
| H2P |
O2P |
P |
O5' |
55.6 |
286.4 |
| C4 |
C4' |
C5' |
O5' |
39.6 |
299.5 |
| C4' |
C5' |
O5' |
H5'1 |
234.8 |
240.2 |
| C4' |
C5' |
O5' |
H5'2 |
125.3 |
119.9 |
| O5' |
C5' |
C4' |
C3' |
159.4 |
55.4 |
| O5' |
C5' |
C4' |
H4' |
278.4 |
178.6 |
| H5'1 |
C5' |
O5' |
H5'2 |
250.5 |
239.8 |
| C4' |
C4 |
C7 |
C1' |
265.0 |
265.5 |
| C4' |
C4 |
C7 |
H4 |
132.6 |
154.9 |
| C7 |
C4 |
C4' |
C5' |
173.8 |
171.0 |
| C7 |
C4 |
C4' |
C3' |
48.6 |
51.3 |
| C7 |
C4 |
C4' |
H4' |
289.2 |
291.5 |
| C1' |
C4 |
C7 |
H4 |
227.6 |
249.4 |
| C7 |
C4 |
C1' |
C7 |
360.0 |
-0.0 |
| C7 |
C4 |
C1' |
C2' |
243.3 |
242.8 |
| C7 |
C4 |
C1' |
H1' |
117.2 |
108.4 |
| C1' |
C7 |
C4 |
H71 |
234.7 |
107.2 |
| C1' |
C7 |
C4 |
H72 |
125.2 |
251.3 |
| C4 |
C7 |
C1' |
C2' |
93.2 |
94.4 |
| C4 |
C7 |
C1' |
H1' |
226.1 |
250.2 |
| H71 |
C7 |
C4 |
H72 |
250.5 |
144.1 |
| O5' |
C5' |
C4' |
C4 |
39.6 |
299.5 |
| C7 |
C4 |
C4' |
C1' |
65.6 |
66.1 |
| C7 |
C4 |
C4' |
H4 |
214.4 |
204.4 |
| C4' |
C4 |
C7 |
H71 |
30.3 |
158.3 |
| C4' |
C4 |
C7 |
H72 |
139.8 |
14.2 |
| C1' |
C4 |
C4' |
H4 |
148.8 |
138.3 |
| C4' |
C4 |
C1' |
C7 |
114.2 |
117.0 |
| C4' |
C4 |
C1' |
C2' |
357.5 |
359.8 |
| C4' |
C4 |
C1' |
H1' |
231.4 |
225.4 |
| C2' |
C3' |
C4' |
C4 |
29.7 |
24.0 |
| C4 |
C4' |
C5' |
H5'1 |
274.4 |
180.0 |
| C4 |
C4' |
C5' |
H5'2 |
164.9 |
59.1 |
| C5' |
C4' |
C4 |
C3' |
125.2 |
119.7 |
| C5' |
C4' |
C4 |
H4' |
244.6 |
239.5 |
| C3' |
C4' |
C4 |
H4' |
119.4 |
119.8 |
| C4 |
C4' |
C3' |
O3' |
271.1 |
266.6 |
| C4 |
C4' |
C3' |
H1 |
151.6 |
147.1 |
| C7 |
C4 |
C1' |
C4' |
245.8 |
243.0 |
| C7 |
C4 |
C1' |
H4 |
118.9 |
107.2 |
| C1' |
C4 |
C7 |
C1' |
-0.0 |
-0.0 |
| C1' |
C4 |
C7 |
H71 |
125.3 |
252.8 |
| C1' |
C4 |
C7 |
H72 |
234.8 |
108.7 |
| C4' |
C4 |
C1' |
H4 |
233.1 |
224.2 |
| C1' |
C4 |
C4' |
C5' |
108.2 |
104.9 |
| C1' |
C4 |
C4' |
C3' |
343.0 |
345.2 |
| C1' |
C4 |
C4' |
H4' |
223.6 |
225.4 |
| C4 |
C1' |
C7 |
H71 |
234.7 |
107.2 |
| C4 |
C1' |
C7 |
H72 |
125.2 |
251.4 |
| C7 |
C1' |
C4 |
C2' |
116.7 |
117.2 |
| C7 |
C1' |
C4 |
H1' |
