PDB Chemical Component 6HB
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 6HB
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| CD |
CC |
1.320 |
1.310 |
| CC |
CB |
1.511 |
1.508 |
| OB |
CB |
1.405 |
1.428 |
| CB |
CA |
1.524 |
1.530 |
| CA |
N6 |
1.478 |
1.465 |
| N6 |
C6 |
1.343 |
1.385 |
| C2' |
C3' |
1.531 |
1.548 |
| C2' |
C1' |
1.532 |
1.541 |
| C6 |
N1 |
1.349 |
1.329 |
| C6 |
C5 |
1.423 |
1.405 |
| N1 |
C2 |
1.330 |
1.321 |
| N7 |
C5 |
1.405 |
1.355 |
| N7 |
C8 |
1.306 |
1.301 |
| C5 |
C4 |
1.374 |
1.405 |
| OP2 |
P |
1.485 |
1.610 |
| C2 |
N3 |
1.326 |
1.317 |
| C8 |
N9 |
1.373 |
1.364 |
| C4 |
N3 |
1.365 |
1.329 |
| C4 |
N9 |
1.374 |
1.371 |
| N9 |
C1' |
1.481 |
1.465 |
| C3' |
O3' |
1.425 |
1.428 |
| C3' |
C4' |
1.538 |
1.551 |
| C1' |
O4' |
1.418 |
1.438 |
| O5' |
P |
1.622 |
1.611 |
| O5' |
C5' |
1.428 |
1.428 |
| P |
OP1 |
1.485 |
1.479 |
| C4' |
O4' |
1.430 |
1.444 |
| C4' |
C5' |
1.537 |
1.530 |
| OP2 |
H3 |
0.950 |
0.966 |
| C5' |
H5'' |
1.100 |
1.090 |
| C5' |
H5' |
1.100 |
1.090 |
| C4' |
H4' |
1.099 |
1.089 |
| C1' |
H1' |
1.100 |
1.089 |
| C8 |
H8 |
1.080 |
1.080 |
| N6 |
HN |
1.000 |
0.970 |
| CA |
HA1 |
1.100 |
1.090 |
| CA |
HA2 |
1.100 |
1.089 |
| CB |
HB |
1.100 |
1.090 |
| OB |
HOB |
0.950 |
0.967 |
| CC |
HC |
1.080 |
1.080 |
| CD |
HD2 |
1.080 |
1.081 |
| CD |
HD1 |
1.080 |
1.080 |
| C2 |
H2 |
1.080 |
1.080 |
| C3' |
H3' |
1.100 |
1.090 |
| C2' |
H2' |
1.100 |
1.090 |
| C2' |
H2'' |
1.100 |
1.090 |
| O3' |
H4 |
0.950 |
0.967 |
| P |
OP3 |
|
1.610 |
| OP3 |
H1 |
|
0.967 |
Bond Angles for 6HB
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| CD |
CC |
HC |
116.5 |
120.0 |
| CC |
CB |
HB |
109.7 |
109.4 |
| OB |
CB |
HB |
111.2 |
109.5 |
| CB |
CA |
HA1 |
108.8 |
109.4 |
| CB |
CA |
HA2 |
108.8 |
109.5 |
| CA |
N6 |
HN |
104.4 |
120.0 |
| N6 |
C6 |
N1 |
113.6 |
120.7 |
| C2' |
C3' |
O3' |
115.6 |
110.9 |
| C2' |
C3' |
H3' |
109.4 |
110.9 |
| C2' |
C1' |
H1' |
108.9 |
109.9 |
| C6 |
N1 |
C2 |
119.5 |
121.1 |
| C6 |
