PDB Chemical Component 5IC
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 5IC
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| O2' |
C2' |
|
1.422 |
| O2' |
HO2' |
|
0.971 |
| C2' |
C3' |
1.525 |
1.514 |
| C2' |
C1' |
1.515 |
1.521 |
| C2' |
H2' |
1.115 |
1.094 |
| C3' |
O3' |
1.428 |
1.426 |
| C3' |
C4' |
1.531 |
1.530 |
| C3' |
H3' |
1.115 |
1.094 |
| O3' |
HO3' |
0.950 |
0.970 |
| C4' |
O4' |
1.445 |
1.443 |
| C4' |
C5' |
1.507 |
1.522 |
| C4' |
H4' |
1.115 |
1.094 |
| O4' |
C1' |
1.399 |
1.433 |
| C1' |
N1 |
1.467 |
1.432 |
| C1' |
H1' |
1.115 |
1.096 |
| N1 |
C6 |
1.374 |
1.388 |
| N1 |
C2 |
1.401 |
1.418 |
| C6 |
C5 |
1.350 |
1.336 |
| C6 |
H6 |
1.103 |
1.086 |
| C5 |
I |
2.097 |
2.038 |
| C5 |
C4 |
1.441 |
1.498 |
| C4 |
N3 |
1.337 |
1.310 |
| C4 |
N4 |
1.324 |
1.378 |
| N3 |
C2 |
1.351 |
1.381 |
| C2 |
O2 |
1.251 |
1.232 |
| N4 |
H41 |
1.020 |
0.991 |
| N4 |
H42 |
1.020 |
0.990 |
| C5' |
O5' |
1.425 |
1.418 |
| C5' |
H5' |
1.115 |
1.092 |
| C5' |
H5'' |
1.115 |
1.091 |
| O5' |
P |
1.587 |
1.619 |
| P |
OP1 |
1.495 |
1.501 |
| P |
OP3 |
|
1.618 |
| P |
OP2 |
1.476 |
1.617 |
| OP3 |
HOP3 |
|
0.981 |
| OP2 |
HOP2 |
0.950 |
0.980 |
Bond Angles for 5IC
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2' |
O2' |
HO2' |
|
106.7 |
| O2' |
C2' |
C3' |
|
108.6 |
| O2' |
C2' |
C1' |
|
111.3 |
| O2' |
C2' |
H2' |
|
108.6 |
| C3' |
C2' |
C1' |
101.7 |
101.6 |
| C3' |
C2' |
H2' |
124.2 |
114.5 |
| C2' |
C3' |
O3' |
112.9 |
109.3 |
| C2' |
C3' |
C4' |
104.2 |
103.5 |
| C2' |
C3' |
H3' |
110.3 |
114.4 |
| C1' |
C2' |
H2' |
132.8 |
112.1 |
| C2' |
C1' |
O4' |
104.5 |
106.3 |
| C2' |
C1' |
N1 |
116.2 |
114.2 |
| C2' |
C1' |
H1' |
107.8 |
111.1 |
| O3' |
C3' |
C4' |
108.1 |
108.3 |
| O3' |
C3' |
H3' |
106.6 |
108.2 |
| C3' |
O3' |
HO3' |
112.9 |
106.5 |
| C4' |
C3' |
H3' |
114.9 |
112.9 |
| C3' |
C4' |
O4' |
105.9 |
107.0 |
| C3' |
C4' |
C5' |
112.4 |
113.4 |
| C3' |
C4' |
H4' |
110.0 |
111.8 |
| O4' |
C4' |
C5' |
109.6 |
107.8 |
