PDB Chemical Component D4P
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 D4P
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
N |
CA |
1.463 |
1.473 |
N |
H |
1.020 |
0.990 |
N |
H2 |
1.020 |
0.992 |
CA |
C |
1.505 |
1.528 |
CA |
C1 |
1.501 |
1.492 |
CA |
HA |
1.115 |
1.106 |
C |
O |
1.254 |
1.224 |
C |
OXT |
|
1.361 |
C1 |
C2 |
1.382 |
1.394 |
C1 |
C6 |
1.372 |
1.395 |
C2 |
C3 |
1.377 |
1.395 |
C2 |
H1 |
1.103 |
1.087 |
C3 |
C4 |
1.363 |
1.395 |
C3 |
H3 |
1.103 |
1.087 |
C4 |
O4 |
1.359 |
1.361 |
C4 |
C5 |
1.385 |
1.395 |
O4 |
H4 |
0.950 |
0.971 |
C5 |
C6 |
1.386 |
1.395 |
C5 |
H5 |
1.103 |
1.087 |
C6 |
H6 |
1.103 |
1.087 |
OXT |
HXT |
|
0.981 |
Bond Angles for D4P
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
CA |
N |
H |
118.5 |
117.4 |
CA |
N |
H2 |
118.5 |
117.4 |
N |
CA |
C |
110.0 |
107.9 |
N |
CA |
C1 |
115.0 |
113.0 |
N |
CA |
HA |
108.1 |
107.3 |
H |
N |
H2 |
91.8 |
123.7 |
C |
CA |
C1 |
107.4 |
111.9 |
C |
CA |
HA |
108.1 |
106.2 |
CA |
C |
O |
120.7 |
124.8 |
CA |
C |
OXT |
|
112.9 |
C1 |
CA |
HA |
108.1 |
110.2 |
CA |
C1 |
C2 |
119.9 |
120.0 |
CA |
C1 |
C6 |
118.9 |
120.0 |
O |
C |
OXT |
|
122.2 |
C |
OXT |
HXT |
|
115.1 |
C2 |
C1 |
C6 |
121.1 |
120.0 |
C1 |
C2 |
C3 |
122.0 |
120.0 |
C1 |
C2 |
H1 |
119.0 |
120.5 |
C1 |
C6 |
C5 |
116.4 |
120.0 |
C1 |
C6 |
H6 |
121.8 |
120.6 |
C3 |
C2 |
H1 |
119.0 |
119.5 |
C2 |
C3 |
C4 |
117.3 |
120.0 |
C2 |
C3 |
H3 |
121.4 |
119.7 |
C4 |
C3 |
H3 |
121.4 |
120.3 |
C3 |
C4 |
O4 |
119.9 |
120.0 |
C3 |
C4 |
C5 |
120.9 |
120.0 |
O4 |
C4 |
C5 |
119.1 |
120.0 |
C4 |
O4 |
H4 |
119.9 |
110.3 |
C4 |
C5 |
C6 |
122.1 |
120.0 |
C4 |
C5 |
H5 |
118.9 |
120.3 |
C6 |
C5 |
H5 |
118.9 |
119.6 |
C5 |
C6 |
H6 |
121.8 |
119.5 |
Torsion Angles for D4P
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
H |
N |
CA |
H2 |
109.5 |
166.6 |
C |
CA |
N |
C1 |
121.4 |
124.2 |
C |
CA |
N |
HA |
242.2 |
245.9 |
N |
CA |
C |
O |
315.5 |
354.8 |
N |
CA |
C |
OXT |
|
176.1 |
C1 |
CA |
N |
HA |
120.8 |
121.7 |
N |
CA |
C1 |
C2 |
197.9 |
240.0 |
N |
CA |
C1 |
C6 |
19.1 |
60.0 |
CA |
N |
H |
H2 |
236.0 |
194.4 |
H |
N |
CA |
C |
93.8 |
160.2 |
H |
N |
CA |
C1 |
332.4 |
36.0 |
H |
N |
CA |
HA |
211.5 |
274.3 |
CA |
N |
H2 |
H |
124.0 |
165.7 |
H2 |
N |
CA |
C |
344.3 |
353.7 |
H2 |
N |
CA |
C1 |
222.9 |
229.4 |
H2 |
N |
CA |
HA |
102.0 |
107.7 |
C |
CA |
N |
H |
93.8 |
160.2 |
C |
CA |
N |
H2 |
344.3 |
353.7 |
N |
CA |
C |
C1 |
234.1 |
235.1 |
N |
CA |
C |
HA |
117.8 |
114.8 |
C1 |
CA |
C |
HA |
243.6 |
239.7 |
C |
CA |
C1 |
C2 |
75.1 |
117.9 |
C |
CA |
C1 |
C6 |
256.3 |
297.9 |
O |
C |
CA |
OXT |
|
178.7 |
CA |
C |
OXT |
HXT |
|
178.8 |
C1 |
CA |
N |
H |
332.4 |
36.0 |
C1 |
CA |
