PDB Chemical Component 123
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 123
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C1 |
C2 |
1.425 |
1.400 |
| C1 |
C6 |
1.416 |
1.391 |
| C1 |
C7 |
1.409 |
1.478 |
| C2 |
C3 |
1.385 |
1.366 |
| C2 |
HC2 |
1.076 |
1.081 |
| C3 |
C4 |
1.380 |
1.389 |
| C3 |
HC3 |
1.077 |
1.080 |
| C4 |
C5 |
1.355 |
1.408 |
| C4 |
N3 |
1.280 |
1.379 |
| C5 |
C6 |
1.401 |
1.396 |
| C5 |
N4 |
1.322 |
1.356 |
| C6 |
HC6 |
1.081 |
1.080 |
| C7 |
N1 |
1.322 |
1.332 |
| C7 |
N2 |
1.319 |
1.331 |
| N1 |
HH11 |
1.013 |
0.970 |
| N1 |
HH12 |
0.996 |
0.970 |
| N2 |
HH21 |
1.011 |
0.971 |
| N2 |
HH22 |
0.997 |
0.970 |
| N3 |
C8 |
1.292 |
1.370 |
| N3 |
HN3 |
0.981 |
0.970 |
| N4 |
C8 |
1.328 |
1.311 |
| C8 |
C1' |
1.407 |
1.478 |
| C1' |
C2' |
1.395 |
1.396 |
| C1' |
C6' |
1.420 |
1.399 |
| C2' |
C3' |
1.401 |
1.383 |
| C2' |
HC2' |
1.076 |
1.080 |
| C3' |
O3' |
1.385 |
1.360 |
| C3' |
C4' |
1.393 |
1.389 |
| O3' |
CM3 |
1.426 |
1.429 |
| CM3 |
H3'1 |
1.080 |
1.090 |
| CM3 |
H3'2 |
1.081 |
1.089 |
| CM3 |
H3'3 |
1.080 |
1.091 |
| C4' |
C5' |
1.390 |
1.381 |
| C4' |
HC4' |
1.080 |
1.080 |
| C5' |
C6' |
1.396 |
1.386 |
| C5' |
HC5' |
1.080 |
1.080 |
| C6' |
O6' |
1.387 |
1.358 |
| O6' |
HO6 |
0.949 |
0.967 |
Bond Angles for 123
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
C1 |
C6 |
119.2 |
120.2 |
| C2 |
C1 |
C7 |
118.6 |
119.9 |
| C1 |
C2 |
C3 |
121.2 |
120.5 |
| C1 |
C2 |
HC2 |
121.5 |
119.8 |
| C6 |
C1 |
C7 |
122.1 |
119.9 |
| C1 |
C6 |
C5 |
118.0 |
119.5 |
| C1 |
C6 |
HC6 |
121.4 |
120.3 |
| C1 |
C7 |
N1 |
121.0 |
120.0 |
| C1 |
C7 |
N2 |
117.8 |
120.0 |
| C3 |
C2 |
HC2 |
117.3 |
119.7 |
| C2 |
C3 |
C4 |
117.2 |
120.2 |
| C2 |
C3 |
HC3 |
121.9 |
119.9 |
| C4 |
C3 |
HC3 |
121.0 |
119.9 |
| C3 |
C4 |
C5 |
123.9 |
120.1 |
| C3 |
C4 |
N3 |
130.4 |
133.7 |
| C5 |
C4 |
N3 |
105.6 |
106.2 |
| C4 |
C5 |
C6 |
120.4 |
119.5 |
| C4 |
C5 |
N4 |
112.1 |
107.2 |
| C4 |
N3 |
C8 |
107.7 |
107.3 |
| C4 |
N3 |
HN3 |
129.2 |
126.4 |
| C6 |
C5 |
N4 |
127.5 |
133.3 |
| C5 |
C6 |
HC6 |
120.6 |
120.2 |
| C5 |
N4 |
C8 |
100.6 |
109.5 |
