PDB Chemical Component 0R8
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 0R8
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
OP2 |
P |
1.586 |
1.611 |
C5' |
C4' |
1.548 |
1.530 |
C5' |
O5' |
1.425 |
1.429 |
C4' |
C3' |
1.540 |
1.549 |
C4' |
O4' |
1.440 |
1.437 |
C3' |
C2' |
1.546 |
1.556 |
C2' |
C1' |
1.548 |
1.544 |
O5' |
P |
1.611 |
1.610 |
P |
OP1 |
1.594 |
1.479 |
O4' |
C1' |
1.424 |
1.432 |
C1' |
N1 |
1.453 |
1.464 |
N1 |
C6 |
1.356 |
1.360 |
N1 |
C2 |
1.342 |
1.343 |
O2 |
C2 |
1.215 |
1.219 |
C6 |
C5 |
1.339 |
1.382 |
C2 |
N3 |
1.434 |
1.331 |
C5 |
C1 |
1.436 |
1.431 |
C5 |
C4 |
1.471 |
1.467 |
N3 |
C4 |
1.270 |
1.326 |
C1 |
C3 |
1.200 |
1.174 |
C4 |
N4 |
1.349 |
1.374 |
C3 |
C01 |
1.437 |
1.432 |
C02 |
C01 |
1.397 |
1.399 |
C02 |
C03 |
1.398 |
1.366 |
C01 |
C |
1.401 |
1.400 |
C03 |
C04 |
1.402 |
1.398 |
C |
C05 |
1.397 |
1.366 |
C04 |
C05 |
1.400 |
1.397 |
C04 |
C7 |
1.441 |
1.432 |
C7 |
C8 |
1.204 |
1.174 |
OP2 |
HOP2 |
0.950 |
0.967 |
C1' |
H1' |
1.100 |
1.090 |
C6 |
H6 |
1.080 |
1.080 |
N4 |
H41 |
1.000 |
0.970 |
N4 |
H42 |
1.000 |
0.969 |
C4' |
H7 |
1.099 |
1.090 |
C3' |
H3' |
1.100 |
1.091 |
C3' |
H3'' |
1.100 |
1.090 |
C2' |
H2' |
1.100 |
1.090 |
C2' |
H2'' |
1.100 |
1.090 |
C5' |
H5' |
1.100 |
1.090 |
C5' |
H5'' |
1.100 |
1.090 |
C02 |
H14 |
1.080 |
1.080 |
C03 |
H15 |
1.080 |
1.080 |
C05 |
H16 |
1.079 |
1.079 |
C |
H17 |
1.080 |
1.080 |
C8 |
H18 |
1.060 |
1.050 |
P |
OP3 |
|
1.609 |
OP3 |
HOP3 |
|
0.968 |
Bond Angles for 0R8
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
OP2 |
P |
OP3 |
|
109.5 |
C5' |
C4' |
H7 |
109.4 |
110.3 |
C4' |
C3' |
C2' |
100.5 |
101.0 |
C3' |
C4' |
H7 |
109.5 |
110.3 |
C4' |
C3' |
H3' |
111.7 |
111.1 |
C4' |
C3' |
H3'' |
111.7 |
111.2 |
C2' |
C3' |
H3' |
111.7 |
111.1 |
C2' |
C3' |
H3'' |
111.7 |
111.1 |
C3' |
C2' |
H2' |
111.5 |
110.8 |
C3' |
C2' |
H2'' |
111.5 |
110.8 |
C2' |
C1' |
H1' |
107.7 |
109.8 |
O5' |
P |
OP1 |
109.8 |
109.5 |
O5' |
P |
OP3 |
|
109.4 |
OP1 |
P |
OP3 |
|
109.5 |
O4' |
C1' |
H1' |
109.3 |
109.8 |
C1' |
N1 |
C6 |
122.5 |
119.5 |
C1' |
N1 |
C2 |
116.8 |
119.4 |
N1 |
C1' |
H1' |
108.9 |
109.8 |
C6 |
N1 |
C2 |
120.5 |
121.1 |
N1 |
C6 |
C5 |
119.1 |
118.9 |
N1 |
C6 |
H6 |
120.4 |
120.5 |
N1 |
C2 |
N3 |
120.2 |
122.2 |
C6 |
C5 |
