PDB Chemical Component 6C6
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 6C6
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C2 |
N1 |
1.327 |
1.321 |
| C2 |
N3 |
1.326 |
1.317 |
| O2' |
C2' |
1.448 |
1.429 |
| N1 |
C6 |
1.350 |
1.330 |
| N3 |
C4 |
1.348 |
1.329 |
| O3' |
C3' |
1.447 |
1.428 |
| C2' |
C3' |
1.534 |
1.545 |
| C2' |
C1' |
1.542 |
1.545 |
| C3' |
C4' |
1.535 |
1.544 |
| C6 |
N6 |
1.348 |
1.384 |
| C6 |
C5 |
1.394 |
1.405 |
| C4 |
C5 |
1.388 |
1.405 |
| C4 |
N9 |
1.332 |
1.372 |
| N6 |
C61 |
1.478 |
1.466 |
| C63 |
C62 |
1.535 |
1.549 |
| C63 |
C64 |
1.531 |
1.542 |
| C5 |
N7 |
1.327 |
1.355 |
| C1' |
N9 |
1.495 |
1.465 |
| C1' |
O4' |
1.450 |
1.444 |
| N9 |
C8 |
1.335 |
1.363 |
| C62 |
C61 |
1.535 |
1.549 |
| C4' |
O4' |
1.452 |
1.445 |
| C4' |
C5' |
1.535 |
1.531 |
| C64 |
C65 |
1.538 |
1.539 |
| C61 |
C65 |
1.541 |
1.542 |
| N7 |
C8 |
1.334 |
1.302 |
| C5' |
O5' |
1.404 |
1.429 |
| O5' |
PA |
1.639 |
1.610 |
| OA3 |
PA |
1.577 |
1.479 |
| OA1 |
PA |
1.497 |
1.610 |
| PA |
OA2 |
1.558 |
1.610 |
| C65 |
H1 |
1.100 |
1.089 |
| C65 |
H2 |
1.100 |
1.090 |
| C64 |
H3 |
1.100 |
1.090 |
| C64 |
H4 |
1.100 |
1.090 |
| C63 |
H5 |
1.100 |
1.090 |
| C63 |
H6 |
1.099 |
1.090 |
| C62 |
H7 |
1.100 |
1.090 |
| C62 |
H8 |
1.100 |
1.090 |
| C61 |
H9 |
1.100 |
1.090 |
| N6 |
H10 |
1.000 |
0.970 |
| C2 |
H11 |
1.080 |
1.080 |
| C8 |
H12 |
1.080 |
1.080 |
| C1' |
H13 |
1.100 |
1.090 |
| C2' |
H14 |
1.100 |
1.090 |
| O2' |
H15 |
0.950 |
0.967 |
| C3' |
H16 |
1.101 |
1.090 |
| O3' |
H17 |
0.949 |
0.967 |
| C4' |
H18 |
1.100 |
1.090 |
| C5' |
H19 |
1.100 |
1.090 |
| C5' |
H20 |
1.100 |
1.090 |
| OA2 |
H21 |
0.950 |
0.967 |
| OA1 |
H22 |
0.950 |
0.967 |
Bond Angles for 6C6
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
N3 |
C4 |
119.9 |
120.6 |
| N3 |
C2 |
H11 |
119.3 |
118.8 |
| O2' |
C2' |
C3' |
112.2 |
110.5 |
| O2' |
C2' |
H14 |
110.1 |
110.6 |
| N1 |
C6 |
C5 |
118.0 |
118.4 |
| N3 |
C4 |
C5 |
120.3 |
119.1 |
| N3 |
C4 |
N9 |
132.1 |
134.9 |
| O3' |
C3' |
C4' |
109.3 |
110.5 |
| O3' |
C3' |
H16 |
110.5 |
110.5 |
| C2' |
C3' |
C4' |
105.8 |
104.1 |
| C3' |
C2' |
H14 |
