PDB Chemical Component 2DK
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 2DK
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| OAQ |
CAA |
1.458 |
1.429 |
| OAQ |
CAU |
1.374 |
1.360 |
| CAG |
CAU |
1.443 |
1.394 |
| CAG |
CAH |
1.349 |
1.377 |
| CAU |
CAI |
1.458 |
1.378 |
| CAH |
CAX |
1.381 |
1.392 |
| CAI |
CAW |
1.373 |
1.401 |
| CAX |
CAW |
1.376 |
1.409 |
| CAX |
N |
1.387 |
1.377 |
| CAW |
CAJ |
1.386 |
1.417 |
| N |
CA |
1.478 |
1.465 |
| N |
CAV |
1.374 |
1.381 |
| CA |
C |
1.502 |
1.507 |
| OXT |
C |
1.230 |
1.208 |
| C |
O |
1.258 |
1.342 |
| CAJ |
CAV |
1.371 |
1.359 |
| CAV |
CAT |
1.414 |
1.470 |
| CAT |
NAP |
1.388 |
1.348 |
| CAT |
OAC |
1.246 |
1.216 |
| NAP |
SBA |
1.690 |
1.656 |
| CAM |
NAY |
1.465 |
1.471 |
| CAM |
CAK |
1.508 |
1.533 |
| CAN |
NAY |
1.500 |
1.472 |
| CAN |
CAL |
1.530 |
1.529 |
| OAR |
CAL |
1.504 |
1.430 |
| OAR |
CAK |
1.467 |
1.430 |
| SBA |
NAY |
1.627 |
1.657 |
| SBA |
OAD |
1.527 |
1.421 |
| SBA |
OAE |
1.535 |
1.421 |
| O |
H1 |
0.950 |
0.967 |
| CA |
H2 |
1.100 |
1.089 |
| CA |
H3 |
1.100 |
1.090 |
| CAH |
H4 |
1.080 |
1.079 |
| CAG |
H5 |
1.080 |
1.080 |
| CAA |
H6 |
1.100 |
1.090 |
| CAA |
H7 |
1.100 |
1.090 |
| CAA |
H8 |
1.100 |
1.090 |
| CAI |
H9 |
1.080 |
1.080 |
| CAJ |
H10 |
1.080 |
1.080 |
| NAP |
H11 |
1.000 |
0.970 |
| CAM |
H12 |
1.100 |
1.090 |
| CAM |
H13 |
1.100 |
1.090 |
| CAK |
H14 |
1.100 |
1.090 |
| CAK |
H15 |
1.100 |
1.090 |
| CAL |
H16 |
1.099 |
1.090 |
| CAL |
H17 |
1.100 |
1.089 |
| CAN |
H18 |
1.100 |
1.090 |
| CAN |
H19 |
1.100 |
1.089 |
Bond Angles for 2DK
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| OAQ |
CAA |
H6 |
109.5 |
109.5 |
| OAQ |
CAA |
H7 |
109.4 |
109.5 |
| OAQ |
CAA |
H8 |
109.5 |
109.5 |
| OAQ |
CAU |
CAI |
124.6 |
119.8 |
| CAG |
CAU |
CAI |
116.7 |
120.4 |
| CAU |
CAG |
H5 |
119.7 |
119.7 |
| CAG |
CAH |
H4 |
119.2 |
120.0 |
| CAU |
CAI |
CAW |
118.5 |
119.6 |
| CAU |
CAI |
H9 |
120.7 |
120.2 |
| CAH |
CAX |
CAW |
119.6 |
119.6 |
| CAX |
CAW |
CAI |
122.3 |
119.8 |
| CAI |
CAW |
CAJ |
133.0 |
133.3 |
| CAW |
CAI |
H9 |
120.8 |
120.2 |
| CAX |
CAW |
CAJ |
104.6 |
107.0 |
| CAX |
N |
CAV |
108.3 |
108.8 |
| CAW |
CAJ |
CAV |
111.4 |
107.7 |
| CAW |
CAJ |
H10 |
124.3 |
126.1 |
| N |
CA |
H2 |
106.5 |
109.5 |
| N |
CA |
H3 |
106.5 |
109.5 |
| N |
CAV |
CAJ |
105.9 |
109.1 |
| N |
CAV |
CAT |
130.1 |
125.4 |
