PDB Chemical Component LBY
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 LBY
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| O |
C |
1.249 |
1.208 |
| C |
OXT |
1.250 |
1.343 |
| C |
CA |
1.531 |
1.507 |
| N |
CA |
1.471 |
1.469 |
| CA |
CB |
1.530 |
1.530 |
| CB |
CG |
1.530 |
1.530 |
| CG |
CD |
1.528 |
1.530 |
| C3 |
CT |
1.529 |
1.530 |
| O2 |
CT |
1.434 |
1.452 |
| O2 |
CZ |
1.363 |
1.347 |
| CT |
C1 |
1.531 |
1.530 |
| CT |
C2 |
1.532 |
1.530 |
| CD |
CE |
1.531 |
1.530 |
| CE |
NZ |
1.467 |
1.464 |
| CZ |
NZ |
1.329 |
1.348 |
| CZ |
O1 |
1.229 |
1.215 |
| C1 |
H11 |
1.100 |
1.091 |
| C1 |
H12 |
1.101 |
1.090 |
| C1 |
H13 |
1.100 |
1.090 |
| C2 |
H21 |
1.100 |
1.090 |
| C2 |
H22 |
1.100 |
1.090 |
| C2 |
H23 |
1.100 |
1.089 |
| C3 |
H31 |
1.100 |
1.090 |
| C3 |
H32 |
1.100 |
1.090 |
| C3 |
H33 |
1.100 |
1.091 |
| NZ |
HZ1 |
1.000 |
0.970 |
| CE |
HE2 |
1.100 |
1.090 |
| CE |
HE3 |
1.099 |
1.090 |
| CD |
HD2 |
1.099 |
1.090 |
| CD |
HD3 |
1.100 |
1.090 |
| CG |
HG2 |
1.100 |
1.089 |
| CG |
HG3 |
1.099 |
1.090 |
| CB |
HB2 |
1.100 |
1.090 |
| CB |
HB3 |
1.100 |
1.090 |
| CA |
HA |
1.100 |
1.090 |
| OXT |
HXT |
0.950 |
0.967 |
| N |
H |
1.000 |
1.009 |
| N |
H2 |
1.000 |
1.009 |
Bond Angles for LBY
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C |
OXT |
HXT |
109.5 |
117.0 |
| C |
CA |
HA |
109.6 |
109.4 |
| N |
CA |
HA |
110.4 |
109.5 |
| CA |
CB |
HB2 |
109.4 |
109.4 |
| CA |
CB |
HB3 |
109.4 |
109.5 |
| CB |
CG |
HG2 |
109.1 |
109.5 |
| CB |
CG |
HG3 |
109.1 |
109.5 |
| CG |
CD |
HD2 |
109.1 |
109.4 |
| CG |
CD |
HD3 |
109.1 |
109.5 |
| O2 |
CZ |
NZ |
119.0 |
120.0 |
| O2 |
CZ |
O1 |
119.4 |
120.0 |
| CT |
C1 |
H11 |
109.5 |
109.5 |
| CT |
C1 |
H12 |
109.5 |
109.5 |
| CT |
C1 |
H13 |
109.5 |
109.5 |
| CT |
C2 |
H21 |
109.5 |
109.5 |
| CT |
C2 |
H22 |
109.5 |
109.4 |
| CT |
C2 |
H23 |
109.5 |
109.5 |
| CD |
CE |
HE2 |
110.3 |
109.5 |
| CD |
CE |
HE3 |
110.3 |
109.5 |
| CE |
NZ |
HZ1 |
118.8 |
120.0 |
| O1 |
CZ |
NZ |
121.4 |
120.0 |
| CZ |
NZ |
HZ1 |
118.9 |
120.0 |
| H11 |
C1 |
H12 |
109.4 |
109.4 |
| H11 |
C1 |
H13 |
109.5 |
109.4 |