108.9 |
110.5 |
| C2' |
C3' |
H16 |
109.3 |
110.5 |
| C2' |
C1' |
H13 |
108.6 |
110.5 |
| C3' |
C4' |
C5' |
108.5 |
110.4 |
| C4' |
C3' |
H16 |
109.3 |
110.5 |
| C3' |
C4' |
H18 |
109.5 |
110.4 |
| C6 |
N6 |
H10 |
105.2 |
120.0 |
| C6 |
C5 |
C4 |
118.4 |
118.2 |
| C6 |
C5 |
N7 |
134.6 |
134.7 |
| C5 |
C4 |
N9 |
107.6 |
106.0 |
| C4 |
C5 |
N7 |
107.0 |
107.1 |
| C4 |
N9 |
C8 |
107.6 |
107.4 |
| N6 |
C61 |
H9 |
111.6 |
110.5 |
| C63 |
C62 |
C61 |
105.0 |
102.7 |
| C62 |
C63 |
H5 |
110.7 |
110.5 |
| C62 |
C63 |
H6 |
110.8 |
110.4 |
| C63 |
C62 |
H7 |
110.6 |
110.8 |
| C63 |
C62 |
H8 |
110.6 |
110.8 |
| C63 |
C64 |
H3 |
110.3 |
110.0 |
| C63 |
C64 |
H4 |
110.3 |
110.1 |
| C5 |
N7 |
C8 |
108.3 |
109.5 |
| O4' |
C1' |
H13 |
109.9 |
110.4 |
| N9 |
C8 |
H12 |
125.3 |
125.0 |
| C61 |
C62 |
H7 |
110.6 |
110.7 |
| C61 |
C62 |
H8 |
110.6 |
110.8 |
| C62 |
C61 |
H9 |
110.8 |
110.5 |
| C4' |
C5' |
O5' |
111.8 |
109.4 |
| C5' |
C4' |
H18 |
109.5 |
110.4 |
| C4' |
C5' |
H19 |
108.9 |
109.4 |
| C4' |
C5' |
H20 |
108.9 |
109.4 |
| C64 |
C65 |
H1 |
110.0 |
110.0 |
| C64 |
C65 |
H2 |
110.0 |
110.0 |
| C61 |
C65 |
H1 |
110.0 |
110.1 |
| C61 |
C65 |
H2 |
110.0 |
110.0 |
| N7 |
C8 |
H12 |
125.3 |
125.0 |
| C5' |
O5' |
PA |
121.5 |
122.9 |
| O5' |
C5' |
H19 |
108.9 |
109.5 |
| O5' |
C5' |
H20 |
108.9 |
109.5 |
| O5' |
PA |
OA2 |
104.7 |
109.5 |
| PA |
OA2 |
H21 |
109.5 |
114.1 |
| H1 |
C65 |
H2 |
109.5 |
110.1 |
| H3 |
C64 |
H4 |
109.4 |
110.0 |
| H5 |
C63 |
H6 |
109.5 |
110.5 |
| H7 |
C62 |
H8 |
109.5 |
110.8 |
| H19 |
C5' |
H20 |
109.5 |
109.5 |
Torsion Angles for 6C6
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
N1 |
C6 |
C5 |
359.2 |
0.3 |
| C2 |
N3 |
C4 |
C5 |
0.5 |
359.7 |
| C2 |
N3 |
C4 |
N9 |
180.1 |
180.0 |
| O2' |
C2' |
C3' |
C4' |
245.0 |
241.4 |
| C3' |
C2' |
O2' |
H14 |
238.5 |
237.3 |
| O2' |
C2' |
C3' |
H16 |
127.4 |
122.7 |
| O2' |
C2' |
C1' |
H13 |
347.6 |
23.7 |
| N1 |
C6 |
N6 |
H10 |
298.9 |
180.3 |
| N1 |
C6 |
C5 |
C4 |
0.6 |
359.4 |
| N1 |
C6 |
C5 |
N7 |
180.3 |
179.8 |
| C4 |
N3 |
C2 |
H11 |
179.4 |
180.0 |
| C6 |
C5 |
C4 |
N3 |
359.5 |
0.6 |
| C5 |
C4 |
N3 |
N9 |
180.4 |
179.7 |
