PDB Chemical Component DMK
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 DMK
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| N |
CA |
1.455 |
1.468 |
| N |
H |
1.000 |
1.009 |
| N |
H2 |
1.000 |
1.009 |
| CA |
CB |
1.531 |
1.530 |
| CA |
C |
1.534 |
1.508 |
| CA |
HA |
1.100 |
1.090 |
| CB |
CG1 |
1.556 |
1.507 |
| CB |
CG2 |
1.558 |
1.530 |
| CB |
CG3 |
1.555 |
1.530 |
| CG1 |
OD1 |
1.236 |
1.342 |
| CG1 |
OD2 |
1.238 |
1.208 |
| CG2 |
HG21 |
1.100 |
1.090 |
| CG2 |
HG22 |
1.100 |
1.090 |
| CG2 |
HG23 |
1.100 |
1.090 |
| CG3 |
HG31 |
1.100 |
1.090 |
| CG3 |
HG32 |
1.100 |
1.090 |
| CG3 |
HG33 |
1.100 |
1.091 |
| OD1 |
HD1 |
0.950 |
0.967 |
| C |
O |
1.238 |
1.207 |
| C |
OXT |
|
1.342 |
| OXT |
HXT |
|
0.967 |
Bond Angles for DMK
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| CA |
N |
H |
109.5 |
111.0 |
| CA |
N |
H2 |
109.4 |
111.0 |
| N |
CA |
CB |
111.2 |
109.5 |
| N |
CA |
C |
108.5 |
109.5 |
| N |
CA |
HA |
109.6 |
109.5 |
| H |
N |
H2 |
109.5 |
111.0 |
| CB |
CA |
C |
110.5 |
109.4 |
| CB |
CA |
HA |
108.5 |
109.5 |
| CA |
CB |
CG1 |
113.0 |
109.5 |
| CA |
CB |
CG2 |
109.0 |
109.5 |
| CA |
CB |
CG3 |
108.8 |
109.5 |
| C |
CA |
HA |
108.5 |
109.5 |
| CA |
C |
O |
121.5 |
120.0 |
| CA |
C |
OXT |
|
120.0 |
| CG1 |
CB |
CG2 |
109.4 |
109.5 |
| CG1 |
CB |
CG3 |
107.1 |
109.4 |
| CB |
CG1 |
OD1 |
122.7 |
120.0 |
| CB |
CG1 |
OD2 |
125.9 |
120.0 |
| CG2 |
CB |
CG3 |
109.5 |
109.5 |
| CB |
CG2 |
HG21 |
109.5 |
109.5 |
| CB |
CG2 |
HG22 |
109.5 |
109.5 |
| CB |
CG2 |
HG23 |
109.5 |
109.4 |
| CB |
CG3 |
HG31 |
109.5 |
109.4 |
| CB |
CG3 |
HG32 |
109.4 |
109.5 |
| CB |
CG3 |
HG33 |
109.5 |
109.4 |
| OD1 |
CG1 |
OD2 |
111.4 |
120.0 |
| CG1 |
OD1 |
HD1 |
109.5 |
117.0 |
| HG21 |
CG2 |
HG22 |
109.4 |
109.5 |
| HG21 |
CG2 |
HG23 |
109.5 |
109.5 |
| HG22 |
CG2 |
HG23 |
109.5 |
109.5 |
| HG31 |
CG3 |
HG32 |
109.5 |
109.5 |
| HG31 |
CG3 |
HG33 |
109.4 |
109.5 |
| HG32 |
CG3 |
HG33 |
109.5 |
109.5 |
| O |
C |
OXT |
|
120.0 |
| C |
OXT |
HXT |
|
117.0 |
Torsion Angles for DMK
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| H |
N |
CA |
H2 |
240.0 |
236.1 |
| CB |
CA |
N |
C |
238.3 |
240.0 |
| CB |
CA |
N |
HA |
120.0 |
120.0 |
| N |
CA |
CB |
CG1 |
279.5 |
300.0 |
| N |
CA |
CB |
CG2 |
41.3 |
60.0 |
| N |
CA |
CB |
CG3 |
160.7 |
180.0 |
| C |
CA |
N |
HA |
241.7 |
240.0 |
| N |
CA |
C |
O |
310.5 |
