PDB Chemical Component PBN
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 PBN
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C1 |
C2 |
1.523 |
1.530 |
| C1 |
N |
1.466 |
1.469 |
| C1 |
H11 |
1.115 |
1.089 |
| C1 |
H12 |
1.114 |
1.090 |
| C2 |
C3 |
1.501 |
1.529 |
| C2 |
H21 |
1.115 |
1.090 |
| C2 |
H22 |
1.115 |
1.089 |
| C3 |
C4 |
1.524 |
1.530 |
| C3 |
H31 |
1.115 |
1.089 |
| C3 |
H32 |
1.115 |
1.090 |
| C4 |
C1' |
1.537 |
1.506 |
| C4 |
H41 |
1.114 |
1.089 |
| C4 |
H42 |
1.115 |
1.090 |
| C1' |
C2' |
1.384 |
1.382 |
| C1' |
C6' |
1.397 |
1.382 |
| C2' |
C3' |
1.381 |
1.382 |
| C2' |
H2' |
1.103 |
1.080 |
| C3' |
C4' |
1.390 |
1.382 |
| C3' |
H3' |
1.104 |
1.080 |
| C4' |
C5' |
1.373 |
1.382 |
| C4' |
H4' |
1.103 |
1.080 |
| C5' |
C6' |
1.389 |
1.382 |
| C5' |
H5' |
1.102 |
1.080 |
| C6' |
H6' |
1.102 |
1.080 |
| N |
HN1 |
1.021 |
1.010 |
| N |
HN2 |
1.020 |
1.009 |
Bond Angles for PBN
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
C1 |
N |
118.5 |
109.5 |
| C2 |
C1 |
H11 |
109.0 |
109.5 |
| C2 |
C1 |
H12 |
109.0 |
109.5 |
| C1 |
C2 |
C3 |
107.1 |
109.5 |
| C1 |
C2 |
H21 |
113.1 |
109.5 |
| C1 |
C2 |
H22 |
113.0 |
109.4 |
| N |
C1 |
H11 |
108.9 |
109.5 |
| N |
C1 |
H12 |
108.9 |
109.4 |
| C1 |
N |
HN1 |
118.5 |
106.7 |
| C1 |
N |
HN2 |
109.0 |
106.7 |
| H11 |
C1 |
H12 |
101.1 |
109.4 |
| C3 |
C2 |
H21 |
113.1 |
109.5 |
| C3 |
C2 |
H22 |
113.1 |
109.4 |
| C2 |
C3 |
C4 |
113.3 |
109.5 |
| C2 |
C3 |
H31 |
110.8 |
109.5 |
| C2 |
C3 |
H32 |
110.8 |
109.4 |
| H21 |
C2 |
H22 |
97.4 |
109.5 |
| C4 |
C3 |
H31 |
110.8 |
109.5 |
| C4 |
C3 |
H32 |
110.8 |
109.4 |
| C3 |
C4 |
C1' |
117.7 |
109.5 |
| C3 |
C4 |
H41 |
109.2 |
109.5 |
| C3 |
C4 |
H42 |
109.2 |
109.4 |
| H31 |
C3 |
H32 |
99.5 |
109.5 |
| C1' |
C4 |
H41 |
109.2 |
109.6 |
| C1' |
C4 |
H42 |
109.2 |
109.5 |
| C4 |
C1' |
C2' |
120.7 |
120.0 |
| C4 |
C1' |
C6' |
118.6 |
120.0 |
| H41 |
C4 |
H42 |
100.9 |
109.4 |
| C2' |
C1' |
C6' |
118.1 |
120.0 |
| C1' |
C2' |
C3' |
118.8 |
120.0 |
| C1' |
C2' |
H2' |
120.7 |
120.0 |
| C1' |
C6' |
C5' |
122.8 |
120.0 |
| C1' |
C6' |
H6' |
118.9 |
120.0 |
| C3' |
C2' |
H2' |
120.5 |
120.0 |
| C2' |
C3' |
C4' |
122.8 |
120.0 |
| C2' |
C3' |
H3' |
118.2 |
120.0 |
| C4' |
C3' |
H3' |
118.9 |
120.0 |
| C3' |
C4' |
C5' |
118.9 |
120.0 |
| C3' |
C4' |
H4' |
121.1 |
120.0 |
| C5' |
C4' |
H4' |
120.0 |
120.0 |
| C4' |