| N3 |
C4 |
C5 |
N7 |
179.8 |
180.3 |
| N3 |
C4 |
N9 |
C8 |
180.3 |
179.3 |
| C2' |
C3' |
O3' |
C4' |
242.9 |
245.3 |
| O3' |
C3' |
C2' |
H14 |
242.1 |
237.3 |
| C2' |
C3' |
O3' |
H16 |
122.5 |
122.7 |
| O3' |
C3' |
C4' |
C5' |
124.1 |
98.5 |
| C4' |
C3' |
O3' |
H16 |
239.6 |
237.4 |
| O3' |
C3' |
C4' |
H18 |
4.7 |
336.2 |
| O2' |
C2' |
C3' |
H14 |
122.2 |
122.7 |
| O3' |
C3' |
C2' |
C4' |
119.2 |
118.7 |
| O3' |
C3' |
C2' |
H16 |
236.8 |
237.3 |
| C3' |
C2' |
C1' |
H13 |
225.7 |
265.1 |
| C2' |
C3' |
C4' |
C5' |
245.4 |
217.2 |
| C4' |
C3' |
C2' |
H16 |
117.6 |
118.6 |
| C2' |
C3' |
C4' |
H18 |
126.0 |
94.9 |
| O4' |
C1' |
C2' |
H13 |
118.7 |
119.0 |
| O3' |
C3' |
C4' |
H16 |
121.1 |
122.7 |
| C4' |
C3' |
C2' |
H14 |
122.9 |
118.6 |
| C2' |
C3' |
C4' |
H16 |
242.4 |
241.3 |
| C3' |
C4' |
C5' |
O5' |
171.8 |
185.0 |
| C5' |
C4' |
C3' |
H18 |
119.4 |
122.3 |
| C3' |
C4' |
C5' |
H19 |
292.1 |
305.0 |
| C3' |
C4' |
C5' |
H20 |
51.4 |
65.0 |
| C6 |
N6 |
C61 |
H9 |
326.0 |
32.4 |
| N3 |
C4 |
C5 |
C6 |
359.5 |
0.6 |
| C5 |
C6 |
N6 |
H10 |
119.7 |
360.0 |
| C6 |
C5 |
C4 |
N9 |
179.8 |
180.4 |
| C4 |
C5 |
C6 |
N7 |
180.4 |
179.7 |
| C6 |
C5 |
N7 |
C8 |
180.3 |
179.9 |
| N3 |
C4 |
C5 |
N9 |
179.7 |
180.2 |
| C6 |
C5 |
C4 |
N7 |
179.7 |
180.3 |
| C5 |
C4 |
N9 |
C8 |
359.9 |
359.6 |
| C4 |
C5 |
N7 |
C8 |
359.9 |
0.3 |
| N3 |
C4 |
N9 |
C5 |
180.4 |
179.8 |
| N9 |
C4 |
C5 |
N7 |
0.1 |
0.1 |
| C4 |
N9 |
C8 |
H12 |
180.0 |
180.1 |
| N6 |
C61 |
C62 |
H7 |
325.9 |
38.3 |
| N6 |
C61 |
C62 |
H8 |
204.5 |
275.0 |
| C62 |
C61 |
N6 |
H9 |
123.7 |
122.6 |
| N6 |
C61 |
C65 |
H1 |
137.6 |
98.4 |
| N6 |
C61 |
C65 |
H2 |
17.0 |
337.0 |
| C62 |
C63 |
C64 |
H3 |
93.6 |
264.3 |
| C62 |
C63 |
C64 |
H4 |
214.6 |
142.9 |
| C61 |
C62 |
C63 |
H7 |
240.7 |
241.8 |
| C61 |
C62 |
C63 |
H8 |
119.3 |
118.4 |
| C63 |
C62 |
C61 |
H9 |
209.4 |
279.2 |
| H5 |
C63 |
C62 |
H6 |
238.3 |
122.6 |
| H7 |
C62 |
C63 |
H8 |
238.6 |
236.6 |
| C63 |
C64 |
C65 |
H1 |
126.3 |
119.3 |
| C63 |
C64 |
C65 |
H2 |
246.9 |
240.7 |
| H3 |
C64 |
C63 |
H4 |
239.0 |
121.4 |
| C6 |
C5 |
N7 |
C4 |
180.3 |
179.7 |
| N7 |
C5 |
C4 |
N9 |
0.1 |
0.1 |
