PDB Chemical Component 8RO
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 8RO
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
P |
OP1 |
1.485 |
1.610 |
P |
OP2 |
1.478 |
1.609 |
P |
O5' |
1.588 |
1.610 |
O5' |
C5' |
1.414 |
1.429 |
C5' |
C4' |
1.505 |
1.530 |
C4' |
O4' |
1.441 |
1.443 |
C4' |
C3' |
1.527 |
1.550 |
O4' |
C1' |
1.408 |
1.437 |
C3' |
O3' |
1.428 |
1.429 |
C3' |
C2' |
1.555 |
1.548 |
C2' |
C1' |
1.537 |
1.540 |
C1' |
N1 |
1.540 |
1.465 |
N1 |
C2 |
1.374 |
1.349 |
N1 |
C6 |
1.384 |
1.456 |
C2 |
O2 |
1.210 |
1.217 |
C2 |
N3 |
1.404 |
1.342 |
N3 |
C4 |
1.412 |
1.451 |
N3 |
S4 |
2.400 |
1.627 |
C4 |
S4 |
1.302 |
1.742 |
C4 |
C5 |
1.475 |
1.327 |
C5 |
C7 |
1.500 |
1.507 |
C5 |
C6 |
1.365 |
1.520 |
OP1 |
H1 |
0.950 |
0.967 |
OP2 |
H2 |
0.950 |
0.967 |
C5' |
H3 |
1.100 |
1.090 |
C5' |
H4 |
1.100 |
1.089 |
C4' |
H5 |
1.100 |
1.091 |
C3' |
H6 |
1.100 |
1.090 |
O3' |
H7 |
0.950 |
0.966 |
C2' |
H8 |
1.100 |
1.091 |
C2' |
H9 |
1.100 |
1.090 |
C1' |
H10 |
1.100 |
1.090 |
C7 |
H11 |
1.100 |
1.089 |
C7 |
H12 |
1.100 |
1.090 |
C7 |
H13 |
1.100 |
1.090 |
C6 |
H14 |
1.100 |
1.090 |
C6 |
H15 |
1.100 |
1.089 |
Bond Angles for 8RO
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
OP1 |
P |
OP2 |
122.3 |
102.0 |
OP1 |
P |
O5' |
106.7 |
102.0 |
P |
OP1 |
H1 |
109.5 |
114.0 |
OP2 |
P |
O5' |
107.1 |
102.0 |
P |
OP2 |
H2 |
109.5 |
114.0 |
P |
O5' |
C5' |
119.5 |
123.0 |
O5' |
C5' |
C4' |
107.6 |
109.4 |
O5' |
C5' |
H3 |
109.9 |
109.5 |
O5' |
C5' |
H4 |
109.9 |
109.5 |
C5' |
C4' |
O4' |
109.2 |
110.7 |
C5' |
C4' |
C3' |
112.8 |
110.6 |
C4' |
C5' |
H3 |
109.9 |
109.4 |
C4' |
C5' |
H4 |
109.9 |
109.5 |
C5' |
C4' |
H5 |
109.4 |
110.5 |
O4' |
C4' |
C3' |
106.0 |
103.5 |
C4' |
O4' |
C1' |
111.5 |
107.0 |
O4' |
C4' |
H5 |
110.3 |
110.6 |
C4' |
C3' |
O3' |
107.0 |
110.9 |
C4' |
C3' |
C2' |
105.4 |
102.1 |
C3' |
C4' |
H5 |
109.1 |
110.7 |
C4' |
C3' |
H6 |
109.2 |
110.9 |
O4' |
C1' |
C2' |
105.1 |
107.3 |
O4' |
C1' |
N1 |
106.4 |
109.9 |
O4' |
C1' |
H10 |
110.2 |
109.9 |
O3' |
C3' |
C2' |
115.7 |