C5' |
C6' |
118.5 |
120.0 |
| C4' |
C5' |
H5' |
120.2 |
120.0 |
| C6' |
C5' |
H5' |
121.3 |
120.0 |
| C5' |
C6' |
H6' |
118.3 |
120.0 |
| HN1 |
N |
HN2 |
108.9 |
106.6 |
Torsion Angles for PBN
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| N |
C1 |
C2 |
H11 |
234.7 |
120.1 |
| N |
C1 |
C2 |
H12 |
125.3 |
240.0 |
| C2 |
C1 |
N |
HN1 |
180.0 |
180.0 |
| C2 |
C1 |
N |
HN2 |
54.8 |
293.7 |
| H11 |
C1 |
C2 |
H12 |
250.5 |
120.0 |
| C3 |
C2 |
C1 |
H21 |
234.7 |
240.0 |
| C3 |
C2 |
C1 |
H22 |
125.2 |
120.0 |
| C1 |
C2 |
C3 |
C4 |
130.5 |
180.0 |
| C1 |
C2 |
C3 |
H31 |
255.8 |
300.0 |
| C1 |
C2 |
C3 |
H32 |
5.2 |
60.1 |
| H21 |
C2 |
C1 |
H22 |
250.5 |
240.0 |
| C2 |
C1 |
N |
H11 |
125.3 |
239.9 |
| C2 |
C1 |
N |
H12 |
234.7 |
120.0 |
| N |
C1 |
C2 |
C3 |
218.6 |
180.0 |
| N |
C1 |
C2 |
H21 |
343.9 |
300.0 |
| N |
C1 |
C2 |
H22 |
93.4 |
60.0 |
| H11 |
C1 |
N |
H12 |
109.4 |
240.0 |
| HN1 |
N |
C1 |
HN2 |
125.2 |
246.3 |
| C2 |
C1 |
H11 |
N |
229.3 |
120.0 |
| C2 |
C1 |
H11 |
H12 |
114.7 |
240.0 |
| H11 |
C1 |
C2 |
C3 |
343.9 |
59.9 |
| H11 |
C1 |
C2 |
H21 |
109.1 |
180.0 |
| H11 |
C1 |
C2 |
H22 |
218.6 |
300.0 |
| N |
C1 |
H11 |
H12 |
245.4 |
120.0 |
| H11 |
C1 |
N |
HN1 |
54.7 |
300.1 |
| H11 |
C1 |
N |
HN2 |
289.5 |
53.8 |
| C2 |
C1 |
H12 |
N |
130.7 |
240.0 |
| C2 |
C1 |
H12 |
H11 |
245.3 |
120.0 |
| H12 |
C1 |
C2 |
C3 |
93.3 |
300.0 |
| H12 |
C1 |
C2 |
H21 |
218.6 |
60.0 |
| H12 |
C1 |
C2 |
H22 |
328.1 |
180.0 |
| N |
C1 |
H12 |
H11 |
114.6 |
240.0 |
| H12 |
C1 |
N |
HN1 |
305.3 |
60.0 |
| H12 |
C1 |
N |
HN2 |
180.1 |
173.8 |
| C3 |
C2 |
C1 |
N |
218.6 |
180.0 |
| C3 |
C2 |
C1 |
H11 |
343.9 |
59.9 |
| C3 |
C2 |
C1 |
H12 |
93.3 |
300.0 |
| C1 |
C2 |
C3 |
H21 |
125.2 |
120.0 |
| C1 |
C2 |
C3 |
H22 |
234.8 |
240.0 |
| H21 |
C2 |
C3 |
H22 |
109.6 |
120.0 |
| C4 |
C3 |
C2 |
H31 |
234.7 |
239.9 |
| C4 |
C3 |
C2 |
H32 |
125.3 |
119.9 |
| C2 |
C3 |
C4 |
C1' |
301.5 |
180.0 |
| C2 |
C3 |
C4 |
H41 |
66.7 |
300.1 |
| C2 |
C3 |
C4 |
H42 |
176.3 |
60.0 |
| H31 |
C3 |
C2 |
H32 |
250.5 |
240.0 |
| H21 |
C2 |
C1 |
N |
343.9 |
300.0 |
| H21 |
C2 |
C1 |
H11 |
109.1 |
180.0 |
| H21 |
C2 |
C1 |
H12 |
218.6 |
60.0 |
| C1 |
C2 |
H21 |
C3 |
238.0 |
240.0 |
| C1 |
C2 |
H21 |
H22 |
119.0 |
120.0 |
| C3 |
C2 |
H21 |
H22 |
240.9 |
240.0 |
| H21 |
C2 |
C3 |
C4 |
5.2 |
59.9 |
| H21 |
C2 |
C3 |
H31 |
130.5 |
180.0 |
| H21 |
C2 |
C3 |
