PDB Chemical Component OHU
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 OHU
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| P |
O5' |
1.604 |
1.610 |
| P |
OP1 |
1.505 |
1.480 |
| P |
OP2 |
1.507 |
1.610 |
| P |
OP3 |
1.611 |
1.610 |
| N1 |
C2 |
1.420 |
1.345 |
| N1 |
C6 |
1.339 |
1.372 |
| N1 |
C1' |
1.466 |
1.465 |
| C2 |
O2 |
1.251 |
1.216 |
| C2 |
N3 |
1.353 |
1.346 |
| N3 |
C4 |
1.349 |
1.348 |
| C4 |
O4 |
1.247 |
1.218 |
| C4 |
C5 |
1.483 |
1.419 |
| C5 |
O5 |
1.363 |
1.362 |
| C5 |
C6 |
1.384 |
1.353 |
| C1' |
C2' |
1.523 |
1.540 |
| C1' |
O4' |
1.431 |
1.438 |
| C2' |
C3' |
1.514 |
1.548 |
| C3' |
O3' |
1.433 |
1.429 |
| C3' |
C4' |
1.515 |
1.550 |
| C4' |
O4' |
1.429 |
1.444 |
| C4' |
C5' |
1.519 |
1.530 |
| C5' |
O5' |
1.420 |
1.429 |
| N3 |
HN3 |
1.000 |
0.970 |
| O5 |
HO5 |
0.950 |
0.967 |
| C6 |
H6 |
1.080 |
1.080 |
| C1' |
H1' |
1.100 |
1.091 |
| C2' |
H2' |
1.100 |
1.090 |
| C2' |
H2'A |
1.100 |
1.090 |
| C3' |
H3' |
1.100 |
1.090 |
| O3' |
HO3' |
0.950 |
0.967 |
| C4' |
H4' |
1.100 |
1.091 |
| C5' |
H5' |
1.099 |
1.090 |
| C5' |
H5'A |
1.100 |
1.089 |
| OP2 |
HOP2 |
0.950 |
0.967 |
| OP3 |
HOP3 |
0.950 |
0.967 |
Bond Angles for OHU
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O5' |
P |
OP1 |
108.4 |
109.4 |
| O5' |
P |
OP2 |
106.5 |
109.5 |
| O5' |
P |
OP3 |
103.6 |
109.5 |
| P |
O5' |
C5' |
120.1 |
123.0 |
| OP1 |
P |
OP2 |
119.6 |
109.5 |
| OP1 |
P |
OP3 |
108.3 |
109.5 |
| OP2 |
P |
OP3 |
109.3 |
109.5 |
| P |
OP2 |
HOP2 |
109.5 |
114.0 |
| P |
OP3 |
HOP3 |
109.5 |
113.9 |
| C2 |
N1 |
C6 |
120.9 |
120.6 |
| C2 |
N1 |
C1' |
122.7 |
119.7 |
| N1 |
C2 |
O2 |
120.8 |
119.5 |
| N1 |
C2 |
N3 |
120.7 |
121.0 |
| C6 |
N1 |
C1' |
116.5 |
119.7 |
| N1 |
C6 |
C5 |
120.3 |
119.6 |
| N1 |
C6 |
H6 |
119.8 |
120.2 |
| N1 |
C1' |
C2' |
115.9 |
109.9 |
| N1 |
C1' |
O4' |
111.1 |
109.8 |
| N1 |
C1' |
H1' |
107.9 |
109.9 |
| O2 |
C2 |
N3 |
118.5 |
119.5 |
| C2 |
N3 |
C4 |
120.6 |
120.3 |
| C2 |
N3 |
HN3 |
119.7 |
119.8 |
| N3 |
C4 |
O4 |
120.1 |
120.3 |
| N3 |
C4 |
C5 |
