PDB Chemical Component QQX
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 QQX
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
OP3 |
P |
1.538 |
1.611 |
S1P |
P |
1.919 |
1.863 |
O5' |
C5' |
1.391 |
1.429 |
C5' |
C4' |
1.495 |
1.531 |
C4' |
O4' |
1.387 |
1.437 |
C4' |
C3' |
1.463 |
1.543 |
O4' |
C1' |
1.407 |
1.444 |
C3' |
O3' |
1.353 |
1.448 |
C3' |
C2' |
1.492 |
1.549 |
O3' |
P |
1.517 |
1.633 |
C2' |
O2' |
1.376 |
1.432 |
C2' |
C1' |
1.482 |
1.546 |
O2' |
P |
1.544 |
1.628 |
C1' |
N9 |
1.448 |
1.465 |
N9 |
C8 |
1.403 |
1.362 |
N9 |
C4 |
1.403 |
1.372 |
C8 |
N7 |
1.361 |
1.301 |
N7 |
C5 |
1.407 |
1.355 |
C5 |
C6 |
1.421 |
1.405 |
C5 |
C4 |
1.449 |
1.405 |
N3 |
C4 |
1.341 |
1.329 |
C6 |
N6 |
1.429 |
1.384 |
C6 |
N1 |
1.348 |
1.330 |
N1 |
C2 |
1.321 |
1.320 |
C2 |
N3 |
1.319 |
1.317 |
OP3 |
HP3 |
0.950 |
0.966 |
O5' |
H5' |
0.950 |
0.967 |
C5' |
H5'1 |
1.100 |
1.090 |
C5' |
H5'2 |
1.100 |
1.090 |
C4' |
H4' |
1.100 |
1.090 |
C3' |
H3' |
1.100 |
1.090 |
C1' |
H1' |
1.100 |
1.090 |
C2' |
H2' |
1.100 |
1.090 |
C8 |
H8 |
1.080 |
1.081 |
N6 |
H61N |
1.000 |
0.970 |
N6 |
H62N |
1.000 |
0.970 |
C2 |
H2 |
1.080 |
1.080 |
Bond Angles for QQX
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
OP3 |
P |
S1P |
107.7 |
110.8 |
OP3 |
P |
O3' |
111.5 |
110.9 |
OP3 |
P |
O2' |
113.2 |
110.9 |
P |
OP3 |
HP3 |
109.5 |
114.0 |
S1P |
P |
O3' |
108.2 |
110.9 |
S1P |
P |
O2' |
114.8 |
111.0 |
O5' |
C5' |
C4' |
112.2 |
109.5 |
C5' |
O5' |
H5' |
109.5 |
114.0 |
O5' |
C5' |
H5'1 |
108.8 |
109.4 |
O5' |
C5' |
H5'2 |
108.8 |
109.5 |
C5' |
C4' |
O4' |
110.4 |
109.8 |
C5' |
C4' |
C3' |
113.1 |
109.8 |
C4' |
C5' |
H5'1 |
108.8 |
109.5 |
C4' |
C5' |
H5'2 |
108.8 |
109.5 |
C5' |
C4' |
H4' |
108.4 |
109.8 |
O4' |
C4' |
C3' |
106.2 |
107.4 |
C4' |
O4' |
C1' |
110.6 |
107.0 |
O4' |
C4' |
H4' |
109.9 |
109.9 |
C4' |
C3' |
O3' |
111.0 |
107.7 |
C4' |
C3' |
C2' |
105.8 |
103.9 |
C3' |
C4' |
H4' |
108.8 |
110.0 |
C4' |
C3' |
H3' |
110.5 |
112.4 |
O4' |
C1' |
C2' |
107.5 |
103.5 |
O4' |
C1' |
N9 |
107.3 |
110.6 |