C5 |
C4 |
114.3 |
118.2 |
| N1 |
C2 |
H2 |
116.3 |
118.8 |
| N7 |
C5 |
C4 |
110.5 |
107.1 |
| N7 |
C8 |
H8 |
122.9 |
125.1 |
| C5 |
C4 |
N3 |
127.7 |
119.1 |
| OP2 |
P |
OP3 |
|
109.5 |
| N9 |
C1' |
H1' |
109.5 |
109.9 |
| O3' |
C3' |
H3' |
110.9 |
110.9 |
| C3' |
O3' |
H4 |
109.5 |
114.0 |
| C3' |
C4' |
H4' |
107.4 |
110.7 |
| O5' |
P |
OP3 |
|
109.5 |
| O5' |
C5' |
H5'' |
108.2 |
109.5 |
| O5' |
C5' |
H5' |
108.3 |
109.5 |
| OP1 |
P |
OP3 |
|
109.5 |
| O4' |
C4' |
H4' |
108.8 |
110.7 |
| C4' |
C5' |
H5'' |
108.2 |
109.5 |
| C4' |
C5' |
H5' |
108.2 |
109.4 |
| H5'' |
C5' |
H5' |
109.4 |
109.4 |
| HA1 |
CA |
HA2 |
109.5 |
109.5 |
| HD2 |
CD |
HD1 |
120.0 |
120.0 |
| H2' |
C2' |
H2'' |
109.5 |
110.5 |
| P |
OP3 |
H1 |
|
113.9 |
Torsion Angles for 6HB
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| CD |
CC |
CB |
HB |
110.2 |
0.0 |
| OB |
CB |
CC |
HB |
237.8 |
240.0 |
| CC |
CB |
CA |
HA1 |
43.0 |
65.1 |
| CC |
CB |
CA |
HA2 |
162.2 |
305.0 |
| CC |
CB |
OB |
HB |
121.3 |
120.0 |
| OB |
CB |
CA |
HA1 |
284.3 |
305.0 |
| OB |
CB |
CA |
HA2 |
43.5 |
185.0 |
| CB |
CA |
N6 |
HN |
225.4 |
359.9 |
| HA1 |
CA |
CB |
HA2 |
240.8 |
120.0 |
| CA |
N6 |
C6 |
N1 |
178.3 |
360.0 |
| N6 |
C6 |
N1 |
C2 |
178.7 |
179.8 |
| N6 |
C6 |
C5 |
C4 |
181.9 |
180.3 |
| C3' |
C2' |
C1' |
H1' |
269.4 |
242.6 |
| O3' |
C3' |
C2' |
H3' |
234.0 |
236.3 |
| C2' |
C3' |
O3' |
H4 |
180.0 |
67.4 |
| C2' |
C3' |
C4' |
H4' |
137.3 |
81.5 |
| N9 |
C1' |
C2' |
H1' |
238.2 |
238.9 |
| N1 |
C6 |
C5 |
C4 |
0.9 |
0.2 |
| C6 |
N1 |
C2 |
H2 |
179.4 |
180.1 |
| N7 |
C5 |
C6 |
C4 |
178.9 |
179.8 |
| C6 |
C5 |
C4 |
N3 |
359.5 |
359.8 |
| C6 |
C5 |
N7 |
C4 |
181.0 |
180.2 |
| C5 |
N7 |
C8 |
H8 |
180.8 |
180.1 |
| N7 |
C5 |
C4 |
N3 |
180.4 |
180.0 |
| O5' |
P |
OP2 |
OP3 |
|
120.0 |
| OP1 |
P |
OP2 |
OP3 |
|
240.0 |
| OP2 |
P |
OP3 |
H1 |
|
300.0 |
| C6 |
N1 |
C2 |
N3 |
359.4 |
0.0 |
| C8 |
N9 |
C1' |
H1' |
182.3 |
144.6 |
| C4 |
N9 |
C1' |
H1' |
0.2 |
324.3 |
| C2' |
C1' |
N9 |
H1' |
121.5 |
121.1 |