C1 |
121.4 |
121.0 |
C6 |
C5 |
C4 |
121.6 |
118.0 |
C5 |
C6 |
H6 |
120.5 |
120.6 |
C1 |
C5 |
C4 |
117.0 |
121.0 |
C5 |
C1 |
C3 |
174.3 |
179.9 |
C5 |
C4 |
N3 |
117.2 |
118.8 |
C5 |
C4 |
N4 |
121.0 |
120.6 |
N3 |
C4 |
N4 |
121.7 |
120.6 |
C1 |
C3 |
C01 |
172.5 |
180.0 |
C4 |
N4 |
H41 |
120.0 |
120.0 |
C4 |
N4 |
H42 |
120.0 |
120.0 |
C3 |
C01 |
C |
117.5 |
120.0 |
C02 |
C01 |
C |
120.4 |
119.9 |
C02 |
C03 |
C04 |
119.6 |
120.0 |
C03 |
C02 |
H14 |
120.1 |
120.0 |
C02 |
C03 |
H15 |
120.2 |
120.0 |
C01 |
C |
C05 |
120.0 |
120.0 |
C01 |
C |
H17 |
120.0 |
120.0 |
C03 |
C04 |
C05 |
120.6 |
120.1 |
C03 |
C04 |
C7 |
120.3 |
120.0 |
C04 |
C03 |
H15 |
120.2 |
120.0 |
C |
C05 |
H16 |
120.2 |
120.0 |
C05 |
C04 |
C7 |
119.1 |
120.0 |
C04 |
C05 |
H16 |
120.3 |
120.0 |
C04 |
C7 |
C8 |
178.8 |
180.0 |
C7 |
C8 |
H18 |
180.0 |
180.0 |
H41 |
N4 |
H42 |
120.0 |
120.1 |
H3' |
C3' |
H3'' |
109.5 |
111.0 |
H2' |
C2' |
H2'' |
109.5 |
110.9 |
H5' |
C5' |
H5'' |
109.5 |
109.5 |
P |
OP3 |
HOP3 |
|
114.0 |
Torsion Angles for 0R8
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
O5' |
P |
OP2 |
OP3 |
|
119.9 |
OP1 |
P |
OP2 |
OP3 |
|
240.0 |
OP2 |
P |
OP3 |
HOP3 |
|
300.0 |
C3' |
C4' |
C5' |
H7 |
237.3 |
237.9 |
C5' |
C4' |
C3' |
H3' |
316.6 |
322.6 |
C5' |
C4' |
C3' |
H3'' |
79.6 |
86.7 |
C5' |
O5' |
P |
OP3 |
|
185.0 |
C5' |
C4' |
C3' |
H7 |
122.7 |
122.2 |
C2' |
C3' |
C4' |
H3' |
241.5 |
242.1 |
C2' |
C3' |
C4' |
H3'' |
118.5 |
117.9 |
C4' |
C3' |
C2' |
H2' |
158.8 |
275.9 |
C4' |
C3' |
C2' |
H2'' |
281.5 |
152.3 |
H3' |
C3' |
C4' |
H3'' |
237.0 |
235.9 |
C4' |
O4' |
C1' |
H1' |
113.1 |
117.9 |
C2' |
C3' |
C4' |
H7 |
75.4 |
82.5 |
C4' |
C3' |
C2' |
H3' |
118.5 |
117.9 |
C4' |
C3' |
C2' |
H3'' |
241.5 |
242.0 |
C3' |
C2' |
C1' |
H1' |
218.9 |
219.1 |
H3' |
C3' |
C2' |
H3'' |
123.0 |
124.1 |
H2' |
C2' |
C3' |
H2'' |
237.3 |
123.6 |
O4' |
C1' |
C2' |
H1' |
116.7 |
119.5 |
N1 |
C1' |
C2' |
H1' |
238.3 |
239.1 |
OP2 |
P |
O5' |
OP3 |
|
240.0 |
OP1 |
P |
O5' |
OP3 |
|
120.1 |
O5' |
P |
OP3 |
HOP3 |
|
180.1 |
OP2 |
P |
OP1 |
OP3 |
|
120.0 |
O5' |
P |
OP1 |
OP3 |
|
240.0 |
OP1 |
P |
OP3 |
HOP3 |
|
60.0 |
C2' |
C1' |
O4' |
H1' |
244.4 |
240.5 |
N1 |
C1' |
O4' |
H1' |
119.6 |
120.9 |
C2' |
C1' |
N1 |
H1' |
121.0 |
120.9 |
O4' |
C1' |
N1 |