| C |
O |
H1 |
109.5 |
117.0 |
| CAJ |
CAV |
CAT |
123.2 |
125.4 |
| CAV |
CAJ |
H10 |
124.3 |
126.1 |
| CAV |
CAT |
NAP |
118.8 |
120.0 |
| CAV |
CAT |
OAC |
120.7 |
120.0 |
| OAC |
CAT |
NAP |
115.8 |
120.0 |
| CAT |
NAP |
SBA |
120.3 |
120.0 |
| CAT |
NAP |
H11 |
119.8 |
120.0 |
| NAP |
SBA |
NAY |
109.4 |
107.2 |
| NAP |
SBA |
OAD |
111.7 |
106.4 |
| NAP |
SBA |
OAE |
112.8 |
106.4 |
| SBA |
NAP |
H11 |
119.8 |
120.1 |
| CAK |
CAM |
H12 |
110.4 |
109.7 |
| CAK |
CAM |
H13 |
110.4 |
109.7 |
| CAM |
CAK |
H14 |
111.2 |
109.5 |
| CAM |
CAK |
H15 |
111.2 |
109.5 |
| CAN |
CAL |
H16 |
109.6 |
109.6 |
| CAN |
CAL |
H17 |
109.6 |
109.4 |
| OAR |
CAL |
H16 |
109.6 |
109.5 |
| OAR |
CAL |
H17 |
109.6 |
109.5 |
| OAR |
CAK |
H14 |
111.2 |
109.5 |
| OAR |
CAK |
H15 |
111.2 |
109.6 |
| OAD |
SBA |
NAY |
110.9 |
106.4 |
| OAE |
SBA |
NAY |
107.8 |
106.4 |
| OAD |
SBA |
OAE |
104.2 |
123.2 |
| H2 |
CA |
H3 |
109.4 |
109.5 |
| H6 |
CAA |
H7 |
109.5 |
109.4 |
| H6 |
CAA |
H8 |
109.5 |
109.5 |
| H7 |
CAA |
H8 |
109.5 |
109.4 |
| H12 |
CAM |
H13 |
109.5 |
109.7 |
| H14 |
CAK |
H15 |
109.5 |
109.5 |
| H16 |
CAL |
H17 |
109.5 |
109.6 |
| H18 |
CAN |
H19 |
109.5 |
109.7 |
Torsion Angles for 2DK
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| CAA |
OAQ |
CAU |
CAI |
330.5 |
180.0 |
| H6 |
CAA |
OAQ |
H7 |
240.0 |
240.0 |
| H6 |
CAA |
OAQ |
H8 |
120.0 |
120.0 |
| H7 |
CAA |
OAQ |
H8 |
240.0 |
240.0 |
| CAG |
CAU |
OAQ |
CAI |
183.6 |
180.0 |
| OAQ |
CAU |
CAG |
H5 |
4.6 |
0.0 |
| OAQ |
CAU |
CAI |
CAW |
175.1 |
180.1 |
| OAQ |
CAU |
CAI |
H9 |
355.1 |
0.0 |
| OAQ |
CAU |
CAG |
CAI |
176.7 |
180.0 |
| CAU |
CAG |
CAH |
H4 |
177.6 |
180.0 |
| CAG |
CAU |
CAI |
CAW |
351.6 |
0.1 |
| CAG |
CAU |
CAI |
H9 |
171.5 |
180.0 |
| CAG |
CAH |
CAX |
CAW |
357.3 |
360.0 |
| CAI |
CAU |
CAG |
H5 |
187.9 |
180.0 |
| CAX |
CAW |
CAI |
CAU |
3.8 |
360.0 |
| CAU |
CAI |
CAW |
CAJ |
185.9 |
179.9 |
| CAW |
CAI |
CAU |
H9 |
180.0 |
180.0 |
| CAH |
CAX |
CAW |
CAI |
1.9 |
0.0 |
| CAH |
CAX |
CAW |
CAJ |
180.3 |
180.0 |
| CAH |
CAX |
N |
CAV |
177.0 |
180.2 |
| CAU |
CAI |
CAW |
H9 |
180.0 |
180.0 |
| CAX |
CAW |
CAI |
CAJ |
177.9 |
180.0 |
| CAI |
CAW |
CAJ |
CAV |
183.5 |
179.8 |
| CAI |
CAW |
CAJ |
H10 |
3.6 |
360.0 |
| CAU |
CAI |
CAW |
CAX |
3.8 |
360.0 |
| CAI |
CAW |
CAX |
CAJ |
181.6 |
180.0 |
| CAX |
CAW |
CAI |
H9 |
183.8 |
180.0 |
| CAW |
