PDB Chemical Component 1JB
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 1JB
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| C6Q |
C5Q |
1.530 |
1.530 |
| C4Q |
O4Q |
1.417 |
1.429 |
| C4Q |
C5Q |
1.519 |
1.530 |
| C4Q |
C3Q |
1.524 |
1.533 |
| C5Q |
O5Q |
1.419 |
1.429 |
| O3Q |
C3Q |
1.430 |
1.429 |
| C3Q |
C2Q |
1.511 |
1.532 |
| O5Q |
C1Q |
1.434 |
1.430 |
| O1B |
PB |
1.496 |
1.480 |
| O3B |
C1Q |
1.424 |
1.430 |
| O3B |
PB |
1.636 |
1.610 |
| C2Q |
C1Q |
1.533 |
1.531 |
| C2Q |
O2Q |
1.443 |
1.429 |
| PB |
O2B |
1.481 |
1.610 |
| PB |
O3A |
1.625 |
1.610 |
| O2A |
PA |
1.514 |
1.480 |
| O3A |
PA |
1.582 |
1.610 |
| O3X |
C3X |
1.424 |
1.429 |
| PA |
O5X |
1.619 |
1.609 |
| PA |
O1A |
1.495 |
1.611 |
| C5X |
O5X |
1.429 |
1.429 |
| C5X |
C4X |
1.527 |
1.530 |
| C3X |
C4X |
1.519 |
1.550 |
| C3X |
C2X |
1.520 |
1.548 |
| C4X |
O4X |
1.425 |
1.443 |
| C2X |
C1X |
1.524 |
1.541 |
| O4X |
C1X |
1.425 |
1.438 |
| C1X |
N1 |
1.454 |
1.465 |
| C6 |
N1 |
1.345 |
1.367 |
| C6 |
C5 |
1.386 |
1.351 |
| N1 |
C2 |
1.342 |
1.346 |
| C5M |
C5 |
1.510 |
1.507 |
| C5 |
C4 |
1.392 |
1.415 |
| C2 |
O2 |
1.255 |
1.216 |
| C2 |
N3 |
1.343 |
1.346 |
| C4 |
N3 |
1.350 |
1.348 |
| C4 |
O4 |
1.245 |
1.218 |
| N3 |
H1 |
1.000 |
0.969 |
| C6 |
H2 |
1.080 |
1.080 |
| O2B |
H3 |
0.950 |
0.968 |
| C1Q |
H4 |
1.100 |
1.090 |
| C5Q |
H5 |
1.100 |
1.090 |
| C6Q |
H6 |
1.100 |
1.090 |
| C6Q |
H7 |
1.100 |
1.090 |
| C6Q |
H8 |
1.100 |
1.090 |
| C4Q |
H9 |
1.100 |
1.089 |
| O4Q |
H10 |
0.950 |
0.967 |
| C3Q |
H11 |
1.100 |
1.090 |
| O3Q |
H12 |
0.950 |
0.967 |
| C2Q |
H13 |
1.100 |
1.090 |
| O2Q |
H14 |
0.950 |
0.967 |
| O1A |
H15 |
0.950 |
0.967 |
| C5X |
H16 |
1.100 |
1.090 |
| C5X |
H17 |
1.100 |
1.090 |
| C4X |
H18 |
1.100 |
1.091 |
| C3X |
H19 |
1.100 |
1.090 |
| O3X |
H20 |
0.950 |
0.967 |
| C2X |
H21 |
1.100 |
1.090 |
| C2X |
H22 |
1.101 |
1.090 |
| C1X |
H23 |
1.100 |
1.089 |
| C5M |
H24 |
1.100 |
1.090 |
| C5M |
H25 |
1.101 |