340.0 |
| N |
CA |
C |
OXT |
|
160.0 |
| CA |
N |
H |
H2 |
120.0 |
124.0 |
| H |
N |
CA |
CB |
180.0 |
300.0 |
| H |
N |
CA |
C |
301.7 |
60.0 |
| H |
N |
CA |
HA |
60.1 |
180.0 |
| CA |
N |
H2 |
H |
240.0 |
236.0 |
| H2 |
N |
CA |
CB |
300.0 |
63.9 |
| H2 |
N |
CA |
C |
61.7 |
183.9 |
| H2 |
N |
CA |
HA |
180.0 |
303.9 |
| CB |
CA |
N |
H |
180.0 |
300.0 |
| CB |
CA |
N |
H2 |
300.0 |
63.9 |
| N |
CA |
CB |
C |
120.6 |
120.0 |
| N |
CA |
CB |
HA |
239.4 |
240.0 |
| C |
CA |
CB |
HA |
118.9 |
120.0 |
| CB |
CA |
C |
O |
72.6 |
100.0 |
| CB |
CA |
C |
OXT |
|
280.0 |
| CG1 |
CB |
CA |
CG2 |
238.1 |
240.0 |
| CG1 |
CB |
CA |
CG3 |
118.8 |
120.0 |
| CA |
CB |
CG1 |
OD1 |
296.7 |
180.0 |
| CA |
CB |
CG1 |
OD2 |
119.6 |
0.0 |
| CG2 |
CB |
CA |
CG3 |
240.7 |
240.0 |
| CA |
CB |
CG2 |
HG21 |
180.0 |
60.0 |
| CA |
CB |
CG2 |
HG22 |
300.0 |
180.0 |
| CA |
CB |
CG2 |
HG23 |
60.0 |
300.0 |
| CA |
CB |
CG3 |
HG31 |
180.0 |
60.0 |
| CA |
CB |
CG3 |
HG32 |
300.0 |
180.0 |
| CA |
CB |
CG3 |
HG33 |
60.0 |
300.0 |
| C |
CA |
N |
H |
301.7 |
60.0 |
| C |
CA |
N |
H2 |
61.7 |
183.9 |
| N |
CA |
C |
CB |
237.9 |
240.0 |
| N |
CA |
C |
HA |
119.0 |
120.0 |
| CB |
CA |
C |
HA |
241.1 |
240.0 |
| C |
CA |
CB |
CG1 |
158.9 |
180.0 |
| C |
CA |
CB |
CG2 |
280.8 |
300.0 |
| C |
CA |
CB |
CG3 |
40.1 |
60.0 |
| O |
C |
CA |
OXT |
|
180.0 |
| CA |
C |
OXT |
HXT |
|
180.1 |
| HA |
CA |
N |
H |
60.1 |
180.0 |
| HA |
CA |
N |
H2 |
180.0 |
303.9 |
| N |
CA |
HA |
CB |
121.5 |
120.0 |
| N |
CA |
HA |
C |
241.6 |
240.0 |
| CB |
CA |
HA |
C |
120.1 |
120.0 |
| HA |
CA |
CB |
CG1 |
40.0 |
60.0 |
| HA |
CA |
CB |
CG2 |
161.9 |
180.0 |
| HA |
CA |
CB |
CG3 |
281.2 |
300.0 |
| HA |
CA |
C |
O |
191.5 |
220.0 |
| HA |
CA |
C |
OXT |
|
40.0 |
| CG1 |
CB |
CA |
C |
158.9 |
180.0 |
| CG1 |
CB |
CA |
HA |
40.0 |
60.0 |
| CA |
CB |
CG1 |
CG2 |
121.6 |
120.0 |
| CA |
CB |
CG1 |
CG3 |
240.2 |
240.0 |
| CG2 |
CB |
CG1 |
CG3 |
118.6 |
120.0 |
| CG1 |
CB |
CG2 |
HG21 |
304.0 |
180.0 |
| CG1 |
CB |
CG2 |
HG22 |
64.0 |
300.0 |
| CG1 |
CB |
CG2 |
HG23 |
184.0 |
60.0 |
| CG1 |
CB |
CG3 |
HG31 |
57.6 |
300.0 |
| CG1 |
CB |
CG3 |
HG32 |
177.6 |
60.0 |
| CG1 |
CB |
CG3 |
HG33 |
297.6 |
180.0 |
| OD1 |
CG1 |
CB |
OD2 |
177.1 |
180.0 |
| CB |
CG1 |
OD1 |
HD1 |
182.5 |
180.0 |
| CG2 |
CB |
CA |
C |
280.8 |
300.0 |
| CG2 |
CB |
CA |
HA |
161.9 |
180.0 |
| CA |
CB |
CG2 |
