PDB Chemical Component D53
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 D53
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| CAD |
CAF |
1.404 |
1.382 |
| CAD |
CAE |
1.404 |
1.382 |
| CAF |
CAH |
1.398 |
1.383 |
| CAE |
CAG |
1.397 |
1.382 |
| CAH |
CAM |
1.408 |
1.383 |
| CAG |
CAM |
1.398 |
1.382 |
| CAM |
CAK |
1.522 |
1.507 |
| CAK |
NAL |
1.465 |
1.468 |
| NAL |
CAI |
1.472 |
1.469 |
| CAI |
CAJ |
1.528 |
1.530 |
| CAJ |
SAN |
1.799 |
1.814 |
| OAB |
SAN |
1.469 |
1.421 |
| SAN |
OAA |
1.506 |
1.421 |
| SAN |
OAC |
1.473 |
1.522 |
| CAD |
H1 |
1.080 |
1.080 |
| CAE |
H2 |
1.080 |
1.080 |
| CAF |
H3 |
1.080 |
1.080 |
| CAG |
H4 |
1.080 |
1.080 |
| CAH |
H5 |
1.080 |
1.080 |
| CAI |
H6 |
1.100 |
1.090 |
| CAI |
H7 |
1.100 |
1.090 |
| CAJ |
H8 |
1.100 |
1.090 |
| CAJ |
H9 |
1.100 |
1.090 |
| CAK |
H10 |
1.100 |
1.090 |
| CAK |
H11 |
1.100 |
1.090 |
| NAL |
H12 |
1.000 |
1.009 |
| OAC |
H13 |
0.950 |
0.967 |
Bond Angles for D53
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| CAE |
CAD |
CAF |
121.0 |
120.0 |
| CAD |
CAF |
CAH |
119.3 |
120.0 |
| CAF |
CAD |
H1 |
119.5 |
119.9 |
| CAD |
CAF |
H3 |
120.4 |
120.0 |
| CAD |
CAE |
CAG |
119.6 |
120.0 |
| CAE |
CAD |
H1 |
119.5 |
120.0 |
| CAD |
CAE |
H2 |
120.2 |
120.0 |
| CAF |
CAH |
CAM |
119.7 |
120.0 |
| CAH |
CAF |
H3 |
120.4 |
120.0 |
| CAF |
CAH |
H5 |
120.1 |
120.0 |
| CAE |
CAG |
CAM |
119.6 |
120.0 |
| CAG |
CAE |
H2 |
120.2 |
120.0 |
| CAE |
CAG |
H4 |
120.2 |
120.0 |
| CAG |
CAM |
CAH |
120.8 |
120.0 |
| CAH |
CAM |
CAK |
119.2 |
120.0 |
| CAM |
CAH |
H5 |
120.2 |
120.0 |
| CAG |
CAM |
CAK |
119.9 |
120.0 |
| CAM |
CAG |
H4 |
120.2 |
120.0 |
| CAM |
CAK |
NAL |
113.4 |
109.5 |
| CAM |
CAK |
H10 |
108.5 |
109.5 |
| CAM |
CAK |
H11 |
108.5 |
109.4 |
| NAL |
CAK |
H10 |
108.5 |
109.5 |
| NAL |
CAK |
H11 |
108.5 |
109.5 |
| CAK |
NAL |
H12 |
109.5 |
111.0 |
| NAL |
CAI |
H6 |
108.2 |
109.5 |
| NAL |
CAI |
H7 |
108.2 |
109.5 |
| CAI |
CAJ |
SAN |
117.5 |
109.4 |
| CAJ |
CAI |
H6 |
108.2 |
109.4 |
| CAJ |
CAI |
H7 |
108.2 |
109.5 |
| CAI |
CAJ |
H8 |
107.4 |
109.5 |
| CAI |
CAJ |
H9 |