1.090 |
| C5M |
H26 |
1.100 |
1.090 |
Bond Angles for 1JB
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C6Q |
C5Q |
H5 |
100.1 |
109.5 |
| O4Q |
C4Q |
C3Q |
108.9 |
109.5 |
| O4Q |
C4Q |
H9 |
115.9 |
109.6 |
| C4Q |
O4Q |
H10 |
109.5 |
114.0 |
| C4Q |
C5Q |
H5 |
100.2 |
109.5 |
| C4Q |
C3Q |
C2Q |
117.2 |
109.0 |
| C3Q |
C4Q |
H9 |
114.0 |
109.6 |
| C4Q |
C3Q |
H11 |
105.2 |
109.5 |
| O3Q |
C3Q |
C2Q |
116.5 |
109.5 |
| O3Q |
C3Q |
H11 |
106.2 |
109.6 |
| C3Q |
C2Q |
O2Q |
105.6 |
109.5 |
| C2Q |
C3Q |
H11 |
105.3 |
109.6 |
| C3Q |
C2Q |
H13 |
110.3 |
109.5 |
| O5Q |
C1Q |
H4 |
112.9 |
109.5 |
| O1B |
PB |
O2B |
119.0 |
109.4 |
| O1B |
PB |
O3A |
116.6 |
109.4 |
| O3B |
C1Q |
H4 |
113.0 |
109.5 |
| O3B |
PB |
O3A |
109.4 |
109.4 |
| C2Q |
C1Q |
H4 |
111.3 |
109.5 |
| O2Q |
C2Q |
H13 |
111.2 |
109.6 |
| C2Q |
O2Q |
H14 |
109.5 |
114.0 |
| O2B |
PB |
O3A |
95.6 |
109.5 |
| PB |
O2B |
H3 |
109.5 |
114.0 |
| PB |
O3A |
PA |
123.5 |
134.0 |
| O2A |
PA |
O5X |
105.1 |
109.5 |
| O3A |
PA |
O5X |
102.8 |
109.5 |
| O3A |
PA |
O1A |
113.9 |
109.5 |
| O3X |
C3X |
C2X |
103.8 |
110.9 |
| O3X |
C3X |
H19 |
113.0 |
110.9 |
| O1A |
PA |
O5X |
116.5 |
109.5 |
| PA |
O1A |
H15 |
109.5 |
114.0 |
| C5X |
C4X |
O4X |
105.7 |
110.6 |
| C4X |
C5X |
H16 |
110.8 |
109.4 |
| C4X |
C5X |
H17 |
110.8 |
109.5 |
| C5X |
C4X |
H18 |
111.9 |
110.5 |
| C3X |
C4X |
H18 |
112.1 |
110.7 |
| C3X |
C2X |
C1X |
101.6 |
104.2 |
| C2X |
C3X |
H19 |
111.5 |
110.9 |
| C3X |
C2X |
H21 |
111.4 |
110.5 |
| C3X |
C2X |
H22 |
111.4 |
110.5 |
| C4X |
O4X |
C1X |
109.6 |
107.0 |
| O4X |
C4X |
H18 |
113.6 |
110.6 |
| O4X |
C1X |
C2X |
110.7 |
107.3 |
| C1X |
C2X |
H21 |
111.4 |
110.5 |
| C1X |
C2X |
H22 |
111.4 |
110.5 |
| C2X |
C1X |
H23 |
109.2 |
109.9 |
| O4X |
C1X |
H23 |
110.6 |
109.9 |
| C1X |
N1 |
C2 |
114.4 |
119.7 |
| C6 |
N1 |
C2 |
122.1 |
120.7 |
| N1 |
C2 |
O2 |
119.1 |
119.6 |
| N1 |
C2 |
N3 |
117.6 |
120.9 |
| C5 |
C4 |
O4 |
119.4 |
120.3 |