O4' |
C1' |
H1' |
109.3 |
110.6 |
O3' |
C3' |
C2' |
106.7 |
107.3 |
C3' |
O3' |
P |
109.2 |
101.8 |
O3' |
C3' |
H3' |
112.4 |
112.2 |
C3' |
C2' |
O2' |
105.4 |
110.3 |
C3' |
C2' |
C1' |
101.3 |
102.4 |
C2' |
C3' |
H3' |
110.2 |
112.8 |
C3' |
C2' |
H2' |
110.1 |
111.2 |
O3' |
P |
O2' |
101.3 |
102.1 |
O2' |
C2' |
C1' |
117.0 |
109.8 |
C2' |
O2' |
P |
107.4 |
105.1 |
O2' |
C2' |
H2' |
111.9 |
111.2 |
C2' |
C1' |
N9 |
115.7 |
110.6 |
C2' |
C1' |
H1' |
108.3 |
110.6 |
C1' |
C2' |
H2' |
110.3 |
111.7 |
C1' |
N9 |
C8 |
127.2 |
126.3 |
C1' |
N9 |
C4 |
127.9 |
126.3 |
N9 |
C1' |
H1' |
108.7 |
110.7 |
C8 |
N9 |
C4 |
104.9 |
107.4 |
N9 |
C8 |
N7 |
113.2 |
110.0 |
N9 |
C8 |
H8 |
123.4 |
125.0 |
N9 |
C4 |
C5 |
108.3 |
106.0 |
C8 |
N7 |
C5 |
106.4 |
109.4 |
N7 |
C8 |
H8 |
123.4 |
124.9 |
N7 |
C5 |
C6 |
133.9 |
134.7 |
N7 |
C5 |
C4 |
107.3 |
107.2 |
C6 |
C5 |
C4 |
118.7 |
118.2 |
C5 |
C6 |
N6 |
121.1 |
120.8 |
C5 |
C6 |
N1 |
116.0 |
118.4 |
C2 |
N3 |
C4 |
121.3 |
120.6 |
N6 |
C6 |
N1 |
122.9 |
120.8 |
C6 |
N6 |
H61N |
109.5 |
120.0 |
C6 |
N6 |
H62N |
109.5 |
120.0 |
C6 |
N1 |
C2 |
124.0 |
121.2 |
N1 |
C2 |
N3 |
121.6 |
122.4 |
N1 |
C2 |
H2 |
119.2 |
118.8 |
N3 |
C2 |
H2 |
119.2 |
118.8 |
H5'1 |
C5' |
H5'2 |
109.5 |
109.5 |
H61N |
N6 |
H62N |
109.5 |
120.0 |
Torsion Angles for QQX
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
S1P |
P |
OP3 |
O3' |
118.6 |
123.6 |
S1P |
P |
OP3 |
O2' |
232.0 |
236.3 |
C3' |
O3' |
P |
OP3 |
232.3 |
207.4 |
O3' |
P |
OP3 |
O2' |
113.4 |
112.7 |
C2' |
O2' |
P |
OP3 |
105.6 |
139.0 |
OP3 |
P |
S1P |
O3' |
239.4 |
236.4 |
OP3 |
P |
S1P |
O2' |
127.1 |
123.6 |
S1P |
P |
OP3 |
HP3 |
360.0 |
60.0 |
C3' |
O3' |
P |
S1P |
114.0 |
83.8 |
O3' |
P |
S1P |
O2' |
247.7 |
247.2 |
C2' |
O2' |
P |
S1P |
229.9 |
262.6 |
O5' |
C5' |
C4' |
O4' |
307.4 |
66.5 |
O5' |
C5' |
C4' |
C3' |
66.2 |
184.3 |
C4' |
C5' |
O5' |
H5'1 |
239.6 |
240.0 |
C4' |
C5' |
O5' |
H5'2 |
120.4 |
120.0 |
O5' |
C5' |
C4' |
H4' |
186.9 |
305.4 |
H5'1 |
C5' |
O5' |
H5'2 |
240.8 |
240.0 |
C4' |
C5' |
O5' |
H5' |
180.0 |
