PDB Chemical Component CJ1
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 CJ1
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| O2 |
C2 |
1.340 |
1.356 |
| N1 |
C2 |
1.369 |
1.326 |
| N1 |
C6 |
1.388 |
1.328 |
| O6 |
C6 |
1.241 |
1.354 |
| C2 |
N3 |
1.320 |
1.320 |
| C6 |
C5 |
1.428 |
1.402 |
| N3 |
C4 |
1.350 |
1.332 |
| C5 |
C4 |
1.379 |
1.407 |
| C5 |
C7 |
1.395 |
1.463 |
| C4 |
N9 |
1.377 |
1.367 |
| C7 |
C8 |
1.309 |
1.342 |
| N9 |
C8 |
1.377 |
1.372 |
| N9 |
C1' |
1.466 |
1.465 |
| C1' |
O4' |
1.427 |
1.445 |
| C1' |
C2' |
1.518 |
1.545 |
| O4' |
C4' |
1.446 |
1.444 |
| C4' |
C3' |
1.530 |
1.544 |
| C4' |
C5' |
1.506 |
1.531 |
| C2' |
C3' |
1.525 |
1.545 |
| O3' |
C3' |
1.428 |
1.430 |
| C5' |
O5' |
1.439 |
1.429 |
| O5' |
P |
1.583 |
1.611 |
| P |
OP2 |
1.491 |
1.610 |
| P |
OP1 |
1.485 |
1.480 |
| C7 |
H1 |
1.081 |
1.080 |
| C5' |
H3 |
1.100 |
1.090 |
| C5' |
H4 |
1.100 |
1.089 |
| C4' |
H5 |
1.100 |
1.090 |
| C3' |
H6 |
1.100 |
1.089 |
| O3' |
H7 |
0.950 |
0.967 |
| C2' |
H8 |
1.101 |
1.090 |
| C2' |
H9 |
1.100 |
1.089 |
| C1' |
H10 |
1.100 |
1.090 |
| C8 |
H11 |
1.080 |
1.080 |
| OP2 |
H14 |
0.950 |
0.967 |
| P |
OP3 |
1.587 |
1.610 |
| OP3 |
HO3' |
0.950 |
0.967 |
| O2 |
H2 |
0.950 |
0.967 |
| O6 |
H12 |
0.950 |
0.967 |
Bond Angles for CJ1
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
N3 |
C4 |
111.6 |
120.7 |
| C6 |
C5 |
C7 |
131.9 |
135.0 |
| C5 |
C4 |
N9 |
106.2 |
107.2 |
| C5 |
C7 |
C8 |
104.8 |
106.8 |
| C5 |
C7 |
H1 |
127.6 |
126.6 |
| C4 |
N9 |
C8 |
106.1 |
110.0 |
| C4 |
N9 |
C1' |
123.2 |
125.0 |
| C7 |
C8 |
N9 |
113.0 |
109.8 |
| C8 |
C7 |
H1 |
127.6 |
126.6 |
| C7 |
C8 |
H11 |
123.5 |
125.1 |
| N9 |
C8 |
H11 |
123.5 |
125.1 |
| N9 |
C1' |
H10 |
108.4 |
110.4 |
| O4' |
C1' |
H10 |
108.9 |
110.4 |
| C1' |
C2' |
H8 |
111.8 |
110.4 |
| C1' |
C2' |
H9 |
111.8 |
110.6 |
| O4' |
C4' |
H5 |
108.8 |
110.5 |
| C3' |
C4' |
H5 |
107.7 |
110.4 |
| C4' |
C3' |
H6 |
112.1 |
110.5 |
| C4' |
C5' |
H3 |
