PDB Chemical Component BMQ
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 BMQ
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
P |
O1P |
1.527 |
1.480 |
P |
O2P |
1.487 |
1.609 |
P |
O3P |
1.488 |
1.610 |
P |
O5' |
1.584 |
1.610 |
O2P |
HOP2 |
0.950 |
0.966 |
O3P |
HOP3 |
0.950 |
0.967 |
O5' |
C5' |
1.427 |
1.429 |
C5' |
C4' |
1.462 |
1.530 |
C5' |
H5'1 |
1.100 |
1.090 |
C5' |
H5'2 |
1.100 |
1.090 |
C4' |
O4' |
1.543 |
1.438 |
C4' |
C3' |
1.500 |
1.541 |
C4' |
H4' |
1.100 |
1.090 |
O4' |
C1' |
1.454 |
1.443 |
C3' |
O3' |
1.465 |
1.429 |
C3' |
C2' |
1.550 |
1.548 |
C3' |
H3' |
1.100 |
1.090 |
O3' |
HO3' |
0.950 |
0.967 |
C2' |
O2' |
1.363 |
1.429 |
C2' |
C1' |
1.519 |
1.551 |
C2' |
H2' |
1.100 |
1.090 |
O2' |
HO2' |
0.950 |
0.966 |
C1' |
N1 |
1.553 |
1.465 |
C1' |
H1' |
1.100 |
1.089 |
N1 |
C2 |
1.414 |
1.338 |
N1 |
C6 |
1.291 |
1.350 |
C2 |
O2 |
1.323 |
1.214 |
C2 |
N3 |
1.383 |
1.338 |
N3 |
C4 |
1.371 |
1.350 |
N3 |
HN3 |
1.000 |
0.970 |
C4 |
O4 |
1.238 |
1.213 |
C4 |
C5 |
1.432 |
1.516 |
C5 |
C6 |
1.381 |
1.517 |
C5 |
H51 |
1.100 |
1.090 |
C5 |
H52 |
1.100 |
1.089 |
C6 |
O1 |
1.365 |
1.212 |
Bond Angles for BMQ
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
O1P |
P |
O2P |
115.5 |
109.5 |
O1P |
P |
O3P |
109.2 |
109.5 |
O1P |
P |
O5' |
104.1 |
109.5 |
O2P |
P |
O3P |
109.1 |
109.5 |
O2P |
P |
O5' |
110.4 |
109.5 |
P |
O2P |
HOP2 |
109.5 |
114.0 |
O3P |
P |
O5' |
108.4 |
109.4 |
P |
O3P |
HOP3 |
109.5 |
114.0 |
P |
O5' |
C5' |
116.6 |
123.0 |
O5' |
C5' |
C4' |
116.3 |
109.4 |
O5' |
C5' |
H5'1 |
107.3 |
109.5 |
O5' |
C5' |
H5'2 |
107.3 |
109.5 |
C4' |
C5' |
H5'1 |
107.3 |
109.5 |
C4' |
C5' |
H5'2 |
107.2 |
109.5 |
C5' |
C4' |
O4' |
113.2 |
109.9 |
C5' |
C4' |
C3' |
121.8 |
109.8 |
C5' |
C4' |
H4' |
96.2 |
109.9 |
H5'1 |
C5' |
H5'2 |
111.6 |
109.5 |
O4' |
C4' |
C3' |
108.0 |
107.3 |
O4' |
C4' |
H4' |
113.8 |
109.9 |
C4' |
O4' |
C1' |
105.9 |
107.0 |
C3' |
C4' |
H4' |
102.9 |
110.0 |
C4' |
C3' |
O3' |
108.2 |
110.5 |
C4' |
C3' |
C2' |
105.2 |
104.2 |
C4' |
C3' |