180.0 |
O5' |
C5' |
C4' |
H5'1 |
120.4 |
120.0 |
O5' |
C5' |
C4' |
H5'2 |
239.6 |
240.0 |
O4' |
C4' |
C5' |
C3' |
241.2 |
242.1 |
C5' |
C4' |
O4' |
C1' |
114.8 |
145.9 |
O4' |
C4' |
C5' |
H4' |
120.4 |
121.0 |
C5' |
C4' |
C3' |
O3' |
147.1 |
124.8 |
C5' |
C4' |
C3' |
C2' |
262.5 |
238.4 |
C3' |
C4' |
C5' |
H4' |
239.2 |
238.9 |
C5' |
C4' |
C3' |
H3' |
21.7 |
0.7 |
H5'1 |
C5' |
C4' |
H5'2 |
119.2 |
120.0 |
C5' |
C4' |
O4' |
C3' |
122.9 |
119.4 |
O4' |
C4' |
C5' |
H5'1 |
186.9 |
306.5 |
O4' |
C4' |
C5' |
H5'2 |
67.7 |
186.4 |
C5' |
C4' |
O4' |
H4' |
240.5 |
239.0 |
O4' |
C4' |
C3' |
O3' |
268.3 |
244.2 |
O4' |
C4' |
C3' |
C2' |
23.7 |
357.8 |
C3' |
C4' |
O4' |
H4' |
117.6 |
119.6 |
O4' |
C4' |
C3' |
H3' |
142.9 |
120.1 |
C4' |
O4' |
C1' |
C2' |
349.1 |
320.1 |
C4' |
O4' |
C1' |
N9 |
224.1 |
201.6 |
C4' |
O4' |
C1' |
H1' |
106.4 |
78.6 |
C5' |
C4' |
C3' |
O4' |
238.8 |
240.6 |
C3' |
C4' |
C5' |
H5'1 |
305.8 |
64.3 |
C3' |
C4' |
C5' |
H5'2 |
186.6 |
304.3 |
C5' |
C4' |
C3' |
H4' |
120.5 |
121.0 |
C3' |
C4' |
O4' |
C1' |
351.9 |
26.5 |
O4' |
C4' |
C3' |
H4' |
241.7 |
240.4 |
O3' |
C3' |
C4' |
C2' |
244.6 |
246.4 |
C4' |
C3' |
O3' |
P |
138.6 |
146.7 |
O3' |
C3' |
C4' |
H3' |
125.4 |
124.1 |
C4' |
C3' |
C2' |
O2' |
208.7 |
222.5 |
C4' |
C3' |
C2' |
C1' |
331.1 |
339.3 |
C2' |
C3' |
C4' |
H3' |
240.7 |
237.7 |
C4' |
C3' |
C2' |
H2' |
87.9 |
98.7 |
C1' |
O4' |
C4' |
C3' |
351.9 |
26.5 |
C1' |
O4' |
C4' |
H4' |
234.4 |
266.9 |
C3' |
C2' |
C1' |
O4' |
24.4 |
36.9 |
O2' |
C2' |
C1' |
O4' |
138.3 |
154.0 |
C2' |
C1' |
O4' |
N9 |
125.0 |
118.5 |
C2' |
C1' |
O4' |
H1' |
242.7 |
241.5 |
O4' |
C1' |
C2' |
H2' |
267.7 |
277.9 |
O4' |
C1' |
N9 |
C8 |
67.7 |
23.5 |
O4' |
C1' |
N9 |
C4 |
249.6 |
203.3 |
N9 |
C1' |
O4' |
H1' |
117.7 |
123.0 |
OP3 |
P |
O3' |
C3' |
232.3 |
207.4 |
S1P |
P |
O3' |
C3' |
114.0 |
83.8 |
C4' |
C3' |
O3' |
C2' |
114.9 |
111.4 |
O3' |
C3' |
C4' |
H4' |
26.6 |
3.8 |
C4' |
C3' |
O3' |
H3' |
235.7 |
235.8 |
O3' |
C3' |
C2' |
O2' |
327.0 |
336.4 |
O3' |
C3' |
C2' |
C1' |
89.4 |
93.2 |