H32 |
240.0 |
300.0 |
| H22 |
C2 |
C1 |
N |
93.4 |
60.0 |
| H22 |
C2 |
C1 |
H11 |
218.6 |
300.0 |
| H22 |
C2 |
C1 |
H12 |
328.1 |
180.0 |
| C1 |
C2 |
H22 |
C3 |
121.9 |
120.0 |
| C1 |
C2 |
H22 |
H21 |
241.0 |
240.0 |
| C3 |
C2 |
H22 |
H21 |
119.1 |
120.0 |
| H22 |
C2 |
C3 |
C4 |
255.7 |
299.9 |
| H22 |
C2 |
C3 |
H31 |
21.0 |
60.0 |
| H22 |
C2 |
C3 |
H32 |
130.4 |
180.0 |
| C4 |
C3 |
C2 |
H21 |
5.2 |
59.9 |
| C4 |
C3 |
C2 |
H22 |
255.7 |
299.9 |
| C2 |
C3 |
C4 |
H31 |
125.3 |
120.1 |
| C2 |
C3 |
C4 |
H32 |
234.7 |
240.1 |
| H31 |
C3 |
C4 |
H32 |
109.4 |
120.0 |
| C1' |
C4 |
C3 |
H41 |
234.8 |
239.9 |
| C1' |
C4 |
C3 |
H42 |
125.2 |
120.0 |
| C3 |
C4 |
C1' |
C2' |
319.8 |
90.1 |
| C3 |
C4 |
C1' |
C6' |
158.4 |
269.8 |
| H41 |
C4 |
C3 |
H42 |
250.5 |
240.1 |
| H31 |
C3 |
C2 |
H21 |
130.5 |
180.0 |
| H31 |
C3 |
C2 |
H22 |
21.0 |
60.0 |
| C2 |
C3 |
H31 |
C4 |
233.3 |
239.9 |
| C2 |
C3 |
H31 |
H32 |
116.7 |
120.0 |
| C4 |
C3 |
H31 |
H32 |
243.3 |
240.1 |
| H31 |
C3 |
C4 |
C1' |
176.2 |
59.9 |
| H31 |
C3 |
C4 |
H41 |
301.4 |
180.0 |
| H31 |
C3 |
C4 |
H42 |
51.0 |
299.9 |
| H32 |
C3 |
C2 |
H21 |
240.0 |
300.0 |
| H32 |
C3 |
C2 |
H22 |
130.4 |
180.0 |
| C2 |
C3 |
H32 |
C4 |
126.7 |
120.0 |
| C2 |
C3 |
H32 |
H31 |
243.3 |
239.9 |
| C4 |
C3 |
H32 |
H31 |
116.7 |
120.0 |
| H32 |
C3 |
C4 |
C1' |
66.8 |
299.9 |
| H32 |
C3 |
C4 |
H41 |
192.0 |
60.0 |
| H32 |
C3 |
C4 |
H42 |
301.5 |
179.9 |
| C1' |
C4 |
C3 |
H31 |
176.2 |
59.9 |
| C1' |
C4 |
C3 |
H32 |
66.8 |
299.9 |
| C3 |
C4 |
C1' |
H41 |
125.3 |
120.1 |
| C3 |
C4 |
C1' |
H42 |
234.8 |
240.1 |
| H41 |
C4 |
C1' |
H42 |
109.5 |
120.0 |
| C2' |
C1' |
C4 |
C6' |
161.4 |
180.3 |
| C4 |
C1' |
C2' |
C3' |
198.2 |
180.0 |
| C4 |
C1' |
C2' |
H2' |
18.2 |
359.9 |
| C4 |
C1' |
C6' |
C5' |
162.2 |
179.9 |
| C4 |
C1' |
C6' |
H6' |
342.2 |
0.3 |
| H41 |
C4 |
C3 |
H31 |
301.4 |
180.0 |
| H41 |
C4 |
C3 |
H32 |
192.0 |
60.0 |
| C3 |
C4 |
H41 |
C1' |
230.0 |
239.9 |
| C3 |
C4 |
H41 |
H42 |
115.0 |
119.9 |
| C1' |
C4 |
H41 |
H42 |
245.0 |
239.9 |
| H41 |
C4 |
C1' |
C2' |
194.6 |
330.0 |
| H41 |
C4 |
C1' |
C6' |
33.2 |
149.7 |
| H42 |
C4 |
C3 |
H31 |
51.0 |
299.9 |
| H42 |
C4 |
C3 |
H32 |
301.5 |
179.9 |
| C3 |
C4 |
H42 |
C1' |
130.0 |
120.0 |
| C3 |
C4 |
H42 |
H41 |
245.0 |
240.1 |
| C1' |
C4 |
H42 |
H41 |
115.0 |
120.1 |
| H42 |
C4 |
C1' |
C2' |
85.1 |
210.0 |
| H42 |
C4 |
C1' |
C6' |