242.8 |
251.6 |
| C4 |
C1' |
C2' |
C3' |
21.0 |
15.3 |
| C4 |
C1' |
C2' |
H2'1 |
146.3 |
137.6 |
| C4 |
C1' |
C2' |
H2'2 |
255.7 |
257.6 |
| C2' |
C1' |
C4 |
H1' |
126.1 |
134.3 |
| C7 |
C4 |
H4 |
C4' |
139.7 |
156.7 |
| C7 |
C4 |
H4 |
C1' |
269.6 |
289.9 |
| H4 |
C4 |
C7 |
C1' |
132.4 |
110.6 |
| H4 |
C4 |
C7 |
H71 |
257.7 |
3.4 |
| H4 |
C4 |
C7 |
H72 |
7.2 |
219.2 |
| C4' |
C4 |
H4 |
C1' |
129.9 |
133.2 |
| H4 |
C4 |
C4' |
C5' |
319.3 |
326.6 |
| H4 |
C4 |
C4' |
C3' |
194.2 |
206.9 |
| H4 |
C4 |
C4' |
H4' |
74.8 |
87.1 |
| H4 |
C4 |
C1' |
C7 |
241.1 |
252.8 |
| H4 |
C4 |
C1' |
C2' |
124.4 |
135.6 |
| H4 |
C4 |
C1' |
H1' |
358.4 |
1.2 |
| C1' |
C7 |
C4 |
C4' |
265.0 |
265.5 |
| C1' |
C7 |
C4 |
C1' |
-0.0 |
-0.0 |
| C1' |
C7 |
C4 |
H4 |
132.4 |
110.6 |
| C4 |
C7 |
C1' |
H71 |
125.3 |
252.8 |
| C4 |
C7 |
C1' |
H72 |
234.8 |
108.6 |
| C7 |
C1' |
C4 |
H4 |
241.1 |
252.8 |
| C4 |
C1' |
C7 |
C2' |
266.8 |
265.6 |
| C4 |
C1' |
C7 |
H1' |
133.9 |
109.8 |
| H71 |
C7 |
C1' |
H72 |
109.5 |
215.8 |
| C7 |
C1' |
C2' |
C3' |
315.7 |
309.1 |
| C7 |
C1' |
C2' |
H2'1 |
81.0 |
71.4 |
| C7 |
C1' |
C2' |
H2'2 |
190.4 |
191.4 |
| C2' |
C1' |
C7 |
H1' |
227.1 |
204.2 |
| H71 |
C7 |
C4 |
C4' |
30.3 |
158.3 |
| H71 |
C7 |
C4 |
C1' |
125.3 |
252.8 |
| H71 |
C7 |
C4 |
H4 |
257.7 |
3.4 |
| C4 |
C7 |
H71 |
C1' |
270.3 |
67.8 |
| C4 |
C7 |
H71 |
H72 |
135.2 |
213.9 |
| C1' |
C7 |
H71 |
H72 |
224.9 |
146.1 |
| H71 |
C7 |
C1' |
C2' |
327.9 |
201.6 |
| H71 |
C7 |
C1' |
H1' |
100.7 |
357.4 |
| H72 |
C7 |
C4 |
C4' |
139.8 |
14.2 |
| H72 |
C7 |
C4 |
C1' |
234.8 |
108.7 |
| H72 |
C7 |
C4 |
H4 |
7.2 |
219.2 |
| C4 |
C7 |
H72 |
C1' |
89.6 |
290.8 |
| C4 |
C7 |
H72 |
H71 |
224.8 |
145.4 |
| C1' |
C7 |
H72 |
H71 |
135.2 |
214.6 |
| H72 |
C7 |
C1' |
C2' |
218.4 |
345.8 |
| H72 |
C7 |
C1' |
H1' |
351.3 |
141.6 |
| C2' |
C1' |
C4 |
H4 |
124.4 |
135.6 |
| C4 |
C1' |
C2' |
C7 |
65.3 |
66.2 |
| C4 |
C1' |
C2' |
H1' |
210.6 |
223.0 |
| C2' |
C1' |
C7 |
H71 |
327.9 |
201.6 |
| C2' |
C1' |
C7 |
H72 |
218.4 |
345.8 |
| C7 |
C1' |
C2' |
H1' |