| C5 |
N7 |
C8 |
H12 |
180.0 |
179.9 |
| C1' |
N9 |
C8 |
H12 |
359.4 |
359.4 |
| C2' |
C1' |
O4' |
H13 |
242.1 |
241.0 |
| N7 |
C8 |
N9 |
H12 |
180.0 |
180.5 |
| N6 |
C61 |
C62 |
H9 |
235.8 |
237.4 |
| C61 |
C62 |
C63 |
H5 |
154.8 |
203.4 |
| C61 |
C62 |
C63 |
H6 |
276.5 |
80.8 |
| C63 |
C62 |
C61 |
H7 |
119.3 |
118.3 |
| C63 |
C62 |
C61 |
H8 |
240.7 |
241.6 |
| C62 |
C61 |
C65 |
H1 |
255.5 |
217.2 |
| C62 |
C61 |
C65 |
H2 |
134.9 |
95.7 |
| H7 |
C62 |
C61 |
H8 |
121.4 |
123.3 |
| C4' |
O4' |
C1' |
H13 |
137.5 |
78.4 |
| C5' |
C4' |
C3' |
H16 |
3.0 |
335.9 |
| C3' |
C4' |
C5' |
H18 |
240.6 |
237.7 |
| C4' |
C5' |
O5' |
PA |
183.4 |
180.0 |
| O5' |
C5' |
C4' |
H19 |
239.7 |
240.0 |
| O5' |
C5' |
C4' |
H20 |
120.4 |
120.0 |
| H19 |
C5' |
C4' |
H20 |
240.7 |
240.0 |
| C61 |
C65 |
C64 |
H1 |
240.3 |
240.7 |
| C61 |
C65 |
C64 |
H2 |
119.7 |
119.3 |
| H1 |
C65 |
C64 |
H2 |
239.4 |
238.6 |
| C64 |
C65 |
C61 |
H1 |
119.7 |
119.3 |
| C64 |
C65 |
C61 |
H2 |
240.3 |
240.8 |
| H1 |
C65 |
C61 |
H2 |
120.6 |
121.5 |
| C4 |
N9 |
C8 |
N7 |
0.0 |
0.6 |
| N9 |
C8 |
N7 |
H12 |
180.0 |
179.5 |
| O5' |
C5' |
C4' |
H18 |
291.2 |
307.3 |
| C4' |
C5' |
O5' |
H19 |
120.4 |
120.0 |
| C4' |
C5' |
O5' |
H20 |
239.6 |
240.0 |
| C5' |
O5' |
PA |
OA2 |
183.0 |
294.9 |
| H19 |
C5' |
O5' |
H20 |
119.3 |
120.1 |
| PA |
O5' |
C5' |
H19 |
63.0 |
60.1 |
| PA |
O5' |
C5' |
H20 |
303.7 |
300.0 |
| O5' |
PA |
OA2 |
H21 |
249.3 |
300.0 |
| OA3 |
PA |
OA2 |
H21 |
360.0 |
180.0 |
| OA1 |
PA |
OA2 |
H21 |
129.7 |
60.0 |
| C64 |
C65 |
H1 |
H2 |
120.9 |
121.4 |
| C61 |
C65 |
H1 |
H2 |
239.1 |
238.6 |
| C64 |
C65 |
H2 |
H1 |
239.1 |
238.6 |
| C61 |
C65 |
H2 |
H1 |
120.9 |
121.5 |
| C63 |
C64 |
H3 |
H4 |
121.5 |
238.6 |
| H3 |
C64 |
C65 |
H1 |
6.8 |
238.6 |
| H3 |
C64 |
C65 |
H2 |
127.4 |
360.0 |
| C63 |
C64 |
H4 |
H3 |
238.5 |
121.4 |
| H4 |
C64 |
C65 |
H1 |
245.8 |
359.9 |
| H4 |
C64 |
C65 |
H2 |
6.4 |
121.3 |
| H5 |
C63 |
C62 |
C61 |
154.8 |
203.4 |
| C62 |
C63 |
H5 |
H6 |
122.4 |
237.5 |
| H5 |
C63 |
C62 |
H7 |
274.1 |
321.6 |
| H5 |
C63 |
C62 |
H8 |
35.5 |
85.0 |
| H5 |
C63 |
C64 |
H3 |
334.5 |
23.0 |
| H5 |
C63 |
C64 |
H4 |