N |
H2 |
222.9 |
229.4 |
N |
CA |
C1 |
C |
122.8 |
122.0 |
N |
CA |
C1 |
HA |
239.2 |
239.9 |
C |
CA |
C1 |
HA |
116.3 |
117.9 |
C1 |
CA |
C |
O |
81.4 |
119.7 |
C1 |
CA |
C |
OXT |
|
301.0 |
C2 |
C1 |
CA |
C6 |
178.8 |
180.0 |
CA |
C1 |
C2 |
C3 |
180.0 |
180.0 |
CA |
C1 |
C2 |
H1 |
360.0 |
0.1 |
CA |
C1 |
C6 |
C5 |
182.5 |
180.0 |
CA |
C1 |
C6 |
H6 |
2.5 |
0.0 |
HA |
CA |
N |
H |
211.5 |
274.3 |
HA |
CA |
N |
H2 |
102.0 |
107.7 |
N |
CA |
HA |
C |
241.0 |
244.8 |
N |
CA |
HA |
C1 |
125.1 |
123.4 |
C |
CA |
HA |
C1 |
244.1 |
238.6 |
HA |
CA |
C |
O |
197.7 |
240.0 |
HA |
CA |
C |
OXT |
|
61.3 |
HA |
CA |
C1 |
C2 |
318.7 |
0.0 |
HA |
CA |
C1 |
C6 |
140.0 |
180.0 |
O |
C |
CA |
C1 |
81.4 |
119.7 |
O |
C |
CA |
HA |
197.7 |
240.0 |
CA |
C |
O |
OXT |
|
181.4 |
O |
C |
OXT |
HXT |
|
360.0 |
OXT |
C |
CA |
C1 |
|
301.0 |
OXT |
C |
CA |
HA |
|
61.3 |
CA |
C |
OXT |
O |
|
178.8 |
C2 |
C1 |
CA |
HA |
318.7 |
0.0 |
CA |
C1 |
C2 |
C6 |
181.3 |
180.0 |
C2 |
C1 |
C6 |
C5 |
3.7 |
360.0 |
C2 |
C1 |
C6 |
H6 |
183.7 |
180.0 |
C3 |
C2 |
C1 |
H1 |
180.0 |
180.0 |
C1 |
C2 |
C3 |
C4 |
359.3 |
360.0 |
C1 |
C2 |
C3 |
H3 |
179.3 |
180.0 |
C6 |
C1 |
CA |
HA |
140.0 |
180.0 |
CA |
C1 |
C6 |
C2 |
178.8 |
180.0 |
C6 |
C1 |
C2 |
C3 |
358.7 |
0.0 |
C6 |
C1 |
C2 |
H1 |
178.7 |
180.1 |
C4 |
C5 |
C6 |
C1 |
355.5 |
0.0 |
C1 |
C6 |
C5 |
H5 |
175.5 |
180.1 |
C5 |
C6 |
C1 |
H6 |
180.0 |
180.0 |
C3 |
C2 |
C1 |
C6 |
358.7 |
0.0 |
C1 |
C2 |
C3 |
H1 |
180.0 |
180.0 |
C4 |
C3 |
C2 |
H3 |
180.0 |
180.0 |
C2 |
C3 |
C4 |
O4 |
178.5 |
179.9 |
C2 |
C3 |
C4 |
C5 |
360.0 |
0.0 |
H1 |
C2 |
C1 |
C6 |
178.7 |
180.1 |
C1 |
C2 |
H1 |
C3 |
180.0 |
180.0 |
H1 |
C2 |
C3 |
C4 |
179.3 |
179.9 |
H1 |
C2 |
C3 |
H3 |
359.3 |
360.0 |
C4 |
C3 |
C2 |
H1 |
179.3 |
179.9 |
C2 |
C3 |
C4 |
H3 |
180.0 |
180.0 |
O4 |
C4 |
C3 |
C5 |
178.6 |
179.9 |
C3 |
C4 |
O4 |
H4 |
180.0 |
347.9 |
C3 |
C4 |
C5 |
C6 |
2.7 |
360.0 |
C3 |
C4 |
C5 |
H5 |
182.7 |
179.9 |
H3 |
C3 |
C2 |
H1 |
359.3 |
360.0 |
C2 |
C3 |
H3 |
C4 |
180.0 |
180.0 |
H3 |
C3 |
C4 |
O4 |
358.6 |
359.9 |
H3 |
C3 |
C4 |
C5 |
180.0 |
180.0 |
O4 |
C4 |
C3 |
H3 |
358.6 |
359.9 |
C3 |
C4 |
O4 |
C5 |
181.4 |
180.1 |
O4 |
C4 |
C5 |
C6 |
184.1 |
180.1 |
O4 |
C4 |
C5 |
H5 |
4.1 |
0.0 |
C1 |
C6 |
C5 |
C4 |
355.5 |
0.0 |
C5 |
C4 |
C3 |
H3 |
180.0 |
180.0 |
C3 |
C4 |
C5 |
O4 |
178.6 |
179.9 |
C5 |
C4 |
O4 |
H4 |
358.6 |
167.7 |
C6 |
C5 |
C4 |
H5 |
180.0 |
180.1 |
C4 |
C5 |
C6 |
H6 |
175.5 |
180.0 |
H4 |
O4 |
C4 |
C5 |
358.6 |
167.7 |
C1 |
C6 |
C5 |
H6 |
180.0 |
180.0 |
C4 |
C5 |
C6 |
H5 |
180.0 |
179.9 |
C4 |
C5 |
H5 |
C6 |
180.0 |
180.1 |
H5 |
C5 |
C6 |
H6 |
355.6 |
0.0 |
C1 |
C6 |
H6 |
C5 |
180.0 |
180.0 |
H6 |
C6 |
C5 |
H5 |
355.6 |
0.0 |