110.9 |
O3' |
C3' |
H6 |
110.5 |
110.8 |
C3' |
O3' |
H7 |
109.5 |
114.0 |
C3' |
C2' |
C1' |
103.9 |
104.2 |
C2' |
C3' |
H6 |
108.8 |
111.0 |
C3' |
C2' |
H8 |
110.8 |
110.5 |
C3' |
C2' |
H9 |
110.9 |
110.5 |
C2' |
C1' |
N1 |
118.3 |
109.9 |
C1' |
C2' |
H8 |
110.9 |
110.5 |
C1' |
C2' |
H9 |
110.9 |
110.5 |
C2' |
C1' |
H10 |
108.4 |
109.9 |
C1' |
N1 |
C2 |
119.0 |
116.6 |
C1' |
N1 |
C6 |
121.4 |
116.6 |
N1 |
C1' |
H10 |
108.4 |
110.0 |
C2 |
N1 |
C6 |
119.6 |
126.7 |
N1 |
C2 |
O2 |
119.9 |
121.1 |
N1 |
C2 |
N3 |
116.5 |
117.8 |
N1 |
C6 |
C5 |
124.3 |
111.0 |
N1 |
C6 |
H14 |
105.6 |
109.2 |
N1 |
C6 |
H15 |
105.6 |
109.2 |
O2 |
C2 |
N3 |
123.6 |
121.1 |
C2 |
N3 |
C4 |
127.9 |
107.5 |
C2 |
N3 |
S4 |
154.5 |
131.4 |
C4 |
N3 |
S4 |
26.7 |
68.7 |
N3 |
C4 |
S4 |
124.2 |
60.5 |
N3 |
C4 |
C5 |
111.7 |
130.8 |
N3 |
S4 |
C4 |
29.1 |
50.9 |
S4 |
C4 |
C5 |
124.0 |
164.6 |
C4 |
C5 |
C7 |
121.2 |
123.9 |
C4 |
C5 |
C6 |
120.0 |
112.2 |
C7 |
C5 |
C6 |
118.8 |
123.9 |
C5 |
C7 |
H11 |
109.5 |
109.5 |
C5 |
C7 |
H12 |
109.4 |
109.5 |
C5 |
C7 |
H13 |
109.5 |
109.4 |
C5 |
C6 |
H14 |
105.6 |
109.3 |
C5 |
C6 |
H15 |
105.6 |
109.0 |
H3 |
C5' |
H4 |
109.5 |
109.5 |
H8 |
C2' |
H9 |
109.4 |
110.5 |
H11 |
C7 |
H12 |
109.5 |
109.5 |
H11 |
C7 |
H13 |
109.4 |
109.5 |
H12 |
C7 |
H13 |
109.5 |
109.5 |
H14 |
C6 |
H15 |
109.5 |
109.1 |
Torsion Angles for 8RO
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
OP2 |
P |
OP1 |
O5' |
236.5 |
254.8 |
OP1 |
P |
OP2 |
H2 |
180.0 |
285.2 |
OP1 |
P |
O5' |
C5' |
56.1 |
89.8 |
OP1 |
P |
OP2 |
O5' |
123.3 |
105.2 |
OP2 |
P |
OP1 |
H1 |
180.0 |
180.0 |
OP2 |
P |
O5' |
C5' |
188.6 |
195.0 |
OP1 |
P |
O5' |
OP2 |
227.5 |
254.8 |
O5' |
P |
OP1 |
H1 |
303.5 |
285.2 |
O5' |
P |
OP2 |
H2 |
56.7 |
180.0 |
P |
O5' |
C5' |
C4' |
173.9 |
180.0 |
P |
O5' |
C5' |
H3 |
293.6 |
299.9 |
P |
O5' |
C5' |
H4 |
54.2 |
60.0 |
O5' |
C5' |
C4' |
O4' |
295.3 |
66.4 |
O5' |
C5' |
C4' |
C3' |
52.9 |
180.5 |
C4' |
C5' |
O5' |
H3 |
240.3 |
240.1 |
C4' |
C5' |
O5' |
H4 |
119.7 |
120.0 |
O5' |
C5' |
C4' |
H5 |
174.6 |