| C2 |
N3 |
H1 |
118.5 |
119.8 |
| C4 |
N3 |
H1 |
118.6 |
119.9 |
| H6 |
C6Q |
H7 |
109.5 |
109.5 |
| H6 |
C6Q |
H8 |
109.4 |
109.5 |
| H7 |
C6Q |
H8 |
109.5 |
109.5 |
| H16 |
C5X |
H17 |
109.5 |
109.5 |
| H21 |
C2X |
H22 |
109.5 |
110.6 |
| H24 |
C5M |
H25 |
109.5 |
109.5 |
| H24 |
C5M |
H26 |
109.5 |
109.5 |
| H25 |
C5M |
H26 |
109.4 |
109.4 |
Torsion Angles for 1JB
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C4Q |
C5Q |
C6Q |
H5 |
252.0 |
240.0 |
| O4Q |
C4Q |
C5Q |
H5 |
182.1 |
182.3 |
| O4Q |
C4Q |
C3Q |
C2Q |
306.0 |
297.1 |
| C3Q |
C4Q |
O4Q |
H9 |
229.9 |
239.8 |
| O4Q |
C4Q |
C3Q |
H11 |
189.3 |
177.2 |
| C6Q |
C5Q |
C4Q |
H5 |
107.9 |
120.0 |
| O4Q |
C4Q |
C3Q |
H9 |
131.2 |
120.2 |
| C3Q |
C4Q |
O4Q |
H10 |
288.8 |
179.7 |
| C3Q |
C4Q |
C5Q |
H5 |
70.2 |
62.4 |
| O3Q |
C3Q |
C4Q |
C2Q |
131.4 |
119.8 |
| O3Q |
C3Q |
C4Q |
H11 |
248.0 |
239.7 |
| C4Q |
C3Q |
C2Q |
O2Q |
180.4 |
183.1 |
| C2Q |
C3Q |
C4Q |
H11 |
116.6 |
119.9 |
| C4Q |
C3Q |
C2Q |
H13 |
60.1 |
62.9 |
| C5Q |
O5Q |
C1Q |
H4 |
187.0 |
178.8 |
| C4Q |
C3Q |
O3Q |
C2Q |
228.2 |
240.5 |
| O3Q |
C3Q |
C4Q |
H9 |
306.2 |
296.8 |
| C4Q |
C3Q |
O3Q |
H11 |
111.3 |
120.2 |
| O3Q |
C3Q |
C2Q |
O2Q |
54.4 |
63.3 |
| C2Q |
C3Q |
O3Q |
H11 |
243.1 |
239.7 |
| O3Q |
C3Q |
C2Q |
H13 |
294.1 |
303.1 |
| C2Q |
C3Q |
C4Q |
H9 |
174.8 |
176.9 |
| C4Q |
C3Q |
C2Q |
H11 |
243.4 |
240.1 |
| O3Q |
C3Q |
C2Q |
H11 |
117.4 |
120.3 |
| C3Q |
C2Q |
C1Q |
H4 |
178.3 |
177.6 |
| O2Q |
C2Q |
C3Q |
H13 |
120.3 |
120.2 |
| C3Q |
C2Q |
O2Q |
H14 |
180.0 |
180.0 |
| O3B |
C1Q |
O5Q |
H4 |
238.2 |
240.0 |
| C2Q |
C1Q |
O5Q |
H4 |
123.2 |
120.0 |
| O3B |
PB |
O1B |
O3A |
239.4 |
240.0 |
| O2B |
PB |
O1B |
O3A |
113.7 |
120.0 |
| O1B |
PB |
O2B |
H3 |
360.0 |
180.0 |
| O1B |
PB |
O3A |
PA |
306.2 |
45.0 |
| O5Q |
C1Q |
O3B |
H4 |
121.7 |
120.0 |
| C1Q |
O3B |
PB |
O3A |
67.1 |
185.0 |
| C2Q |
C1Q |
O3B |
H4 |
235.6 |
240.0 |
| O1B |
PB |
O3B |
O3A |
125.3 |
120.0 |
