PDB Chemical Component B8H
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 B8H
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C5' |
C4' |
1.503 |
1.530 |
| C5' |
O5' |
1.416 |
1.428 |
| C4' |
O4' |
1.450 |
1.444 |
| C4' |
C3' |
1.513 |
1.550 |
| OP2 |
P |
1.504 |
1.481 |
| O2' |
C2' |
1.417 |
1.428 |
| O4' |
C1' |
1.413 |
1.438 |
| O3' |
C3' |
1.413 |
1.429 |
| P |
O5' |
1.587 |
1.610 |
| P |
OP1 |
1.501 |
1.610 |
| C3' |
C2' |
1.518 |
1.548 |
| C1' |
C2' |
1.529 |
1.540 |
| C1' |
C5 |
1.486 |
1.507 |
| C5 |
C6 |
1.384 |
1.350 |
| C5 |
C4 |
1.468 |
1.416 |
| O4 |
C4 |
1.245 |
1.217 |
| C6 |
N1 |
1.319 |
1.368 |
| C4 |
N3 |
1.328 |
1.349 |
| N1 |
CN1 |
1.462 |
1.465 |
| N1 |
C2 |
1.404 |
1.346 |
| N3 |
C2 |
1.328 |
1.346 |
| C2 |
O2 |
1.244 |
1.216 |
| P |
O1 |
1.603 |
1.610 |
| C1' |
H1 |
1.100 |
1.090 |
| C2' |
H2 |
1.100 |
1.090 |
| C3' |
H3 |
1.100 |
1.090 |
| C4' |
H4 |
1.100 |
1.089 |
| C5' |
H5 |
1.100 |
1.090 |
| C5' |
H6 |
1.100 |
1.091 |
| C6 |
H7 |
1.080 |
1.080 |
| CN1 |
H8 |
1.100 |
1.090 |
| CN1 |
H9 |
1.100 |
1.090 |
| CN1 |
H10 |
1.100 |
1.090 |
| N3 |
H11 |
1.001 |
0.970 |
| O2' |
H12 |
0.951 |
0.968 |
| O3' |
H13 |
0.950 |
0.967 |
| OP1 |
H14 |
0.950 |
0.967 |
| O1 |
H15 |
0.950 |
0.967 |
Bond Angles for B8H
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C5' |
C4' |
O4' |
110.0 |
110.6 |
| C5' |
C4' |
H4 |
108.9 |
110.7 |
| O5' |
C5' |
H5 |
108.9 |
109.5 |
| O5' |
C5' |
H6 |
108.9 |
109.4 |
| O4' |
C4' |
H4 |
109.6 |
110.7 |
| C4' |
C3' |
H3 |
108.1 |
110.9 |
| OP2 |
P |
O1 |
107.3 |
109.5 |
| O2' |
C2' |
H2 |
113.3 |
110.4 |
| O4' |
C1' |
H1 |
110.3 |
110.0 |
| O3' |
C3' |
H3 |
109.4 |
110.8 |
| P |
OP1 |
H14 |
109.5 |
114.0 |
| C3' |
C2' |
H2 |
111.7 |
110.5 |
| C2' |
C1' |
C5 |
110.9 |
109.9 |
| C2' |
C1' |
H1 |
108.7 |
109.9 |
| C1' |
C2' |
H2 |
111.6 |
110.5 |
| C1' |
C5 |
C6 |
122.9 |
120.5 |
| C5 |
C1' |
H1 |
109.2 |
109.9 |
| C5 |
C6 |
H7 |
119.5 |
120.2 |
| C5 |
C4 |
N3 |
119.5 |