109.2 |
109.5 |
| C4' |
C5' |
H4 |
109.2 |
109.5 |
| C2' |
C3' |
H6 |
112.3 |
110.5 |
| O3' |
C3' |
H6 |
113.8 |
110.5 |
| O5' |
P |
OP2 |
108.5 |
109.5 |
| O5' |
P |
OP3 |
103.4 |
109.4 |
| OP1 |
P |
OP2 |
120.0 |
109.5 |
| P |
OP2 |
H14 |
109.5 |
114.0 |
| OP2 |
P |
OP3 |
108.0 |
109.5 |
| OP1 |
P |
OP3 |
108.6 |
109.5 |
| H3 |
C5' |
H4 |
109.5 |
109.5 |
| H8 |
C2' |
H9 |
109.5 |
110.5 |
| P |
OP3 |
HO3' |
109.5 |
114.0 |
Torsion Angles for CJ1
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C6 |
C5 |
C4 |
N9 |
180.0 |
180.5 |
| C6 |
C5 |
C7 |
C8 |
180.0 |
179.3 |
| C6 |
C5 |
C7 |
H1 |
360.0 |
359.2 |
| C2 |
N3 |
C4 |
C5 |
0.1 |
360.0 |
| C5 |
C4 |
N9 |
C8 |
0.1 |
0.0 |
| C5 |
C4 |
N9 |
C1' |
179.3 |
180.1 |
| C7 |
C5 |
C4 |
N9 |
360.0 |
360.0 |
| C5 |
C7 |
C8 |
N9 |
0.1 |
359.9 |
| C8 |
C7 |
C5 |
H1 |
180.0 |
180.1 |
| C5 |
C7 |
C8 |
H11 |
180.1 |
179.9 |
| C2 |
N3 |
C4 |
N9 |
180.2 |
180.0 |
| C7 |
C8 |
N9 |
C4 |
359.9 |
0.0 |
| C4 |
N9 |
C8 |
H11 |
179.9 |
180.0 |
| C4 |
N9 |
C1' |
H10 |
36.3 |
325.8 |
| C5 |
C7 |
C8 |
H1 |
180.0 |
179.9 |
| C4 |
N9 |
C8 |
C7 |
359.9 |
0.0 |
| N9 |
C8 |
C7 |
H11 |
180.0 |
180.0 |
| C4 |
N9 |
C8 |
C1' |
179.1 |
180.1 |
| N9 |
C8 |
C7 |
H1 |
180.1 |
180.1 |
| C7 |
C8 |
N9 |
H11 |
180.0 |
180.0 |
| C8 |
N9 |
C1' |
H10 |
215.3 |
145.9 |
| C4 |
N9 |
C1' |
C8 |
181.0 |
179.9 |
| C7 |
C8 |
N9 |
C1' |
180.8 |
180.0 |
| O4' |
C1' |
N9 |
H10 |
243.2 |
237.7 |
| N9 |
C1' |
C2' |
H8 |
276.6 |
24.2 |
| N9 |
C1' |
C2' |
H9 |
39.7 |
261.6 |
| C4 |
N9 |
C1' |
O4' |
279.5 |
203.5 |
| N9 |
C1' |
O4' |
H10 |
116.4 |
122.3 |
| O4' |
C1' |
C2' |
H8 |
157.5 |
265.3 |
| O4' |
C1' |
C2' |
H9 |
280.6 |
142.7 |
| C1' |
O4' |
C4' |
H5 |
244.4 |
281.6 |
| C4 |
N9 |
C1' |
C2' |
160.7 |
88.1 |
| C1' |
C2' |
C3' |
H6 |
200.8 |
241.4 |
| H8 |
C2' |
C1' |
H9 |
236.9 |
122.6 |
| C3' |
C4' |
O4' |
H5 |
115.2 |
118.9 |
| O4' |
C4' |
C3' |
H6 |
146.1 |
94.6 |
| O4' |
C4' |
C5' |
H3 |
52.4 |
309.6 |
| O4' |
C4' |
C5' |
H4 |