| O2B |
PB |
O3B |
O3A |
255.3 |
240.0 |
| O3B |
PB |
O2B |
H3 |
238.2 |
60.0 |
| O3B |
PB |
O3A |
PA |
64.1 |
165.0 |
| O5Q |
C1Q |
C2Q |
H4 |
235.8 |
240.0 |
| O3B |
C1Q |
C2Q |
H4 |
125.4 |
120.0 |
| O2Q |
C2Q |
C3Q |
H11 |
297.0 |
303.0 |
| C3Q |
C2Q |
O2Q |
H13 |
240.3 |
239.8 |
| O2Q |
C2Q |
C1Q |
H4 |
294.1 |
297.5 |
| O1B |
PB |
O2B |
O3A |
235.4 |
240.1 |
| O3B |
PB |
O2B |
O3A |
113.6 |
120.0 |
| O2B |
PB |
O3A |
PA |
179.9 |
285.1 |
| O1B |
PB |
O3A |
O2B |
126.4 |
119.9 |
| O3A |
PB |
O2B |
H3 |
124.6 |
300.0 |
| PB |
O3A |
PA |
O5X |
106.2 |
165.0 |
| PB |
O3A |
PA |
O1A |
233.2 |
285.0 |
| O3A |
PA |
O2A |
O5X |
108.4 |
120.1 |
| O1A |
PA |
O2A |
O5X |
232.8 |
240.0 |
| O2A |
PA |
O1A |
H15 |
360.0 |
180.0 |
| O2A |
PA |
O3A |
O5X |
249.9 |
240.0 |
| O1A |
PA |
O3A |
O5X |
127.0 |
120.0 |
| O3A |
PA |
O1A |
H15 |
119.7 |
300.0 |
| O3X |
C3X |
C4X |
H18 |
350.4 |
323.4 |
| O3X |
C3X |
C2X |
C1X |
128.8 |
139.1 |
| C2X |
C3X |
O3X |
H19 |
120.9 |
123.7 |
| O3X |
C3X |
C2X |
H21 |
247.5 |
257.7 |
| O3X |
C3X |
C2X |
H22 |
10.1 |
20.4 |
| O3A |
PA |
O5X |
O1A |
125.3 |
120.0 |
| O5X |
PA |
O1A |
H15 |
239.2 |
60.1 |
| O2A |
PA |
O1A |
O5X |
120.7 |
120.0 |
| O3A |
PA |
O1A |
O5X |
240.5 |
240.0 |
| C3X |
C4X |
C5X |
H18 |
236.3 |
237.0 |
| C5X |
C4X |
O4X |
C1X |
134.7 |
158.6 |
| O4X |
C4X |
C5X |
H18 |
124.1 |
122.9 |
| H16 |
C5X |
C4X |
H17 |
121.7 |
120.0 |
| C3X |
C4X |
C5X |
H16 |
265.1 |
60.5 |
| C3X |
C4X |
C5X |
H17 |
143.4 |
300.6 |
| C5X |
C4X |
C3X |
H18 |
123.6 |
122.9 |
| C3X |
C4X |
O4X |
C1X |
20.7 |
40.0 |
| O4X |
C4X |
C3X |
H18 |
236.1 |
241.4 |
| O3X |
C3X |
C2X |
H19 |
238.0 |
236.4 |
| C2X |
C3X |
C4X |
H18 |
102.4 |
81.5 |
| O4X |
C1X |
C2X |
C3X |
358.7 |
2.0 |
| C1X |
C2X |
C3X |
H21 |
241.3 |
241.4 |
| C1X |
C2X |
C3X |
H22 |
118.7 |
118.7 |
| C3X |
C2X |
C1X |
H23 |
236.7 |
242.6 |
| H21 |
C2X |
C3X |
H22 |
237.4 |
237.3 |
| O4X |
C4X |
C5X |
H16 |
153.0 |
306.4 |
| O4X |
C4X |
C5X |