119.3 |
119.4 |
| C4 |
N3 |
HN3 |
119.7 |
119.9 |
| O4 |
C4 |
C5 |
120.6 |
120.3 |
| C4 |
C5 |
O5 |
121.4 |
120.5 |
| C4 |
C5 |
C6 |
118.2 |
119.0 |
| O5 |
C5 |
C6 |
120.4 |
120.4 |
| C5 |
O5 |
HO5 |
109.5 |
114.0 |
| C5 |
C6 |
H6 |
119.8 |
120.2 |
| C2' |
C1' |
O4' |
106.0 |
107.3 |
| C1' |
C2' |
C3' |
100.3 |
104.2 |
| C2' |
C1' |
H1' |
107.2 |
109.9 |
| C1' |
C2' |
H2' |
111.7 |
110.5 |
| C1' |
C2' |
H2'A |
111.7 |
110.5 |
| C1' |
O4' |
C4' |
109.3 |
106.9 |
| O4' |
C1' |
H1' |
108.3 |
110.0 |
| C2' |
C3' |
O3' |
108.2 |
110.9 |
| C2' |
C3' |
C4' |
101.9 |
102.1 |
| C3' |
C2' |
H2' |
111.7 |
110.4 |
| C3' |
C2' |
H2'A |
111.7 |
110.4 |
| C2' |
C3' |
H3' |
112.0 |
110.9 |
| O3' |
C3' |
C4' |
108.6 |
110.9 |
| O3' |
C3' |
H3' |
113.3 |
110.8 |
| C3' |
O3' |
HO3' |
109.5 |
114.0 |
| C3' |
C4' |
O4' |
105.7 |
103.5 |
| C3' |
C4' |
C5' |
110.6 |
110.6 |
| C4' |
C3' |
H3' |
112.0 |
110.9 |
| C3' |
C4' |
H4' |
110.4 |
110.6 |
| O4' |
C4' |
C5' |
108.0 |
110.6 |
| O4' |
C4' |
H4' |
111.7 |
110.6 |
| C4' |
C5' |
O5' |
108.2 |
109.5 |
| C5' |
C4' |
H4' |
110.4 |
110.7 |
| C4' |
C5' |
H5' |
109.8 |
109.4 |
| C4' |
C5' |
H5'A |
109.8 |
109.5 |
| O5' |
C5' |
H5' |
109.8 |
109.4 |
| O5' |
C5' |
H5'A |
109.8 |
109.5 |
| H2' |
C2' |
H2'A |
109.4 |
110.6 |
| H5' |
C5' |
H5'A |
109.4 |
109.6 |
Torsion Angles for OHU
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| OP1 |
P |
O5' |
OP2 |
129.9 |
240.0 |
| OP1 |
P |
O5' |
OP3 |
245.1 |
120.0 |
| OP2 |
P |
O5' |
OP3 |
115.2 |
240.0 |
| O5' |
P |
OP2 |
HOP2 |
123.1 |
180.0 |
| O5' |
P |
OP3 |
HOP3 |
245.0 |
300.0 |
| C4' |
C5' |
O5' |
P |
181.3 |
180.0 |
| P |
O5' |
C5' |
H5' |
61.5 |
60.1 |
| P |
O5' |
C5' |
H5'A |
301.1 |
300.0 |
| O5' |
P |
OP1 |
OP2 |
237.8 |
120.0 |
| O5' |
P |
OP1 |
OP3 |
111.8 |
240.0 |
| OP1 |
P |
O5' |
C5' |
203.9 |
55.0 |
| OP2 |
P |
OP1 |
OP3 |
234.0 |
120.0 |
| OP1 |
P |
OP2 |
HOP2 |
360.0 |
300.0 |
| OP1 |
P |
OP3 |
HOP3 |
360.0 |
180.0 |
| O5' |
P |
OP2 |
OP1 |
123.1 |
240.0 |
| O5' |
P |
OP2 |
OP3 |
248.7 |
120.0 |
| OP2 |
P |
O5' |