107.5 |
109.4 |
| CAJ |
SAN |
OAB |
108.4 |
110.6 |
| CAJ |
SAN |
OAA |
107.7 |
110.5 |
| CAJ |
SAN |
OAC |
111.2 |
104.4 |
| SAN |
CAJ |
H8 |
107.4 |
109.5 |
| SAN |
CAJ |
H9 |
107.4 |
109.5 |
| OAB |
SAN |
OAC |
111.4 |
104.3 |
| SAN |
OAC |
H13 |
109.5 |
114.0 |
| H6 |
CAI |
H7 |
109.4 |
109.5 |
| H8 |
CAJ |
H9 |
109.5 |
109.5 |
| H10 |
CAK |
H11 |
109.5 |
109.5 |
Torsion Angles for D53
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| CAF |
CAD |
CAE |
CAG |
0.2 |
0.0 |
| CAE |
CAD |
CAF |
H1 |
180.0 |
179.7 |
| CAF |
CAD |
CAE |
H2 |
180.2 |
179.9 |
| CAD |
CAF |
CAH |
CAM |
359.5 |
0.0 |
| CAH |
CAF |
CAD |
H3 |
180.0 |
180.1 |
| CAD |
CAF |
CAH |
H5 |
179.4 |
179.9 |
| CAE |
CAD |
CAF |
CAH |
359.6 |
360.0 |
| CAF |
CAD |
CAE |
H1 |
180.0 |
180.3 |
| CAE |
CAD |
CAF |
H3 |
179.6 |
179.9 |
| CAD |
CAE |
CAG |
CAM |
0.9 |
359.9 |
| CAG |
CAE |
CAD |
H2 |
180.0 |
180.1 |
| CAD |
CAE |
CAG |
H4 |
180.9 |
179.9 |
| CAH |
CAF |
CAD |
H1 |
179.6 |
180.3 |
| CAD |
CAF |
CAH |
H3 |
180.0 |
179.9 |
| CAG |
CAM |
CAH |
CAF |
1.7 |
360.0 |
| CAF |
CAH |
CAM |
CAK |
179.0 |
180.1 |
| CAM |
CAH |
CAF |
H5 |
180.0 |
180.1 |
| CAG |
CAE |
CAD |
CAF |
0.2 |
0.0 |
| CAG |
CAE |
CAD |
H1 |
180.2 |
179.7 |
| CAD |
CAE |
CAG |
H2 |
180.0 |
179.9 |
| CAE |
CAG |
CAM |
CAH |
358.1 |
0.1 |
| CAE |
CAG |
CAM |
CAK |
180.8 |
180.0 |
| CAM |
CAG |
CAE |
H4 |
180.0 |
180.0 |
| CAM |
CAH |
CAF |
H3 |
179.5 |
180.1 |
| CAF |
CAH |
CAM |
H5 |
180.0 |
179.9 |
| CAG |
CAM |
CAH |
CAK |
182.7 |
179.9 |
| CAH |
CAM |
CAG |
H4 |
178.2 |
180.1 |
| CAH |
CAM |
CAK |
NAL |
279.6 |
269.9 |
| CAH |
CAM |
CAK |
H10 |
40.2 |
29.9 |
| CAH |
CAM |
CAK |
H11 |
159.0 |
149.9 |
| CAF |
CAH |
CAM |
CAG |
1.7 |
360.0 |
| CAM |
CAG |
CAE |
H2 |
180.9 |
180.1 |
| CAE |
CAG |
CAM |
H4 |
180.0 |
180.0 |
| CAH |
CAM |
CAG |
CAK |
177.3 |
180.1 |
| CAG |
CAM |
CAH |
H5 |
181.7 |
180.1 |
| CAG |
CAM |
CAK |
NAL |
97.0 |
90.0 |
| CAG |
CAM |
CAK |
H10 |
217.6 |
210.0 |
| CAG |
CAM |
CAK |
H11 |
336.4 |
330.0 |
| CAG |
CAM |
CAK |
CAH |
177.3 |
180.1 |
| CAK |
CAM |
CAH |
H5 |
359.0 |
0.2 |
| CAK |
CAM |
CAG |