145.3 |
156.8 |
| C3' |
C2' |
C1' |
H2'1 |
234.7 |
237.7 |
| C3' |
C2' |
C1' |
H2'2 |
125.3 |
117.7 |
| C1' |
C2' |
C3' |
C4' |
328.9 |
335.7 |
| C1' |
C2' |
C3' |
O3' |
86.5 |
93.9 |
| C1' |
C2' |
C3' |
H1 |
206.1 |
211.9 |
| H2'1 |
C2' |
C1' |
H2'2 |
250.6 |
240.0 |
| C4 |
C4' |
C3' |
C2' |
29.7 |
24.0 |
| C1' |
C2' |
C3' |
H2'1 |
125.3 |
121.3 |
| C1' |
C2' |
C3' |
H2'2 |
234.7 |
243.2 |
| C3' |
C2' |
C1' |
H1' |
170.4 |
152.3 |
| H2'1 |
C2' |
C3' |
H2'2 |
109.5 |
121.8 |
| C5' |
C4' |
C3' |
C2' |
266.5 |
264.7 |
| C2' |
C3' |
C4' |
H4' |
151.2 |
142.7 |
| C4' |
C3' |
C2' |
O3' |
242.4 |
241.8 |
| C4' |
C3' |
C2' |
H1 |
122.8 |
123.8 |
| O3' |
C3' |
C2' |
H1 |
240.4 |
242.0 |
| C2' |
C3' |
O3' |
H3' |
180.0 |
165.2 |
| C1' |
C2' |
H2'1 |
C3' |
239.7 |
241.9 |
| C1' |
C2' |
H2'1 |
H2'2 |
119.8 |
119.7 |
| H2'1 |
C2' |
C1' |
H1' |
295.7 |
274.6 |
| C3' |
C2' |
H2'1 |
H2'2 |
240.1 |
237.8 |
| H2'1 |
C2' |
C3' |
C4' |
203.6 |
214.4 |
| H2'1 |
C2' |
C3' |
O3' |
321.2 |
332.6 |
| H2'1 |
C2' |
C3' |
H1 |
80.8 |
90.6 |
| C1' |
C2' |
H2'2 |
C3' |
120.2 |
114.9 |
| C1' |
C2' |
H2'2 |
H2'1 |
240.2 |
238.8 |
| H2'2 |
C2' |
C1' |
H1' |
45.1 |
34.6 |
| C3' |
C2' |
H2'2 |
H2'1 |
119.9 |
123.9 |
| H2'2 |
C2' |
C3' |
C4' |
94.2 |
92.6 |
| H2'2 |
C2' |
C3' |
O3' |
211.8 |
210.7 |
| H2'2 |
C2' |
C3' |
H1 |
331.3 |
328.7 |
| O5' |
C5' |
C4' |
H5'1 |
125.2 |
119.5 |
| O5' |
C5' |
C4' |
H5'2 |
234.7 |
240.4 |
| C5' |
C4' |
C4 |
C1' |
108.2 |
104.9 |
| C5' |
C4' |
C4 |
H4 |
319.3 |
326.6 |
| C4 |
C4' |
C5' |
C3' |
240.2 |
244.1 |
| C4 |
C4' |
C5' |
H4' |
121.2 |
120.9 |
| C2' |
C3' |
C4' |
C5' |
266.5 |
264.7 |
| H5'1 |
C5' |
C4' |
H5'2 |
109.5 |
120.9 |
| C3' |
C4' |
C5' |
H4' |
241.1 |
236.8 |
| C5' |
C4' |
C3' |
O3' |
147.9 |
147.3 |
| C5' |
C4' |
C3' |
H1 |
28.4 |
27.8 |
| O5' |
C5' |
H5'1 |
C4' |
236.0 |
241.0 |
| O5' |
C5' |
H5'1 |
H5'2 |
118.0 |
120.0 |
| C4' |
C5' |
H5'1 |
H5'2 |
242.0 |
239.0 |
| H5'1 |
C5' |
C4' |
C3' |
34.2 |
295.9 |
| H5'1 |
C5' |
C4' |
H4' |
153.2 |
59.1 |
| O5' |
C5' |
H5'2 |
C4' |
124.0 |