303.5 |
H3 |
C5' |
O5' |
H4 |
239.4 |
240.0 |
O5' |
C5' |
C4' |
H3 |
119.7 |
119.9 |
O5' |
C5' |
C4' |
H4 |
240.3 |
240.0 |
O4' |
C4' |
C5' |
C3' |
242.4 |
245.9 |
C5' |
C4' |
O4' |
C1' |
142.8 |
158.6 |
O4' |
C4' |
C5' |
H5 |
120.8 |
122.9 |
C5' |
C4' |
C3' |
O3' |
113.6 |
86.2 |
C5' |
C4' |
C3' |
C2' |
237.2 |
204.4 |
C3' |
C4' |
C5' |
H5 |
238.4 |
237.0 |
C5' |
C4' |
C3' |
H6 |
354.0 |
322.7 |
H3 |
C5' |
C4' |
H4 |
120.6 |
120.0 |
C5' |
C4' |
O4' |
C3' |
121.8 |
118.5 |
O4' |
C4' |
C5' |
H3 |
175.6 |
306.5 |
O4' |
C4' |
C5' |
H4 |
55.0 |
186.5 |
C5' |
C4' |
O4' |
H5 |
239.8 |
237.2 |
O4' |
C4' |
C3' |
O3' |
233.1 |
204.8 |
O4' |
C4' |
C3' |
C2' |
356.7 |
323.0 |
C3' |
C4' |
O4' |
H5 |
118.0 |
118.7 |
O4' |
C4' |
C3' |
H6 |
113.4 |
81.3 |
C4' |
O4' |
C1' |
C2' |
330.2 |
333.5 |
C4' |
O4' |
C1' |
N1 |
204.0 |
214.1 |
C4' |
O4' |
C1' |
H10 |
86.8 |
93.0 |
C5' |
C4' |
C3' |
O4' |
240.5 |
241.4 |
C3' |
C4' |
C5' |
H3 |
293.2 |
60.6 |
C3' |
C4' |
C5' |
H4 |
172.6 |
300.6 |
C5' |
C4' |
C3' |
H5 |
121.8 |
122.9 |
C3' |
C4' |
O4' |
C1' |
21.0 |
40.1 |
O4' |
C4' |
C3' |
H5 |
241.3 |
241.4 |
O3' |
C3' |
C4' |
C2' |
236.4 |
241.8 |
O3' |
C3' |
C4' |
H6 |
119.6 |
123.6 |
C4' |
C3' |
O3' |
H7 |
180.0 |
180.0 |
C4' |
C3' |
C2' |
C1' |
346.7 |
20.9 |
C2' |
C3' |
C4' |
H6 |
243.3 |
241.7 |
C4' |
C3' |
C2' |
H8 |
105.9 |
139.6 |
C4' |
C3' |
C2' |
H9 |
227.6 |
262.2 |
C1' |
O4' |
C4' |
C3' |
21.0 |
40.1 |
C1' |
O4' |
C4' |
H5 |
263.1 |
281.4 |
C3' |
C2' |
C1' |
O4' |
25.6 |
2.0 |
C2' |
C1' |
O4' |
N1 |
126.2 |
119.4 |
O4' |
C1' |
C2' |
H8 |
266.5 |
243.4 |
O4' |
C1' |
C2' |
H9 |
144.7 |
120.7 |
C2' |
C1' |
O4' |
H10 |
243.5 |
240.5 |
O4' |
C1' |
N1 |
C2 |
239.9 |
53.5 |
O4' |
C1' |
N1 |
C6 |
59.7 |
233.3 |
N1 |
C1' |
O4' |
H10 |
117.2 |
121.1 |
C4' |
C3' |
O3' |
C2' |
117.1 |
112.7 |
O3' |
C3' |
C4' |
H5 |
351.8 |
323.4 |
C4' |
C3' |
O3' |
H6 |
241.3 |
236.4 |
O3' |
C3' |
C2' |
C1' |
104.7 |
139.0 |
C2' |
C3' |
O3' |
H6 |
124.2 |
123.7 |
O3' |
C3' |
C2' |
H8 |
223.8 |
257.7 |
O3' |
C3' |
C2' |
H9 |
345.6 |
20.4 |