| O4' |
C4' |
H4' |
112.8 |
107.6 |
| C4' |
O4' |
C1' |
107.9 |
108.7 |
| C5' |
C4' |
H4' |
106.3 |
108.9 |
| C4' |
C5' |
O5' |
109.6 |
108.7 |
| C4' |
C5' |
H5' |
112.2 |
110.2 |
| C4' |
C5' |
H5'' |
112.2 |
110.2 |
| O4' |
C1' |
N1 |
107.4 |
109.8 |
| O4' |
C1' |
H1' |
116.5 |
107.4 |
| N1 |
C1' |
H1' |
104.9 |
107.7 |
| C1' |
N1 |
C6 |
121.8 |
120.5 |
| C1' |
N1 |
C2 |
118.0 |
120.5 |
| C6 |
N1 |
C2 |
120.2 |
119.0 |
| N1 |
C6 |
C5 |
120.9 |
123.4 |
| N1 |
C6 |
H6 |
120.5 |
114.7 |
| N1 |
C2 |
N3 |
119.8 |
118.9 |
| N1 |
C2 |
O2 |
118.3 |
120.8 |
| C5 |
C6 |
H6 |
118.7 |
121.9 |
| C6 |
C5 |
I |
120.5 |
122.7 |
| C6 |
C5 |
C4 |
117.4 |
115.7 |
| I |
C5 |
C4 |
122.0 |
121.6 |
| C5 |
C4 |
N3 |
121.6 |
121.4 |
| C5 |
C4 |
N4 |
120.7 |
120.3 |
| N3 |
C4 |
N4 |
117.7 |
118.4 |
| C4 |
N3 |
C2 |
120.2 |
121.6 |
| C4 |
N4 |
H41 |
108.2 |
117.9 |
| C4 |
N4 |
H42 |
120.7 |
117.9 |
| N3 |
C2 |
O2 |
121.9 |
120.2 |
| H41 |
N4 |
H42 |
108.2 |
124.1 |
| O5' |
C5' |
H5' |
112.1 |
109.1 |
| O5' |
C5' |
H5'' |
112.1 |
109.1 |
| C5' |
O5' |
P |
119.8 |
118.5 |
| H5' |
C5' |
H5'' |
98.3 |
109.5 |
| O5' |
P |
OP1 |
107.5 |
115.0 |
| O5' |
P |
OP3 |
|
103.7 |
| O5' |
P |
OP2 |
107.8 |
102.9 |
| OP1 |
P |
OP3 |
|
115.3 |
| OP1 |
P |
OP2 |
119.5 |
115.0 |
| OP3 |
P |
OP2 |
|
103.3 |
| P |
OP3 |
HOP3 |
|
118.9 |
| P |
OP2 |
HOP2 |
107.8 |
118.9 |
Torsion Angles for 5IC
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C3' |
C2' |
O2' |
C1' |
|
249.0 |
| C3' |
C2' |
O2' |
H2' |
|
125.0 |
| O2' |
C2' |
C3' |
O3' |
|
199.5 |
| O2' |
C2' |
C3' |
C4' |
|
84.2 |
| O2' |
C2' |
C3' |
H3' |
|
321.0 |
| C1' |
C2' |
O2' |
H2' |
|
236.1 |
| O2' |
C2' |
C1' |
O4' |
|
279.5 |
| O2' |
C2' |
C1' |
N1 |
|
40.7 |
| O2' |
C2' |
C1' |
H1' |
|
162.9 |
| HO2' |
O2' |
C2' |
C3' |
|
7.8 |
| HO2' |
O2' |
C2' |
C1' |
|
118.9 |
| HO2' |
O2' |
C2' |
H2' |
|
242.8 |
| C3' |
C2' |
O2' |
HO2' |
|
7.8 |
| O2' |
C2' |
C3' |
C1' |
|
117.4 |
| O2' |
C2' |
C3' |
H2' |
|
238.5 |
| C1' |
C2' |
