PDB Chemical Component DMD
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 DMD
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| N3 |
C2 |
1.349 |
1.360 |
| N3 |
C3A |
1.392 |
1.381 |
| N3 |
HN31 |
1.020 |
0.970 |
| N1 |
C2 |
1.313 |
1.301 |
| N1 |
C7A |
1.410 |
1.358 |
| C2 |
H21 |
1.104 |
1.080 |
| C7A |
C3A |
1.374 |
1.404 |
| C7A |
C7 |
1.402 |
1.397 |
| C3A |
C4 |
1.389 |
1.387 |
| C4 |
C5 |
1.393 |
1.379 |
| C4 |
H41 |
1.102 |
1.080 |
| C5 |
C6 |
1.402 |
1.387 |
| C5 |
C8 |
1.523 |
1.507 |
| C6 |
C7 |
1.394 |
1.366 |
| C6 |
C9 |
1.522 |
1.507 |
| C7 |
H71 |
1.104 |
1.080 |
| C8 |
H81 |
1.115 |
1.089 |
| C8 |
H82 |
1.114 |
1.089 |
| C8 |
H83 |
1.115 |
1.090 |
| C9 |
H91 |
1.115 |
1.091 |
| C9 |
H92 |
1.115 |
1.089 |
| C9 |
H93 |
1.114 |
1.090 |
Bond Angles for DMD
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
N3 |
C3A |
105.9 |
107.3 |
| C2 |
N3 |
HN31 |
125.9 |
126.3 |
| N3 |
C2 |
N1 |
113.7 |
110.1 |
| N3 |
C2 |
H21 |
124.3 |
124.9 |
| C3A |
N3 |
HN31 |
128.3 |
126.4 |
| N3 |
C3A |
C7A |
106.9 |
106.0 |
| N3 |
C3A |
C4 |
132.7 |
134.1 |
| C2 |
N1 |
C7A |
104.9 |
109.6 |
| N1 |
C2 |
H21 |
122.0 |
125.0 |
| N1 |
C7A |
C3A |
108.6 |
107.0 |
| N1 |
C7A |
C7 |
131.3 |
133.6 |
| C3A |
C7A |
C7 |
120.1 |
119.5 |
| C7A |
C3A |
C4 |
120.3 |
119.9 |
| C7A |
C7 |
C6 |
120.2 |
119.9 |
| C7A |
C7 |
H71 |
120.1 |
120.1 |
| C3A |
C4 |
C5 |
120.3 |
119.7 |
| C3A |
C4 |
H41 |
119.7 |
120.2 |
| C5 |
C4 |
H41 |
120.0 |
120.1 |
| C4 |
C5 |
C6 |
119.8 |
120.4 |
| C4 |
C5 |
C8 |
120.3 |
119.8 |
| C6 |
C5 |
C8 |
119.8 |
119.7 |
| C5 |
C6 |
C7 |
119.3 |
120.7 |
| C5 |
C6 |
C9 |
119.5 |
119.6 |
| C5 |
C8 |
H81 |
120.3 |
109.5 |
| C5 |
C8 |
H82 |
108.3 |
109.5 |
| C5 |
C8 |
H83 |
108.3 |
109.4 |
| C7 |
C6 |
C9 |
121.2 |
119.7 |
| C6 |
C7 |
H71 |
119.7 |
120.1 |
| C6 |
C9 |
H91 |
119.5 |
109.5 |
| C6 |
C9 |
H92 |
108.6 |
109.5 |
| C6 |
C9 |
H93 |
108.6 |
109.5 |
| H81 |
C8 |
H82 |
108.4 |
109.5 |
| H81 |
C8 |
H83 |
108.4 |
109.4 |
| H82 |
C8 |
H83 |
101.6 |
109.6 |
| H91 |
C9 |
H92 |
108.6 |
109.4 |
| H91 |
C9 |
H93 |
108.6 |
109.4 |
| H92 |
C9 |
H93 |
101.5 |
109.5 |
Torsion Angles for DMD
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C3A |