H3' |
112.7 |
110.5 |
O4' |
C1' |
C2' |
108.3 |
103.5 |
O4' |
C1' |
N1 |
111.7 |
110.6 |
O4' |
C1' |
H1' |
110.7 |
110.7 |
O3' |
C3' |
C2' |
108.5 |
110.5 |
O3' |
C3' |
H3' |
109.7 |
110.4 |
C3' |
O3' |
HO3' |
109.5 |
114.1 |
C2' |
C3' |
H3' |
112.4 |
110.6 |
C3' |
C2' |
O2' |
117.1 |
110.9 |
C3' |
C2' |
C1' |
103.3 |
102.1 |
C3' |
C2' |
H2' |
109.8 |
110.9 |
O2' |
C2' |
C1' |
112.5 |
110.9 |
O2' |
C2' |
H2' |
100.0 |
110.8 |
C2' |
O2' |
HO2' |
109.5 |
114.0 |
C1' |
C2' |
H2' |
114.6 |
110.9 |
C2' |
C1' |
N1 |
114.6 |
110.6 |
C2' |
C1' |
H1' |
107.5 |
110.6 |
N1 |
C1' |
H1' |
103.8 |
110.7 |
C1' |
N1 |
C2 |
119.2 |
119.1 |
C1' |
N1 |
C6 |
119.9 |
119.0 |
C2 |
N1 |
C6 |
120.9 |
121.9 |
N1 |
C2 |
O2 |
122.9 |
117.6 |
N1 |
C2 |
N3 |
117.6 |
124.8 |
N1 |
C6 |
C5 |
124.0 |
117.5 |
N1 |
C6 |
O1 |
119.1 |
121.2 |
O2 |
C2 |
N3 |
119.5 |
117.6 |
C2 |
N3 |
C4 |
121.7 |
121.9 |
C2 |
N3 |
HN3 |
119.1 |
119.0 |
C4 |
N3 |
HN3 |
119.2 |
119.1 |
N3 |
C4 |
O4 |
118.7 |
121.2 |
N3 |
C4 |
C5 |
118.9 |
117.6 |
O4 |
C4 |
C5 |
122.4 |
121.2 |
C4 |
C5 |
C6 |
117.0 |
116.2 |
C4 |
C5 |
H51 |
107.0 |
108.1 |
C4 |
C5 |
H52 |
107.0 |
108.2 |
C6 |
C5 |
H51 |
107.0 |
108.3 |
C6 |
C5 |
H52 |
107.0 |
107.9 |
C5 |
C6 |
O1 |
116.9 |
121.2 |
H51 |
C5 |
H52 |
111.8 |
107.8 |
Torsion Angles for BMQ
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
O2P |
P |
O1P |
O3P |
123.3 |
240.0 |
O2P |
P |
O1P |
O5' |
238.9 |
120.0 |
O1P |
P |
O2P |
HOP2 |
360.0 |
180.0 |
O3P |
P |
O1P |
O5' |
115.6 |
240.0 |
O1P |
P |
O3P |
HOP3 |
0.0 |
300.0 |
O1P |
P |
O5' |
C5' |
181.8 |
55.0 |
O1P |
P |
O2P |
O3P |
236.7 |
120.0 |
O1P |
P |
O2P |
O5' |
117.7 |
240.0 |
O3P |
P |
O2P |
O5' |
241.0 |
120.0 |
O2P |
P |
O3P |
HOP3 |
233.0 |
60.0 |
O2P |
P |
O5' |
C5' |
306.3 |
295.0 |
O1P |
P |
O3P |
O2P |
127.0 |
240.0 |
O1P |
P |
O3P |
O5' |
247.2 |
120.0 |
O2P |
P |
O3P |
O5' |
120.2 |
240.0 |
O3P |
P |
O2P |
HOP2 |
123.3 |
60.0 |
O3P |
P |
O5' |
C5' |
65.6 |
175.0 |
O1P |
P |
O5' |
O2P |
235.5 |
120.0 |
O1P |
P |
O5' |
O3P |
116.1 |
240.0 |