119.4 |
| C6 |
N1 |
CN1 |
118.0 |
119.7 |
| C4 |
N3 |
H11 |
119.6 |
119.9 |
| C2 |
N1 |
CN1 |
121.9 |
119.7 |
| N1 |
CN1 |
H8 |
109.5 |
109.5 |
| N1 |
CN1 |
H9 |
109.5 |
109.4 |
| N1 |
CN1 |
H10 |
109.4 |
109.5 |
| N1 |
C2 |
O2 |
120.1 |
119.5 |
| N3 |
C2 |
O2 |
118.6 |
119.5 |
| P |
O1 |
H15 |
109.5 |
114.0 |
| H5 |
C5' |
H6 |
109.5 |
109.5 |
| H8 |
CN1 |
H9 |
109.5 |
109.4 |
| H8 |
CN1 |
H10 |
109.4 |
109.6 |
| H9 |
CN1 |
H10 |
109.5 |
109.5 |
Torsion Angles for B8H
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O4' |
C4' |
C5' |
H4 |
120.1 |
123.0 |
| C5' |
C4' |
C3' |
H3 |
314.8 |
322.7 |
| O5' |
C5' |
C4' |
O4' |
310.1 |
66.5 |
| O5' |
C5' |
C4' |
H4 |
190.0 |
303.5 |
| H5 |
C5' |
O5' |
H6 |
119.3 |
120.0 |
| C5' |
C4' |
O4' |
H4 |
240.4 |
237.0 |
| O4' |
C4' |
C3' |
H3 |
75.3 |
81.2 |
| C4' |
O4' |
C1' |
H1 |
120.9 |
93.0 |
| O3' |
C3' |
C4' |
H3 |
121.8 |
123.6 |
| C4' |
C3' |
C2' |
H2 |
157.6 |
139.5 |
| OP2 |
P |
OP1 |
H14 |
0.0 |
60.1 |
| OP2 |
P |
O1 |
H15 |
0.0 |
180.0 |
| C3' |
C2' |
O2' |
H2 |
233.9 |
237.4 |
| O2' |
C2' |
C1' |
H1 |
330.1 |
1.3 |
| C1' |
C2' |
O2' |
H2 |
124.4 |
122.5 |
| C2' |
C1' |
O4' |
H1 |
241.8 |
240.5 |
| O4' |
C1' |
C2' |
H2 |
214.8 |
243.4 |
| C5 |
C1' |
O4' |
H1 |
120.9 |
121.1 |
| C4' |
C3' |
O3' |
H3 |
238.9 |
236.4 |
| O3' |
C3' |
C2' |
H2 |
281.5 |
257.8 |
| P |
O5' |
C5' |
H5 |
32.4 |
60.0 |
| P |
O5' |
C5' |
H6 |
273.1 |
300.0 |
| O2' |
C2' |
C3' |
H2 |
127.0 |
122.6 |
| C3' |
C2' |
C1' |
C5 |
94.2 |
121.5 |
| C3' |
C2' |
C1' |
H1 |
214.3 |
242.5 |
| C1' |
C2' |
C3' |
H2 |
241.4 |
241.4 |
| O2' |
C2' |
C1' |
H2 |
234.5 |
237.5 |
| O4' |
C1' |
C2' |
H1 |
119.2 |
119.6 |
| C3' |
C2' |
C1' |
H2 |
118.7 |
118.6 |
| C2' |
C1' |
C5 |
C6 |
263.5 |
115.0 |
| C5 |
C1' |
C2' |
H1 |
239.9 |
239.0 |
| O4' |
C1' |
C5 |
H1 |
238.4 |
238.8 |
| C2' |
C1' |
C5 |
H1 |
119.7 |
121.0 |
| C5 |
C1' |
C2' |
H2 |
335.5 |
2.8 |
| C1' |
C5 |
C6 |
H7 |
359.0 |
0.1 |
| C1' |
C5 |
C4 |
N3 |
179.9 |