C4' |
C3' |
C2' |
O3' |
242.0 |
241.8 |
C2' |
C3' |
C4' |
H5 |
115.4 |
81.6 |
C4' |
C3' |
C2' |
H6 |
117.0 |
118.2 |
O4' |
C1' |
C2' |
C3' |
25.6 |
2.0 |
O3' |
C3' |
C2' |
H6 |
234.9 |
236.4 |
C2' |
C3' |
O3' |
H7 |
62.9 |
67.4 |
C3' |
C2' |
C1' |
N1 |
144.1 |
121.4 |
C1' |
C2' |
C3' |
H8 |
240.9 |
241.3 |
C1' |
C2' |
C3' |
H9 |
119.1 |
118.7 |
C3' |
C2' |
C1' |
H10 |
267.8 |
242.6 |
H8 |
C2' |
C3' |
H9 |
238.3 |
237.4 |
O4' |
C1' |
C2' |
N1 |
241.5 |
240.6 |
O4' |
C1' |
C2' |
H10 |
117.8 |
119.5 |
C1' |
C2' |
C3' |
H6 |
229.8 |
262.7 |
C3' |
C2' |
C1' |
H8 |
119.1 |
118.7 |
C3' |
C2' |
C1' |
H9 |
240.9 |
241.3 |
C2' |
C1' |
N1 |
C2 |
122.1 |
295.7 |
C2' |
C1' |
N1 |
C6 |
301.8 |
115.5 |
N1 |
C1' |
C2' |
H10 |
236.3 |
238.9 |
H8 |
C2' |
C1' |
H9 |
121.8 |
122.6 |
O4' |
C1' |
N1 |
C2' |
117.8 |
117.8 |
O4' |
C1' |
N1 |
H10 |
241.6 |
238.9 |
N1 |
C1' |
C2' |
H8 |
25.0 |
2.7 |
N1 |
C1' |
C2' |
H9 |
263.2 |
240.1 |
C2' |
C1' |
N1 |
H10 |
123.7 |
121.1 |
C2 |
N1 |
C1' |
C6 |
180.3 |
180.2 |
C1' |
N1 |
C2 |
O2 |
358.6 |
20.1 |
C1' |
N1 |
C2 |
N3 |
179.5 |
200.0 |
C1' |
N1 |
C6 |
C5 |
180.4 |
189.6 |
C1' |
N1 |
C6 |
H14 |
302.4 |
310.1 |
C1' |
N1 |
C6 |
H15 |
58.4 |
69.4 |
C1' |
N1 |
C2 |
C6 |
179.7 |
179.8 |
C2 |
N1 |
C1' |
H10 |
358.3 |
174.6 |
C2 |
N1 |
C6 |
C5 |
0.1 |
9.3 |
C2 |
N1 |
C6 |
H14 |
122.1 |
129.9 |
C2 |
N1 |
C6 |
H15 |
238.1 |
249.2 |
O2 |
C2 |
N1 |
N3 |
179.0 |
180.1 |
N1 |
C2 |
N3 |
C4 |
0.4 |
320.8 |
N1 |
C2 |
N3 |
S4 |
0.0 |
244.1 |
C1' |
N1 |
C6 |
C2 |
180.3 |
180.2 |
C6 |
N1 |
C1' |
H10 |
178.1 |
354.4 |
C6 |
N1 |
C2 |
O2 |
178.8 |
200.3 |
C6 |
N1 |
C2 |
N3 |
359.8 |
20.2 |
C4 |
C5 |
C6 |
N1 |
359.8 |
347.1 |
C7 |
C5 |
C6 |
N1 |
179.8 |
166.8 |
C5 |
C6 |
N1 |
H14 |
238.0 |
239.4 |
C5 |
C6 |
N1 |
H15 |
122.0 |
120.2 |
H14 |
C6 |
N1 |
H15 |
244.0 |
240.7 |
O2 |
C2 |
N1 |
C6 |
178.8 |
200.3 |
N1 |
C2 |
O2 |
N3 |
181.0 |
179.9 |
O2 |
C2 |
N3 |
C4 |
181.4 |
140.7 |
O2 |
C2 |
N3 |
S4 |
181.0 |
64.1 |
N3 |
C2 |
N1 |
C6 |
359.8 |
20.2 |
N1 |
C2 |
N3 |
O2 |
179.0 |
180.1 |
C4 |
N3 |
C2 |
