PDB Chemical Component MED
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 MED
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| N |
CA |
1.493 |
1.469 |
| N |
H |
1.000 |
1.008 |
| N |
H2 |
1.001 |
1.009 |
| CA |
C |
1.525 |
1.507 |
| CA |
CB |
1.521 |
1.530 |
| CA |
HA |
1.100 |
1.090 |
| C |
O |
1.235 |
1.208 |
| C |
OXT |
1.226 |
1.342 |
| CB |
CG |
1.493 |
1.531 |
| CB |
HB2 |
1.100 |
1.090 |
| CB |
HB3 |
1.100 |
1.090 |
| CG |
SD |
1.803 |
1.815 |
| CG |
HG2 |
1.100 |
1.089 |
| CG |
HG3 |
1.099 |
1.090 |
| SD |
CE |
1.740 |
1.814 |
| CE |
HE1 |
1.100 |
1.091 |
| CE |
HE2 |
1.100 |
1.090 |
| CE |
HE3 |
1.100 |
1.090 |
| OXT |
HXT |
0.950 |
0.967 |
Bond Angles for MED
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| CA |
N |
H |
109.5 |
111.1 |
| CA |
N |
H2 |
109.4 |
111.0 |
| N |
CA |
C |
113.3 |
109.5 |
| N |
CA |
CB |
111.1 |
109.4 |
| N |
CA |
HA |
105.5 |
109.5 |
| H |
N |
H2 |
109.5 |
111.0 |
| C |
CA |
CB |
109.0 |
109.5 |
| C |
CA |
HA |
107.8 |
109.5 |
| CA |
C |
O |
123.4 |
120.0 |
| CA |
C |
OXT |
118.3 |
120.0 |
| CB |
CA |
HA |
110.1 |
109.5 |
| CA |
CB |
CG |
116.4 |
109.4 |
| CA |
CB |
HB2 |
107.2 |
109.5 |
| CA |
CB |
HB3 |
105.6 |
109.5 |
| O |
C |
OXT |
118.2 |
120.0 |
| C |
OXT |
HXT |
109.5 |
117.0 |
| CG |
CB |
HB2 |
107.2 |
109.5 |
| CG |
CB |
HB3 |
105.6 |
109.5 |
| CB |
CG |
SD |
102.9 |
109.5 |
| CB |
CG |
HG2 |
111.7 |
109.5 |
| CB |
CG |
HG3 |
113.1 |
109.5 |
| HB2 |
CB |
HB3 |
115.1 |
109.4 |
| SD |
CG |
HG2 |
111.7 |
109.5 |
| SD |
CG |
HG3 |
113.1 |
109.5 |
| CG |
SD |
CE |
101.1 |
103.0 |
| HG2 |
CG |
HG3 |
104.6 |
109.5 |
| SD |
CE |
HE1 |
109.5 |
109.4 |
| SD |
CE |
HE2 |
109.4 |
109.5 |
| SD |
CE |
HE3 |
109.4 |
109.4 |
| HE1 |
CE |
HE2 |
109.5 |
109.4 |
| HE1 |
CE |
HE3 |
109.5 |
109.5 |
| HE2 |
CE |
HE3 |
109.5 |
109.5 |
Torsion Angles for MED
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| H |
N |
CA |
H2 |
240.0 |
236.0 |
| C |
CA |
N |
CB |
236.9 |
240.0 |
| C |
CA |
N |
HA |
117.6 |
120.0 |
| N |
CA |
C |
O |
42.6 |
20.0 |
| N |
CA |
C |
OXT |
221.8 |