| C2' |
C3' |
O3' |
H3' |
125.3 |
123.7 |
| O3' |
C3' |
C4' |
H4' |
14.5 |
323.3 |
| O4' |
C4' |
C3' |
H4' |
241.8 |
241.4 |
| C3' |
C4' |
C5' |
H5'' |
291.7 |
60.4 |
| C3' |
C4' |
C5' |
H5' |
173.2 |
300.5 |
| C1' |
O4' |
C4' |
H4' |
241.4 |
281.5 |
| OP2 |
P |
O5' |
OP3 |
|
240.0 |
| OP1 |
P |
O5' |
OP3 |
|
120.0 |
| O5' |
P |
OP3 |
H1 |
|
180.0 |
| C5' |
O5' |
P |
OP3 |
|
185.0 |
| C4' |
C5' |
O5' |
H5'' |
239.3 |
239.9 |
| C4' |
C5' |
O5' |
H5' |
120.7 |
120.0 |
| H5'' |
C5' |
O5' |
H5' |
241.5 |
240.0 |
| OP2 |
P |
OP1 |
OP3 |
|
120.0 |
| O5' |
P |
OP1 |
OP3 |
|
240.0 |
| OP1 |
P |
OP3 |
H1 |
|
60.0 |
| C3' |
C4' |
O4' |
H4' |
117.3 |
118.6 |
| O4' |
C4' |
C5' |
H5'' |
168.4 |
306.4 |
| O4' |
C4' |
C5' |
H5' |
49.9 |
186.5 |
| O5' |
C5' |
C4' |
H5'' |
120.7 |
120.1 |
| O5' |
C5' |
C4' |
H5' |
239.2 |
240.0 |
| H5'' |
C5' |
C4' |
H5' |
118.5 |
119.9 |
| H3 |
OP2 |
P |
OP3 |
|
300.0 |
| O5' |
C5' |
H5'' |
H5' |
117.8 |
120.0 |
| C4' |
C5' |
H5'' |
H5' |
242.3 |
240.1 |
| O5' |
C5' |
H5' |
H5'' |
242.2 |
239.9 |
| C4' |
C5' |
H5' |
H5'' |
117.7 |
120.0 |
| H4' |
C4' |
C5' |
H5'' |
49.4 |
183.5 |
| H4' |
C4' |
C5' |
H5' |
290.9 |
63.6 |
| HN |
N6 |
C6 |
N1 |
55.8 |
180.1 |
| CB |
CA |
HA1 |
HA2 |
118.7 |
240.0 |
| HA1 |
CA |
N6 |
HN |
105.0 |
119.9 |
| CB |
CA |
HA2 |
HA1 |
241.3 |
120.0 |
| HA2 |
CA |
N6 |
HN |
345.8 |
240.0 |
| HB |
CB |
CA |
HA1 |
164.1 |
185.0 |
| HB |
CB |
CA |
HA2 |
283.2 |
64.9 |
| HOB |
OB |
CB |
HB |
58.7 |
180.1 |
| HC |
CC |
CB |
HB |
290.2 |
180.0 |
| HD2 |
CD |
CC |
HC |
0.0 |
0.0 |
| HD1 |
CD |
CC |
HC |
180.0 |
180.0 |
| C2' |
C3' |
H3' |
O3' |
231.3 |
236.3 |
| H3' |
C3' |
O3' |
H4 |
54.7 |
303.6 |
| H3' |
C3' |
C4' |
H4' |
252.9 |
199.7 |
| H2' |
C2' |
C3' |
O3' |
209.5 |
20.4 |
| H2' |
C2' |
C3' |
H3' |
335.5 |
144.1 |
| H2' |
C2' |
C1' |
H1' |
150.4 |
1.3 |
| H2'' |
C2' |
C3' |
O3' |
331.5 |
257.8 |
| H2'' |
C2' |
C3' |
H3' |
97.5 |
21.4 |
| H2'' |
C2' |
C1' |
H1' |
28.4 |
123.9 |
| H4 |
O3' |
C3' |
H3' |
54.7 |
303.6 |