119.0 |
| O5' |
C5' |
H5'2 |
H5'1 |
242.0 |
240.0 |
| C4' |
C5' |
H5'2 |
H5'1 |
118.0 |
121.0 |
| H5'2 |
C5' |
C4' |
C3' |
284.7 |
175.0 |
| H5'2 |
C5' |
C4' |
H4' |
43.6 |
298.2 |
| C3' |
C4' |
C4 |
C1' |
343.0 |
345.2 |
| C3' |
C4' |
C4 |
H4 |
194.2 |
206.9 |
| C4 |
C4' |
C3' |
C5' |
123.2 |
119.3 |
| C4 |
C4' |
C3' |
H4' |
238.5 |
241.3 |
| C4' |
C3' |
C2' |
H2'1 |
203.6 |
214.4 |
| C4' |
C3' |
C2' |
H2'2 |
94.2 |
92.6 |
| C2' |
C3' |
C4' |
O3' |
118.6 |
117.4 |
| C2' |
C3' |
C4' |
H1 |
238.1 |
236.9 |
| C3' |
C4' |
C5' |
H5'1 |
34.2 |
295.9 |
| C3' |
C4' |
C5' |
H5'2 |
284.7 |
175.0 |
| C5' |
C4' |
C3' |
H4' |
115.3 |
121.9 |
| O3' |
C3' |
C4' |
H1 |
119.5 |
119.5 |
| C4' |
C3' |
O3' |
H3' |
294.6 |
280.8 |
| H4' |
C4' |
C4 |
C1' |
223.6 |
225.4 |
| H4' |
C4' |
C4 |
H4 |
74.8 |
87.1 |
| C4 |
C4' |
H4' |
C5' |
239.5 |
238.7 |
| C4 |
C4' |
H4' |
C3' |
117.0 |
115.7 |
| H4' |
C4' |
C5' |
H5'1 |
153.2 |
59.1 |
| H4' |
C4' |
C5' |
H5'2 |
43.6 |
298.2 |
| C5' |
C4' |
H4' |
C3' |
237.5 |
237.0 |
| H4' |
C4' |
C3' |
O3' |
32.6 |
25.4 |
| H4' |
C4' |
C3' |
H1 |
273.2 |
265.9 |
| H1' |
C1' |
C4 |
H4 |
358.4 |
1.2 |
| C4 |
C1' |
H1' |
C7 |
270.0 |
289.5 |
| C4 |
C1' |
H1' |
C2' |
129.0 |
131.9 |
| H1' |
C1' |
C7 |
H71 |
100.7 |
357.4 |
| H1' |
C1' |
C7 |
H72 |
351.3 |
141.6 |
| C7 |
C1' |
H1' |
C2' |
219.1 |
202.3 |
| H1' |
C1' |
C2' |
C3' |
170.4 |
152.3 |
| H1' |
C1' |
C2' |
H2'1 |
295.7 |
274.6 |
| H1' |
C1' |
C2' |
H2'2 |
45.1 |
34.6 |
| O3' |
C3' |
C2' |
H2'1 |
321.2 |
332.6 |
| O3' |
C3' |
C2' |
H2'2 |
211.8 |
210.7 |
| C2' |
C3' |
O3' |
C4' |
245.4 |
244.4 |
| C2' |
C3' |
O3' |
H1 |
122.3 |
121.2 |
| O3' |
C3' |
C4' |
H4' |
32.6 |
25.4 |
| C4' |
C3' |
O3' |
H1 |
236.9 |
236.8 |
| H1 |
C3' |
C2' |
H2'1 |
80.8 |
90.6 |
| H1 |
C3' |
C2' |
H2'2 |
331.3 |
328.7 |
| C2' |
C3' |
H1 |
C4' |
117.7 |
119.7 |
| C2' |
C3' |
H1 |
O3' |
238.3 |
240.9 |
| H1 |
C3' |
C4' |
H4' |
273.2 |
265.9 |
| C4' |
C3' |
H1 |
O3' |
120.7 |
121.2 |
| H1 |
C3' |
O3' |
H3' |
57.7 |
44.0 |
| H3' |
O3' |
C3' |
H1 |
57.7 |
44.0 |