C2' |
C3' |
O3' |
H3' |
120.8 |
124.4 |
O3' |
C3' |
C2' |
H2' |
206.1 |
212.6 |
C3' |
O3' |
P |
O2' |
353.0 |
325.5 |
C4' |
C3' |
C2' |
O3' |
241.7 |
246.1 |
C2' |
C3' |
C4' |
H4' |
142.0 |
117.4 |
C4' |
C3' |
C2' |
H3' |
119.5 |
122.0 |
O4' |
C1' |
C2' |
C3' |
24.4 |
36.9 |
C2' |
C3' |
O3' |
P |
23.8 |
35.3 |
O3' |
C3' |
C2' |
H3' |
237.8 |
236.0 |
O2' |
C2' |
C3' |
C1' |
237.6 |
243.2 |
C3' |
C2' |
O2' |
P |
27.8 |
359.7 |
O2' |
C2' |
C3' |
H2' |
120.9 |
123.8 |
C3' |
C2' |
C1' |
N9 |
144.1 |
155.4 |
C3' |
C2' |
C1' |
H1' |
266.4 |
278.4 |
C1' |
C2' |
C3' |
H2' |
243.2 |
240.6 |
OP3 |
P |
O3' |
S1P |
118.2 |
123.5 |
OP3 |
P |
O3' |
O2' |
239.3 |
241.8 |
O3' |
P |
OP3 |
HP3 |
241.4 |
296.4 |
S1P |
P |
O3' |
O2' |
121.1 |
118.3 |
P |
O3' |
C3' |
C2' |
23.8 |
35.3 |
P |
O3' |
C3' |
H3' |
263.0 |
270.9 |
C2' |
O2' |
P |
O3' |
346.2 |
20.8 |
OP3 |
P |
O2' |
C2' |
105.6 |
139.0 |
S1P |
P |
O2' |
C2' |
229.9 |
262.6 |
O4' |
C1' |
C2' |
O2' |
138.3 |
154.0 |
C3' |
C2' |
O2' |
C1' |
111.7 |
112.1 |
O2' |
C2' |
C3' |
H3' |
89.2 |
100.4 |
C3' |
C2' |
O2' |
H2' |
240.3 |
236.2 |
O3' |
P |
O2' |
C2' |
346.2 |
20.8 |
O2' |
C2' |
C1' |
N9 |
258.1 |
272.5 |
O2' |
C2' |
C1' |
H1' |
20.4 |
35.5 |
C1' |
C2' |
O2' |
H2' |
128.6 |
124.2 |
O4' |
C1' |
C2' |
N9 |
240.2 |
241.5 |
O4' |
C1' |
C2' |
H1' |
117.9 |
118.5 |
C3' |
C2' |
C1' |
O2' |
246.0 |
242.9 |
C1' |
C2' |
C3' |
H3' |
211.6 |
217.2 |
C3' |
C2' |
C1' |
H2' |
116.7 |
119.0 |
C1' |
C2' |
O2' |
P |
276.1 |
247.6 |
O2' |
C2' |
C1' |
H2' |
230.6 |
236.2 |
C2' |
C1' |
N9 |
C8 |
307.8 |
269.5 |
C2' |
C1' |
N9 |
C4 |
129.7 |
89.2 |
N9 |
C1' |
C2' |
H1' |
237.7 |
237.0 |
OP3 |
P |
O2' |
S1P |
235.8 |
236.5 |
OP3 |
P |
O2' |
O3' |
119.4 |
118.2 |
O2' |
P |
OP3 |
HP3 |
128.0 |
183.7 |
S1P |
P |
O2' |
O3' |
243.7 |
241.7 |
P |
O2' |
C2' |
C1' |
276.1 |
247.6 |
P |
O2' |
C2' |
H2' |
147.5 |
123.4 |
O4' |
C1' |
N9 |
C2' |
119.9 |
114.1 |
O4' |
C1' |
N9 |
H1' |
241.9 |
237.0 |
C2' |
C1' |
N9 |
H1' |
122.0 |
123.0 |
N9 |
C1' |
C2' |
H2' |
27.5 |
36.3 |
C8 |
N9 |
C1' |
