PDB Chemical Component I4U
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 I4U
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| OP1 |
P |
1.496 |
1.480 |
| O3' |
C3' |
1.407 |
1.429 |
| C43 |
C41 |
1.509 |
1.530 |
| OP2 |
P |
1.490 |
1.610 |
| P |
O5' |
1.583 |
1.610 |
| C3' |
C2' |
1.520 |
1.545 |
| C3' |
C4' |
1.503 |
1.544 |
| O5' |
C5' |
1.414 |
1.429 |
| C5' |
C4' |
1.501 |
1.530 |
| C41 |
O4 |
1.423 |
1.429 |
| C41 |
C42 |
1.517 |
1.531 |
| C2' |
O2' |
1.415 |
1.428 |
| C2' |
C1' |
1.523 |
1.544 |
| O4 |
C4 |
1.371 |
1.352 |
| C5 |
C4 |
1.373 |
1.407 |
| C5 |
C6 |
1.374 |
1.356 |
| C4' |
O4' |
1.445 |
1.444 |
| C4 |
N3 |
1.334 |
1.326 |
| C6 |
N1 |
1.324 |
1.362 |
| N3 |
C2 |
1.338 |
1.332 |
| N1 |
C2 |
1.403 |
1.346 |
| N1 |
C1' |
1.483 |
1.465 |
| C2 |
O2 |
1.239 |
1.220 |
| C1' |
O4' |
1.409 |
1.444 |
| C1' |
H1 |
1.100 |
1.090 |
| C2' |
H2 |
1.100 |
1.090 |
| C3' |
H3 |
1.100 |
1.090 |
| C4' |
H4 |
1.100 |
1.090 |
| C5 |
H5 |
1.080 |
1.080 |
| C5' |
H6 |
1.100 |
1.090 |
| C5' |
H7 |
1.100 |
1.090 |
| C6 |
H8 |
1.080 |
1.079 |
| O2' |
H9 |
0.950 |
0.967 |
| O3' |
H10 |
0.950 |
0.967 |
| OP2 |
H12 |
0.950 |
0.967 |
| C41 |
H13 |
1.100 |
1.090 |
| C42 |
H14 |
1.100 |
1.090 |
| C42 |
H15 |
1.100 |
1.090 |
| C42 |
H16 |
1.100 |
1.091 |
| C43 |
H17 |
1.100 |
1.090 |
| C43 |
H18 |
1.100 |
1.090 |
| C43 |
H19 |
1.100 |
1.090 |
| P |
OP3 |
1.600 |
1.610 |
| OP3 |
H11 |
0.950 |
0.967 |
Bond Angles for I4U
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| OP1 |
P |
OP2 |
119.0 |
109.5 |
| OP1 |
P |
OP3 |
112.7 |
109.5 |
| O3' |
C3' |
H3 |
109.6 |
110.5 |
| C43 |
C41 |
H13 |
109.2 |
109.5 |
| P |
OP2 |
H12 |
109.5 |
114.0 |
| OP2 |
P |
OP3 |
105.9 |
109.5 |
| C3' |
C2' |
O2' |
110.7 |
110.5 |
| C3' |
C2' |
H2 |
111.5 |
110.6 |
| C3' |
C4' |
O4' |
103.1 |
104.8 |
| C4' |
C3' |
H3 |
108.3 |
110.5 |
| C3' |
C4' |
H4 |
109.5 |
110.4 |
| O5' |
C5' |
H6 |
109.3 |
109.5 |
| O5' |
C5' |
H7 |
109.3 |
109.4 |
| C5' |
C4' |
O4' |
109.6 |