172.2 |
189.6 |
| O4' |
C4' |
C3' |
H5 |
244.1 |
241.0 |
| C3' |
C4' |
C5' |
H3 |
172.4 |
65.0 |
| C3' |
C4' |
C5' |
H4 |
292.1 |
305.0 |
| C2' |
C3' |
C4' |
H6 |
239.0 |
241.3 |
| O3' |
C3' |
C4' |
H6 |
123.7 |
122.6 |
| H3 |
C5' |
C4' |
H4 |
240.3 |
120.0 |
| C2' |
C3' |
C4' |
H5 |
141.0 |
94.9 |
| C4' |
C3' |
C2' |
H6 |
120.9 |
118.7 |
| O3' |
C3' |
C2' |
H6 |
231.9 |
237.3 |
| O3' |
C3' |
C4' |
H5 |
25.7 |
336.2 |
| C4' |
C3' |
O3' |
H6 |
237.4 |
237.4 |
| C2' |
C3' |
O3' |
H6 |
127.3 |
122.7 |
| C5' |
O5' |
P |
OP2 |
187.7 |
295.0 |
| C5' |
O5' |
P |
OP3 |
302.2 |
175.0 |
| OP1 |
P |
O5' |
OP2 |
229.1 |
120.0 |
| O5' |
P |
OP2 |
H14 |
236.6 |
300.0 |
| OP2 |
P |
O5' |
OP3 |
245.5 |
120.0 |
| OP1 |
P |
O5' |
OP3 |
114.6 |
240.0 |
| O5' |
P |
OP3 |
HO3' |
113.5 |
180.0 |
| O5' |
P |
OP2 |
OP3 |
111.4 |
240.0 |
| OP1 |
P |
OP2 |
OP3 |
234.8 |
120.0 |
| OP2 |
P |
OP3 |
HO3' |
228.3 |
60.1 |
| O5' |
P |
OP1 |
OP2 |
124.1 |
240.0 |
| O5' |
P |
OP1 |
OP3 |
249.0 |
120.0 |
| OP1 |
P |
OP2 |
H14 |
360.0 |
180.0 |
| OP2 |
P |
OP1 |
OP3 |
124.9 |
240.0 |
| OP1 |
P |
OP3 |
HO3' |
360.0 |
300.0 |
| C5 |
C7 |
H1 |
C8 |
180.0 |
180.2 |
| H1 |
C7 |
C8 |
N9 |
180.1 |
180.1 |
| H1 |
C7 |
C8 |
H11 |
0.1 |
0.1 |
| C4' |
C5' |
H3 |
H4 |
119.6 |
240.0 |
| C4' |
C5' |
H4 |
H3 |
240.4 |
120.0 |
| H5 |
C4' |
C3' |
H6 |
262.0 |
213.6 |
| H5 |
C4' |
C5' |
H3 |
293.3 |
187.2 |
| H5 |
C4' |
C5' |
H4 |
53.0 |
67.2 |
| H6 |
C3' |
C4' |
H5 |
262.0 |
213.6 |
| H7 |
O3' |
C3' |
H6 |
302.6 |
302.6 |
| C1' |
C2' |
H8 |
H9 |
124.4 |
237.3 |
| H8 |
C2' |
C3' |
H6 |
82.4 |
360.0 |
| C1' |
C2' |
H9 |
H8 |
235.6 |
122.6 |
| H9 |
C2' |
C3' |
H6 |
319.2 |
122.6 |
| H10 |
C1' |
C2' |
H8 |
41.3 |
146.5 |
| H10 |
C1' |
C2' |
H9 |
164.4 |
23.9 |
| C7 |
C8 |
H11 |
N9 |
180.0 |
180.0 |
| H11 |
C8 |
C7 |
H1 |
0.1 |
0.1 |
| H14 |
OP2 |
P |
OP3 |
125.1 |
60.0 |
| O5' |
P |
OP3 |
OP2 |
245.2 |
120.0 |
| OP1 |
P |
OP3 |
OP2 |
131.7 |
239.9 |
| OP3 |
P |
OP2 |
H14 |
125.1 |
60.0 |