H17 |
31.3 |
186.4 |
| C5X |
C4X |
O4X |
H18 |
236.9 |
237.2 |
| C3X |
C4X |
O4X |
H18 |
123.0 |
118.6 |
| C4X |
O4X |
C1X |
C2X |
347.5 |
333.5 |
| C4X |
O4X |
C1X |
H23 |
108.6 |
92.9 |
| C1X |
C2X |
C3X |
H19 |
250.7 |
262.7 |
| C3X |
C2X |
C1X |
H21 |
118.7 |
118.6 |
| C3X |
C2X |
C1X |
H22 |
241.3 |
241.3 |
| O4X |
C1X |
C2X |
H23 |
122.0 |
119.4 |
| C2X |
C1X |
N1 |
C2 |
119.7 |
295.7 |
| H21 |
C2X |
C1X |
H22 |
122.5 |
122.7 |
| C3X |
C2X |
C1X |
O4X |
358.7 |
2.0 |
| C1X |
O4X |
C4X |
H18 |
257.8 |
281.4 |
| O4X |
C1X |
C2X |
H21 |
240.0 |
243.4 |
| O4X |
C1X |
C2X |
H22 |
117.4 |
120.7 |
| C2X |
C1X |
O4X |
H23 |
238.8 |
240.6 |
| O4X |
C1X |
N1 |
C2 |
239.5 |
53.5 |
| C6 |
N1 |
C1X |
C2 |
183.3 |
179.8 |
| C1X |
N1 |
C2 |
O2 |
2.0 |
359.7 |
| C1X |
N1 |
C2 |
N3 |
179.6 |
179.7 |
| C1X |
N1 |
C6 |
C2 |
176.4 |
180.2 |
| C6 |
N1 |
C2 |
O2 |
178.7 |
179.9 |
| C6 |
N1 |
C2 |
N3 |
356.3 |
360.0 |
| C5 |
C6 |
N1 |
C2 |
4.1 |
0.0 |
| C6 |
C5 |
C4 |
O4 |
180.3 |
180.0 |
| N1 |
C2 |
N3 |
H1 |
182.5 |
180.1 |
| C5M |
C5 |
C4 |
O4 |
359.0 |
0.0 |
| C5 |
C4 |
N3 |
H1 |
178.2 |
180.0 |
| N1 |
C2 |
O2 |
N3 |
177.5 |
180.0 |
| O2 |
C2 |
N3 |
H1 |
0.0 |
0.1 |
| N1 |
C2 |
N3 |
O2 |
182.5 |
180.0 |
| C4 |
N3 |
C2 |
H1 |
180.0 |
179.9 |
| N1 |
C2 |
N3 |
C4 |
2.5 |
360.0 |
| C2 |
N3 |
C4 |
H1 |
180.0 |
180.1 |
| O4 |
C4 |
N3 |
H1 |
359.9 |
360.0 |
| H2 |
C6 |
N1 |
C2 |
184.1 |
180.0 |
| H3 |
O2B |
PB |
O3A |
124.6 |
300.0 |
| H6 |
C6Q |
C5Q |
H5 |
288.0 |
300.0 |
| H7 |
C6Q |
H6 |
H8 |
120.0 |
120.0 |
| H7 |
C6Q |
C5Q |
H5 |
48.0 |
60.0 |
| H6 |
C6Q |
H7 |
H8 |
240.0 |
240.0 |
| H8 |
C6Q |
C5Q |
H5 |
168.0 |
180.0 |
| H6 |
C6Q |
H8 |
H7 |
120.0 |
120.0 |
| O4Q |
C4Q |
H9 |
C3Q |
232.4 |
239.9 |
| H9 |
C4Q |
O4Q |
H10 |
58.9 |
299.9 |
| H9 |
C4Q |
C5Q |
H5 |
304.6 |
302.5 |
| H9 |
C4Q |
C3Q |
C2Q |
174.8 |
176.9 |
| H9 |
C4Q |
C3Q |
H11 |
58.2 |
57.1 |
| H10 |
O4Q |
C4Q |
C3Q |
288.8 |
179.7 |
| H10 |
O4Q |
C4Q |
H9 |
58.9 |