H4 |
0.9 |
360.0 |
| NAL |
CAK |
CAM |
H10 |
239.4 |
240.0 |
| NAL |
CAK |
CAM |
H11 |
120.6 |
120.0 |
| CAM |
CAK |
NAL |
H12 |
291.2 |
304.0 |
| H10 |
CAK |
CAM |
H11 |
241.2 |
240.0 |
| CAM |
CAK |
NAL |
H10 |
120.6 |
120.0 |
| CAM |
CAK |
NAL |
H11 |
239.4 |
240.1 |
| CAK |
NAL |
CAI |
H6 |
306.0 |
60.0 |
| CAK |
NAL |
CAI |
H7 |
64.4 |
300.0 |
| H10 |
CAK |
NAL |
H11 |
118.8 |
120.0 |
| NAL |
CAI |
CAJ |
SAN |
153.1 |
180.0 |
| CAJ |
CAI |
NAL |
H6 |
239.2 |
120.0 |
| CAJ |
CAI |
NAL |
H7 |
120.8 |
240.0 |
| NAL |
CAI |
CAJ |
H8 |
274.2 |
300.0 |
| NAL |
CAI |
CAJ |
H9 |
31.9 |
60.0 |
| H6 |
CAI |
NAL |
H7 |
241.5 |
120.0 |
| NAL |
CAI |
CAJ |
H6 |
120.8 |
240.0 |
| NAL |
CAI |
CAJ |
H7 |
239.2 |
120.0 |
| CAI |
CAJ |
SAN |
OAB |
295.8 |
68.4 |
| CAI |
CAJ |
SAN |
OAA |
178.4 |
291.6 |
| CAI |
CAJ |
SAN |
OAC |
58.6 |
180.0 |
| SAN |
CAJ |
CAI |
H8 |
238.9 |
240.0 |
| SAN |
CAJ |
CAI |
H9 |
121.2 |
120.0 |
| H6 |
CAI |
CAJ |
H7 |
118.5 |
240.0 |
| H8 |
CAJ |
CAI |
H9 |
242.3 |
240.0 |
| SAN |
CAJ |
CAI |
H6 |
32.3 |
300.0 |
| SAN |
CAJ |
CAI |
H7 |
273.9 |
60.0 |
| CAI |
CAJ |
SAN |
H8 |
121.1 |
120.0 |
| CAI |
CAJ |
SAN |
H9 |
238.8 |
240.0 |
| OAB |
SAN |
CAJ |
OAC |
237.2 |
248.3 |
| CAJ |
SAN |
OAC |
H13 |
238.9 |
180.0 |
| H8 |
CAJ |
SAN |
H9 |
117.7 |
120.0 |
| CAJ |
SAN |
OAB |
OAA |
243.2 |
228.4 |
| CAJ |
SAN |
OAB |
OAC |
122.7 |
111.7 |
| OAB |
SAN |
CAJ |
H8 |
174.7 |
308.4 |
| OAB |
SAN |
CAJ |
H9 |
57.0 |
188.4 |
| OAB |
SAN |
OAC |
H13 |
0.0 |
296.1 |
| CAJ |
SAN |
OAA |
OAB |
117.3 |
131.6 |
| CAJ |
SAN |
OAA |
OAC |
239.1 |
248.3 |
| OAA |
SAN |
CAJ |
H8 |
57.3 |
171.6 |
| OAA |
SAN |
CAJ |
H9 |
299.6 |
51.6 |
| CAJ |
SAN |
OAC |
OAB |
238.9 |
243.9 |
| CAJ |
SAN |
OAC |
OAA |
118.8 |
116.0 |
| OAC |
SAN |
CAJ |
H8 |
297.5 |
60.1 |
| OAC |
SAN |
CAJ |
H9 |
179.8 |
300.0 |
| CAE |
CAD |
H1 |
CAF |
180.0 |
180.3 |
| H1 |
CAD |
CAF |
CAH |
179.6 |
180.3 |
| H1 |
CAD |
CAF |
H3 |
359.6 |
0.2 |
| H1 |
CAD |
CAE |
CAG |
180.2 |
179.7 |
| H1 |
CAD |
CAE |
H2 |
0.2 |
359.6 |
| H2 |
CAE |
CAD |
CAF |
180.2 |
179.9 |
| CAD |
CAE |
H2 |
CAG |
180.0 |
