PDB Chemical Component RSQ
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 RSQ
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| OP1 |
P |
1.485 |
1.480 |
| O5' |
P |
1.593 |
1.610 |
| P |
OP2 |
1.485 |
1.610 |
| P |
OP3 |
1.611 |
1.610 |
| C1' |
N1 |
1.472 |
1.465 |
| N1 |
C2 |
1.395 |
1.342 |
| N1 |
C6 |
1.367 |
1.348 |
| O2 |
C2 |
1.238 |
1.219 |
| C2 |
N3 |
1.349 |
1.332 |
| N3 |
C4 |
1.331 |
1.326 |
| C5 |
C4 |
1.425 |
1.469 |
| C4 |
N4 |
1.326 |
1.372 |
| N4 |
HN4A |
1.000 |
0.969 |
| N4 |
HN4 |
1.000 |
0.970 |
| C6 |
C5 |
1.342 |
1.388 |
| C5 |
C10 |
1.455 |
1.465 |
| H6 |
C6 |
1.080 |
1.080 |
| C2' |
C1' |
1.529 |
1.545 |
| H1' |
C1' |
1.100 |
1.090 |
| C1' |
O4' |
1.416 |
1.445 |
| H10 |
C10 |
1.080 |
1.080 |
| C10 |
O30 |
1.197 |
1.213 |
| O2' |
C2' |
1.415 |
1.429 |
| C2' |
C3' |
1.526 |
1.544 |
| C2' |
H2' |
1.100 |
1.090 |
| HO2' |
O2' |
0.950 |
0.967 |
| O3' |
C3' |
1.425 |
1.429 |
| C3' |
C4' |
1.524 |
1.545 |
| C3' |
H3' |
1.100 |
1.090 |
| O3' |
HO3' |
0.950 |
0.967 |
| H4' |
C4' |
1.100 |
1.090 |
| C4' |
O4' |
1.450 |
1.444 |
| C4' |
C5' |
1.512 |
1.530 |
| H5' |
C5' |
1.100 |
1.090 |
| C5' |
H5'A |
1.100 |
1.090 |
| C5' |
O5' |
1.428 |
1.428 |
| OP2 |
HOP2 |
0.950 |
0.968 |
| OP3 |
HOP3 |
0.950 |
0.967 |
Bond Angles for RSQ
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| OP1 |
P |
OP2 |
119.5 |
109.5 |
| OP1 |
P |
OP3 |
108.9 |
109.4 |
| O5' |
P |
OP2 |
108.0 |
109.5 |
| O5' |
P |
OP3 |
104.2 |
109.5 |
| OP2 |
P |
OP3 |
107.7 |
109.5 |
| P |
OP2 |
HOP2 |
109.5 |
113.9 |
| P |
OP3 |
HOP3 |
109.5 |
114.0 |
| C2 |
N1 |
C6 |
120.3 |
121.3 |
| N1 |
C2 |
N3 |
119.2 |
122.4 |
| N1 |
C6 |
C5 |
121.2 |
118.9 |
| O2 |
C2 |
N3 |
121.8 |
118.8 |
| C2 |
N3 |
C4 |
120.0 |
120.8 |
| N3 |
C4 |
N4 |
117.5 |
120.6 |
| C4 |
N4 |
HN4A |
120.0 |
120.0 |
| C4 |
N4 |
HN4 |
120.0 |
120.0 |
| HN4 |
N4 |
HN4A |
120.0 |
120.0 |
| C6 |
C5 |
C10 |
118.7 |
121.0 |
| C5 |
C10 |
O30 |
125.9 |
120.0 |
| C2' |
C1' |
O4' |
108.1 |
104.8 |
| C1' |
O4' |
C4' |
109.8 |
105.2 |
| O2' |
C2' |
C3' |
111.6 |
110.5 |
| O2' |
C2' |
H2' |
112.7 |
110.6 |
| C3' |
C2' |