C5' |
74.0 |
175.0 |
| OP1 |
P |
OP2 |
OP3 |
125.5 |
240.0 |
| OP2 |
P |
OP3 |
HOP3 |
131.8 |
60.0 |
| O5' |
P |
OP3 |
OP1 |
245.1 |
120.0 |
| O5' |
P |
OP3 |
OP2 |
113.3 |
240.0 |
| OP3 |
P |
O5' |
C5' |
318.8 |
295.0 |
| OP1 |
P |
OP3 |
OP2 |
228.2 |
120.0 |
| OP3 |
P |
OP2 |
HOP2 |
234.4 |
60.0 |
| C6 |
N1 |
C2 |
C1' |
178.3 |
180.3 |
| C2 |
N1 |
C6 |
C5 |
1.0 |
360.0 |
| C2 |
N1 |
C6 |
H6 |
181.0 |
180.0 |
| C2 |
N1 |
C1' |
C2' |
308.2 |
295.0 |
| C2 |
N1 |
C1' |
O4' |
69.3 |
52.9 |
| C2 |
N1 |
C1' |
H1' |
188.0 |
174.0 |
| O2 |
C2 |
N1 |
N3 |
180.5 |
180.0 |
| N1 |
C2 |
N3 |
C4 |
0.5 |
360.0 |
| N1 |
C2 |
N3 |
HN3 |
180.5 |
180.0 |
| C2 |
N1 |
C6 |
C1' |
181.6 |
179.7 |
| C6 |
N1 |
C2 |
O2 |
179.5 |
180.0 |
| C6 |
N1 |
C2 |
N3 |
358.9 |
0.0 |
| C6 |
N1 |
C1' |
C2' |
129.8 |
114.7 |
| C6 |
N1 |
C1' |
O4' |
251.0 |
232.6 |
| C6 |
N1 |
C1' |
H1' |
9.6 |
353.7 |
| C4 |
C5 |
C6 |
N1 |
359.5 |
0.0 |
| O5 |
C5 |
C6 |
N1 |
179.5 |
180.0 |
| C5 |
C6 |
N1 |
H6 |
180.0 |
180.0 |
| C2 |
N1 |
C1' |
C6 |
178.4 |
180.3 |
| C1' |
N1 |
C2 |
O2 |
1.2 |
359.7 |
| C1' |
N1 |
C2 |
N3 |
180.7 |
179.7 |
| C1' |
N1 |
C6 |
C5 |
179.4 |
180.3 |
| C1' |
N1 |
C6 |
H6 |
359.4 |
0.3 |
| C2' |
C1' |
N1 |
O4' |
238.8 |
242.1 |
| N1 |
C1' |
C2' |
C3' |
157.6 |
121.4 |
| C2' |
C1' |
N1 |
H1' |
120.2 |
121.0 |
| N1 |
C1' |
C2' |
H2' |
276.1 |
240.1 |
| N1 |
C1' |
C2' |
H2'A |
39.1 |
2.8 |
| N1 |
C1' |
O4' |
C4' |
219.3 |
214.1 |
| O4' |
C1' |
N1 |
H1' |
241.4 |
238.9 |
| O2 |
C2 |
N1 |
C6 |
179.5 |
180.0 |
| O2 |
C2 |
N1 |
C1' |
1.2 |
359.7 |
| N1 |
C2 |
O2 |
N3 |
179.5 |
180.0 |
| O2 |
C2 |
N3 |
C4 |
180.0 |
179.9 |
| O2 |
C2 |
N3 |
HN3 |
0.0 |
359.9 |
| N3 |
C2 |
N1 |
C6 |
358.9 |
0.0 |
| N3 |
C2 |
N1 |
C1' |
180.7 |
179.7 |
| N1 |
C2 |
N3 |
O2 |
180.5 |
180.0 |
| C2 |
N3 |
C4 |
O4 |
179.9 |
180.0 |
| C2 |
N3 |
C4 |
C5 |
0.0 |
0.0 |
| C4 |
N3 |
C2 |
HN3 |
180.0 |
180.0 |
| C2 |
N3 |
C4 |
HN3 |
180.0 |
180.0 |
| O4 |
C4 |
N3 |
C5 |
179.9 |
180.0 |
| N3 |
C4 |
C5 |
O5 |
180.0 |
180.0 |
| N3 |
C4 |
C5 |
C6 |
360.0 |
360.0 |