S4 |
0.4 |
76.7 |
C2 |
N3 |
C4 |
S4 |
180.4 |
231.6 |
C2 |
N3 |
C4 |
C5 |
359.5 |
38.7 |
C2 |
N3 |
S4 |
C4 |
0.8 |
94.9 |
C4 |
N3 |
S4 |
C4 |
360.0 |
-0.0 |
S4 |
C4 |
N3 |
C5 |
180.9 |
192.9 |
N3 |
C4 |
C5 |
C7 |
180.4 |
169.1 |
N3 |
C4 |
C5 |
C6 |
0.4 |
348.9 |
S4 |
N3 |
C4 |
S4 |
360.0 |
-0.0 |
S4 |
N3 |
C4 |
C5 |
179.1 |
167.1 |
N3 |
S4 |
C4 |
C5 |
181.0 |
219.5 |
S4 |
C4 |
N3 |
S4 |
360.0 |
-0.0 |
N3 |
C4 |
S4 |
C5 |
179.0 |
140.5 |
S4 |
C4 |
C5 |
C7 |
359.5 |
302.1 |
S4 |
C4 |
C5 |
C6 |
179.4 |
121.9 |
N1 |
C6 |
C5 |
C4 |
359.8 |
347.1 |
C5 |
C4 |
N3 |
S4 |
179.1 |
167.1 |
N3 |
C4 |
C5 |
S4 |
180.9 |
227.0 |
C7 |
C5 |
C4 |
C6 |
180.0 |
180.3 |
C4 |
C5 |
C7 |
H11 |
180.0 |
360.0 |
C4 |
C5 |
C7 |
H12 |
300.0 |
120.0 |
C4 |
C5 |
C7 |
H13 |
60.0 |
239.9 |
C4 |
C5 |
C6 |
H14 |
237.8 |
226.6 |
C4 |
C5 |
C6 |
H15 |
121.8 |
107.4 |
N1 |
C6 |
C5 |
C7 |
179.8 |
166.8 |
C4 |
C5 |
C7 |
C6 |
180.0 |
179.7 |
C7 |
C5 |
C6 |
H14 |
57.8 |
46.3 |
C7 |
C5 |
C6 |
H15 |
301.8 |
287.1 |
H11 |
C7 |
C5 |
H12 |
240.0 |
240.0 |
H11 |
C7 |
C5 |
H13 |
120.0 |
120.0 |
H12 |
C7 |
C5 |
H13 |
240.0 |
240.0 |
N1 |
C6 |
C5 |
H14 |
122.0 |
120.5 |
N1 |
C6 |
C5 |
H15 |
238.0 |
239.7 |
C4 |
C5 |
C6 |
C7 |
180.0 |
180.3 |
C6 |
C5 |
C7 |
H11 |
360.0 |
180.3 |
C6 |
C5 |
C7 |
H12 |
120.0 |
300.3 |
C6 |
C5 |
C7 |
H13 |
240.0 |
60.2 |
H14 |
C6 |
C5 |
H15 |
116.0 |
119.2 |
H1 |
OP1 |
P |
OP2 |
180.0 |
180.0 |
H1 |
OP1 |
P |
O5' |
303.5 |
285.2 |
H2 |
OP2 |
P |
O5' |
56.7 |
180.0 |
O5' |
C5' |
H3 |
C4' |
241.7 |
240.1 |
O5' |
C5' |
H3 |
H4 |
120.8 |
120.0 |
H3 |
C5' |
C4' |
O4' |
175.6 |
306.5 |
H3 |
C5' |
C4' |
C3' |
293.2 |
60.6 |
C4' |
C5' |
H3 |
H4 |
239.1 |
240.0 |
H3 |
C5' |
C4' |
H5 |
54.8 |
183.6 |
O5' |
C5' |
H4 |
C4' |
118.3 |
120.0 |
O5' |
C5' |
H4 |
H3 |
239.1 |
240.0 |
H4 |
C5' |
C4' |
O4' |
55.0 |
186.5 |
H4 |
C5' |
C4' |
C3' |
172.6 |
300.6 |
C4' |
C5' |
H4 |
H3 |
120.9 |
120.0 |
H4 |
C5' |
C4' |
H5 |
294.3 |
63.6 |
C5' |
C4' |
H5 |
O4' |
120.1 |
122.9 |
C5' |
C4' |
H5 |
C3' |
236.1 |
237.1 |
H5 |
C4' |
C5' |
H3 |