299.9 |
| C4Q |
C3Q |
H11 |
C2Q |
124.5 |
119.6 |
| H11 |
C3Q |
C4Q |
H9 |
58.2 |
57.1 |
| O3Q |
C3Q |
H11 |
C2Q |
235.8 |
239.8 |
| H11 |
C3Q |
C2Q |
O2Q |
297.0 |
303.0 |
| H11 |
C3Q |
C2Q |
H13 |
176.7 |
182.8 |
| H12 |
O3Q |
C3Q |
C2Q |
311.8 |
299.5 |
| H12 |
O3Q |
C3Q |
H11 |
68.7 |
59.8 |
| C3Q |
C2Q |
H13 |
O2Q |
116.9 |
120.1 |
| H13 |
C2Q |
C3Q |
H11 |
176.7 |
182.8 |
| H13 |
C2Q |
C1Q |
H4 |
57.7 |
57.7 |
| H13 |
C2Q |
O2Q |
H14 |
299.6 |
300.2 |
| H14 |
O2Q |
C2Q |
H13 |
299.6 |
300.2 |
| H15 |
O1A |
PA |
O5X |
239.2 |
60.1 |
| H16 |
C5X |
C4X |
O4X |
153.0 |
306.4 |
| C4X |
C5X |
H16 |
H17 |
237.6 |
240.0 |
| H16 |
C5X |
C4X |
H18 |
28.8 |
183.5 |
| H17 |
C5X |
C4X |
O4X |
31.3 |
186.4 |
| C4X |
C5X |
H17 |
H16 |
122.4 |
119.9 |
| H17 |
C5X |
C4X |
H18 |
267.1 |
63.6 |
| C5X |
C4X |
H18 |
O4X |
119.6 |
122.9 |
| H18 |
C4X |
C5X |
H16 |
28.8 |
183.5 |
| H18 |
C4X |
C5X |
H17 |
267.1 |
63.6 |
| H18 |
C4X |
O4X |
C1X |
257.8 |
281.4 |
| O3X |
C3X |
H19 |
C2X |
116.5 |
123.7 |
| H19 |
C3X |
C4X |
H18 |
225.3 |
199.7 |
| H19 |
C3X |
C2X |
C1X |
250.7 |
262.7 |
| H19 |
C3X |
C2X |
H21 |
9.5 |
21.4 |
| H19 |
C3X |
C2X |
H22 |
132.0 |
144.0 |
| H20 |
O3X |
C3X |
C2X |
65.1 |
67.3 |
| H20 |
O3X |
C3X |
H19 |
304.2 |
303.7 |
| C3X |
C2X |
H21 |
C1X |
247.3 |
245.3 |
| H21 |
C2X |
C3X |
H19 |
9.5 |
21.4 |
| C3X |
C2X |
H21 |
H22 |
123.7 |
122.6 |
| C1X |
C2X |
H21 |
H22 |
236.4 |
237.3 |
| H21 |
C2X |
C1X |
H23 |
118.0 |
124.0 |
| C3X |
C2X |
H22 |
C1X |
112.7 |
114.8 |
| H22 |
C2X |
C3X |
H19 |
132.0 |
144.0 |
| C3X |
C2X |
H22 |
H21 |
236.3 |
237.4 |
| C1X |
C2X |
H22 |
H21 |
123.6 |
122.6 |
| H22 |
C2X |
C1X |
H23 |
355.4 |
1.3 |
| O4X |
C1X |
H23 |
C2X |
237.9 |
242.2 |
| H23 |
C1X |
C2X |
H21 |
118.0 |
124.0 |
| H23 |
C1X |
C2X |
H22 |
355.4 |
1.3 |
| H23 |
C1X |
N1 |
C2 |
0.3 |
174.6 |
| H25 |
C5M |
H24 |
H26 |
119.9 |
120.0 |
| H24 |
C5M |
H25 |
H26 |
240.0 |
240.0 |
| H24 |
C5M |
H26 |
H25 |
120.0 |
120.0 |