N3 |
C2 |
HN31 |
180.0 |
180.0 |
| C2 |
N3 |
C3A |
C7A |
358.0 |
0.0 |
| C2 |
N3 |
C3A |
C4 |
180.6 |
180.0 |
| N3 |
C2 |
N1 |
C7A |
359.6 |
0.1 |
| N1 |
C2 |
N3 |
H21 |
180.0 |
179.9 |
| C2 |
N3 |
C3A |
HN31 |
180.0 |
180.0 |
| C3A |
N3 |
C2 |
N1 |
1.5 |
359.9 |
| C3A |
N3 |
C2 |
H21 |
181.6 |
180.0 |
| N1 |
C7A |
C3A |
N3 |
1.8 |
0.0 |
| N3 |
C3A |
C7A |
C7 |
181.3 |
180.0 |
| C7A |
C3A |
N3 |
C4 |
177.4 |
180.0 |
| N3 |
C3A |
C4 |
C5 |
177.6 |
180.0 |
| N3 |
C3A |
C4 |
H41 |
357.6 |
0.1 |
| C2 |
N3 |
HN31 |
C3A |
180.0 |
180.0 |
| HN31 |
N3 |
C2 |
N1 |
181.5 |
179.9 |
| HN31 |
N3 |
C2 |
H21 |
1.6 |
0.1 |
| HN31 |
N3 |
C3A |
C7A |
178.0 |
180.0 |
| HN31 |
N3 |
C3A |
C4 |
0.6 |
0.0 |
| N1 |
C2 |
N3 |
C3A |
1.5 |
359.9 |
| N1 |
C2 |
N3 |
HN31 |
181.5 |
179.9 |
| N3 |
C2 |
N1 |
H21 |
180.0 |
180.1 |
| C2 |
N1 |
C7A |
C3A |
359.1 |
359.9 |
| C2 |
N1 |
C7A |
C7 |
179.6 |
180.0 |
| N3 |
C3A |
C7A |
N1 |
1.8 |
0.0 |
| C7A |
N1 |
C2 |
H21 |
179.6 |
180.0 |
| C3A |
C7A |
N1 |
C7 |
179.4 |
180.0 |
| N1 |
C7A |
C3A |
C4 |
179.6 |
180.0 |
| N1 |
C7A |
C7 |
C6 |
179.8 |
179.8 |
| N1 |
C7A |
C7 |
H71 |
359.8 |
359.9 |
| H21 |
C2 |
N3 |
C3A |
181.6 |
180.0 |
| H21 |
C2 |
N3 |
HN31 |
1.6 |
0.1 |
| N3 |
C2 |
H21 |
N1 |
180.0 |
179.9 |
| H21 |
C2 |
N1 |
C7A |
179.6 |
180.0 |
| C7A |
C3A |
N3 |
HN31 |
178.0 |
180.0 |
| N3 |
C3A |
C7A |
C4 |
182.2 |
180.0 |
| N1 |
C7A |
C3A |
C7 |
180.5 |
180.0 |
| C3A |
C7A |
C7 |
C6 |
0.4 |
359.8 |
| C3A |
C7A |
C7 |
H71 |
180.4 |
180.0 |
| C7A |
C3A |
C4 |
C5 |
0.5 |
360.0 |
| C7A |
C3A |
C4 |
H41 |
180.5 |
180.0 |
| N1 |
C7A |
C7 |
C3A |
179.4 |
180.0 |
| C7 |
C7A |
C3A |
C4 |
359.1 |
0.0 |
| C5 |
C6 |
C7 |
C7A |
0.4 |
0.4 |
| C7A |
C7 |
C6 |
C9 |
179.7 |
180.0 |
| C6 |
C7 |
C7A |
H71 |
180.0 |
179.8 |
| C4 |
C3A |
N3 |
HN31 |
0.6 |
0.0 |
| N3 |
C3A |
C4 |
C7A |
177.1 |
180.0 |
| C4 |
C3A |
C7A |
C7 |
359.1 |
0.0 |
| C5 |
C4 |
C3A |
H41 |
180.0 |
180.0 |
| C3A |
C4 |
C5 |
C6 |
0.4 |
0.2 |
| C3A |
C4 |
C5 |
C8 |
178.9 |
180.0 |
| C3A |
C4 |
C5 |
H41 |
180.0 |
180.0 |
| C6 |
C5 |
C4 |
C8 |
181.5 |
180.2 |
| C4 |
C5 |
C6 |
C7 |
359.2 |
359.6 |
| C4 |
C5 |
C6 |
C9 |
179.9 |
180.0 |
| C4 |
C5 |
C8 |