C4 |
178.1 |
180.2 |
C1' |
N9 |
C8 |
N7 |
180.7 |
180.0 |
C1' |
N9 |
C8 |
H8 |
0.7 |
360.0 |
C1' |
N9 |
C4 |
C5 |
179.3 |
179.9 |
C1' |
N9 |
C8 |
C4 |
181.6 |
179.8 |
C8 |
N9 |
C1' |
H1' |
185.7 |
146.5 |
C8 |
N9 |
C4 |
C5 |
0.9 |
359.7 |
N9 |
C8 |
N7 |
C5 |
0.4 |
0.0 |
N7 |
C8 |
N9 |
H8 |
180.0 |
180.0 |
C1' |
N9 |
C4 |
C8 |
178.4 |
180.2 |
C4 |
N9 |
C1' |
H1' |
7.7 |
326.3 |
C4 |
N9 |
C8 |
N7 |
359.1 |
0.2 |
C4 |
N9 |
C8 |
H8 |
179.1 |
180.2 |
N7 |
C5 |
C4 |
N9 |
359.2 |
0.3 |
C6 |
C5 |
C4 |
N9 |
179.9 |
180.1 |
C2 |
N3 |
C4 |
N9 |
180.1 |
179.7 |
N7 |
C8 |
N9 |
C4 |
359.1 |
0.2 |
N9 |
C8 |
N7 |
H8 |
180.0 |
180.0 |
C8 |
N7 |
C5 |
C6 |
179.4 |
180.0 |
C8 |
N7 |
C5 |
C4 |
0.2 |
359.8 |
N9 |
C4 |
C5 |
N7 |
359.2 |
0.3 |
C5 |
N7 |
C8 |
H8 |
180.4 |
180.0 |
C6 |
C5 |
N7 |
C4 |
179.2 |
180.2 |
N7 |
C5 |
C6 |
N6 |
0.3 |
0.0 |
N7 |
C5 |
C6 |
N1 |
180.5 |
179.9 |
N9 |
C4 |
C5 |
C6 |
179.9 |
180.1 |
N7 |
C5 |
C6 |
C4 |
180.9 |
179.8 |
N6 |
C6 |
C5 |
N1 |
179.8 |
180.1 |
C5 |
C6 |
N6 |
H61N |
180.2 |
359.9 |
C5 |
C6 |
N6 |
H62N |
300.2 |
179.9 |
C5 |
C6 |
N1 |
C2 |
0.3 |
0.1 |
N7 |
C5 |
C4 |
C6 |
179.3 |
180.2 |
C4 |
C5 |
C6 |
N6 |
179.4 |
180.3 |
C4 |
C5 |
C6 |
N1 |
359.6 |
0.2 |
C2 |
N3 |
C4 |
C5 |
359.2 |
0.5 |
N1 |
C2 |
N3 |
C4 |
0.8 |
359.7 |
C4 |
N3 |
C2 |
H2 |
180.7 |
179.7 |
N6 |
C6 |
C5 |
C4 |
179.4 |
180.3 |
C5 |
C6 |
N6 |
N1 |
180.2 |
179.9 |
N6 |
C6 |
N1 |
C2 |
180.5 |
180.0 |
H61N |
N6 |
C6 |
H62N |
240.0 |
179.9 |
N1 |
C6 |
C5 |
C4 |
359.6 |
0.2 |
C5 |
C6 |
N1 |
N6 |
179.8 |
180.1 |
N1 |
C6 |
N6 |
H61N |
360.0 |
180.0 |
N1 |
C6 |
N6 |
H62N |
120.0 |
0.0 |
C6 |
N1 |
C2 |
N3 |
359.5 |
0.0 |
C6 |
N1 |
C2 |
H2 |
179.5 |
180.0 |
N3 |
C2 |
N1 |
H2 |
180.0 |
180.0 |
N1 |
C2 |
N3 |
H2 |
180.0 |
180.0 |
HP3 |
OP3 |
P |
S1P |
360.0 |
60.0 |
HP3 |
OP3 |
P |
O3' |
241.4 |
296.4 |
HP3 |
OP3 |
P |
O2' |
128.0 |
183.7 |
H5' |
O5' |
C5' |
C4' |
180.0 |
180.0 |
H5' |
O5' |
C5' |
H5'1 |
300.4 |
300.0 |
H5' |
O5' |
C5' |
H5'2 |
59.6 |
60.0 |
O5' |
C5' |
H5'1 |
C4' |
237.5 |
240.0 |
H5'1 |
C5' |
O5' |