180.1 |
| H2 |
CAE |
CAD |
H1 |
0.2 |
359.6 |
| H2 |
CAE |
CAG |
CAM |
180.9 |
180.1 |
| H2 |
CAE |
CAG |
H4 |
0.9 |
0.0 |
| CAD |
CAF |
H3 |
CAH |
180.0 |
180.1 |
| H3 |
CAF |
CAD |
H1 |
359.6 |
0.2 |
| H3 |
CAF |
CAH |
CAM |
179.5 |
180.1 |
| H3 |
CAF |
CAH |
H5 |
359.4 |
360.0 |
| CAE |
CAG |
H4 |
CAM |
180.0 |
180.0 |
| H4 |
CAG |
CAE |
H2 |
0.9 |
0.0 |
| H4 |
CAG |
CAM |
CAH |
178.2 |
180.1 |
| H4 |
CAG |
CAM |
CAK |
0.9 |
360.0 |
| CAF |
CAH |
H5 |
CAM |
180.0 |
180.1 |
| H5 |
CAH |
CAF |
H3 |
359.4 |
360.0 |
| H5 |
CAH |
CAM |
CAK |
359.0 |
0.2 |
| NAL |
CAI |
H6 |
H7 |
117.7 |
240.0 |
| H6 |
CAI |
CAJ |
SAN |
32.3 |
300.0 |
| CAJ |
CAI |
H6 |
H7 |
242.3 |
120.0 |
| H6 |
CAI |
CAJ |
H8 |
153.5 |
60.0 |
| H6 |
CAI |
CAJ |
H9 |
271.2 |
180.0 |
| NAL |
CAI |
H7 |
H6 |
242.3 |
120.0 |
| H7 |
CAI |
CAJ |
SAN |
273.9 |
60.0 |
| CAJ |
CAI |
H7 |
H6 |
117.7 |
240.0 |
| H7 |
CAI |
CAJ |
H8 |
35.0 |
180.0 |
| H7 |
CAI |
CAJ |
H9 |
152.7 |
300.0 |
| CAI |
CAJ |
H8 |
SAN |
232.7 |
240.0 |
| H8 |
CAJ |
CAI |
H6 |
153.5 |
60.0 |
| H8 |
CAJ |
CAI |
H7 |
35.0 |
180.0 |
| CAI |
CAJ |
H8 |
H9 |
116.4 |
120.0 |
| H8 |
CAJ |
SAN |
OAB |
174.7 |
308.4 |
| H8 |
CAJ |
SAN |
OAA |
57.3 |
171.6 |
| H8 |
CAJ |
SAN |
OAC |
297.5 |
60.1 |
| SAN |
CAJ |
H8 |
H9 |
243.6 |
240.0 |
| CAI |
CAJ |
H9 |
SAN |
127.3 |
120.0 |
| H9 |
CAJ |
CAI |
H6 |
271.2 |
180.0 |
| H9 |
CAJ |
CAI |
H7 |
152.7 |
300.0 |
| CAI |
CAJ |
H9 |
H8 |
243.6 |
240.0 |
| H9 |
CAJ |
SAN |
OAB |
57.0 |
188.4 |
| H9 |
CAJ |
SAN |
OAA |
299.6 |
51.6 |
| H9 |
CAJ |
SAN |
OAC |
179.8 |
300.0 |
| SAN |
CAJ |
H9 |
H8 |
116.4 |
120.0 |
| CAM |
CAK |
H10 |
NAL |
236.4 |
240.0 |
| CAM |
CAK |
H10 |
H11 |
118.2 |
120.0 |
| NAL |
CAK |
H10 |
H11 |
241.8 |
240.0 |
| H10 |
CAK |
NAL |
H12 |
170.6 |
183.9 |
| CAM |
CAK |
H11 |
NAL |
123.6 |
120.0 |
| CAM |
CAK |
H11 |
H10 |
241.8 |
240.0 |
| NAL |
CAK |
H11 |
H10 |
118.2 |
120.0 |
| H11 |
CAK |
NAL |
H12 |
51.8 |
63.9 |
| H12 |
NAL |
CAK |
H10 |
170.6 |
183.9 |
| H12 |
NAL |
CAK |
H11 |
51.8 |
63.9 |
| H12 |
NAL |
CAI |
H6 |
186.0 |
296.1 |
| H12 |
NAL |
CAI |
H7 |
304.4 |
176.0 |