O2P |
P |
O5' |
O3P |
240.6 |
120.0 |
O5' |
P |
O2P |
HOP2 |
242.3 |
300.0 |
O5' |
P |
O3P |
HOP3 |
112.8 |
180.0 |
P |
O5' |
C5' |
C4' |
183.9 |
180.0 |
P |
O5' |
C5' |
H5'1 |
303.9 |
300.0 |
P |
O5' |
C5' |
H5'2 |
63.9 |
60.0 |
HOP2 |
O2P |
P |
O3P |
123.3 |
60.0 |
HOP2 |
O2P |
P |
O5' |
242.3 |
300.0 |
HOP3 |
O3P |
P |
O5' |
112.8 |
180.0 |
C4' |
C5' |
O5' |
H5'1 |
240.0 |
240.0 |
C4' |
C5' |
O5' |
H5'2 |
120.0 |
120.0 |
O5' |
C5' |
C4' |
O4' |
274.7 |
66.5 |
O5' |
C5' |
C4' |
C3' |
46.1 |
184.3 |
O5' |
C5' |
C4' |
H4' |
155.5 |
305.5 |
H5'1 |
C5' |
O5' |
H5'2 |
240.0 |
240.0 |
O5' |
C5' |
C4' |
H5'1 |
120.0 |
120.0 |
O5' |
C5' |
C4' |
H5'2 |
240.0 |
240.0 |
H5'1 |
C5' |
C4' |
H5'2 |
120.0 |
120.0 |
O4' |
C4' |
C5' |
C3' |
228.6 |
242.2 |
O4' |
C4' |
C5' |
H4' |
119.3 |
121.0 |
C5' |
C4' |
O4' |
C1' |
143.2 |
145.9 |
C3' |
C4' |
C5' |
H4' |
250.6 |
238.8 |
C5' |
C4' |
C3' |
O3' |
124.4 |
119.9 |
C5' |
C4' |
C3' |
C2' |
240.2 |
238.6 |
C5' |
C4' |
C3' |
H3' |
3.0 |
357.4 |
O5' |
C5' |
H5'1 |
C4' |
234.4 |
240.0 |
O5' |
C5' |
H5'1 |
H5'2 |
117.2 |
120.0 |
C4' |
C5' |
H5'1 |
H5'2 |
242.8 |
240.0 |
H5'1 |
C5' |
C4' |
O4' |
154.7 |
306.5 |
H5'1 |
C5' |
C4' |
C3' |
286.1 |
64.3 |
H5'1 |
C5' |
C4' |
H4' |
35.5 |
185.5 |
O5' |
C5' |
H5'2 |
C4' |
125.6 |
120.0 |
O5' |
C5' |
H5'2 |
H5'1 |
242.8 |
240.0 |
C4' |
C5' |
H5'2 |
H5'1 |
117.2 |
120.0 |
H5'2 |
C5' |
C4' |
O4' |
34.7 |
186.5 |
H5'2 |
C5' |
C4' |
C3' |
166.1 |
304.3 |
H5'2 |
C5' |
C4' |
H4' |
275.5 |
65.4 |
O4' |
C4' |
C5' |
H5'1 |
154.7 |
306.5 |
O4' |
C4' |
C5' |
H5'2 |
34.7 |
186.5 |
C5' |
C4' |
O4' |
C3' |
137.9 |
119.4 |
C5' |
C4' |
O4' |
H4' |
251.5 |
239.0 |
C3' |
C4' |
O4' |
H4' |
113.6 |
119.6 |
O4' |
C4' |
C3' |
O3' |
257.9 |
239.3 |
O4' |
C4' |
C3' |
C2' |
13.7 |
357.9 |
O4' |
C4' |
C3' |
H3' |
136.5 |
116.8 |
C4' |
O4' |
C1' |
C2' |
337.1 |
319.9 |
C4' |
O4' |
C1' |
N1 |
210.0 |
201.4 |
C4' |
O4' |
C1' |
H1' |
94.8 |
78.4 |
C3' |
C4' |
C5' |
H5'1 |
286.1 |
64.3 |
C3' |
C4' |
C5' |
H5'2 |
166.1 |
304.3 |
C5' |
C4' |