H2' |
111.0 |
110.5 |
| C2' |
C3' |
C4' |
102.8 |
104.1 |
| C2' |
C3' |
H3' |
109.5 |
110.6 |
| O3' |
C3' |
C4' |
111.6 |
110.5 |
| O3' |
C3' |
H3' |
111.0 |
110.6 |
| C4' |
C3' |
H3' |
109.5 |
110.5 |
| C3' |
C4' |
O4' |
104.4 |
104.8 |
| C3' |
C4' |
C5' |
115.9 |
110.4 |
| O4' |
C4' |
C5' |
108.7 |
110.3 |
| C4' |
C5' |
H5'A |
109.2 |
109.5 |
| C4' |
C5' |
O5' |
110.4 |
109.5 |
| H5' |
C5' |
H5'A |
109.5 |
109.4 |
| O5' |
C5' |
H5'A |
109.3 |
109.5 |
Torsion Angles for RSQ
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O5' |
P |
OP1 |
OP2 |
236.6 |
120.0 |
| O5' |
P |
OP1 |
OP3 |
112.3 |
240.0 |
| OP2 |
P |
OP1 |
OP3 |
235.7 |
120.0 |
| OP1 |
P |
OP2 |
HOP2 |
0.0 |
300.0 |
| OP1 |
P |
OP3 |
HOP3 |
0.0 |
180.0 |
| OP1 |
P |
O5' |
OP2 |
130.2 |
240.0 |
| OP1 |
P |
O5' |
OP3 |
244.6 |
120.0 |
| OP2 |
P |
O5' |
OP3 |
114.4 |
240.0 |
| O5' |
P |
OP2 |
HOP2 |
123.2 |
180.0 |
| O5' |
P |
OP3 |
HOP3 |
245.6 |
300.1 |
| OP1 |
P |
OP2 |
OP3 |
124.8 |
240.0 |
| O5' |
P |
OP2 |
OP3 |
247.9 |
120.0 |
| OP2 |
P |
OP3 |
HOP3 |
131.0 |
60.0 |
| OP1 |
P |
OP3 |
OP2 |
229.0 |
120.0 |
| O5' |
P |
OP3 |
OP2 |
114.6 |
240.0 |
| OP3 |
P |
OP2 |
HOP2 |
235.2 |
60.0 |
| C2 |
N1 |
C6 |
C5 |
0.2 |
360.0 |
| O2 |
C2 |
N1 |
N3 |
180.0 |
180.0 |
| N1 |
C2 |
N3 |
C4 |
359.7 |
360.0 |
| C6 |
N1 |
C2 |
N3 |
0.3 |
0.0 |
| N1 |
C6 |
C5 |
C10 |
179.1 |
180.0 |
| O2 |
C2 |
N1 |
C6 |
180.3 |
180.0 |
| N1 |
C2 |
O2 |
N3 |
180.0 |
180.0 |
| O2 |
C2 |
N3 |
C4 |
179.7 |
180.0 |
| N3 |
C2 |
N1 |
C6 |
0.3 |
0.0 |
| C2 |
N3 |
C4 |
N4 |
179.9 |
180.0 |
| N3 |
C4 |
N4 |
HN4A |
0.0 |
354.7 |
| N3 |
C4 |
N4 |
HN4 |
180.0 |
174.7 |
| N1 |
C6 |
C5 |
C4 |
359.4 |
0.0 |
| C5 |
C4 |
N4 |
HN4A |
180.0 |
174.7 |
| C5 |
C4 |
N4 |
HN4 |
360.0 |
354.7 |
| HN4 |
N4 |
C4 |
HN4A |
180.0 |
180.0 |
| C4 |
N4 |
HN4A |
HN4 |
180.0 |
180.0 |
| C4 |
N4 |
HN4 |
HN4A |
180.0 |
180.0 |
| C6 |
C5 |
C10 |
O30 |
180.4 |
185.4 |
| C2' |
C1' |
O4' |
C4' |
0.4 |
319.5 |
| C3' |
C4' |
O4' |
C1' |
21.5 |
40.6 |
| C1' |
O4' |
C4' |
C5' |
145.7 |
159.4 |
| O2' |
C2' |
C1' |
O4' |
95.8 |
142.7 |
| C3' |
C2' |
O2' |
H2' |
234.4 |
