PDB Chemical Component J3D
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 J3D
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| O06 |
C05 |
1.276 |
1.215 |
| O07 |
C05 |
1.249 |
1.346 |
| C05 |
N |
1.482 |
1.348 |
| N |
CA |
1.479 |
1.465 |
| CA |
C |
1.524 |
1.507 |
| CA |
C01 |
1.549 |
1.530 |
| O |
C |
1.261 |
1.208 |
| C |
OXT |
1.245 |
1.342 |
| S02 |
C01 |
1.846 |
1.814 |
| C01 |
H011 |
1.100 |
1.091 |
| C01 |
H012 |
1.100 |
1.090 |
| S02 |
H021 |
1.300 |
1.346 |
| CA |
HA |
1.101 |
1.091 |
| N |
H |
1.000 |
0.970 |
| O07 |
H1 |
0.950 |
0.967 |
| OXT |
HXT |
0.950 |
0.967 |
Bond Angles for J3D
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C05 |
N |
H |
118.4 |
120.0 |
| N |
CA |
C |
107.8 |
109.5 |
| N |
CA |
HA |
110.4 |
109.5 |
| CA |
C |
OXT |
118.4 |
120.0 |
| C |
CA |
HA |
109.8 |
109.4 |
| CA |
C01 |
H011 |
106.8 |
109.5 |
| CA |
C01 |
H012 |
106.8 |
109.5 |
| O |
C |
OXT |
119.1 |
120.0 |
| C |
OXT |
HXT |
109.5 |
117.0 |
| S02 |
C01 |
H011 |
106.7 |
109.5 |
| S02 |
C01 |
H012 |
106.8 |
109.4 |
| H011 |
C01 |
H012 |
109.4 |
109.5 |
Torsion Angles for J3D
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O06 |
C05 |
N |
H |
5.0 |
180.1 |
| O07 |
C05 |
N |
H |
185.0 |
0.0 |
| C05 |
N |
CA |
C |
311.1 |
205.0 |
| C05 |
N |
CA |
HA |
71.0 |
325.0 |
| N |
CA |
C |
OXT |
303.5 |
180.0 |
| C |
CA |
N |
HA |
240.1 |
240.0 |
| N |
CA |
C01 |
H011 |
5.0 |
180.0 |
| N |
CA |
C01 |
H012 |
122.0 |
60.0 |
| N |
CA |
C |
HA |
120.3 |
120.0 |
| C |
CA |
C01 |
H011 |
247.0 |
60.0 |
| C |
CA |
C01 |
H012 |
4.0 |
300.0 |
| O |
C |
CA |
OXT |
178.6 |
180.0 |
| CA |
C |
OXT |
HXT |
178.7 |
179.9 |
| S02 |
C01 |
CA |
H011 |
238.5 |
120.0 |
| S02 |
C01 |
CA |
H012 |
121.5 |
240.0 |
| H011 |
C01 |
CA |
H012 |
243.0 |
120.0 |
| CA |
C |
O |
OXT |
181.4 |
180.0 |
| O |
C |
CA |
HA |
1.8 |
240.0 |
| O |
C |
OXT |
HXT |
360.0 |
360.0 |
| OXT |
C |
CA |
HA |
183.2 |
60.0 |
| CA |
C01 |
S02 |
H011 |
121.5 |
240.0 |
| CA |
C01 |
S02 |
H012 |
238.5 |
120.0 |
| H011 |
C01 |
S02 |
H012 |
117.0 |
240.0 |
| CA |
C01 |
H011 |
H012 |
115.2 |
240.0 |
| S02 |
C01 |
H011 |
H012 |
244.8 |
120.0 |
| CA |
C01 |
H012 |
H011 |
244.8 |
120.0 |
| S02 |
C01 |
H012 |
H011 |
115.2 |
240.0 |
| H021 |
S02 |
C01 |
H011 |
58.5 |
300.0 |
| H021 |
S02 |
C01 |
H012 |
301.5 |
60.0 |
| N |
CA |
HA |
C |
241.3 |
240.0 |
| HA |
CA |
C |
OXT |
183.2 |
60.0 |
| HA |
CA |
C01 |
H011 |
128.8 |
300.0 |
| HA |
CA |
C01 |
H012 |
245.8 |
180.0 |
| H |
N |
CA |
C |
131.1 |
24.9 |
| H |
N |
CA |
HA |
251.0 |
144.9 |