110.4 |
| C5' |
C4' |
H4 |
109.5 |
110.4 |
| C42 |
C41 |
H13 |
109.1 |
109.5 |
| C41 |
C42 |
H14 |
109.5 |
109.5 |
| C41 |
C42 |
H15 |
109.4 |
109.5 |
| C41 |
C42 |
H16 |
109.5 |
109.5 |
| O2' |
C2' |
H2 |
113.2 |
110.5 |
| C2' |
O2' |
H9 |
109.5 |
114.0 |
| C2' |
C1' |
O4' |
107.4 |
104.8 |
| C2' |
C1' |
H1 |
108.3 |
110.4 |
| C5 |
C4 |
N3 |
119.0 |
119.7 |
| C5 |
C6 |
N1 |
121.5 |
119.2 |
| C6 |
C5 |
H5 |
120.3 |
120.4 |
| C5 |
C6 |
H8 |
119.2 |
120.4 |
| C1' |
O4' |
C4' |
110.0 |
105.3 |
| O4' |
C4' |
H4 |
110.4 |
110.3 |
| N1 |
C6 |
H8 |
119.2 |
120.4 |
| N3 |
C2 |
O2 |
118.1 |
119.5 |
| N1 |
C2 |
O2 |
121.8 |
119.4 |
| N1 |
C1' |
O4' |
108.3 |
110.4 |
| N1 |
C1' |
H1 |
108.8 |
110.4 |
| O4' |
C1' |
H1 |
109.9 |
110.3 |
| H6 |
C5' |
H7 |
109.5 |
109.4 |
| H14 |
C42 |
H15 |
109.4 |
109.5 |
| H14 |
C42 |
H16 |
109.5 |
109.4 |
| H15 |
C42 |
H16 |
109.5 |
109.4 |
| H17 |
C43 |
H18 |
109.4 |
109.5 |
| H17 |
C43 |
H19 |
109.5 |
109.5 |
| H18 |
C43 |
H19 |
109.5 |
109.5 |
| P |
OP3 |
H11 |
109.5 |
113.9 |
Torsion Angles for I4U
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| OP1 |
P |
OP2 |
H12 |
360.0 |
180.0 |
| OP2 |
P |
OP1 |
OP3 |
124.8 |
120.0 |
| OP1 |
P |
OP3 |
H11 |
0.0 |
60.0 |
| O3' |
C3' |
C2' |
H2 |
278.3 |
237.3 |
| O3' |
C3' |
C4' |
O4' |
197.2 |
217.4 |
| C4' |
C3' |
O3' |
H3 |
239.3 |
237.4 |
| O3' |
C3' |
C4' |
H4 |
314.7 |
336.2 |
| C42 |
C41 |
C43 |
H13 |
119.5 |
240.0 |
| C43 |
C41 |
C42 |
H14 |
180.0 |
300.0 |
| C43 |
C41 |
C42 |
H15 |
300.0 |
60.1 |
| C43 |
C41 |
C42 |
H16 |
60.0 |
180.0 |
| OP1 |
P |
OP2 |
OP3 |
231.9 |
240.0 |
| OP2 |
P |
OP3 |
H11 |
228.3 |
300.0 |
| P |
O5' |
C5' |
H6 |
289.6 |
59.9 |
| P |
O5' |
C5' |
H7 |
49.4 |
300.0 |
| O2' |
C2' |
C3' |
H2 |
126.9 |
122.7 |
| C3' |
C2' |
O2' |
H9 |
180.0 |
294.6 |
| C3' |
C2' |
C1' |
O4' |
337.3 |
23.9 |
| C3' |
C2' |
C1' |
H1 |
218.7 |
265.2 |
| O3' |
C3' |
C4' |
H3 |
121.5 |
122.7 |
| C4' |
C3' |
C2' |
O2' |
282.4 |
241.3 |
| C4' |
C3' |
C2' |
H2 |
155.5 |