| N3 |
C4 |
O4 |
C5 |
180.1 |
180.0 |
| O4 |
C4 |
N3 |
HN3 |
359.8 |
0.0 |
| O4 |
C4 |
C5 |
O5 |
0.1 |
0.0 |
| O4 |
C4 |
C5 |
C6 |
180.1 |
180.0 |
| N1 |
C6 |
C5 |
C4 |
359.5 |
0.0 |
| N3 |
C4 |
C5 |
O4 |
179.9 |
180.0 |
| C5 |
C4 |
N3 |
HN3 |
180.0 |
180.0 |
| O5 |
C5 |
C4 |
C6 |
180.0 |
180.0 |
| C4 |
C5 |
O5 |
HO5 |
360.0 |
360.0 |
| C4 |
C5 |
C6 |
H6 |
179.5 |
180.0 |
| N1 |
C6 |
C5 |
O5 |
179.5 |
180.0 |
| C4 |
C5 |
O5 |
C6 |
180.0 |
180.0 |
| O5 |
C5 |
C6 |
H6 |
359.5 |
360.0 |
| C5 |
C6 |
N1 |
C1' |
179.4 |
180.3 |
| N1 |
C6 |
C5 |
H6 |
180.0 |
180.0 |
| C4 |
C5 |
C6 |
O5 |
180.0 |
180.0 |
| C6 |
C5 |
O5 |
HO5 |
180.0 |
180.0 |
| N1 |
C1' |
C2' |
O4' |
123.9 |
119.4 |
| N1 |
C1' |
C2' |
H1' |
239.4 |
239.0 |
| C2' |
C1' |
O4' |
C4' |
346.1 |
333.5 |
| O4' |
C1' |
C2' |
H1' |
115.5 |
119.6 |
| C1' |
C2' |
C3' |
O3' |
74.6 |
139.1 |
| C1' |
C2' |
C3' |
C4' |
320.2 |
20.9 |
| C3' |
C2' |
C1' |
H2' |
241.5 |
241.3 |
| C3' |
C2' |
C1' |
H2'A |
118.5 |
118.6 |
| C1' |
C2' |
C3' |
H3' |
200.2 |
262.7 |
| H2' |
C2' |
C1' |
H2'A |
237.0 |
237.3 |
| N1 |
C1' |
O4' |
C2' |
233.2 |
240.6 |
| N1 |
C1' |
O4' |
H1' |
118.4 |
121.1 |
| O4' |
C1' |
C2' |
C3' |
33.8 |
2.0 |
| C2' |
C1' |
O4' |
H1' |
245.2 |
240.5 |
| O4' |
C1' |
C2' |
H2' |
152.3 |
120.7 |
| O4' |
C1' |
C2' |
H2'A |
275.3 |
243.4 |
| C3' |
C4' |
O4' |
C1' |
347.8 |
40.0 |
| C1' |
O4' |
C4' |
C5' |
106.2 |
158.6 |
| C1' |
O4' |
C4' |
H4' |
227.7 |
281.6 |
| C3' |
C2' |
C1' |
O4' |
33.8 |
2.0 |
| C3' |
C2' |
C1' |
H1' |
278.2 |
242.5 |
| C1' |
C2' |
C3' |
H2' |
118.5 |
118.7 |
| C1' |
C2' |
C3' |
H2'A |
241.5 |
241.3 |
| O3' |
C3' |
C2' |
C4' |
114.4 |
118.2 |
| O3' |
C3' |
C2' |
H3' |
234.4 |
236.4 |
| C2' |
C3' |
O3' |
HO3' |
180.0 |
61.5 |
| C2' |
C3' |
C4' |
O4' |
33.2 |
323.0 |
| C2' |
C3' |
C4' |
C5' |
276.6 |
204.5 |
| C4' |
C3' |
C2' |
H3' |
119.9 |
118.2 |
| C2' |
C3' |
C4' |
H4' |
154.1 |
81.4 |
| H2' |
C2' |
C3' |
H2'A |
122.9 |
122.6 |
| C2' |
C3' |
O3' |
C4' |
250.1 |
247.3 |
| O3' |
C3' |
C2' |
H2' |
316.1 |
20.4 |
| O3' |
C3' |
