PDB Chemical Component RFZ
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 RFZ
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| O3' |
C3' |
1.460 |
1.429 |
| C3' |
C4' |
1.531 |
1.545 |
| C3' |
C2' |
1.530 |
1.547 |
| C4' |
C5' |
1.550 |
1.530 |
| C4' |
O4' |
1.461 |
1.444 |
| C5' |
O5' |
1.442 |
1.429 |
| O2' |
C2' |
1.424 |
1.429 |
| C2' |
C1' |
1.507 |
1.544 |
| O4' |
C1' |
1.443 |
1.444 |
| C1' |
N1 |
1.455 |
1.464 |
| N1 |
C1 |
1.323 |
1.361 |
| N1 |
C6 |
1.330 |
1.381 |
| C1 |
N2 |
1.354 |
1.301 |
| C5 |
C6 |
1.362 |
1.388 |
| C5 |
C4 |
1.365 |
1.380 |
| C6 |
C7 |
1.389 |
1.405 |
| CL2 |
C4 |
1.725 |
1.736 |
| C4 |
C3 |
1.415 |
1.389 |
| N2 |
C7 |
1.317 |
1.358 |
| C7 |
C2 |
1.414 |
1.397 |
| C3 |
C2 |
1.354 |
1.377 |
| C3 |
CL1 |
1.695 |
1.736 |
| C5 |
H5 |
1.080 |
1.080 |
| C2 |
H2 |
1.080 |
1.080 |
| C1 |
H1 |
1.080 |
1.079 |
| C1' |
H1' |
1.100 |
1.091 |
| C4' |
H4' |
1.100 |
1.090 |
| C5' |
H5' |
1.100 |
1.090 |
| C5' |
H5'A |
1.100 |
1.090 |
| O5' |
HO5' |
0.950 |
0.967 |
| C3' |
H3' |
1.100 |
1.090 |
| O3' |
HO3' |
0.950 |
0.967 |
| C2' |
H2' |
1.100 |
1.090 |
| O2' |
HO2' |
0.951 |
0.967 |
Bond Angles for RFZ
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O3' |
C3' |
C2' |
109.1 |
110.4 |
| O3' |
C3' |
H3' |
106.6 |
110.6 |
| C3' |
C4' |
H4' |
105.8 |
110.5 |
| C2' |
C3' |
H3' |
115.4 |
110.6 |
| C3' |
C2' |
H2' |
115.0 |
110.5 |
| C4' |
C5' |
O5' |
109.3 |
109.5 |
| C5' |
C4' |
H4' |
104.3 |
110.3 |
| C4' |
C5' |
H5' |
109.5 |
109.5 |
| C4' |
C5' |
H5'A |
109.6 |
109.5 |
| O5' |
C5' |
H5' |
109.5 |
109.5 |
| O5' |
C5' |
H5'A |
109.6 |
109.4 |
| C5' |
O5' |
HO5' |
109.5 |
114.0 |
| O2' |
C2' |
H2' |
106.6 |
110.6 |
| C2' |
C1' |
H1' |
111.7 |
110.3 |
| O4' |
C1' |
H1' |
119.0 |
110.4 |
| N1 |
C1 |
H1 |
125.6 |
124.9 |
| C5 |
C6 |
C7 |
120.1 |
119.9 |
| C5 |
C4 |
C3 |
120.9 |
120.4 |
| C4 |
C5 |
H5 |
120.7 |
120.1 |
| C6 |
C7 |
C2 |
122.8 |
119.6 |
| CL2 |
C4 |
C3 |
124.4 |
119.8 |
| C4 |
C3 |
C2 |
122.2 |
120.5 |
| C4 |
C3 |
CL1 |
118.2 |
119.7 |
| C7 |
C2 |
H2 |
122.4 |
120.1 |
| CL1 |
C3 |
C2 |
119.5 |
119.8 |
| C3 |
C2 |
H2 |
122.4 |
120.1 |
| H5' |
C5' |
H5'A |
109.4 |
109.5 |
Torsion Angles for RFZ
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O3' |
C3' |
C4' |
H4' |
32.3 |
336.3 |
| C2' |
C3' |
O3' |
H3' |
125.3 |
122.8 |
| O3' |
C3' |
C2' |
H2' |
198.2 |
237.2 |
| C5' |
C4' |
C3' |
H4' |
116.2 |
122.2 |
| C3' |
C4' |
C5' |
H5' |
260.8 |
301.9 |
| C3' |
C4' |
C5' |
H5'A |
20.8 |
61.9 |
| O3' |
C3' |
C2' |
H3' |
240.0 |
237.2 |
| C2' |
C3' |
C4' |
H4' |
147.7 |