C3' |
H2' |
168.6 |
121.1 |
| C3' |
C2' |
C1' |
O4' |
38.9 |
34.9 |
| C3' |
C2' |
C1' |
N1 |
157.1 |
156.1 |
| C3' |
C2' |
C1' |
H1' |
274.3 |
278.3 |
| O3' |
C3' |
C2' |
C4' |
117.0 |
115.3 |
| O3' |
C3' |
C2' |
H3' |
240.9 |
238.5 |
| C2' |
C3' |
O3' |
HO3' |
180.0 |
323.6 |
| C4' |
C3' |
C2' |
H3' |
123.9 |
123.2 |
| C2' |
C3' |
C4' |
O4' |
3.6 |
21.1 |
| C2' |
C3' |
C4' |
C5' |
244.0 |
262.3 |
| C2' |
C3' |
C4' |
H4' |
125.7 |
138.7 |
| C1' |
C2' |
O2' |
HO2' |
|
118.9 |
| O2' |
C2' |
C1' |
C3' |
|
244.6 |
| O2' |
C2' |
C1' |
H2' |
|
121.9 |
| C3' |
C2' |
C1' |
H2' |
192.9 |
237.3 |
| C1' |
C2' |
C3' |
O3' |
92.1 |
82.1 |
| C1' |
C2' |
C3' |
C4' |
335.1 |
326.8 |
| C1' |
C2' |
C3' |
H3' |
211.2 |
203.6 |
| C4' |
O4' |
C1' |
C2' |
321.6 |
337.4 |
| O4' |
C1' |
C2' |
N1 |
241.8 |
238.8 |
| O4' |
C1' |
C2' |
H1' |
124.6 |
116.6 |
| N1 |
C1' |
C2' |
H1' |
242.7 |
237.8 |
| C2' |
C1' |
N1 |
C6 |
317.0 |
274.0 |
| C2' |
C1' |
N1 |
C2 |
137.7 |
94.0 |
| H2' |
C2' |
O2' |
HO2' |
|
242.8 |
| O2' |
C2' |
H2' |
C3' |
|
121.5 |
| O2' |
C2' |
H2' |
C1' |
|
236.6 |
| C3' |
C2' |
H2' |
C1' |
164.7 |
115.1 |
| H2' |
C2' |
C3' |
O3' |
283.6 |
321.0 |
| H2' |
C2' |
C3' |
C4' |
166.6 |
205.8 |
| H2' |
C2' |
C3' |
H3' |
42.7 |
82.6 |
| H2' |
C2' |
C1' |
O4' |
206.0 |
157.6 |
| H2' |
C2' |
C1' |
N1 |
324.1 |
278.8 |
| H2' |
C2' |
C1' |
H1' |
81.4 |
41.0 |
| O3' |
C3' |
C2' |
C1' |
92.1 |
82.1 |
| O3' |
C3' |
C2' |
H2' |
283.6 |
321.0 |
| C2' |
C3' |
O3' |
C4' |
245.3 |
247.9 |
| C2' |
C3' |
O3' |
H3' |
121.3 |
125.2 |
| C4' |
C3' |
O3' |
H3' |
235.9 |
237.3 |
| O3' |
C3' |
C4' |
O4' |
243.3 |
265.1 |
| O3' |
C3' |
C4' |
C5' |
123.7 |
146.4 |
| O3' |
C3' |
C4' |
H4' |
5.5 |
22.7 |
| C4' |
C3' |
C2' |
C1' |
335.1 |
326.8 |
| C4' |
C3' |
C2' |
H2' |
166.6 |
205.8 |
| C2' |
C3' |
C4' |
O3' |
120.3 |
116.0 |
| C2' |
C3' |
C4' |
H3' |
239.2 |
235.8 |
| O3' |
C3' |
C4' |
H3' |
118.9 |
119.8 |
| C4' |
C3' |
O3' |
HO3' |
294.7 |
75.7 |
| O4' |
C4' |
C3' |
C5' |