| N1 |
C7 |
N2 |
121.2 |
120.0 |
| C7 |
N1 |
HH11 |
118.4 |
120.0 |
| C7 |
N1 |
HH12 |
125.7 |
120.0 |
| C7 |
N2 |
HH21 |
119.8 |
120.0 |
| C7 |
N2 |
HH22 |
123.2 |
120.0 |
| HH11 |
N1 |
HH12 |
115.9 |
120.0 |
| HH21 |
N2 |
HH22 |
117.1 |
119.9 |
| C8 |
N3 |
HN3 |
123.1 |
126.4 |
| N3 |
C8 |
N4 |
114.0 |
109.8 |
| N3 |
C8 |
C1' |
119.9 |
125.1 |
| N4 |
C8 |
C1' |
126.2 |
125.1 |
| C8 |
C1' |
C2' |
120.9 |
120.1 |
| C8 |
C1' |
C6' |
119.8 |
120.2 |
| C2' |
C1' |
C6' |
119.2 |
119.7 |
| C1' |
C2' |
C3' |
120.2 |
119.8 |
| C1' |
C2' |
HC2' |
119.9 |
120.1 |
| C1' |
C6' |
C5' |
120.0 |
119.8 |
| C1' |
C6' |
O6' |
121.6 |
120.1 |
| C3' |
C2' |
HC2' |
119.9 |
120.1 |
| C2' |
C3' |
O3' |
121.6 |
119.9 |
| C2' |
C3' |
C4' |
120.2 |
120.2 |
| O3' |
C3' |
C4' |
118.2 |
119.9 |
| C3' |
O3' |
CM3 |
122.4 |
106.9 |
| C3' |
C4' |
C5' |
120.4 |
120.3 |
| C3' |
C4' |
HC4' |
120.0 |
119.8 |
| O3' |
CM3 |
H3'1 |
109.3 |
109.4 |
| O3' |
CM3 |
H3'2 |
109.6 |
109.5 |
| O3' |
CM3 |
H3'3 |
109.3 |
109.4 |
| H3'1 |
CM3 |
H3'2 |
109.4 |
109.5 |
| H3'1 |
CM3 |
H3'3 |
109.5 |
109.5 |
| H3'2 |
CM3 |
H3'3 |
109.7 |
109.4 |
| C5' |
C4' |
HC4' |
119.6 |
119.9 |
| C4' |
C5' |
C6' |
120.0 |
120.2 |
| C4' |
C5' |
HC5' |
119.8 |
119.9 |
| C6' |
C5' |
HC5' |
120.1 |
119.9 |
| C5' |
C6' |
O6' |
118.4 |
120.1 |
| C6' |
O6' |
HO6 |
109.5 |
106.9 |
Torsion Angles for 123
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C6 |
C1 |
C2 |
C7 |
180.1 |
180.0 |
| C2 |
C1 |
C6 |
C5 |
360.0 |
360.0 |
| C2 |
C1 |
C6 |
HC6 |
179.9 |
179.9 |
| C2 |
C1 |
C7 |
N1 |
166.8 |
360.0 |
| C2 |
C1 |
C7 |
N2 |
346.0 |
180.0 |
| C3 |
C2 |
C1 |
HC2 |
180.2 |
180.0 |
| C1 |
C2 |
C3 |
C4 |
0.1 |
0.0 |
| C1 |
C2 |
C3 |
HC3 |
180.0 |
180.0 |
| C2 |
C1 |
C6 |
C7 |
179.9 |
180.0 |
| C6 |
C1 |
C2 |
C3 |
360.0 |
0.0 |
| C6 |
C1 |
C2 |
HC2 |
179.8 |
180.0 |
| C6 |
C1 |
C7 |
N1 |
346.7 |
180.0 |
| C6 |
C1 |
C7 |
N2 |
165.9 |
0.0 |
| C4 |
C5 |
C6 |
C1 |
0.1 |
0.1 |
| C1 |
C6 |
C5 |
N4 |
180.3 |
180.4 |
| C5 |
C6 |
C1 |
HC6 |
180.1 |
180.0 |
| C2 |
C1 |
C7 |
C6 |
180.1 |
180.0 |
| C7 |
C1 |
C2 |
C3 |
179.9 |
180.0 |