CAX |
N |
CAV |
3.3 |
0.3 |
| CAX |
CAW |
CAJ |
CAV |
5.4 |
359.8 |
| CAX |
CAW |
CAJ |
H10 |
185.4 |
180.0 |
| CAX |
N |
CA |
H2 |
224.9 |
145.3 |
| CAX |
N |
CA |
H3 |
341.6 |
25.2 |
| CAX |
N |
CAV |
CAJ |
0.1 |
359.5 |
| CAX |
N |
CAV |
CAT |
170.1 |
179.7 |
| CAX |
CAW |
CAJ |
CAI |
181.8 |
180.0 |
| CAJ |
CAW |
CAI |
H9 |
5.9 |
360.0 |
| N |
CAV |
CAJ |
CAW |
356.5 |
0.4 |
| CAW |
CAJ |
CAV |
CAT |
185.7 |
180.3 |
| CAV |
CAJ |
CAW |
H10 |
180.0 |
179.8 |
| H2 |
CA |
N |
H3 |
243.3 |
120.0 |
| CAW |
CAJ |
CAV |
N |
356.5 |
0.4 |
| CAV |
N |
CA |
H2 |
32.8 |
324.9 |
| CAV |
N |
CA |
H3 |
149.5 |
204.9 |
| CAJ |
CAV |
N |
CAT |
190.0 |
179.9 |
| N |
CAV |
CAJ |
H10 |
176.5 |
180.2 |
| N |
CAV |
CAT |
NAP |
349.4 |
184.8 |
| N |
CAV |
CAT |
OAC |
194.8 |
4.8 |
| CA |
C |
O |
H1 |
185.0 |
180.0 |
| OXT |
C |
O |
H1 |
0.0 |
360.0 |
| CAW |
CAJ |
CAV |
H10 |
180.0 |
180.2 |
| N |
CAV |
CAJ |
CAT |
170.8 |
180.1 |
| CAJ |
CAV |
CAT |
NAP |
157.9 |
5.0 |
| CAJ |
CAV |
CAT |
OAC |
3.2 |
185.0 |
| N |
CAV |
CAT |
CAJ |
191.5 |
179.8 |
| CAT |
CAV |
CAJ |
H10 |
5.7 |
0.1 |
| OAC |
CAT |
CAV |
NAP |
205.3 |
180.0 |
| CAV |
CAT |
NAP |
SBA |
190.7 |
185.1 |
| CAV |
CAT |
NAP |
H11 |
10.7 |
5.1 |
| CAV |
CAT |
NAP |
OAC |
204.1 |
180.0 |
| CAT |
NAP |
SBA |
NAY |
186.8 |
65.0 |
| CAT |
NAP |
SBA |
OAD |
63.7 |
178.5 |
| CAT |
NAP |
SBA |
OAE |
306.8 |
311.5 |
| SBA |
NAP |
CAT |
H11 |
180.0 |
180.0 |
| CAV |
CAT |
OAC |
NAP |
155.4 |
180.0 |
| OAC |
CAT |
NAP |
SBA |
346.6 |
5.1 |
| OAC |
CAT |
NAP |
H11 |
166.5 |
185.1 |
| CAT |
NAP |
SBA |
H11 |
180.0 |
180.0 |
| OAD |
SBA |
NAP |
NAY |
236.8 |
113.5 |
| OAE |
SBA |
NAP |
NAY |
119.9 |
246.4 |
| OAD |
SBA |
NAP |
OAE |
116.9 |
227.1 |
| OAR |
CAK |
CAM |
H14 |
241.1 |
240.1 |
| OAR |
CAK |
CAM |
H15 |
118.9 |
120.0 |
| H12 |
CAM |
CAK |
H13 |
121.2 |
120.6 |
| H14 |
CAK |
CAM |
H15 |
237.8 |
239.9 |
| OAR |
CAL |
CAN |
H16 |
240.1 |
119.9 |
| OAR |
CAL |
CAN |
H17 |
119.9 |
240.1 |
| H16 |
CAL |
CAN |
H17 |
239.9 |
120.2 |
| CAN |
CAL |
OAR |
H16 |
119.9 |
240.0 |
| CAN |
CAL |
OAR |
H17 |
240.1 |
119.8 |
| CAL |
OAR |
CAK |
H14 |
168.3 |
177.5 |
| CAL |
OAR |
CAK |
H15 |
46.1 |
57.3 |
| H16 |
CAL |
OAR |
H17 |
120.1 |
239.8 |
| OAR |
CAK |
CAM |
H12 |
312.1 |
292.6 |
| OAR |
CAK |
CAM |
H13 |
190.9 |
172.0 |
| CAM |
CAK |
OAR |
H14 |
118.9 |
119.9 |
| CAM |
CAK |
OAR |