118.7 |
| C5' |
C4' |
C3' |
O4' |
241.0 |
241.1 |
| C5' |
C4' |
C3' |
H4 |
123.5 |
122.3 |
| C1' |
O4' |
C4' |
C3' |
24.9 |
40.5 |
| O4' |
C4' |
C3' |
H4 |
242.5 |
241.2 |
| O5' |
C5' |
C4' |
H4 |
192.8 |
307.3 |
| H6 |
C5' |
O5' |
H7 |
240.2 |
119.9 |
| C3' |
C4' |
C5' |
O4' |
115.3 |
115.4 |
| C5' |
C4' |
C3' |
H3 |
316.7 |
335.8 |
| C3' |
C4' |
C5' |
H4 |
236.5 |
237.7 |
| C1' |
O4' |
C4' |
C5' |
147.2 |
159.4 |
| O4' |
C4' |
C5' |
H4 |
121.2 |
122.3 |
| C43 |
C41 |
C42 |
H13 |
240.4 |
120.0 |
| H14 |
C42 |
C41 |
H15 |
240.0 |
239.9 |
| H14 |
C42 |
C41 |
H16 |
120.0 |
120.0 |
| H15 |
C42 |
C41 |
H16 |
240.0 |
240.0 |
| C3' |
C2' |
O2' |
H2 |
234.0 |
237.3 |
| O2' |
C2' |
C1' |
O4' |
93.7 |
142.6 |
| O2' |
C2' |
C1' |
H1 |
335.1 |
23.8 |
| C2' |
C1' |
O4' |
C4' |
358.9 |
319.5 |
| N1 |
C1' |
C2' |
O4' |
120.1 |
118.9 |
| N1 |
C1' |
C2' |
H1 |
238.7 |
237.7 |
| O4' |
C1' |
C2' |
H1 |
118.6 |
118.8 |
| C6 |
C5 |
C4 |
N3 |
359.7 |
0.2 |
| N1 |
C6 |
C5 |
H8 |
180.0 |
179.8 |
| O4' |
C4' |
C3' |
H3 |
75.7 |
94.7 |
| C3' |
C4' |
O4' |
H4 |
116.9 |
118.8 |
| C5' |
C4' |
O4' |
H4 |
239.3 |
237.7 |
| N1 |
C1' |
O4' |
C4' |
235.3 |
200.6 |
| C4' |
O4' |
C1' |
H1 |
116.5 |
78.3 |
| C4 |
N3 |
C2 |
O2 |
179.9 |
180.0 |
| N1 |
C6 |
C5 |
H5 |
181.0 |
180.0 |
| C5 |
C6 |
N1 |
H8 |
180.0 |
180.2 |
| C6 |
N1 |
C2 |
O2 |
180.5 |
180.0 |
| C6 |
N1 |
C1' |
O4' |
11.9 |
233.5 |
| C6 |
N1 |
C1' |
H1 |
131.3 |
355.7 |
| N1 |
C2 |
N3 |
O2 |
177.8 |
179.7 |
| N3 |
C2 |
N1 |
O2 |
182.3 |
180.3 |
| C2 |
N1 |
C1' |
O4' |
196.2 |
53.6 |
| C2 |
N1 |
C1' |
H1 |
315.6 |
175.8 |
| C2' |
C1' |
N1 |
O4' |
240.5 |
244.5 |
| C2' |
C1' |
N1 |
H1 |
121.0 |
122.3 |
| O4' |
C1' |
N1 |
H1 |
240.5 |
237.8 |
| C3' |
C4' |
O4' |
C1' |
24.9 |
40.5 |
| C5' |
C4' |
O4' |
C1' |
147.2 |
159.4 |
| C2' |
C1' |
O4' |
H1 |
242.4 |
241.2 |
| C1' |
O4' |
C4' |
H4 |
268.0 |
281.6 |
| N1 |
C1' |
O4' |
H1 |
118.8 |
122.2 |
| C2' |
C1' |
H1 |
O4' |
117.0 |
115.4 |
| H1 |
C1' |
O4' |
C4' |
116.5 |
78.3 |