| H12 |
C1 |
H13 |
109.5 |
109.5 |
| H21 |
C2 |
H22 |
109.5 |
109.4 |
| H21 |
C2 |
H23 |
109.5 |
109.5 |
| H22 |
C2 |
H23 |
109.5 |
109.5 |
| H31 |
C3 |
H32 |
109.5 |
109.5 |
| H31 |
C3 |
H33 |
109.4 |
109.5 |
| H32 |
C3 |
H33 |
109.5 |
109.5 |
| HE2 |
CE |
HE3 |
109.4 |
109.4 |
| HD2 |
CD |
HD3 |
109.5 |
109.4 |
| HG2 |
CG |
HG3 |
109.5 |
109.5 |
| HB2 |
CB |
HB3 |
109.5 |
109.4 |
| H |
N |
H2 |
109.5 |
111.0 |
Torsion Angles for LBY
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O |
C |
OXT |
HXT |
0.0 |
359.9 |
| O |
C |
CA |
HA |
245.3 |
220.1 |
| OXT |
C |
CA |
HA |
66.2 |
40.0 |
| N |
CA |
C |
HA |
121.2 |
120.0 |
| C |
CA |
CB |
HB2 |
64.5 |
55.0 |
| C |
CA |
CB |
HB3 |
184.4 |
295.1 |
| C |
CA |
N |
HA |
239.3 |
240.0 |
| N |
CA |
CB |
HB2 |
183.8 |
175.0 |
| N |
CA |
CB |
HB3 |
303.7 |
55.0 |
| CA |
CB |
CG |
HG2 |
289.8 |
60.0 |
| CA |
CB |
CG |
HG3 |
49.3 |
300.0 |
| HB2 |
CB |
CA |
HB3 |
240.1 |
119.9 |
| CB |
CG |
CD |
HD2 |
311.9 |
60.0 |
| CB |
CG |
CD |
HD3 |
71.4 |
300.1 |
| HG2 |
CG |
CB |
HG3 |
240.5 |
120.0 |
| CG |
CD |
CE |
HE2 |
280.8 |
59.9 |
| CG |
CD |
CE |
HE3 |
41.8 |
300.0 |
| HD2 |
CD |
CG |
HD3 |
240.5 |
119.9 |
| C3 |
CT |
C1 |
H11 |
180.0 |
180.0 |
| C3 |
CT |
C1 |
H12 |
300.0 |
299.9 |
| C3 |
CT |
C1 |
H13 |
60.0 |
60.0 |
| C3 |
CT |
C2 |
H21 |
180.0 |
300.0 |
| C3 |
CT |
C2 |
H22 |
300.0 |
60.0 |
| C3 |
CT |
C2 |
H23 |
60.0 |
180.0 |
| O2 |
CT |
C1 |
H11 |
61.6 |
300.0 |
| O2 |
CT |
C1 |
H12 |
181.6 |
59.9 |
| O2 |
CT |
C1 |
H13 |
301.6 |
180.0 |
| O2 |
CT |
C2 |
H21 |
299.1 |
180.0 |
| O2 |
CT |
C2 |
H22 |
59.1 |
299.9 |
| O2 |
CT |
C2 |
H23 |
179.1 |
60.0 |
| O1 |
CZ |
O2 |
NZ |
183.7 |
180.0 |
| O2 |
CZ |
NZ |
HZ1 |
178.5 |
360.0 |
| H11 |
C1 |
CT |
H12 |
240.0 |
240.0 |
| H11 |
C1 |
CT |
H13 |
120.0 |
119.9 |
| H12 |
C1 |
CT |
H13 |
240.0 |
239.9 |
| C2 |
CT |
C1 |
H11 |
300.3 |
60.0 |
| C2 |
CT |
C1 |
H12 |
60.3 |
179.9 |
| C2 |
CT |
C1 |
H13 |
180.3 |
300.0 |
| H21 |
C2 |
CT |
H22 |
240.0 |
240.1 |
| H21 |
C2 |
CT |
H23 |
120.0 |
120.0 |
| H22 |
C2 |
CT |
H23 |
240.0 |
239.9 |
| CD |
CE |
NZ |
HZ1 |
64.5 |
360.0 |
| HE2 |