C2' |
H2'A |
193.1 |
257.7 |
| C2' |
C3' |
O3' |
H3' |
124.9 |
123.7 |
| O3' |
C3' |
C4' |
O4' |
279.1 |
204.8 |
| O3' |
C3' |
C4' |
C5' |
162.5 |
86.3 |
| C4' |
C3' |
O3' |
H3' |
234.8 |
236.4 |
| O3' |
C3' |
C4' |
H4' |
40.0 |
323.2 |
| C1' |
O4' |
C4' |
C3' |
347.8 |
40.0 |
| C2' |
C3' |
C4' |
O3' |
114.1 |
118.2 |
| C4' |
C3' |
C2' |
H2' |
201.6 |
262.2 |
| C4' |
C3' |
C2' |
H2'A |
78.7 |
139.6 |
| C2' |
C3' |
C4' |
H3' |
240.1 |
241.8 |
| O3' |
C3' |
C4' |
H3' |
126.0 |
123.6 |
| C4' |
C3' |
O3' |
HO3' |
289.9 |
174.2 |
| O4' |
C4' |
C3' |
C5' |
116.6 |
118.5 |
| O4' |
C4' |
C3' |
H4' |
239.1 |
241.5 |
| C3' |
C4' |
C5' |
O5' |
280.7 |
185.0 |
| C5' |
C4' |
C3' |
H4' |
122.4 |
123.0 |
| C3' |
C4' |
C5' |
H5' |
40.5 |
305.0 |
| C3' |
C4' |
C5' |
H5'A |
160.9 |
65.0 |
| C4' |
O4' |
C1' |
H1' |
100.9 |
93.0 |
| C3' |
C4' |
O4' |
C5' |
241.6 |
241.5 |
| O4' |
C4' |
C3' |
H3' |
153.1 |
81.2 |
| C3' |
C4' |
O4' |
H4' |
120.1 |
118.5 |
| O4' |
C4' |
C5' |
O5' |
165.5 |
70.9 |
| C5' |
C4' |
O4' |
H4' |
238.5 |
237.0 |
| O4' |
C4' |
C5' |
H5' |
285.3 |
190.9 |
| O4' |
C4' |
C5' |
H5'A |
45.7 |
310.9 |
| P |
O5' |
C5' |
C4' |
181.3 |
180.0 |
| C3' |
C4' |
C5' |
O4' |
115.2 |
114.1 |
| C5' |
C4' |
C3' |
H3' |
36.5 |
322.7 |
| C3' |
C4' |
C5' |
H4' |
237.5 |
237.0 |
| O4' |
C4' |
C5' |
H4' |
122.3 |
122.9 |
| O5' |
C5' |
C4' |
H5' |
240.2 |
240.1 |
| O5' |
C5' |
C4' |
H5'A |
119.8 |
120.0 |
| H5' |
C5' |
C4' |
H5'A |
239.6 |
239.9 |
| C5' |
O5' |
P |
OP1 |
203.9 |
55.0 |
| C5' |
O5' |
P |
OP2 |
74.0 |
175.0 |
| C5' |
O5' |
P |
OP3 |
318.8 |
295.0 |
| O5' |
C5' |
C4' |
H4' |
43.2 |
308.0 |
| C4' |
C5' |
O5' |
H5' |
119.8 |
119.9 |
| C4' |
C5' |
O5' |
H5'A |
240.2 |
240.0 |
| H5' |
C5' |
O5' |
H5'A |
120.4 |
120.1 |
| C2 |
N3 |
HN3 |
C4 |
180.0 |
180.0 |
| HN3 |
N3 |
C4 |
O4 |
359.8 |
0.0 |
| HN3 |
N3 |
C4 |
C5 |
180.0 |
180.0 |
| HO5 |
O5 |
C5 |
C6 |
180.0 |
180.0 |
| H6 |
C6 |
N1 |
C1' |
359.4 |
0.3 |
| N1 |
C6 |
H6 |
C5 |
180.0 |
180.0 |
| N1 |
C1' |
H1' |
C2' |
125.6 |
121.0 |
| N1 |
C1' |
H1' |
O4' |
