PDB Chemical Component JRD
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 JRD
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C9 |
C8 |
1.498 |
1.507 |
| C7 |
C8 |
1.405 |
1.414 |
| C7 |
C6 |
1.339 |
1.354 |
| C8 |
N1 |
1.352 |
1.302 |
| C6 |
C5 |
1.488 |
1.508 |
| C6 |
O1 |
1.348 |
1.340 |
| N1 |
O1 |
1.420 |
1.209 |
| C5 |
N |
1.464 |
1.465 |
| C1 |
C2 |
1.514 |
1.530 |
| C1 |
C |
1.514 |
1.508 |
| C |
N |
1.410 |
1.348 |
| C |
O |
1.222 |
1.212 |
| N |
C10 |
1.395 |
1.389 |
| N2 |
C10 |
1.303 |
1.297 |
| N2 |
C11 |
1.376 |
1.326 |
| C10 |
S1 |
1.740 |
1.761 |
| C13 |
C14 |
1.384 |
1.381 |
| C13 |
C12 |
1.398 |
1.394 |
| C14 |
C15 |
1.378 |
1.383 |
| C11 |
C12 |
1.473 |
1.483 |
| C11 |
C18 |
1.360 |
1.346 |
| C12 |
C17 |
1.393 |
1.394 |
| C15 |
C16 |
1.379 |
1.384 |
| S1 |
C18 |
1.723 |
1.761 |
| C17 |
C16 |
1.385 |
1.379 |
| C1 |
H |
1.100 |
1.090 |
| C1 |
H1 |
1.100 |
1.089 |
| C2 |
H2 |
1.100 |
1.090 |
| C2 |
H4 |
1.100 |
1.090 |
| C5 |
H10 |
1.100 |
1.090 |
| C5 |
H9 |
1.100 |
1.090 |
| C9 |
H13 |
1.100 |
1.089 |
| C9 |
H12 |
1.100 |
1.091 |
| C9 |
H14 |
1.100 |
1.090 |
| C7 |
H11 |
1.080 |
1.079 |
| C18 |
H20 |
1.080 |
1.080 |
| C17 |
H19 |
1.080 |
1.080 |
| C16 |
H18 |
1.080 |
1.081 |
| C15 |
H17 |
1.080 |
1.080 |
| C14 |
H16 |
1.080 |
1.080 |
| C13 |
H15 |
1.080 |
1.080 |
| C2 |
H3 |
1.100 |
1.090 |
Bond Angles for JRD
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C6 |
C5 |
H10 |
108.5 |
109.5 |
| C6 |
C5 |
H9 |
108.5 |
109.4 |
| C5 |
N |
C10 |
117.8 |
120.0 |
| C2 |
C1 |
H |
108.7 |
109.5 |
| C2 |
C1 |
H1 |
108.7 |
109.5 |
| C1 |
C2 |
H2 |
109.5 |
109.5 |
| C1 |
C2 |
H4 |
109.5 |
109.5 |
| C1 |
C2 |
H3 |
109.5 |
109.5 |
| C1 |
C |
N |
119.0 |
119.9 |
| C |
N |
C10 |
122.4 |
120.1 |
| N |
C10 |
S1 |
123.3 |
125.4 |
| N2 |
C11 |
C12 |
117.9 |
122.3 |
| C10 |
S1 |
C18 |
87.7 |
90.0 |
| C13 |
C14 |
H16 |
119.8 |
119.9 |
| C14 |
C15 |
H17 |
120.1 |
119.9 |
| C11 |
C12 |
C17 |
120.6 |
120.1 |
| C11 |
C18 |
H20 |
124.3 |
125.9 |
| C12 |
C17 |
C16 |
120.4 |
119.9 |
| C12 |
C17 |
H19 |
119.8 |
120.1 |
| C15 |
C16 |
H18 |
119.8 |
119.9 |
| S1 |
C18 |
H20 |
124.3 |
125.9 |
| C16 |
C17 |
H19 |
119.8 |
120.1 |
| C17 |
C16 |
H18 |
119.8 |
119.9 |
| H |
C1 |
H1 |
109.5 |
109.5 |
| H2 |
C2 |
H4 |
109.5 |
109.5 |
| H2 |
C2 |
H3 |
109.4 |
109.5 |
| H4 |
C2 |
H3 |
109.5 |
109.5 |
| H10 |
C5 |
H9 |
109.5 |
109.5 |
| H13 |
C9 |
H12 |
109.5 |
109.5 |
| H13 |
C9 |
H14 |
109.4 |
109.5 |
| H12 |
C9 |
H14 |
109.5 |
109.4 |
Torsion Angles for JRD
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C7 |
C6 |
C5 |
H10 |
47.4 |
329.7 |
| C7 |
C6 |
C5 |
H9 |
166.3 |
209.7 |
| C6 |
C5 |
N |
C10 |
297.7 |
270.0 |
| H10 |