C3' |
O4' |
226.5 |
240.6 |
C5' |
C4' |
C3' |
H4' |
105.8 |
121.1 |
O4' |
C4' |
C3' |
H4' |
239.3 |
240.5 |
C3' |
C4' |
O4' |
C1' |
5.3 |
26.6 |
O3' |
C3' |
C4' |
C2' |
244.2 |
241.3 |
O3' |
C3' |
C4' |
H3' |
121.4 |
122.5 |
C4' |
C3' |
O3' |
HO3' |
180.0 |
179.9 |
C2' |
C3' |
C4' |
H3' |
237.2 |
241.2 |
C4' |
C3' |
C2' |
O2' |
209.1 |
221.0 |
C4' |
C3' |
C2' |
C1' |
333.3 |
339.1 |
C4' |
C3' |
C2' |
H2' |
96.0 |
97.4 |
H4' |
C4' |
C5' |
H5'1 |
35.5 |
185.5 |
H4' |
C4' |
C5' |
H5'2 |
275.5 |
65.4 |
C5' |
C4' |
H4' |
O4' |
118.7 |
121.0 |
C5' |
C4' |
H4' |
C3' |
235.3 |
238.9 |
O4' |
C4' |
H4' |
C3' |
116.6 |
117.9 |
H4' |
C4' |
O4' |
C1' |
251.7 |
267.0 |
H4' |
C4' |
C3' |
O3' |
18.6 |
358.8 |
H4' |
C4' |
C3' |
C2' |
134.4 |
117.5 |
H4' |
C4' |
C3' |
H3' |
257.2 |
236.3 |
C1' |
O4' |
C4' |
C3' |
5.3 |
26.6 |
C1' |
O4' |
C4' |
H4' |
251.7 |
267.0 |
C3' |
C2' |
C1' |
O4' |
31.1 |
37.0 |
O2' |
C2' |
C1' |
O4' |
158.4 |
155.2 |
O4' |
C1' |
C2' |
H2' |
271.8 |
278.8 |
C2' |
C1' |
O4' |
N1 |
127.1 |
118.4 |
C2' |
C1' |
O4' |
H1' |
242.3 |
241.5 |
N1 |
C1' |
O4' |
H1' |
115.2 |
123.0 |
O4' |
C1' |
N1 |
C2 |
67.9 |
53.5 |
O4' |
C1' |
N1 |
C6 |
247.7 |
233.2 |
O3' |
C3' |
C4' |
H4' |
18.6 |
358.8 |
C4' |
C3' |
O3' |
C2' |
113.6 |
114.8 |
C4' |
C3' |
O3' |
H3' |
236.8 |
237.4 |
C2' |
C3' |
O3' |
H3' |
123.1 |
122.6 |
O3' |
C3' |
C2' |
O2' |
324.6 |
339.6 |
O3' |
C3' |
C2' |
C1' |
88.9 |
97.8 |
O3' |
C3' |
C2' |
H2' |
211.6 |
216.0 |
C2' |
C3' |
C4' |
H4' |
134.4 |
117.5 |
C4' |
C3' |
C2' |
O3' |
244.4 |
241.3 |
C4' |
C3' |
C2' |
H3' |
123.0 |
118.8 |
O4' |
C1' |
C2' |
C3' |
31.1 |
37.0 |
O3' |
C3' |
C2' |
H3' |
238.5 |
237.5 |
C2' |
C3' |
O3' |
HO3' |
66.4 |
65.1 |
O2' |
C2' |
C3' |
C1' |
235.7 |
241.8 |
O2' |
C2' |
C3' |
H2' |
113.1 |
123.6 |
C3' |
C2' |
O2' |
HO2' |
180.0 |
298.5 |
C1' |
C2' |
C3' |
H2' |
237.3 |
241.8 |
C3' |
C2' |
C1' |
N1 |
156.6 |
155.5 |
C3' |
C2' |
C1' |
H1' |
271.5 |
278.5 |
H3' |
C3' |
C4' |
H4' |
257.2 |
236.3 |
C4' |
C3' |
H3' |
O3' |
120.5 |
122.5 |
C4' |
C3' |