| N1 |
C1' |
H1 |
O4' |
241.5 |
237.8 |
| C3' |
C2' |
H2 |
O2' |
125.6 |
122.7 |
| H2 |
C2' |
O2' |
H9 |
306.0 |
57.4 |
| H2 |
C2' |
C1' |
O4' |
218.7 |
265.2 |
| H2 |
C2' |
C1' |
H1 |
100.2 |
146.4 |
| H3 |
C3' |
C2' |
O2' |
168.2 |
122.7 |
| H3 |
C3' |
C2' |
H2 |
41.2 |
0.0 |
| H3 |
C3' |
C4' |
O4' |
75.7 |
94.7 |
| H3 |
C3' |
C4' |
H4 |
193.3 |
213.5 |
| C3' |
C4' |
H4 |
O4' |
247.1 |
244.6 |
| H4 |
C4' |
C3' |
H3 |
193.3 |
213.5 |
| C5' |
C4' |
H4 |
O4' |
120.8 |
122.3 |
| H5 |
C5 |
C4 |
N3 |
179.7 |
180.0 |
| H5 |
C5 |
C6 |
N1 |
181.0 |
180.0 |
| H5 |
C5 |
C6 |
H8 |
1.0 |
0.2 |
| O5' |
C5' |
H6 |
H7 |
119.7 |
240.1 |
| H6 |
C5' |
C4' |
O4' |
193.9 |
189.6 |
| H6 |
C5' |
C4' |
H4 |
72.6 |
67.4 |
| O5' |
C5' |
H7 |
H6 |
240.3 |
120.0 |
| H7 |
C5' |
C4' |
O4' |
74.1 |
309.6 |
| H7 |
C5' |
C4' |
H4 |
312.9 |
187.3 |
| C5 |
C6 |
H8 |
N1 |
180.0 |
179.8 |
| H8 |
C6 |
C5 |
H5 |
1.0 |
0.2 |
| H9 |
O2' |
C2' |
H2 |
306.0 |
57.4 |
| H10 |
O3' |
C3' |
H3 |
57.9 |
298.7 |
| H12 |
OP2 |
P |
OP3 |
128.1 |
300.0 |
| H13 |
C41 |
C42 |
H14 |
299.6 |
180.0 |
| H13 |
C41 |
C42 |
H15 |
59.6 |
300.1 |
| H13 |
C41 |
C42 |
H16 |
179.6 |
60.0 |
| H14 |
C42 |
C41 |
H13 |
299.6 |
180.0 |
| C41 |
C42 |
H14 |
H15 |
120.0 |
120.1 |
| C41 |
C42 |
H14 |
H16 |
240.0 |
240.0 |
| H15 |
C42 |
H14 |
H16 |
120.0 |
120.0 |
| H15 |
C42 |
C41 |
H13 |
59.6 |
300.1 |
| C41 |
C42 |
H15 |
H14 |
240.0 |
240.0 |
| C41 |
C42 |
H15 |
H16 |
120.0 |
120.0 |
| H14 |
C42 |
H15 |
H16 |
240.0 |
240.0 |
| H16 |
C42 |
C41 |
H13 |
179.6 |
60.0 |
| C41 |
C42 |
H16 |
H14 |
120.1 |
120.0 |
| C41 |
C42 |
H16 |
H15 |
240.0 |
240.0 |
| H14 |
C42 |
H16 |
H15 |
120.0 |
120.0 |
| H17 |
C43 |
C41 |
H13 |
300.1 |
300.0 |
| H18 |
C43 |
H17 |
H19 |
120.0 |
120.0 |
| H18 |
C43 |
C41 |
H13 |
60.1 |
59.9 |
| H17 |
C43 |
H18 |
H19 |
240.0 |
240.0 |
| H19 |
C43 |
C41 |
H13 |
180.1 |
180.0 |
| H17 |
C43 |
H19 |
H18 |
120.0 |
120.0 |
| OP1 |
P |
OP3 |
OP2 |
131.7 |
120.0 |
| OP3 |
P |
OP2 |
H12 |
128.1 |
300.0 |