283.6 |
29.7 |
| C2' |
C1' |
C4 |
H41 |
194.6 |
330.0 |
| C2' |
C1' |
C4 |
H42 |
85.1 |
210.0 |
| C4 |
C1' |
C2' |
C6' |
198.5 |
179.7 |
| C2' |
C1' |
C6' |
C5' |
0.3 |
359.5 |
| C2' |
C1' |
C6' |
H6' |
180.3 |
180.0 |
| C3' |
C2' |
C1' |
H2' |
180.0 |
180.1 |
| C1' |
C2' |
C3' |
C4' |
0.1 |
360.0 |
| C1' |
C2' |
C3' |
H3' |
180.1 |
180.0 |
| C6' |
C1' |
C4 |
H41 |
33.2 |
149.7 |
| C6' |
C1' |
C4 |
H42 |
283.6 |
29.7 |
| C4 |
C1' |
C6' |
C2' |
161.9 |
180.3 |
| C6' |
C1' |
C2' |
C3' |
359.7 |
0.3 |
| C6' |
C1' |
C2' |
H2' |
179.7 |
180.2 |
| C4' |
C5' |
C6' |
C1' |
359.9 |
0.3 |
| C1' |
C6' |
C5' |
H5' |
180.0 |
180.3 |
| C5' |
C6' |
C1' |
H6' |
180.0 |
179.6 |
| C3' |
C2' |
C1' |
C6' |
359.7 |
0.3 |
| C1' |
C2' |
C3' |
H2' |
180.0 |
179.9 |
| C4' |
C3' |
C2' |
H3' |
180.0 |
180.0 |
| C2' |
C3' |
C4' |
C5' |
0.1 |
359.9 |
| C2' |
C3' |
C4' |
H4' |
180.1 |
180.0 |
| H2' |
C2' |
C1' |
C6' |
179.7 |
180.2 |
| C1' |
C2' |
H2' |
C3' |
180.0 |
180.1 |
| H2' |
C2' |
C3' |
C4' |
180.1 |
180.0 |
| H2' |
C2' |
C3' |
H3' |
0.1 |
0.0 |
| C4' |
C3' |
C2' |
H2' |
180.1 |
180.0 |
| C2' |
C3' |
C4' |
H3' |
180.0 |
180.0 |
| C5' |
C4' |
C3' |
H4' |
180.0 |
180.0 |
| C3' |
C4' |
C5' |
C6' |
359.9 |
359.9 |
| C3' |
C4' |
C5' |
H5' |
179.9 |
180.0 |
| H3' |
C3' |
C2' |
H2' |
0.1 |
0.0 |
| C2' |
C3' |
H3' |
C4' |
180.0 |
180.0 |
| H3' |
C3' |
C4' |
C5' |
180.1 |
179.9 |
| H3' |
C3' |
C4' |
H4' |
0.1 |
360.0 |
| C1' |
C6' |
C5' |
C4' |
359.9 |
0.3 |
| C5' |
C4' |
C3' |
H3' |
180.1 |
179.9 |
| C3' |
C4' |
C5' |
H4' |
180.0 |
180.0 |
| C6' |
C5' |
C4' |
H5' |
180.0 |
180.0 |
| C4' |
C5' |
C6' |
H6' |
179.9 |
179.9 |
| H4' |
C4' |
C3' |
H3' |
0.1 |
360.0 |
| C3' |
C4' |
H4' |
C5' |
180.0 |
180.0 |
| H4' |
C4' |
C5' |
C6' |
179.9 |
179.9 |
| H4' |
C4' |
C5' |
H5' |
359.9 |
359.9 |
| C1' |
C6' |
C5' |
H6' |
180.0 |
180.4 |
| C6' |
C5' |
C4' |
H4' |
179.9 |
179.9 |
| C4' |
C5' |
C6' |
H5' |
180.0 |
180.0 |
| H5' |
C5' |
C4' |
H4' |
359.9 |
359.9 |
| C4' |
C5' |
H5' |
C6' |
180.0 |
180.0 |
| H5' |
C5' |
C6' |
H6' |
359.9 |
359.9 |
| C1' |
C6' |
H6' |
C5' |
180.0 |
179.6 |
| H6' |
C6' |
C5' |
H5' |
359.9 |
359.9 |
| HN1 |
N |
C1 |
H11 |
54.7 |
300.1 |
| HN1 |
N |
C1 |
H12 |
305.3 |
60.0 |
| C1 |
N |
HN1 |
HN2 |
234.8 |
113.8 |
| HN2 |
N |
C1 |
H11 |
289.5 |
53.8 |
| HN2 |
N |
C1 |
H12 |
180.1 |
173.8 |
| C1 |
N |
HN2 |
HN1 |
130.6 |
246.2 |