54.8 |
183.6 |
H5 |
C4' |
C5' |
H4 |
294.3 |
63.6 |
O4' |
C4' |
H5 |
C3' |
116.0 |
114.2 |
H5 |
C4' |
O4' |
C1' |
263.1 |
281.4 |
H5 |
C4' |
C3' |
O3' |
351.8 |
323.4 |
H5 |
C4' |
C3' |
C2' |
115.4 |
81.6 |
H5 |
C4' |
C3' |
H6 |
232.2 |
199.8 |
C4' |
C3' |
H6 |
O3' |
117.4 |
123.6 |
C4' |
C3' |
H6 |
C2' |
245.5 |
247.3 |
H6 |
C3' |
C4' |
H5 |
232.2 |
199.8 |
O3' |
C3' |
H6 |
C2' |
128.0 |
123.7 |
H6 |
C3' |
O3' |
H7 |
298.8 |
303.6 |
H6 |
C3' |
C2' |
C1' |
229.8 |
262.7 |
H6 |
C3' |
C2' |
H8 |
348.9 |
21.4 |
H6 |
C3' |
C2' |
H9 |
110.6 |
144.0 |
H7 |
O3' |
C3' |
C2' |
62.9 |
67.4 |
H7 |
O3' |
C3' |
H6 |
298.8 |
303.6 |
C3' |
C2' |
H8 |
C1' |
245.1 |
245.2 |
H8 |
C2' |
C3' |
H6 |
348.9 |
21.4 |
C3' |
C2' |
H8 |
H9 |
122.6 |
122.6 |
H8 |
C2' |
C1' |
N1 |
25.0 |
2.7 |
C1' |
C2' |
H8 |
H9 |
237.4 |
237.4 |
H8 |
C2' |
C1' |
H10 |
148.7 |
123.9 |
C3' |
C2' |
H9 |
C1' |
114.9 |
114.8 |
H9 |
C2' |
C3' |
H6 |
110.6 |
144.0 |
C3' |
C2' |
H9 |
H8 |
237.5 |
237.4 |
H9 |
C2' |
C1' |
N1 |
263.2 |
240.1 |
C1' |
C2' |
H9 |
H8 |
122.6 |
122.6 |
H9 |
C2' |
C1' |
H10 |
26.9 |
1.3 |
O4' |
C1' |
H10 |
C2' |
245.5 |
242.1 |
O4' |
C1' |
H10 |
N1 |
116.0 |
121.0 |
C2' |
C1' |
H10 |
N1 |
230.5 |
238.9 |
H10 |
C1' |
C2' |
H8 |
148.7 |
123.9 |
H10 |
C1' |
C2' |
H9 |
26.9 |
1.3 |
H10 |
C1' |
N1 |
C2 |
358.3 |
174.6 |
H10 |
C1' |
N1 |
C6 |
178.1 |
354.4 |
H11 |
C7 |
C5 |
C6 |
360.0 |
180.3 |
C5 |
C7 |
H11 |
H12 |
120.0 |
120.0 |
C5 |
C7 |
H11 |
H13 |
240.0 |
240.0 |
H12 |
C7 |
H11 |
H13 |
120.0 |
120.1 |
H12 |
C7 |
C5 |
C6 |
120.0 |
300.3 |
C5 |
C7 |
H12 |
H11 |
240.0 |
240.0 |
C5 |
C7 |
H12 |
H13 |
120.0 |
120.0 |
H11 |
C7 |
H12 |
H13 |
240.0 |
239.9 |
H13 |
C7 |
C5 |
C6 |
240.0 |
60.2 |
C5 |
C7 |
H13 |
H11 |
120.0 |
120.0 |
C5 |
C7 |
H13 |
H12 |
240.0 |
240.0 |
H11 |
C7 |
H13 |
H12 |
120.0 |
120.0 |
N1 |
C6 |
H14 |
C5 |
226.6 |
238.4 |
N1 |
C6 |
H14 |
H15 |
113.3 |
119.3 |
C5 |
C6 |
H14 |
H15 |
246.7 |
240.9 |
N1 |
C6 |
H15 |
C5 |
133.4 |
121.4 |
N1 |
C6 |
H15 |
H14 |
246.7 |
240.7 |
C5 |
C6 |
H15 |
H14 |
113.3 |
119.3 |