| C7 |
C1 |
C2 |
HC2 |
359.7 |
0.0 |
| C7 |
C1 |
C6 |
C5 |
180.1 |
180.0 |
| C7 |
C1 |
C6 |
HC6 |
360.0 |
359.9 |
| N1 |
C7 |
C1 |
N2 |
180.8 |
179.9 |
| C1 |
C7 |
N1 |
HH11 |
359.8 |
0.1 |
| C1 |
C7 |
N1 |
HH12 |
179.3 |
180.0 |
| C1 |
C7 |
N2 |
HH21 |
357.6 |
179.9 |
| C1 |
C7 |
N2 |
HH22 |
176.9 |
360.0 |
| C3 |
C2 |
C1 |
C6 |
360.0 |
0.0 |
| C3 |
C2 |
C1 |
C7 |
179.9 |
180.0 |
| C1 |
C2 |
C3 |
HC2 |
179.8 |
180.0 |
| C4 |
C3 |
C2 |
HC3 |
180.1 |
180.0 |
| C2 |
C3 |
C4 |
C5 |
360.0 |
0.0 |
| C2 |
C3 |
C4 |
N3 |
179.7 |
179.9 |
| HC2 |
C2 |
C1 |
C6 |
179.8 |
180.0 |
| HC2 |
C2 |
C1 |
C7 |
359.7 |
0.0 |
| C1 |
C2 |
HC2 |
C3 |
180.2 |
180.0 |
| HC2 |
C2 |
C3 |
C4 |
180.3 |
180.0 |
| HC2 |
C2 |
C3 |
HC3 |
0.2 |
0.0 |
| C4 |
C3 |
C2 |
HC2 |
180.3 |
180.0 |
| C2 |
C3 |
C4 |
HC3 |
179.9 |
180.0 |
| C5 |
C4 |
C3 |
N3 |
180.2 |
180.1 |
| C3 |
C4 |
C5 |
C6 |
360.0 |
360.0 |
| C3 |
C4 |
C5 |
N4 |
179.8 |
179.7 |
| C3 |
C4 |
N3 |
C8 |
180.1 |
180.1 |
| C3 |
C4 |
N3 |
HN3 |
0.2 |
0.1 |
| HC3 |
C3 |
C2 |
HC2 |
0.2 |
0.0 |
| C2 |
C3 |
HC3 |
C4 |
180.1 |
180.0 |
| HC3 |
C3 |
C4 |
C5 |
180.0 |
180.0 |
| HC3 |
C3 |
C4 |
N3 |
359.8 |
359.9 |
| C1 |
C6 |
C5 |
C4 |
0.1 |
0.1 |
| C5 |
C4 |
C3 |
HC3 |
180.0 |
180.0 |
| C3 |
C4 |
C5 |
N3 |
179.8 |
179.9 |
| C5 |
C4 |
N3 |
C8 |
359.9 |
360.0 |
| C5 |
C4 |
N3 |
HN3 |
180.0 |
180.0 |
| C6 |
C5 |
C4 |
N4 |
180.2 |
180.3 |
| C4 |
C5 |
C6 |
HC6 |
180.2 |
180.1 |
| C4 |
C5 |
N4 |
C8 |
0.1 |
0.4 |
| N3 |
C4 |
C3 |
HC3 |
359.8 |
359.9 |
| C3 |
C4 |
N3 |
C5 |
180.2 |
180.1 |
| N3 |
C4 |
C5 |
C6 |
180.2 |
180.0 |
| N3 |
C4 |
C5 |
N4 |
360.0 |
359.8 |
| C8 |
N3 |
C4 |
HN3 |
180.0 |
180.0 |
| C4 |
N3 |
C8 |
N4 |
0.1 |
0.3 |
| C4 |
N3 |
C8 |
C1' |
180.7 |
180.0 |
| C5 |
C6 |
C1 |
C7 |
180.1 |
180.0 |
| C1 |
C6 |
C5 |
HC6 |
179.9 |
180.0 |
| C6 |
C5 |
C4 |
N3 |
180.2 |
180.0 |
| C4 |
C5 |
C6 |
N4 |
179.8 |
179.7 |
| C6 |
C5 |
N4 |
C8 |
179.9 |
180.1 |
| N4 |
C5 |
C4 |
N3 |
360.0 |
359.8 |
| C4 |
C5 |
N4 |
C6 |
180.2 |
180.3 |
| N4 |
C5 |
C6 |
HC6 |
0.4 |
0.4 |
| N3 |
C8 |
N4 |
C5 |
359.9 |
359.6 |
| C5 |
N4 |
C8 |
C1' |
179.3 |
179.8 |