237.3 |
| O2' |
C2' |
C3' |
C4' |
278.4 |
241.4 |
| O2' |
C2' |
C3' |
H3' |
162.0 |
122.7 |
| C3' |
C2' |
C1' |
O4' |
338.1 |
24.0 |
| O2' |
C2' |
C3' |
H2' |
126.6 |
122.7 |
| O3' |
C3' |
C2' |
C4' |
120.0 |
118.6 |
| O3' |
C3' |
C2' |
H3' |
236.4 |
237.3 |
| C4' |
C3' |
C2' |
H3' |
116.4 |
118.6 |
| C2' |
C3' |
C4' |
O4' |
325.5 |
336.0 |
| C2' |
C3' |
C4' |
C5' |
206.0 |
217.2 |
| H2' |
C2' |
C1' |
O4' |
219.9 |
265.4 |
| O2' |
C2' |
H2' |
C3' |
234.0 |
237.3 |
| H2' |
C2' |
C3' |
C4' |
151.9 |
118.6 |
| H2' |
C2' |
C3' |
H3' |
35.4 |
0.0 |
| O3' |
C3' |
C2' |
H2' |
271.8 |
237.3 |
| C2' |
C3' |
O3' |
C4' |
245.3 |
245.4 |
| C2' |
C3' |
O3' |
H3' |
122.8 |
122.7 |
| C4' |
C3' |
O3' |
H3' |
237.5 |
237.4 |
| O3' |
C3' |
C4' |
O4' |
205.2 |
217.3 |
| O3' |
C3' |
C4' |
C5' |
85.8 |
98.6 |
| C1' |
O4' |
C4' |
C3' |
21.5 |
40.6 |
| C4' |
C3' |
C2' |
H2' |
151.9 |
118.6 |
| C2' |
C3' |
C4' |
H3' |
243.6 |
241.3 |
| O3' |
C3' |
C4' |
H3' |
123.3 |
122.7 |
| O4' |
C4' |
C3' |
C5' |
119.5 |
118.8 |
| C3' |
C4' |
C5' |
H5'A |
268.0 |
65.0 |
| C3' |
C4' |
C5' |
O5' |
28.2 |
185.0 |
| H3' |
C3' |
C2' |
H2' |
35.4 |
0.0 |
| C2' |
C3' |
H3' |
C4' |
112.1 |
114.7 |
| O3' |
C3' |
H3' |
C4' |
236.4 |
237.4 |
| H3' |
C3' |
C4' |
O4' |
81.9 |
94.7 |
| H3' |
C3' |
C4' |
C5' |
322.5 |
335.9 |
| HO3' |
O3' |
C3' |
C4' |
294.8 |
176.1 |
| HO3' |
O3' |
C3' |
H3' |
57.2 |
298.7 |
| H4' |
C4' |
C5' |
H5'A |
31.2 |
187.3 |
| O4' |
C4' |
C3' |
H3' |
81.9 |
94.7 |
| C3' |
C4' |
O4' |
C5' |
235.8 |
241.2 |
| O4' |
C4' |
C5' |
H5'A |
150.9 |
309.6 |
| O4' |
C4' |
C5' |
O5' |
271.1 |
69.7 |
| C5' |
C4' |
C3' |
H3' |
322.5 |
335.9 |
| C3' |
C4' |
C5' |
O4' |
117.1 |
115.4 |
| H5' |
C5' |
C4' |
H5'A |
240.3 |
240.1 |
| O5' |
C5' |
C4' |
H5'A |
120.2 |
120.1 |
| C4' |
C5' |
H5' |
H5'A |
119.6 |
120.0 |
| O5' |
C5' |
H5' |
H5'A |
240.4 |
240.0 |
| C4' |
C5' |
H5'A |
O5' |
120.8 |
120.1 |
| C5' |
O5' |
P |
OP2 |
302.3 |
175.0 |
| C5' |
O5' |
P |
OP3 |
187.9 |
294.9 |
| C4' |
C5' |
O5' |
H5'A |
239.8 |
239.9 |
| H5' |
C5' |
O5' |
H5'A |
119.7 |
119.9 |
| HOP2 |
OP2 |
P |
OP3 |
235.2 |
60.0 |