CG1 |
236.0 |
240.0 |
| CA |
CB |
CG2 |
CG3 |
118.9 |
120.0 |
| CG1 |
CB |
CG2 |
CG3 |
242.9 |
240.0 |
| CG2 |
CB |
CG1 |
OD1 |
175.0 |
60.0 |
| CG2 |
CB |
CG1 |
OD2 |
357.9 |
240.0 |
| CG2 |
CB |
CG3 |
HG31 |
299.0 |
180.0 |
| CG2 |
CB |
CG3 |
HG32 |
59.0 |
300.0 |
| CG2 |
CB |
CG3 |
HG33 |
179.0 |
60.0 |
| HG21 |
CG2 |
CB |
HG22 |
240.0 |
240.0 |
| HG21 |
CG2 |
CB |
HG23 |
120.0 |
120.0 |
| HG22 |
CG2 |
CB |
HG23 |
240.0 |
240.0 |
| CG3 |
CB |
CA |
C |
40.1 |
60.0 |
| CG3 |
CB |
CA |
HA |
281.2 |
300.0 |
| CA |
CB |
CG3 |
CG1 |
122.4 |
120.0 |
| CA |
CB |
CG3 |
CG2 |
241.0 |
240.0 |
| CG1 |
CB |
CG3 |
CG2 |
118.6 |
120.0 |
| CG3 |
CB |
CG1 |
OD1 |
56.4 |
300.0 |
| CG3 |
CB |
CG1 |
OD2 |
239.3 |
120.0 |
| CG3 |
CB |
CG2 |
HG21 |
61.1 |
300.0 |
| CG3 |
CB |
CG2 |
HG22 |
181.1 |
60.0 |
| CG3 |
CB |
CG2 |
HG23 |
301.1 |
180.0 |
| HG31 |
CG3 |
CB |
HG32 |
240.0 |
240.0 |
| HG31 |
CG3 |
CB |
HG33 |
120.0 |
120.0 |
| HG32 |
CG3 |
CB |
HG33 |
240.0 |
240.0 |
| OD1 |
CG1 |
CB |
CG2 |
175.0 |
60.0 |
| OD1 |
CG1 |
CB |
CG3 |
56.4 |
300.0 |
| CB |
CG1 |
OD1 |
OD2 |
182.5 |
180.0 |
| OD2 |
CG1 |
CB |
CG2 |
357.9 |
240.0 |
| OD2 |
CG1 |
CB |
CG3 |
239.3 |
120.0 |
| CB |
CG1 |
OD2 |
OD1 |
177.4 |
180.0 |
| OD2 |
CG1 |
OD1 |
HD1 |
360.0 |
0.0 |
| HG21 |
CG2 |
CB |
CG3 |
61.1 |
300.0 |
| CB |
CG2 |
HG21 |
HG22 |
120.0 |
120.0 |
| CB |
CG2 |
HG21 |
HG23 |
240.0 |
240.0 |
| HG22 |
CG2 |
HG21 |
HG23 |
120.0 |
120.0 |
| HG22 |
CG2 |
CB |
CG3 |
181.1 |
60.0 |
| CB |
CG2 |
HG22 |
HG21 |
240.0 |
240.0 |
| CB |
CG2 |
HG22 |
HG23 |
120.0 |
120.0 |
| HG21 |
CG2 |
HG22 |
HG23 |
240.0 |
240.0 |
| HG23 |
CG2 |
CB |
CG3 |
301.1 |
180.0 |
| CB |
CG2 |
HG23 |
HG21 |
120.0 |
120.0 |
| CB |
CG2 |
HG23 |
HG22 |
240.0 |
240.0 |
| HG21 |
CG2 |
HG23 |
HG22 |
120.0 |
120.0 |
| CB |
CG3 |
HG31 |
HG32 |
120.0 |
120.0 |
| CB |
CG3 |
HG31 |
HG33 |
240.0 |
240.0 |
| HG32 |
CG3 |
HG31 |
HG33 |
120.0 |
120.0 |
| CB |
CG3 |
HG32 |
HG31 |
240.0 |
240.0 |
| CB |
CG3 |
HG32 |
HG33 |
120.0 |
120.0 |
| HG31 |
CG3 |
HG32 |
HG33 |
240.0 |
240.0 |
| CB |
CG3 |
HG33 |
HG31 |
120.0 |
120.0 |
| CB |
CG3 |
HG33 |
HG32 |
240.0 |
240.0 |
| HG31 |
CG3 |
HG33 |
HG32 |
120.0 |
120.0 |
| HD1 |
OD1 |
CG1 |
OD2 |
360.0 |
0.0 |
| O |
C |
CA |
HA |
191.5 |
220.0 |
| CA |
C |
O |
OXT |
|
180.0 |
| O |
C |
OXT |
HXT |
|
0.0 |
| OXT |
C |
CA |
HA |
|
40.0 |
| CA |
C |
OXT |
O |
|
180.0 |