180.2 |
| C6 |
C5 |
C1' |
H1 |
143.7 |
354.0 |
| C6 |
C5 |
C4 |
N3 |
0.2 |
0.2 |
| C5 |
C6 |
N1 |
CN1 |
180.7 |
180.1 |
| C5 |
C4 |
N3 |
H11 |
180.4 |
180.0 |
| O4 |
C4 |
N3 |
H11 |
0.1 |
0.2 |
| C2 |
N1 |
C6 |
CN1 |
181.1 |
179.7 |
| C6 |
N1 |
CN1 |
H8 |
180.0 |
179.8 |
| C6 |
N1 |
CN1 |
H9 |
300.0 |
299.7 |
| C6 |
N1 |
CN1 |
H10 |
60.0 |
59.7 |
| C6 |
N1 |
C2 |
O2 |
179.5 |
180.2 |
| C4 |
N3 |
C2 |
O2 |
179.4 |
180.0 |
| CN1 |
N1 |
C2 |
O2 |
0.6 |
359.9 |
| H8 |
CN1 |
N1 |
H9 |
240.0 |
240.1 |
| H8 |
CN1 |
N1 |
H10 |
120.0 |
120.1 |
| H9 |
CN1 |
N1 |
H10 |
240.0 |
240.0 |
| C6 |
N1 |
C2 |
CN1 |
178.9 |
180.3 |
| C2 |
N1 |
CN1 |
H8 |
358.9 |
0.1 |
| C2 |
N1 |
CN1 |
H9 |
118.9 |
120.0 |
| C2 |
N1 |
CN1 |
H10 |
238.9 |
240.0 |
| N3 |
C2 |
N1 |
O2 |
179.3 |
180.0 |
| N1 |
C2 |
N3 |
O2 |
180.7 |
180.0 |
| O2 |
C2 |
N1 |
CN1 |
0.6 |
359.9 |
| O1 |
P |
OP1 |
H14 |
124.4 |
300.0 |
| C2' |
C1' |
H1 |
C5 |
238.9 |
239.0 |
| H1 |
C1' |
C2' |
H2 |
95.6 |
123.8 |
| H1 |
C1' |
C5 |
C6 |
143.7 |
354.0 |
| H2 |
C2' |
C1' |
C5 |
335.5 |
2.8 |
| H2 |
C2' |
C1' |
H1 |
95.6 |
123.8 |
| H3 |
C3' |
C2' |
H2 |
43.9 |
21.4 |
| C5' |
C4' |
H4 |
O4' |
120.3 |
123.0 |
| H4 |
C4' |
C3' |
H3 |
191.7 |
199.7 |
| H5 |
C5' |
C4' |
O4' |
70.4 |
186.5 |
| H5 |
C5' |
C4' |
H4 |
310.4 |
63.5 |
| O5' |
C5' |
H5 |
H6 |
241.1 |
240.0 |
| H6 |
C5' |
C4' |
O4' |
189.7 |
306.5 |
| H6 |
C5' |
C4' |
H4 |
69.7 |
183.5 |
| O5' |
C5' |
H6 |
H5 |
119.0 |
120.0 |
| H7 |
C6 |
N1 |
CN1 |
0.7 |
360.0 |
| N1 |
CN1 |
H8 |
H9 |
120.0 |
119.9 |
| N1 |
CN1 |
H8 |
H10 |
240.0 |
239.9 |
| H9 |
CN1 |
H8 |
H10 |
120.0 |
120.0 |
| N1 |
CN1 |
H9 |
H8 |
240.0 |
240.1 |
| N1 |
CN1 |
H9 |
H10 |
120.0 |
120.0 |
| H8 |
CN1 |
H9 |
H10 |
240.0 |
239.9 |
| N1 |
CN1 |
H10 |
H8 |
120.0 |
120.1 |
| N1 |
CN1 |
H10 |
H9 |
240.0 |
240.1 |
| H8 |
CN1 |
H10 |
H9 |
120.0 |
120.0 |
| H11 |
N3 |
C2 |
O2 |
359.4 |
359.8 |
| H12 |
O2' |
C2' |
H2 |
306.1 |
57.5 |
| H13 |
O3' |
C3' |
H3 |
301.1 |
297.8 |