CE |
CD |
HE3 |
239.0 |
119.9 |
| CZ |
NZ |
CE |
HZ1 |
180.0 |
180.0 |
| O2 |
CZ |
NZ |
O1 |
183.8 |
180.0 |
| CE |
NZ |
CZ |
HZ1 |
180.0 |
180.0 |
| O2 |
CZ |
O1 |
NZ |
176.2 |
180.0 |
| O1 |
CZ |
NZ |
HZ1 |
354.8 |
180.0 |
| CT |
C1 |
H11 |
H12 |
120.0 |
120.0 |
| CT |
C1 |
H11 |
H13 |
240.0 |
240.0 |
| H12 |
C1 |
H11 |
H13 |
120.0 |
120.0 |
| CT |
C1 |
H12 |
H11 |
240.0 |
240.0 |
| CT |
C1 |
H12 |
H13 |
120.0 |
120.1 |
| H11 |
C1 |
H12 |
H13 |
240.0 |
240.1 |
| CT |
C1 |
H13 |
H11 |
120.0 |
120.0 |
| CT |
C1 |
H13 |
H12 |
240.0 |
239.9 |
| H11 |
C1 |
H13 |
H12 |
120.0 |
119.9 |
| CT |
C2 |
H21 |
H22 |
120.0 |
119.9 |
| CT |
C2 |
H21 |
H23 |
240.0 |
240.0 |
| H22 |
C2 |
H21 |
H23 |
120.0 |
120.0 |
| CT |
C2 |
H22 |
H21 |
240.0 |
240.0 |
| CT |
C2 |
H22 |
H23 |
120.0 |
120.0 |
| H21 |
C2 |
H22 |
H23 |
240.0 |
240.0 |
| CT |
C2 |
H23 |
H21 |
120.0 |
120.0 |
| CT |
C2 |
H23 |
H22 |
240.0 |
240.0 |
| H21 |
C2 |
H23 |
H22 |
120.0 |
120.0 |
| H32 |
C3 |
H31 |
H33 |
120.0 |
120.1 |
| H31 |
C3 |
H32 |
H33 |
240.0 |
240.0 |
| H31 |
C3 |
H33 |
H32 |
120.0 |
120.1 |
| CD |
CE |
HE2 |
HE3 |
121.5 |
240.0 |
| HE2 |
CE |
NZ |
HZ1 |
305.0 |
120.0 |
| CD |
CE |
HE3 |
HE2 |
238.5 |
120.0 |
| HE3 |
CE |
NZ |
HZ1 |
184.1 |
240.0 |
| CG |
CD |
HD2 |
HD3 |
119.3 |
240.0 |
| HD2 |
CD |
CE |
HE2 |
160.6 |
179.9 |
| HD2 |
CD |
CE |
HE3 |
281.5 |
60.0 |
| CG |
CD |
HD3 |
HD2 |
240.7 |
119.9 |
| HD3 |
CD |
CE |
HE2 |
41.0 |
299.9 |
| HD3 |
CD |
CE |
HE3 |
162.0 |
180.0 |
| CB |
CG |
HG2 |
HG3 |
119.3 |
240.0 |
| HG2 |
CG |
CD |
HD2 |
191.7 |
180.0 |
| HG2 |
CG |
CD |
HD3 |
311.2 |
60.1 |
| CB |
CG |
HG3 |
HG2 |
240.7 |
120.0 |
| HG3 |
CG |
CD |
HD2 |
72.1 |
300.0 |
| HG3 |
CG |
CD |
HD3 |
191.6 |
180.0 |
| CA |
CB |
HB2 |
HB3 |
119.9 |
240.0 |
| HB2 |
CB |
CG |
HG2 |
169.8 |
180.0 |
| HB2 |
CB |
CG |
HG3 |
289.3 |
60.0 |
| CA |
CB |
HB3 |
HB2 |
240.1 |
120.0 |
| HB3 |
CB |
CG |
HG2 |
49.9 |
300.0 |
| HB3 |
CB |
CG |
HG3 |
169.4 |
180.0 |
| HA |
CA |
CB |
HB2 |
304.9 |
295.0 |
| HA |
CA |
CB |
HB3 |
64.8 |
175.1 |
| H |
N |
CA |
HA |
300.7 |
180.0 |
| H2 |
N |
CA |
HA |
60.7 |
303.9 |