C5 |
C6 |
H9 |
241.1 |
120.0 |
| O1 |
C6 |
C5 |
H10 |
224.5 |
150.1 |
| O1 |
C6 |
C5 |
H9 |
343.3 |
30.0 |
| C |
N |
C5 |
C10 |
196.8 |
180.0 |
| C5 |
N |
C10 |
S1 |
179.2 |
0.0 |
| C2 |
C1 |
C |
N |
191.0 |
180.0 |
| H |
C1 |
C2 |
H1 |
240.9 |
120.0 |
| H2 |
C2 |
C1 |
H4 |
240.0 |
240.0 |
| H2 |
C2 |
C1 |
H3 |
120.0 |
120.0 |
| H4 |
C2 |
C1 |
H3 |
240.0 |
240.0 |
| C1 |
C |
N |
C10 |
160.3 |
359.7 |
| C5 |
N |
C |
C10 |
162.4 |
180.0 |
| C |
N |
C10 |
S1 |
341.5 |
180.0 |
| N |
C10 |
S1 |
C18 |
189.2 |
180.0 |
| N2 |
C11 |
C12 |
C17 |
142.7 |
0.3 |
| N2 |
C11 |
C18 |
H20 |
178.8 |
179.8 |
| C10 |
S1 |
C18 |
H20 |
179.7 |
179.9 |
| C13 |
C14 |
C15 |
H17 |
180.5 |
179.8 |
| C13 |
C12 |
C17 |
H19 |
183.6 |
180.3 |
| C14 |
C15 |
C16 |
H18 |
182.2 |
180.0 |
| C12 |
C11 |
C18 |
H20 |
353.8 |
0.1 |
| C11 |
C12 |
C17 |
C16 |
191.7 |
179.9 |
| C11 |
C12 |
C17 |
H19 |
11.7 |
0.1 |
| S1 |
C18 |
C11 |
H20 |
180.0 |
179.9 |
| C16 |
C17 |
C12 |
H19 |
180.0 |
179.9 |
| C12 |
C17 |
C16 |
H18 |
175.7 |
180.0 |
| C15 |
C16 |
C17 |
H19 |
175.7 |
180.0 |
| C17 |
C16 |
C15 |
H18 |
180.0 |
179.9 |
| C11 |
C18 |
S1 |
H20 |
180.0 |
180.1 |
| C12 |
C17 |
C16 |
H19 |
180.0 |
180.1 |
| C15 |
C16 |
C17 |
H18 |
180.0 |
180.1 |
| C2 |
C1 |
H |
H1 |
118.6 |
240.0 |
| H |
C1 |
C2 |
H2 |
300.4 |
180.0 |
| H |
C1 |
C2 |
H4 |
60.4 |
300.0 |
| H |
C1 |
C2 |
H3 |
180.4 |
60.0 |
| H |
C1 |
C |
N |
70.6 |
300.0 |
| C2 |
C1 |
H1 |
H |
241.4 |
120.0 |
| H1 |
C1 |
C2 |
H2 |
59.5 |
60.0 |
| H1 |
C1 |
C2 |
H4 |
179.5 |
179.9 |
| H1 |
C1 |
C2 |
H3 |
299.5 |
299.9 |
| H1 |
C1 |
C |
N |
311.5 |
60.0 |
| H2 |
C2 |
C1 |
H |
300.4 |
180.0 |
| H2 |
C2 |
C1 |
H1 |
59.5 |
60.0 |
| C1 |
C2 |
H2 |
H4 |
120.0 |
120.0 |
| C1 |
C2 |
H2 |
H3 |
240.0 |
240.0 |
| H4 |
C2 |
H2 |
H3 |
120.0 |
120.0 |
| H4 |
C2 |
C1 |
H |
60.4 |
300.0 |
| H4 |
C2 |
C1 |
H1 |
179.5 |
179.9 |
| C1 |
C2 |
H4 |
H2 |
240.0 |
240.0 |
| C1 |
C2 |
H4 |
H3 |
120.0 |
120.0 |
| H2 |
C2 |
H4 |
H3 |
240.1 |
240.0 |
| C6 |
C5 |
H10 |
H9 |
118.3 |
240.0 |
| H10 |
C5 |
N |
C10 |
177.1 |
30.0 |
| C6 |
C5 |
H9 |
H10 |
241.7 |
120.0 |
| H9 |
C5 |
N |
C10 |
58.2 |
150.0 |
| H12 |
C9 |
H13 |
H14 |
120.0 |
120.0 |
| H13 |
C9 |
H12 |
H14 |
240.0 |
240.0 |
| H13 |
C9 |
H14 |
H12 |
120.0 |
120.0 |
| C12 |
C17 |
H19 |
C16 |
180.0 |
179.9 |
| H19 |
C17 |
C16 |
H18 |
355.7 |
359.9 |
| H18 |
C16 |
C17 |
H19 |
355.7 |
359.9 |
| H17 |
C15 |
C16 |
H18 |
2.2 |
359.9 |
| H16 |
C14 |
C15 |
H17 |
0.5 |
0.0 |
| H15 |
C13 |
C14 |
H16 |
358.8 |
359.8 |
| H3 |
C2 |
C1 |
H |
180.4 |
60.0 |
| H3 |
C2 |
C1 |
H1 |
299.5 |
299.9 |
| C1 |
C2 |
H3 |
H2 |
120.0 |
120.0 |
| C1 |
C2 |
H3 |
H4 |
240.0 |
240.0 |
| H2 |
C2 |
H3 |
H4 |
120.0 |
120.0 |