95.4 |
261.6 |
| H6 |
C63 |
C62 |
C61 |
276.5 |
80.8 |
| C62 |
C63 |
H6 |
H5 |
237.6 |
122.5 |
| H6 |
C63 |
C62 |
H7 |
35.8 |
199.0 |
| H6 |
C63 |
C62 |
H8 |
157.2 |
322.4 |
| H6 |
C63 |
C64 |
H3 |
212.8 |
145.7 |
| H6 |
C63 |
C64 |
H4 |
333.8 |
24.3 |
| C63 |
C62 |
H7 |
C61 |
244.1 |
246.7 |
| H7 |
C62 |
C63 |
H5 |
274.1 |
321.6 |
| H7 |
C62 |
C63 |
H6 |
35.8 |
199.0 |
| C63 |
C62 |
H7 |
H8 |
122.1 |
123.4 |
| C61 |
C62 |
H7 |
H8 |
237.9 |
236.7 |
| H7 |
C62 |
C61 |
H9 |
90.1 |
160.9 |
| C63 |
C62 |
H8 |
C61 |
115.9 |
113.4 |
| H8 |
C62 |
C63 |
H5 |
35.5 |
85.0 |
| H8 |
C62 |
C63 |
H6 |
157.2 |
322.4 |
| C63 |
C62 |
H8 |
H7 |
237.9 |
236.6 |
| C61 |
C62 |
H8 |
H7 |
122.1 |
123.2 |
| H8 |
C62 |
C61 |
H9 |
328.7 |
37.6 |
| H9 |
C61 |
C62 |
H7 |
90.1 |
160.9 |
| H9 |
C61 |
C62 |
H8 |
328.7 |
37.6 |
| H9 |
C61 |
C65 |
H1 |
14.9 |
335.8 |
| H9 |
C61 |
C65 |
H2 |
254.2 |
214.4 |
| H10 |
N6 |
C61 |
H9 |
203.8 |
212.4 |
| H11 |
C2 |
N3 |
C4 |
179.4 |
180.0 |
| O2' |
C2' |
H14 |
C3' |
236.6 |
237.3 |
| H14 |
C2' |
C3' |
C4' |
122.9 |
118.6 |
| H14 |
C2' |
C3' |
H16 |
5.3 |
0.0 |
| H14 |
C2' |
C1' |
H13 |
108.9 |
146.4 |
| H15 |
O2' |
C2' |
C3' |
180.0 |
298.6 |
| H15 |
O2' |
C2' |
H14 |
301.5 |
61.2 |
| O3' |
C3' |
H16 |
C4' |
239.7 |
237.3 |
| C2' |
C3' |
H16 |
C4' |
115.3 |
114.6 |
| H16 |
C3' |
C2' |
H14 |
5.3 |
0.0 |
| H16 |
C3' |
C4' |
C5' |
3.0 |
335.9 |
| H16 |
C3' |
C4' |
H18 |
243.6 |
213.6 |
| H17 |
O3' |
C3' |
C4' |
297.1 |
176.1 |
| H17 |
O3' |
C3' |
H16 |
57.5 |
298.7 |
| C3' |
C4' |
H18 |
C5' |
118.8 |
122.3 |
| H18 |
C4' |
C3' |
H16 |
243.6 |
213.6 |
| H18 |
C4' |
C5' |
O5' |
291.2 |
307.3 |
| H18 |
C4' |
C5' |
H19 |
51.5 |
67.3 |
| H18 |
C4' |
C5' |
H20 |
170.8 |
187.3 |
| C4' |
C5' |
H19 |
O5' |
237.8 |
240.0 |
| H19 |
C5' |
C4' |
H18 |
51.5 |
67.3 |
| C4' |
C5' |
H19 |
H20 |
118.9 |
120.0 |
| H19 |
C5' |
O5' |
PA |
63.0 |
60.1 |
| O5' |
C5' |
H19 |
H20 |
241.1 |
239.9 |
| C4' |
C5' |
H20 |
O5' |
122.2 |
120.0 |
| H20 |
C5' |
C4' |
H18 |
170.8 |
187.3 |
| C4' |
C5' |
H20 |
H19 |
241.1 |
240.0 |
| H20 |
C5' |
O5' |
PA |
303.7 |
300.0 |
| O5' |
C5' |
H20 |
H19 |
118.9 |
120.1 |