200.0 |
| CB |
CA |
N |
HA |
240.7 |
240.0 |
| N |
CA |
CB |
CG |
312.0 |
65.0 |
| N |
CA |
CB |
HB2 |
72.0 |
185.0 |
| N |
CA |
CB |
HB3 |
195.2 |
305.0 |
| CA |
N |
H |
H2 |
120.0 |
124.0 |
| H |
N |
CA |
C |
176.6 |
176.0 |
| H |
N |
CA |
CB |
299.7 |
296.0 |
| H |
N |
CA |
HA |
59.0 |
56.0 |
| CA |
N |
H2 |
H |
240.0 |
236.0 |
| H2 |
N |
CA |
C |
296.6 |
300.0 |
| H2 |
N |
CA |
CB |
59.7 |
60.0 |
| H2 |
N |
CA |
HA |
179.0 |
180.0 |
| C |
CA |
N |
H |
176.6 |
176.0 |
| C |
CA |
N |
H2 |
296.6 |
300.0 |
| N |
CA |
C |
CB |
124.3 |
120.0 |
| N |
CA |
C |
HA |
243.7 |
240.0 |
| CB |
CA |
C |
HA |
119.4 |
120.0 |
| C |
CA |
CB |
CG |
77.5 |
185.0 |
| C |
CA |
CB |
HB2 |
197.5 |
305.0 |
| C |
CA |
CB |
HB3 |
320.7 |
65.0 |
| O |
C |
CA |
OXT |
180.8 |
180.0 |
| CA |
C |
OXT |
HXT |
180.8 |
180.1 |
| CB |
CA |
N |
H |
299.7 |
296.0 |
| CB |
CA |
N |
H2 |
59.7 |
60.0 |
| N |
CA |
CB |
C |
234.5 |
240.0 |
| N |
CA |
CB |
HA |
116.5 |
120.0 |
| C |
CA |
CB |
HA |
242.0 |
240.0 |
| CB |
CA |
C |
O |
278.3 |
260.1 |
| CB |
CA |
C |
OXT |
97.5 |
80.0 |
| CG |
CB |
CA |
HB2 |
240.0 |
240.0 |
| CG |
CB |
CA |
HB3 |
116.8 |
120.0 |
| CA |
CB |
CG |
SD |
186.9 |
180.0 |
| CA |
CB |
CG |
HG2 |
306.9 |
300.0 |
| CA |
CB |
CG |
HG3 |
64.6 |
60.0 |
| HB2 |
CB |
CA |
HB3 |
236.8 |
240.0 |
| HA |
CA |
N |
H |
59.0 |
56.0 |
| HA |
CA |
N |
H2 |
179.0 |
180.0 |
| N |
CA |
HA |
C |
121.3 |
120.0 |
| N |
CA |
HA |
CB |
240.0 |
240.0 |
| C |
CA |
HA |
CB |
118.8 |
120.0 |
| HA |
CA |
C |
O |
158.9 |
140.0 |
| HA |
CA |
C |
OXT |
338.1 |
320.0 |
| HA |
CA |
CB |
CG |
195.5 |
305.0 |
| HA |
CA |
CB |
HB2 |
315.5 |
65.0 |
| HA |
CA |
CB |
HB3 |
78.7 |
185.0 |
| O |
C |
CA |
CB |
278.3 |
260.1 |
| O |
C |
CA |
HA |
158.9 |
140.0 |
| CA |
C |
O |
OXT |
179.2 |
180.0 |
| O |
C |
OXT |
HXT |
360.0 |
0.0 |
| OXT |
C |
CA |
CB |
97.5 |
80.0 |
| OXT |
C |
CA |
HA |
338.1 |
320.0 |
| CA |
C |
OXT |
O |
180.8 |
180.0 |
| CG |
CB |
CA |
HA |
195.5 |
305.0 |
| CA |
CB |
CG |
HB2 |
120.0 |
120.0 |
| CA |
CB |
CG |
HB3 |
243.2 |
240.0 |
| HB2 |
CB |
CG |
HB3 |