94.8 |
| O2' |
C2' |
C3' |
H2' |
120.8 |
122.7 |
| C3' |
C2' |
C1' |
H1' |
281.6 |
265.0 |
| C3' |
C4' |
C5' |
H4' |
243.0 |
237.7 |
| O5' |
C5' |
C4' |
H5' |
240.0 |
240.0 |
| O5' |
C5' |
C4' |
H5'A |
120.1 |
120.0 |
| C4' |
C5' |
O5' |
HO5' |
124.3 |
180.0 |
| H5' |
C5' |
C4' |
H5'A |
240.0 |
240.0 |
| C4' |
O4' |
C1' |
H1' |
86.8 |
78.4 |
| O5' |
C5' |
C4' |
H4' |
257.8 |
304.2 |
| C4' |
C5' |
O5' |
H5' |
120.0 |
120.0 |
| C4' |
C5' |
O5' |
H5'A |
239.9 |
240.0 |
| H5' |
C5' |
O5' |
H5'A |
119.9 |
120.0 |
| O2' |
C2' |
C3' |
H3' |
78.9 |
122.7 |
| C3' |
C2' |
O2' |
H2' |
234.3 |
237.4 |
| O2' |
C2' |
C1' |
H1' |
37.0 |
23.6 |
| O4' |
C1' |
C2' |
H1' |
127.9 |
118.9 |
| C2' |
C1' |
O4' |
H1' |
237.0 |
241.2 |
| C1' |
N1 |
C1 |
H1 |
0.9 |
0.2 |
| C5 |
C6 |
C7 |
C2 |
1.6 |
360.0 |
| C4 |
C5 |
C6 |
C7 |
0.1 |
360.0 |
| CL2 |
C4 |
C5 |
C3 |
177.8 |
179.9 |
| C5 |
C4 |
C3 |
C2 |
357.4 |
359.9 |
| C5 |
C4 |
C3 |
CL1 |
180.1 |
180.0 |
| C6 |
C7 |
C2 |
H2 |
176.5 |
180.0 |
| C5 |
C4 |
CL2 |
C3 |
182.3 |
180.1 |
| CL2 |
C4 |
C5 |
H5 |
358.2 |
360.0 |
| CL2 |
C4 |
C3 |
C2 |
179.8 |
180.0 |
| CL2 |
C4 |
C3 |
CL1 |
2.5 |
0.0 |
| C3 |
C4 |
C5 |
H5 |
180.4 |
180.0 |
| CL1 |
C3 |
C4 |
C2 |
182.7 |
180.1 |
| C4 |
C3 |
C2 |
H2 |
184.0 |
180.1 |
| N2 |
C7 |
C2 |
H2 |
0.6 |
360.0 |
| C3 |
C2 |
C7 |
H2 |
180.0 |
180.0 |
| C6 |
C7 |
C2 |
C3 |
356.5 |
360.0 |
| C4 |
C3 |
C2 |
CL1 |
182.8 |
180.1 |
| C7 |
C2 |
C3 |
H2 |
180.0 |
180.0 |
| C4 |
C3 |
CL1 |
C2 |
177.4 |
179.9 |
| CL1 |
C3 |
C2 |
H2 |
1.2 |
360.0 |
| H5 |
C5 |
C6 |
C7 |
180.1 |
180.0 |
| H5 |
C5 |
C4 |
C3 |
180.4 |
180.0 |
| H4' |
C4' |
C5' |
O5' |
257.8 |
304.2 |
| H4' |
C4' |
C5' |
H5' |
17.8 |
64.2 |
| H4' |
C4' |
C5' |
H5'A |
137.8 |
184.2 |
| C4' |
C5' |
H5' |
O5' |
240.1 |
240.0 |
| H5' |
C5' |
C4' |
H4' |
17.8 |
64.2 |
| C4' |
C5' |
H5' |
H5'A |
120.1 |
120.0 |
| O5' |
C5' |
H5' |
H5'A |
239.9 |
240.0 |
| H5' |
C5' |
O5' |
HO5' |
4.3 |
60.0 |
| C4' |
C5' |
H5'A |
O5' |
119.9 |
120.0 |
| H5'A |
C5' |
C4' |
H4' |
137.8 |
184.2 |
| C4' |
C5' |
H5'A |
H5' |
239.9 |
240.0 |
| O5' |
C5' |
H5'A |
H5' |
120.0 |
120.0 |
| H5'A |
C5' |
O5' |
HO5' |
244.4 |
300.0 |
| HO5' |
O5' |
C5' |
H5' |
4.3 |
60.0 |
| HO5' |
O5' |
C5' |
H5'A |
244.4 |
300.0 |
| O3' |
C3' |
H3' |
C2' |
121.3 |
122.7 |
| H3' |
C3' |
C4' |
H4' |
272.1 |
213.5 |
| H3' |
C3' |
C2' |
H2' |
318.2 |
0.0 |
| HO3' |
O3' |
C3' |
C2' |
136.9 |
183.9 |
| HO3' |
O3' |
C3' |
H3' |
11.6 |
61.2 |
| H2' |
C2' |
C3' |
H3' |
318.2 |
0.0 |
| H2' |
C2' |
C1' |
H1' |
157.5 |
146.4 |
| HO2' |
O2' |
C2' |
H2' |
297.2 |
61.2 |