119.6 |
118.7 |
| O4' |
C4' |
C3' |
H4' |
237.9 |
242.4 |
| C3' |
C4' |
O4' |
C1' |
21.6 |
0.8 |
| C5' |
C4' |
C3' |
H4' |
118.2 |
123.7 |
| C3' |
C4' |
C5' |
O5' |
49.8 |
179.5 |
| C3' |
C4' |
C5' |
H5' |
284.5 |
59.9 |
| C3' |
C4' |
C5' |
H5'' |
175.0 |
299.0 |
| H3' |
C3' |
C2' |
C1' |
211.2 |
203.6 |
| H3' |
C3' |
C2' |
H2' |
42.7 |
82.6 |
| C2' |
C3' |
H3' |
O3' |
237.1 |
237.9 |
| C2' |
C3' |
H3' |
C4' |
117.4 |
118.0 |
| O3' |
C3' |
H3' |
C4' |
240.3 |
240.1 |
| H3' |
C3' |
O3' |
HO3' |
58.7 |
198.4 |
| H3' |
C3' |
C4' |
O4' |
124.5 |
145.3 |
| H3' |
C3' |
C4' |
C5' |
4.8 |
26.6 |
| H3' |
C3' |
C4' |
H4' |
246.6 |
262.9 |
| HO3' |
O3' |
C3' |
C4' |
294.7 |
75.7 |
| HO3' |
O3' |
C3' |
H3' |
58.7 |
198.4 |
| C2' |
C1' |
O4' |
C4' |
321.6 |
337.4 |
| O4' |
C4' |
C3' |
H3' |
124.5 |
145.3 |
| C3' |
C4' |
O4' |
C5' |
238.5 |
237.7 |
| C3' |
C4' |
O4' |
H4' |
120.3 |
120.3 |
| C5' |
C4' |
O4' |
H4' |
241.8 |
242.6 |
| O4' |
C4' |
C5' |
O5' |
292.3 |
61.2 |
| O4' |
C4' |
C5' |
H5' |
167.0 |
301.7 |
| O4' |
C4' |
C5' |
H5'' |
57.5 |
180.8 |
| C4' |
O4' |
C1' |
N1 |
197.6 |
213.4 |
| C4' |
O4' |
C1' |
H1' |
80.4 |
96.5 |
| C5' |
C4' |
C3' |
H3' |
4.8 |
26.6 |
| C3' |
C4' |
C5' |
O4' |
117.5 |
118.2 |
| C3' |
C4' |
C5' |
H4' |
239.6 |
234.7 |
| O4' |
C4' |
C5' |
H4' |
122.1 |
116.5 |
| C5' |
C4' |
O4' |
C1' |
143.1 |
123.1 |
| O5' |
C5' |
C4' |
H5' |
125.2 |
119.6 |
| O5' |
C5' |
C4' |
H5'' |
234.8 |
240.4 |
| C4' |
C5' |
O5' |
P |
169.2 |
180.0 |
| H5' |
C5' |
C4' |
H5'' |
109.5 |
120.9 |
| H4' |
C4' |
C3' |
H3' |
246.6 |
262.9 |
| C3' |
C4' |
H4' |
O4' |
242.0 |
242.8 |
| C3' |
C4' |
H4' |
C5' |
121.9 |
126.2 |
| O4' |
C4' |
H4' |
C5' |
239.9 |
243.4 |
| H4' |
C4' |
O4' |
C1' |
261.3 |
240.5 |
| H4' |
C4' |
C5' |
O5' |
170.1 |
304.7 |
| H4' |
C4' |
C5' |
H5' |
44.9 |
185.2 |
| H4' |
C4' |
C5' |
H5'' |
295.4 |
64.3 |
| O4' |
C1' |
C2' |
H2' |
206.0 |
157.6 |
| C2' |
C1' |
O4' |
N1 |
124.0 |
124.0 |
| C2' |
C1' |
O4' |
H1' |
241.2 |
240.9 |