| HC6 |
C6 |
C1 |
C7 |
360.0 |
359.9 |
| C1 |
C6 |
HC6 |
C5 |
180.1 |
180.0 |
| HC6 |
C6 |
C5 |
N4 |
0.4 |
0.4 |
| C1 |
C7 |
N1 |
N2 |
179.2 |
180.1 |
| N1 |
C7 |
N2 |
HH21 |
176.8 |
0.0 |
| N1 |
C7 |
N2 |
HH22 |
356.1 |
180.0 |
| HH11 |
N1 |
C7 |
HH12 |
180.6 |
180.1 |
| C1 |
C7 |
N2 |
N1 |
180.8 |
179.9 |
| N2 |
C7 |
N1 |
HH11 |
180.6 |
180.0 |
| N2 |
C7 |
N1 |
HH12 |
0.0 |
359.9 |
| HH21 |
N2 |
C7 |
HH22 |
180.7 |
180.0 |
| HH11 |
N1 |
C7 |
N2 |
180.6 |
180.0 |
| C7 |
N1 |
HH11 |
HH12 |
179.5 |
179.9 |
| HH12 |
N1 |
C7 |
N2 |
0.0 |
359.9 |
| C7 |
N1 |
HH12 |
HH11 |
180.6 |
180.1 |
| C7 |
N2 |
HH21 |
HH22 |
179.3 |
180.0 |
| C7 |
N2 |
HH22 |
HH21 |
180.7 |
180.0 |
| C4 |
N3 |
C8 |
HN3 |
180.0 |
180.0 |
| C5 |
N4 |
C8 |
N3 |
359.9 |
359.6 |
| N4 |
C8 |
N3 |
C1' |
179.4 |
180.3 |
| N3 |
C8 |
C1' |
C2' |
195.7 |
220.2 |
| N3 |
C8 |
C1' |
C6' |
15.9 |
40.0 |
| C4 |
N3 |
HN3 |
C8 |
180.0 |
180.0 |
| HN3 |
N3 |
C8 |
N4 |
180.1 |
180.3 |
| HN3 |
N3 |
C8 |
C1' |
0.6 |
0.0 |
| N4 |
C8 |
N3 |
HN3 |
180.1 |
180.3 |
| N3 |
C8 |
N4 |
C1' |
180.6 |
179.7 |
| N4 |
C8 |
C1' |
C2' |
16.3 |
39.9 |
| N4 |
C8 |
C1' |
C6' |
196.5 |
219.7 |
| C1' |
C8 |
N3 |
HN3 |
0.6 |
0.0 |
| N3 |
C8 |
C1' |
N4 |
179.4 |
180.3 |
| C2' |
C1' |
C8 |
C6' |
179.8 |
180.3 |
| C8 |
C1' |
C2' |
C3' |
180.2 |
180.3 |
| C8 |
C1' |
C2' |
HC2' |
0.3 |
359.8 |
| C8 |
C1' |
C6' |
C5' |
180.1 |
179.9 |
| C8 |
C1' |
C6' |
O6' |
1.5 |
0.0 |
| C8 |
C1' |
C2' |
C6' |
180.2 |
179.7 |
| C2' |
C1' |
C6' |
C5' |
0.3 |
359.7 |
| C2' |
C1' |
C6' |
O6' |
181.7 |
179.7 |
| C3' |
C2' |
C1' |
HC2' |
179.9 |
180.5 |
| C1' |
C2' |
C3' |
O3' |
178.5 |
179.7 |
| C1' |
C2' |
C3' |
C4' |
359.7 |
359.5 |
| C8 |
C1' |
C6' |
C2' |
179.8 |
180.3 |
| C6' |
C1' |
C2' |
C3' |
360.0 |
0.5 |
| C6' |
C1' |
C2' |
HC2' |
180.1 |
180.1 |
| C4' |
C5' |
C6' |
C1' |
359.7 |
0.1 |
| C1' |
C6' |
C5' |
HC5' |
179.6 |
180.0 |
| C5' |
C6' |
C1' |
O6' |
178.6 |
179.9 |
| C1' |
C6' |
O6' |
HO6 |
186.9 |
270.0 |
| C3' |
C2' |
C1' |
C6' |
360.0 |
0.5 |
| C1' |
C2' |
C3' |
HC2' |
180.1 |
179.5 |
| O3' |
C3' |
C2' |
C4' |
178.8 |
180.3 |