H3' |
C2' |
241.3 |
245.1 |
O3' |
C3' |
H3' |
C2' |
120.8 |
122.6 |
H3' |
C3' |
O3' |
HO3' |
303.2 |
302.5 |
H3' |
C3' |
C2' |
O2' |
86.1 |
102.2 |
H3' |
C3' |
C2' |
C1' |
210.4 |
220.3 |
H3' |
C3' |
C2' |
H2' |
333.0 |
338.6 |
HO3' |
O3' |
C3' |
C2' |
66.4 |
65.1 |
HO3' |
O3' |
C3' |
H3' |
303.2 |
302.5 |
O4' |
C1' |
C2' |
O2' |
158.4 |
155.2 |
O2' |
C2' |
C3' |
H3' |
86.1 |
102.2 |
C3' |
C2' |
O2' |
C1' |
119.5 |
112.7 |
C3' |
C2' |
O2' |
H2' |
241.6 |
236.3 |
C1' |
C2' |
O2' |
H2' |
122.0 |
123.7 |
O2' |
C2' |
C1' |
N1 |
283.9 |
273.7 |
O2' |
C2' |
C1' |
H1' |
38.7 |
36.7 |
O4' |
C1' |
C2' |
N1 |
234.5 |
241.5 |
O4' |
C1' |
C2' |
H1' |
119.7 |
118.6 |
C1' |
C2' |
C3' |
H3' |
210.4 |
220.3 |
C3' |
C2' |
C1' |
O2' |
232.7 |
241.8 |
C3' |
C2' |
C1' |
H2' |
119.4 |
118.2 |
O2' |
C2' |
C1' |
H2' |
246.6 |
236.4 |
C1' |
C2' |
O2' |
HO2' |
60.5 |
185.8 |
N1 |
C1' |
C2' |
H1' |
245.1 |
237.0 |
C2' |
C1' |
N1 |
C2 |
304.2 |
299.5 |
C2' |
C1' |
N1 |
C6 |
124.1 |
119.2 |
H2' |
C2' |
C3' |
H3' |
333.0 |
338.6 |
C3' |
C2' |
H2' |
O2' |
123.7 |
123.7 |
C3' |
C2' |
H2' |
C1' |
244.3 |
247.3 |
O2' |
C2' |
H2' |
C1' |
120.6 |
123.6 |
H2' |
C2' |
O2' |
HO2' |
298.4 |
62.2 |
H2' |
C2' |
C1' |
N1 |
37.3 |
37.3 |
H2' |
C2' |
C1' |
H1' |
152.1 |
160.3 |
HO2' |
O2' |
C2' |
C1' |
60.5 |
185.8 |
HO2' |
O2' |
C2' |
H2' |
298.4 |
62.2 |
O4' |
C1' |
N1 |
C2' |
123.7 |
114.0 |
O4' |
C1' |
N1 |
H1' |
240.7 |
237.0 |
N1 |
C1' |
C2' |
H2' |
37.3 |
37.3 |
C2' |
C1' |
N1 |
H1' |
117.0 |
123.0 |
C2 |
N1 |
C1' |
C6 |
180.2 |
180.3 |
C1' |
N1 |
C2 |
O2 |
359.7 |
0.0 |
C1' |
N1 |
C2 |
N3 |
179.7 |
180.0 |
C1' |
N1 |
C6 |
C5 |
180.3 |
179.8 |
C1' |
N1 |
C6 |
O1 |
0.4 |
0.1 |
O4' |
C1' |
H1' |
C2' |
241.9 |
245.9 |
O4' |
C1' |
H1' |
N1 |
120.0 |
123.0 |
H1' |
C1' |
C2' |
H2' |
152.1 |
160.3 |
C2' |
C1' |
H1' |
N1 |
238.2 |
237.1 |
H1' |
C1' |
N1 |
C2 |
187.2 |
176.5 |
H1' |
C1' |
N1 |
C6 |
7.1 |
356.2 |
C2 |
N1 |
C1' |
H1' |
187.2 |
176.5 |
C1' |
N1 |
C2 |
C6 |
179.8 |
179.7 |
C2 |
N1 |
C6 |
C5 |
0.2 |
359.5 |
C2 |