| C1' |
O4' |
C4' |
C5' |
143.1 |
123.1 |
| C1' |
O4' |
C4' |
H4' |
261.3 |
240.5 |
| N1 |
C1' |
O4' |
H1' |
117.2 |
116.9 |
| O4' |
C1' |
N1 |
C6 |
73.6 |
33.3 |
| O4' |
C1' |
N1 |
C2 |
254.3 |
213.3 |
| N1 |
C1' |
C2' |
H2' |
324.1 |
278.8 |
| C2' |
C1' |
N1 |
O4' |
243.4 |
240.7 |
| C2' |
C1' |
N1 |
H1' |
118.9 |
124.0 |
| O4' |
C1' |
N1 |
H1' |
235.5 |
243.3 |
| C6 |
N1 |
C1' |
C2 |
179.3 |
180.0 |
| C1' |
N1 |
C6 |
C5 |
181.0 |
180.1 |
| C1' |
N1 |
C6 |
H6 |
1.0 |
0.0 |
| C1' |
N1 |
C2 |
N3 |
180.6 |
179.9 |
| C1' |
N1 |
C2 |
O2 |
0.9 |
360.0 |
| H1' |
C1' |
C2' |
H2' |
81.4 |
41.0 |
| C2' |
C1' |
H1' |
O4' |
117.0 |
115.9 |
| C2' |
C1' |
H1' |
N1 |
235.6 |
234.1 |
| O4' |
C1' |
H1' |
N1 |
118.6 |
118.2 |
| H1' |
C1' |
N1 |
C6 |
198.1 |
150.0 |
| H1' |
C1' |
N1 |
C2 |
18.8 |
330.0 |
| C6 |
N1 |
C1' |
H1' |
198.1 |
150.0 |
| C1' |
N1 |
C6 |
C2 |
180.7 |
180.0 |
| C6 |
N1 |
C2 |
N3 |
1.3 |
359.9 |
| C6 |
N1 |
C2 |
O2 |
181.6 |
180.0 |
| C5 |
C6 |
N1 |
H6 |
180.0 |
180.0 |
| N1 |
C6 |
C5 |
I |
174.1 |
180.0 |
| N1 |
C6 |
C5 |
C4 |
358.3 |
0.0 |
| C2 |
N1 |
C1' |
H1' |
18.8 |
330.0 |
| C1' |
N1 |
C2 |
C6 |
179.3 |
180.0 |
| C2 |
N1 |
C6 |
C5 |
0.3 |
0.0 |
| C2 |
N1 |
C6 |
H6 |
180.3 |
180.0 |
| C4 |
N3 |
C2 |
N1 |
358.7 |
0.1 |
| N3 |
C2 |
N1 |
O2 |
179.7 |
179.9 |
| C5 |
C6 |
N1 |
C2 |
0.3 |
0.0 |
| N1 |
C6 |
C5 |
H6 |
180.0 |
179.9 |
| I |
C5 |
C6 |
C4 |
175.8 |
180.0 |
| C6 |
C5 |
C4 |
N3 |
1.8 |
360.0 |
| C6 |
C5 |
C4 |
N4 |
182.6 |
179.9 |
| H6 |
C6 |
N1 |
C2 |
180.3 |
180.0 |
| N1 |
C6 |
H6 |
C5 |
180.0 |
180.0 |
| H6 |
C6 |
C5 |
I |
354.1 |
0.1 |
| H6 |
C6 |
C5 |
C4 |
178.2 |
180.1 |
| I |
C5 |
C6 |
H6 |
354.1 |
0.1 |
| C6 |
C5 |
I |
C4 |
184.4 |
180.0 |
| I |
C5 |
C4 |
N3 |
186.0 |
180.0 |
| I |
C5 |
C4 |
N4 |
6.9 |
359.9 |
| C4 |
C5 |
C6 |
H6 |
178.2 |
180.1 |
| C6 |
C5 |
C4 |
I |
175.8 |
180.0 |
| N3 |
C4 |
C5 |
N4 |
179.2 |
180.0 |
| C5 |
C4 |
N3 |
C2 |
359.8 |
360.0 |
| C5 |
C4 |
N4 |
H41 |
54.7 |
195.2 |
| C5 |
C4 |
N4 |
H42 |