H5' |
300.4 |
300.0 |
O5' |
C5' |
H5'1 |
H5'2 |
118.8 |
119.9 |
H5'1 |
C5' |
C4' |
O4' |
186.9 |
306.5 |
H5'1 |
C5' |
C4' |
C3' |
305.8 |
64.3 |
C4' |
C5' |
H5'1 |
H5'2 |
241.3 |
240.0 |
H5'1 |
C5' |
C4' |
H4' |
66.5 |
185.4 |
O5' |
C5' |
H5'2 |
C4' |
122.5 |
120.0 |
H5'2 |
C5' |
O5' |
H5' |
59.6 |
60.0 |
O5' |
C5' |
H5'2 |
H5'1 |
241.2 |
240.1 |
H5'2 |
C5' |
C4' |
O4' |
67.7 |
186.4 |
H5'2 |
C5' |
C4' |
C3' |
186.6 |
304.3 |
C4' |
C5' |
H5'2 |
H5'1 |
118.7 |
120.0 |
H5'2 |
C5' |
C4' |
H4' |
307.3 |
65.4 |
C5' |
C4' |
H4' |
O4' |
120.7 |
121.0 |
C5' |
C4' |
H4' |
C3' |
236.7 |
239.0 |
H4' |
C4' |
C5' |
H5'1 |
66.5 |
185.4 |
H4' |
C4' |
C5' |
H5'2 |
307.3 |
65.4 |
O4' |
C4' |
H4' |
C3' |
115.9 |
118.0 |
H4' |
C4' |
O4' |
C1' |
234.4 |
266.9 |
H4' |
C4' |
C3' |
O3' |
26.6 |
3.8 |
H4' |
C4' |
C3' |
C2' |
142.0 |
117.4 |
H4' |
C4' |
C3' |
H3' |
261.2 |
239.7 |
C4' |
C3' |
H3' |
O3' |
124.6 |
121.6 |
C4' |
C3' |
H3' |
C2' |
243.4 |
242.9 |
H3' |
C3' |
C4' |
H4' |
261.2 |
239.7 |
O3' |
C3' |
H3' |
C2' |
118.8 |
121.3 |
H3' |
C3' |
O3' |
P |
263.0 |
270.9 |
H3' |
C3' |
C2' |
O2' |
89.2 |
100.4 |
H3' |
C3' |
C2' |
C1' |
211.6 |
217.2 |
H3' |
C3' |
C2' |
H2' |
328.3 |
336.7 |
O4' |
C1' |
H1' |
C2' |
243.2 |
245.9 |
O4' |
C1' |
H1' |
N9 |
116.8 |
123.0 |
C2' |
C1' |
H1' |
N9 |
233.6 |
237.0 |
H1' |
C1' |
C2' |
H2' |
149.7 |
159.4 |
H1' |
C1' |
N9 |
C8 |
185.7 |
146.5 |
H1' |
C1' |
N9 |
C4 |
7.7 |
326.3 |
C3' |
C2' |
H2' |
O2' |
116.9 |
123.3 |
C3' |
C2' |
H2' |
C1' |
249.0 |
246.3 |
H2' |
C2' |
C3' |
H3' |
328.3 |
336.7 |
O2' |
C2' |
H2' |
C1' |
132.1 |
123.1 |
H2' |
C2' |
O2' |
P |
147.5 |
123.4 |
H2' |
C2' |
C1' |
N9 |
27.5 |
36.3 |
H2' |
C2' |
C1' |
H1' |
149.7 |
159.4 |
H8 |
C8 |
N9 |
C4 |
179.1 |
180.2 |
N9 |
C8 |
H8 |
N7 |
180.0 |
180.0 |
H8 |
C8 |
N7 |
C5 |
180.4 |
180.0 |
H61N |
N6 |
C6 |
N1 |
360.0 |
180.0 |
C6 |
N6 |
H61N |
H62N |
120.0 |
180.1 |
H62N |
N6 |
C6 |
N1 |
120.0 |
0.0 |
C6 |
N6 |
H62N |
H61N |
239.9 |
179.9 |
H2 |
C2 |
N3 |
C4 |
180.7 |
179.7 |
N1 |
C2 |
H2 |
N3 |
180.0 |
180.0 |