N1 |
C6 |
O1 |
180.2 |
179.8 |
O2 |
C2 |
N1 |
N3 |
180.0 |
180.0 |
N1 |
C2 |
N3 |
C4 |
359.9 |
360.0 |
N1 |
C2 |
N3 |
HN3 |
179.9 |
180.0 |
C6 |
N1 |
C1' |
H1' |
7.1 |
356.2 |
C1' |
N1 |
C6 |
C2 |
180.2 |
180.3 |
C6 |
N1 |
C2 |
O2 |
179.9 |
180.3 |
C6 |
N1 |
C2 |
N3 |
359.9 |
0.3 |
C4 |
C5 |
C6 |
N1 |
0.0 |
0.5 |
N1 |
C6 |
C5 |
H51 |
240.0 |
238.6 |
N1 |
C6 |
C5 |
H52 |
120.0 |
122.1 |
C5 |
C6 |
N1 |
O1 |
180.0 |
179.7 |
O2 |
C2 |
N1 |
C6 |
179.9 |
180.3 |
N1 |
C2 |
O2 |
N3 |
180.0 |
180.0 |
O2 |
C2 |
N3 |
C4 |
179.9 |
180.0 |
O2 |
C2 |
N3 |
HN3 |
359.8 |
0.0 |
N3 |
C2 |
N1 |
C6 |
359.9 |
0.3 |
N1 |
C2 |
N3 |
O2 |
180.0 |
180.0 |
C4 |
N3 |
C2 |
HN3 |
180.0 |
180.0 |
C2 |
N3 |
C4 |
O4 |
180.3 |
180.1 |
C2 |
N3 |
C4 |
C5 |
0.3 |
0.0 |
C2 |
N3 |
C4 |
HN3 |
180.0 |
180.0 |
O4 |
C4 |
N3 |
C5 |
180.0 |
180.1 |
N3 |
C4 |
C5 |
C6 |
359.7 |
359.8 |
N3 |
C4 |
C5 |
H51 |
119.7 |
121.7 |
N3 |
C4 |
C5 |
H52 |
239.7 |
238.2 |
C2 |
N3 |
HN3 |
C4 |
180.0 |
180.0 |
HN3 |
N3 |
C4 |
O4 |
0.3 |
0.1 |
HN3 |
N3 |
C4 |
C5 |
180.3 |
180.0 |
O4 |
C4 |
N3 |
HN3 |
0.3 |
0.1 |
N3 |
C4 |
O4 |
C5 |
180.0 |
179.9 |
O4 |
C4 |
C5 |
C6 |
179.8 |
179.7 |
O4 |
C4 |
C5 |
H51 |
299.8 |
301.7 |
O4 |
C4 |
C5 |
H52 |
59.8 |
58.2 |
N1 |
C6 |
C5 |
C4 |
0.0 |
0.5 |
C5 |
C4 |
N3 |
HN3 |
180.3 |
180.0 |
N3 |
C4 |
C5 |
O4 |
180.0 |
180.1 |
C6 |
C5 |
C4 |
H51 |
240.0 |
238.0 |
C6 |
C5 |
C4 |
H52 |
120.0 |
121.5 |
C4 |
C5 |
C6 |
O1 |
180.0 |
180.2 |
H51 |
C5 |
C4 |
H52 |
240.0 |
243.5 |
N1 |
C6 |
C5 |
O1 |
180.0 |
180.3 |
C4 |
C5 |
C6 |
H51 |
120.0 |
121.9 |
C4 |
C5 |
C6 |
H52 |
240.0 |
238.4 |
H51 |
C5 |
C6 |
H52 |
120.0 |
116.5 |
C4 |
C5 |
H51 |
C6 |
233.8 |
233.3 |
C4 |
C5 |
H51 |
H52 |
116.9 |
116.7 |
C6 |
C5 |
H51 |
H52 |
243.1 |
243.4 |
H51 |
C5 |
C6 |
O1 |
60.0 |
58.3 |
C4 |
C5 |
H52 |
C6 |
126.2 |
126.5 |
C4 |
C5 |
H52 |
H51 |
243.1 |
243.3 |
C6 |
C5 |
H52 |
H51 |
116.9 |
116.8 |
H52 |
C5 |
C6 |
O1 |
300.0 |
301.8 |
N1 |
C6 |
O1 |
C5 |
180.0 |
179.7 |
O1 |
C6 |
C5 |
H51 |
60.0 |
58.3 |
O1 |
C6 |
C5 |
H52 |
300.0 |
301.8 |