180.0 |
15.3 |
| N1 |
C2 |
N3 |
C4 |
358.7 |
0.1 |
| C5 |
C4 |
N3 |
N4 |
180.8 |
180.0 |
| N3 |
C4 |
N4 |
H41 |
235.5 |
15.2 |
| N3 |
C4 |
N4 |
H42 |
0.8 |
195.2 |
| C4 |
N3 |
C2 |
O2 |
178.4 |
180.0 |
| C5 |
C4 |
N4 |
N3 |
179.2 |
180.0 |
| N4 |
C4 |
N3 |
C2 |
178.9 |
180.0 |
| H41 |
N4 |
C4 |
H42 |
234.7 |
180.0 |
| N1 |
C2 |
N3 |
O2 |
180.3 |
180.1 |
| C2 |
N3 |
C4 |
N4 |
178.9 |
180.0 |
| N1 |
C2 |
O2 |
N3 |
179.7 |
179.9 |
| C4 |
N4 |
H41 |
H42 |
132.4 |
180.0 |
| C4 |
N4 |
H42 |
H41 |
234.7 |
180.0 |
| O5' |
C5' |
C4' |
H4' |
170.1 |
304.7 |
| C4' |
C5' |
O5' |
H5' |
234.7 |
239.8 |
| C4' |
C5' |
O5' |
H5'' |
125.2 |
120.2 |
| H5' |
C5' |
O5' |
H5'' |
250.5 |
240.4 |
| C5' |
O5' |
P |
OP1 |
185.6 |
180.0 |
| C5' |
O5' |
P |
OP3 |
|
53.2 |
| C5' |
O5' |
P |
OP2 |
55.5 |
305.8 |
| H5' |
C5' |
C4' |
H4' |
44.9 |
185.2 |
| C4' |
C5' |
H5' |
O5' |
123.8 |
119.3 |
| C4' |
C5' |
H5' |
H5'' |
241.9 |
238.7 |
| O5' |
C5' |
H5' |
H5'' |
118.1 |
119.4 |
| H5' |
C5' |
O5' |
P |
294.5 |
300.2 |
| H5'' |
C5' |
C4' |
H4' |
295.4 |
64.3 |
| C4' |
C5' |
H5'' |
O5' |
236.2 |
240.7 |
| C4' |
C5' |
H5'' |
H5' |
118.1 |
121.3 |
| O5' |
C5' |
H5'' |
H5' |
241.9 |
240.6 |
| H5'' |
C5' |
O5' |
P |
44.0 |
59.8 |
| P |
O5' |
C5' |
H5' |
294.5 |
300.2 |
| P |
O5' |
C5' |
H5'' |
44.0 |
59.8 |
| OP1 |
P |
O5' |
OP3 |
|
126.8 |
| OP1 |
P |
O5' |
OP2 |
130.1 |
234.2 |
| OP3 |
P |
O5' |
OP2 |
|
107.4 |
| O5' |
P |
OP3 |
HOP3 |
|
175.4 |
| O5' |
P |
OP2 |
HOP2 |
180.0 |
186.2 |
| O5' |
P |
OP1 |
OP3 |
|
239.4 |
| O5' |
P |
OP1 |
OP2 |
236.9 |
119.3 |
| OP3 |
P |
OP1 |
OP2 |
|
240.0 |
| OP1 |
P |
OP3 |
HOP3 |
|
48.8 |
| OP1 |
P |
OP2 |
HOP2 |
57.0 |
312.0 |
| O5' |
P |
OP3 |
OP1 |
|
126.6 |
| O5' |
P |
OP3 |
OP2 |
|
252.9 |
| OP1 |
P |
OP3 |
OP2 |
|
126.3 |
| OP3 |
P |
OP2 |
HOP2 |
|
78.5 |
| O5' |
P |
OP2 |
OP1 |
123.0 |
234.2 |
| O5' |
P |
OP2 |
OP3 |
|
107.7 |
| OP1 |
P |
OP2 |
OP3 |
|
233.5 |
| OP2 |
P |
OP3 |
HOP3 |
|
282.5 |
| HOP3 |
OP3 |
P |
OP2 |
|
282.5 |