H81 |
180.0 |
89.9 |
| C4 |
C5 |
C8 |
H82 |
305.3 |
210.0 |
| C4 |
C5 |
C8 |
H83 |
54.7 |
330.1 |
| C3A |
C4 |
H41 |
C5 |
180.0 |
180.0 |
| H41 |
C4 |
C5 |
C6 |
180.4 |
180.1 |
| H41 |
C4 |
C5 |
C8 |
358.9 |
360.0 |
| C7A |
C7 |
C6 |
C5 |
0.4 |
0.4 |
| C6 |
C5 |
C4 |
H41 |
180.4 |
180.1 |
| C4 |
C5 |
C6 |
C8 |
178.5 |
179.8 |
| C6 |
C5 |
C8 |
H81 |
358.6 |
269.8 |
| C6 |
C5 |
C8 |
H82 |
123.8 |
29.8 |
| C6 |
C5 |
C8 |
H83 |
233.2 |
149.9 |
| C7 |
C6 |
C5 |
C9 |
179.3 |
179.6 |
| C5 |
C6 |
C7 |
H71 |
180.4 |
180.2 |
| C5 |
C6 |
C9 |
H91 |
180.0 |
269.5 |
| C5 |
C6 |
C9 |
H92 |
305.2 |
29.5 |
| C5 |
C6 |
C9 |
H93 |
54.8 |
149.6 |
| C8 |
C5 |
C4 |
H41 |
358.9 |
360.0 |
| C4 |
C5 |
C8 |
C6 |
181.5 |
180.2 |
| C8 |
C5 |
C6 |
C7 |
180.6 |
179.8 |
| C8 |
C5 |
C6 |
C9 |
1.4 |
0.2 |
| H81 |
C8 |
C5 |
H82 |
234.8 |
240.0 |
| H81 |
C8 |
C5 |
H83 |
125.3 |
119.9 |
| H82 |
C8 |
C5 |
H83 |
250.6 |
239.9 |
| C7A |
C7 |
C6 |
H71 |
180.0 |
180.2 |
| C7 |
C6 |
C5 |
C8 |
180.6 |
179.8 |
| C5 |
C6 |
C7 |
C9 |
180.7 |
180.4 |
| C7 |
C6 |
C9 |
H91 |
0.8 |
89.9 |
| C7 |
C6 |
C9 |
H92 |
126.0 |
209.9 |
| C7 |
C6 |
C9 |
H93 |
235.5 |
330.0 |
| C9 |
C6 |
C5 |
C8 |
1.4 |
0.2 |
| C5 |
C6 |
C9 |
C7 |
179.3 |
179.6 |
| C9 |
C6 |
C7 |
H71 |
359.7 |
359.8 |
| H91 |
C9 |
C6 |
H92 |
234.8 |
240.0 |
| H91 |
C9 |
C6 |
H93 |
125.3 |
119.9 |
| H92 |
C9 |
C6 |
H93 |
250.5 |
239.9 |
| C7A |
C7 |
H71 |
C6 |
180.0 |
179.8 |
| H71 |
C7 |
C6 |
C9 |
359.7 |
359.8 |
| C5 |
C8 |
H81 |
H82 |
125.2 |
120.0 |
| C5 |
C8 |
H81 |
H83 |
234.7 |
240.1 |
| H82 |
C8 |
H81 |
H83 |
109.5 |
120.1 |
| C5 |
C8 |
H82 |
H81 |
228.0 |
240.0 |
| C5 |
C8 |
H82 |
H83 |
113.9 |
120.0 |
| H81 |
C8 |
H82 |
H83 |
245.9 |
240.0 |
| C5 |
C8 |
H83 |
H81 |
132.0 |
119.9 |
| C5 |
C8 |
H83 |
H82 |
246.1 |
240.0 |
| H81 |
C8 |
H83 |
H82 |
114.0 |
120.0 |
| C6 |
C9 |
H91 |
H92 |
125.2 |
120.0 |
| C6 |
C9 |
H91 |
H93 |
234.7 |
240.0 |
| H92 |
C9 |
H91 |
H93 |
109.5 |
120.0 |
| C6 |
C9 |
H92 |
H91 |
228.6 |
240.0 |
| C6 |
C9 |
H92 |
H93 |
114.3 |
120.1 |
| H91 |
C9 |
H92 |
H93 |
245.7 |
240.1 |
| C6 |
C9 |
H93 |
H91 |
131.4 |
120.0 |
| C6 |
C9 |
H93 |
H92 |
245.7 |
239.9 |
| H91 |
C9 |
H93 |
H92 |
114.3 |
119.9 |