239.6 |
239.0 |
| C2' |
C1' |
H1' |
O4' |
114.0 |
117.9 |
| H1' |
C1' |
C2' |
C3' |
278.2 |
242.5 |
| H1' |
C1' |
C2' |
H2' |
36.7 |
1.1 |
| H1' |
C1' |
C2' |
H2'A |
159.7 |
123.8 |
| H1' |
C1' |
O4' |
C4' |
100.9 |
93.0 |
| H2' |
C2' |
C1' |
O4' |
152.3 |
120.7 |
| C1' |
C2' |
H2' |
C3' |
248.5 |
245.2 |
| H2' |
C2' |
C1' |
H1' |
36.7 |
1.1 |
| C1' |
C2' |
H2' |
H2'A |
124.3 |
122.7 |
| H2' |
C2' |
C3' |
O3' |
316.1 |
20.4 |
| H2' |
C2' |
C3' |
C4' |
201.6 |
262.2 |
| C3' |
C2' |
H2' |
H2'A |
235.8 |
237.5 |
| H2' |
C2' |
C3' |
H3' |
81.7 |
144.0 |
| H2'A |
C2' |
C1' |
O4' |
275.3 |
243.4 |
| C1' |
C2' |
H2'A |
C3' |
111.5 |
114.8 |
| H2'A |
C2' |
C1' |
H1' |
159.7 |
123.8 |
| C1' |
C2' |
H2'A |
H2' |
235.7 |
237.3 |
| H2'A |
C2' |
C3' |
O3' |
193.1 |
257.7 |
| H2'A |
C2' |
C3' |
C4' |
78.7 |
139.6 |
| C3' |
C2' |
H2'A |
H2' |
124.2 |
122.5 |
| H2'A |
C2' |
C3' |
H3' |
318.8 |
21.4 |
| C2' |
C3' |
H3' |
O3' |
237.2 |
236.3 |
| C2' |
C3' |
H3' |
C4' |
113.8 |
112.7 |
| H3' |
C3' |
C2' |
H2' |
81.7 |
144.0 |
| H3' |
C3' |
C2' |
H2'A |
318.8 |
21.4 |
| O3' |
C3' |
H3' |
C4' |
236.6 |
236.4 |
| H3' |
C3' |
O3' |
HO3' |
55.1 |
297.8 |
| H3' |
C3' |
C4' |
O4' |
153.1 |
81.2 |
| H3' |
C3' |
C4' |
C5' |
36.5 |
322.7 |
| H3' |
C3' |
C4' |
H4' |
274.0 |
199.7 |
| HO3' |
O3' |
C3' |
C4' |
289.9 |
174.2 |
| HO3' |
O3' |
C3' |
H3' |
55.1 |
297.8 |
| C3' |
C4' |
H4' |
O4' |
242.7 |
245.9 |
| C3' |
C4' |
H4' |
C5' |
122.6 |
123.0 |
| H4' |
C4' |
C3' |
H3' |
274.0 |
199.7 |
| O4' |
C4' |
H4' |
C5' |
239.8 |
237.1 |
| H4' |
C4' |
C5' |
O5' |
43.2 |
308.0 |
| H4' |
C4' |
C5' |
H5' |
163.0 |
68.0 |
| H4' |
C4' |
C5' |
H5'A |
283.3 |
188.0 |
| C4' |
C5' |
H5' |
O5' |
241.2 |
240.1 |
| H5' |
C5' |
C4' |
H4' |
163.0 |
68.0 |
| C4' |
C5' |
H5' |
H5'A |
120.6 |
120.0 |
| O5' |
C5' |
H5' |
H5'A |
239.4 |
239.9 |
| C4' |
C5' |
H5'A |
O5' |
118.8 |
120.0 |
| H5'A |
C5' |
C4' |
H4' |
283.3 |
188.0 |
| C4' |
C5' |
H5'A |
H5' |
239.4 |
240.0 |
| O5' |
C5' |
H5'A |
H5' |
120.6 |
120.0 |
| HOP2 |
OP2 |
P |
OP3 |
234.4 |
60.0 |