123.2 |
120.0 |
| SD |
CG |
CB |
HG2 |
240.0 |
240.0 |
| SD |
CG |
CB |
HG3 |
122.4 |
120.0 |
| CB |
CG |
SD |
CE |
76.7 |
180.0 |
| HG2 |
CG |
CB |
HG3 |
242.4 |
240.0 |
| HB2 |
CB |
CA |
HA |
315.5 |
65.0 |
| CA |
CB |
HB2 |
CG |
234.3 |
240.0 |
| CA |
CB |
HB2 |
HB3 |
117.1 |
120.0 |
| CG |
CB |
HB2 |
HB3 |
242.8 |
240.0 |
| HB2 |
CB |
CG |
SD |
67.0 |
60.0 |
| HB2 |
CB |
CG |
HG2 |
187.0 |
180.0 |
| HB2 |
CB |
CG |
HG3 |
304.6 |
300.0 |
| HB3 |
CB |
CA |
HA |
78.7 |
185.0 |
| CA |
CB |
HB3 |
CG |
123.9 |
120.0 |
| CA |
CB |
HB3 |
HB2 |
241.9 |
240.0 |
| CG |
CB |
HB3 |
HB2 |
118.0 |
120.0 |
| HB3 |
CB |
CG |
SD |
303.7 |
300.0 |
| HB3 |
CB |
CG |
HG2 |
63.8 |
60.0 |
| HB3 |
CB |
CG |
HG3 |
181.4 |
180.0 |
| SD |
CG |
CB |
HB2 |
67.0 |
60.0 |
| SD |
CG |
CB |
HB3 |
303.7 |
300.0 |
| CB |
CG |
SD |
HG2 |
120.0 |
120.0 |
| CB |
CG |
SD |
HG3 |
237.6 |
240.0 |
| HG2 |
CG |
SD |
HG3 |
117.6 |
120.0 |
| CG |
SD |
CE |
HE1 |
60.9 |
300.0 |
| CG |
SD |
CE |
HE2 |
180.9 |
59.9 |
| CG |
SD |
CE |
HE3 |
300.9 |
180.0 |
| HG2 |
CG |
CB |
HB2 |
187.0 |
180.0 |
| HG2 |
CG |
CB |
HB3 |
63.8 |
60.0 |
| CB |
CG |
HG2 |
SD |
245.3 |
240.0 |
| CB |
CG |
HG2 |
HG3 |
122.7 |
120.0 |
| SD |
CG |
HG2 |
HG3 |
237.4 |
240.0 |
| HG2 |
CG |
SD |
CE |
316.7 |
60.0 |
| HG3 |
CG |
CB |
HB2 |
304.6 |
300.0 |
| HG3 |
CG |
CB |
HB3 |
181.4 |
180.0 |
| CB |
CG |
HG3 |
SD |
116.5 |
120.0 |
| CB |
CG |
HG3 |
HG2 |
238.2 |
240.0 |
| SD |
CG |
HG3 |
HG2 |
121.7 |
120.0 |
| HG3 |
CG |
SD |
CE |
199.1 |
300.0 |
| CE |
SD |
CG |
HG2 |
316.7 |
60.0 |
| CE |
SD |
CG |
HG3 |
199.1 |
300.0 |
| HE1 |
CE |
SD |
HE2 |
240.0 |
240.0 |
| HE1 |
CE |
SD |
HE3 |
120.0 |
120.0 |
| HE2 |
CE |
SD |
HE3 |
240.0 |
239.9 |
| SD |
CE |
HE1 |
HE2 |
120.0 |
120.0 |
| SD |
CE |
HE1 |
HE3 |
240.0 |
240.1 |
| HE2 |
CE |
HE1 |
HE3 |
120.1 |
120.0 |
| SD |
CE |
HE2 |
HE1 |
240.0 |
240.0 |
| SD |
CE |
HE2 |
HE3 |
119.9 |
120.0 |
| HE1 |
CE |
HE2 |
HE3 |
239.9 |
240.0 |
| SD |
CE |
HE3 |
HE1 |
120.0 |
119.9 |
| SD |
CE |
HE3 |
HE2 |
240.0 |
239.9 |
| HE1 |
CE |
HE3 |
HE2 |
120.1 |
120.0 |