H15 |
241.1 |
240.0 |
| H14 |
CAK |
OAR |
H15 |
122.2 |
120.1 |
| NAP |
SBA |
NAY |
OAD |
236.3 |
113.5 |
| NAP |
SBA |
NAY |
OAE |
123.0 |
246.4 |
| NAY |
SBA |
NAP |
H11 |
6.9 |
245.0 |
| OAD |
SBA |
NAY |
OAE |
246.6 |
132.9 |
| NAP |
SBA |
OAD |
NAY |
122.4 |
245.9 |
| NAP |
SBA |
OAD |
OAE |
238.0 |
123.0 |
| OAD |
SBA |
NAP |
H11 |
243.7 |
358.5 |
| OAE |
SBA |
OAD |
NAY |
244.3 |
122.9 |
| NAP |
SBA |
OAE |
NAY |
239.1 |
114.1 |
| NAP |
SBA |
OAE |
OAD |
121.3 |
237.0 |
| OAE |
SBA |
NAP |
H11 |
126.8 |
131.5 |
| OAD |
SBA |
OAE |
NAY |
117.8 |
237.1 |
| N |
CA |
H2 |
H3 |
114.7 |
240.0 |
| N |
CA |
H3 |
H2 |
245.3 |
120.0 |
| H4 |
CAH |
CAX |
CAW |
177.3 |
180.0 |
| H5 |
CAG |
CAU |
CAI |
187.9 |
180.0 |
| H5 |
CAG |
CAH |
H4 |
357.6 |
360.0 |
| OAQ |
CAA |
H6 |
H7 |
120.0 |
120.0 |
| OAQ |
CAA |
H6 |
H8 |
240.0 |
240.0 |
| H7 |
CAA |
H6 |
H8 |
120.0 |
119.9 |
| OAQ |
CAA |
H7 |
H6 |
240.0 |
240.0 |
| OAQ |
CAA |
H7 |
H8 |
120.0 |
120.0 |
| H6 |
CAA |
H7 |
H8 |
240.0 |
240.0 |
| OAQ |
CAA |
H8 |
H6 |
120.0 |
120.1 |
| OAQ |
CAA |
H8 |
H7 |
240.0 |
240.0 |
| H6 |
CAA |
H8 |
H7 |
120.0 |
120.0 |
| CAU |
CAI |
H9 |
CAW |
180.0 |
180.0 |
| H9 |
CAI |
CAW |
CAJ |
5.9 |
360.0 |
| CAW |
CAJ |
H10 |
CAV |
180.0 |
179.8 |
| H10 |
CAJ |
CAV |
CAT |
5.7 |
0.1 |
| CAT |
NAP |
H11 |
SBA |
180.0 |
180.0 |
| H11 |
NAP |
SBA |
NAY |
6.9 |
245.0 |
| H11 |
NAP |
SBA |
OAD |
243.7 |
358.5 |
| H11 |
NAP |
SBA |
OAE |
126.8 |
131.5 |
| CAK |
CAM |
H12 |
H13 |
238.3 |
239.5 |
| H12 |
CAM |
CAK |
H14 |
70.9 |
52.5 |
| H12 |
CAM |
CAK |
H15 |
193.2 |
172.6 |
| CAK |
CAM |
H13 |
H12 |
121.8 |
120.5 |
| H13 |
CAM |
CAK |
H14 |
309.7 |
291.9 |
| H13 |
CAM |
CAK |
H15 |
72.0 |
52.0 |
| H14 |
CAK |
CAM |
H12 |
70.9 |
52.5 |
| H14 |
CAK |
CAM |
H13 |
309.7 |
291.9 |
| CAM |
CAK |
H14 |
H15 |
123.2 |
120.1 |
| OAR |
CAK |
H14 |
H15 |
236.8 |
239.8 |
| H15 |
CAK |
CAM |
H12 |
193.2 |
172.6 |
| H15 |
CAK |
CAM |
H13 |
72.0 |
52.0 |
| CAM |
CAK |
H15 |
H14 |
236.8 |
239.9 |
| OAR |
CAK |
H15 |
H14 |
123.2 |
120.1 |
| CAN |
CAL |
H16 |
H17 |
120.2 |
239.9 |
| OAR |
CAL |
H16 |
H17 |
239.8 |
120.1 |
| CAN |
CAL |
H17 |
H16 |
239.8 |
120.2 |
| OAR |
CAL |
H17 |
H16 |
120.2 |
239.9 |
| H18 |
CAN |
CAL |
H16 |
307.6 |
68.2 |
| H18 |
CAN |
CAL |
H17 |
67.8 |
308.0 |
| H19 |
CAN |
CAL |
H16 |
187.0 |
307.7 |
| H19 |
CAN |
CAL |
H17 |
307.1 |
187.6 |