| C2' |
C3' |
O3' |
CM3 |
342.5 |
179.7 |
| C2' |
C3' |
C4' |
C5' |
0.3 |
0.3 |
| C2' |
C3' |
C4' |
HC4' |
180.2 |
180.2 |
| HC2' |
C2' |
C1' |
C6' |
180.1 |
180.1 |
| C1' |
C2' |
HC2' |
C3' |
179.9 |
180.5 |
| HC2' |
C2' |
C3' |
O3' |
358.5 |
0.2 |
| HC2' |
C2' |
C3' |
C4' |
179.6 |
179.9 |
| O3' |
C3' |
C2' |
HC2' |
358.5 |
0.2 |
| C2' |
C3' |
O3' |
C4' |
181.2 |
179.7 |
| O3' |
C3' |
C4' |
C5' |
181.4 |
180.0 |
| O3' |
C3' |
C4' |
HC4' |
1.4 |
360.0 |
| C3' |
O3' |
CM3 |
H3'1 |
188.3 |
60.0 |
| C3' |
O3' |
CM3 |
H3'2 |
308.2 |
180.0 |
| C3' |
O3' |
CM3 |
H3'3 |
68.5 |
300.0 |
| C4' |
C3' |
C2' |
HC2' |
179.6 |
179.9 |
| C2' |
C3' |
C4' |
O3' |
178.9 |
180.3 |
| C4' |
C3' |
O3' |
CM3 |
161.4 |
360.0 |
| C5' |
C4' |
C3' |
HC4' |
180.1 |
180.0 |
| C3' |
C4' |
C5' |
C6' |
0.0 |
360.0 |
| C3' |
C4' |
C5' |
HC5' |
180.1 |
180.0 |
| CM3 |
O3' |
C3' |
C4' |
161.4 |
360.0 |
| H3'1 |
CM3 |
O3' |
H3'2 |
240.1 |
239.9 |
| H3'1 |
CM3 |
O3' |
H3'3 |
119.8 |
119.9 |
| H3'2 |
CM3 |
O3' |
H3'3 |
239.7 |
240.0 |
| O3' |
CM3 |
H3'1 |
H3'2 |
120.0 |
120.1 |
| O3' |
CM3 |
H3'1 |
H3'3 |
240.4 |
240.1 |
| H3'2 |
CM3 |
H3'1 |
H3'3 |
120.3 |
120.0 |
| O3' |
CM3 |
H3'2 |
H3'1 |
240.2 |
240.0 |
| O3' |
CM3 |
H3'2 |
H3'3 |
120.0 |
120.0 |
| H3'1 |
CM3 |
H3'2 |
H3'3 |
239.8 |
240.0 |
| O3' |
CM3 |
H3'3 |
H3'1 |
119.6 |
119.9 |
| O3' |
CM3 |
H3'3 |
H3'2 |
239.7 |
240.0 |
| H3'1 |
CM3 |
H3'3 |
H3'2 |
120.1 |
120.0 |
| C1' |
C6' |
C5' |
C4' |
359.7 |
0.1 |
| C3' |
C4' |
C5' |
HC4' |
179.9 |
180.0 |
| C6' |
C5' |
C4' |
HC5' |
179.9 |
179.9 |
| C4' |
C5' |
C6' |
O6' |
178.4 |
180.0 |
| C3' |
C4' |
HC4' |
C5' |
180.1 |
180.0 |
| HC4' |
C4' |
C5' |
C6' |
180.1 |
180.0 |
| HC4' |
C4' |
C5' |
HC5' |
0.2 |
0.1 |
| C1' |
C6' |
C5' |
O6' |
181.3 |
180.1 |
| C6' |
C5' |
C4' |
HC4' |
180.1 |
180.0 |
| C4' |
C5' |
C6' |
HC5' |
180.1 |
180.1 |
| C5' |
C6' |
O6' |
HO6 |
8.2 |
90.1 |
| HC5' |
C5' |
C4' |
HC4' |
0.2 |
0.1 |
| C4' |
C5' |
HC5' |
C6' |
179.9 |
179.9 |
| HC5' |
C5' |
C6' |
O6' |
358.3 |
359.9 |
| C1' |
C6' |
O6' |
C5' |
178.6 |
179.9 |
| O6' |
C6' |
C5' |
HC5' |
358.3 |
359.9 |