H1' |
240.2 |
239.1 |
C6 |
N1 |
C1' |
C2 |
176.1 |
180.3 |
C1' |
N1 |
C6 |
C5 |
183.5 |
180.0 |
C1' |
N1 |
C6 |
H6 |
3.4 |
359.8 |
C1' |
N1 |
C2 |
N3 |
176.6 |
179.8 |
C1' |
N1 |
C6 |
C2 |
184.0 |
179.7 |
C6 |
N1 |
C1' |
H1' |
144.6 |
146.7 |
C6 |
N1 |
C2 |
N3 |
0.4 |
359.5 |
N1 |
C6 |
C5 |
C1 |
180.4 |
180.0 |
N1 |
C6 |
C5 |
C4 |
0.7 |
359.9 |
C5 |
C6 |
N1 |
H6 |
180.0 |
180.2 |
C1' |
N1 |
C2 |
C6 |
176.2 |
180.3 |
C2 |
N1 |
C1' |
H1' |
328.5 |
326.4 |
C2 |
N1 |
C6 |
C5 |
359.4 |
0.3 |
C2 |
N1 |
C6 |
H6 |
179.4 |
180.2 |
C5 |
C6 |
N1 |
C2 |
359.4 |
0.3 |
N1 |
C6 |
C5 |
H6 |
180.0 |
179.8 |
C1 |
C5 |
C6 |
C4 |
179.7 |
180.1 |
C6 |
C5 |
C1 |
C3 |
145.9 |
254.7 |
C6 |
C5 |
C4 |
N3 |
359.4 |
0.1 |
C6 |
C5 |
C4 |
N4 |
176.4 |
180.0 |
C2 |
N3 |
C4 |
N4 |
183.4 |
179.8 |
C6 |
C5 |
C1 |
C4 |
180.3 |
179.9 |
C1 |
C5 |
C6 |
H6 |
0.4 |
0.2 |
C1 |
C5 |
C4 |
N3 |
179.6 |
180.0 |
C1 |
C5 |
C4 |
N4 |
356.6 |
359.9 |
C5 |
C1 |
C3 |
C01 |
354.9 |
218.5 |
C6 |
C5 |
C4 |
C1 |
179.7 |
180.1 |
C4 |
C5 |
C6 |
H6 |
180.7 |
180.1 |
C4 |
C5 |
C1 |
C3 |
325.6 |
74.9 |
N3 |
C4 |
C5 |
N4 |
183.0 |
180.1 |
C5 |
C4 |
N4 |
H41 |
183.1 |
0.0 |
C5 |
C4 |
N4 |
H42 |
3.2 |
180.1 |
N1 |
C2 |
N3 |
C4 |
359.7 |
0.5 |
C5 |
C4 |
N3 |
N4 |
177.0 |
179.9 |
N3 |
C4 |
N4 |
H41 |
360.0 |
180.0 |
N3 |
C4 |
N4 |
H42 |
180.0 |
360.0 |
C3 |
C1 |
C5 |
C4 |
325.6 |
74.9 |
C1 |
C3 |
C01 |
C |
355.3 |
66.6 |
C5 |
C4 |
N4 |
N3 |
183.1 |
180.1 |
H41 |
N4 |
C4 |
H42 |
180.0 |
180.0 |
C02 |
C01 |
C3 |
C |
180.3 |
180.3 |
C3 |
C01 |
C |
C05 |
180.1 |
179.7 |
C3 |
C01 |
C |
H17 |
0.1 |
0.1 |
C3 |
C01 |
C02 |
C |
179.7 |
179.7 |
C02 |
C01 |
C |
C05 |
359.8 |
359.3 |
C02 |
C01 |
C |
H17 |
179.8 |
179.7 |
C03 |
C02 |
C01 |
C |
360.0 |
0.3 |
C02 |
C03 |
C04 |
C05 |
359.6 |
360.0 |
C02 |
C03 |
C04 |
C7 |
179.7 |
180.0 |
C04 |
C03 |
C02 |
H15 |
180.0 |
180.0 |
C01 |
C |
C05 |
H16 |
180.1 |
180.4 |
C04 |
C03 |
C02 |
H14 |
180.4 |
180.0 |
C02 |
C03 |
C04 |
H15 |
180.0 |
180.0 |
C05 |
C04 |
C03 |
C7 |
179.9 |
180.0 |
C03 |
C04 |
C05 |
H16 |
180.2 |
180.0 |
C03 |
C04 |
C7 |
C8 |
180.1 |
293.0 |
C01 |
C |
C05 |
H17 |
180.0 |
180.4 |
C |
C05 |
C04 |
C7 |
180.1 |
179.7 |
C04 |
C05 |
C |
H16 |
180.0 |
180.3 |
C01 |
C |
C05 |
C04 |
0.1 |
0.7 |
C03 |
C04 |
C05 |
C7 |
180.1 |
180.0 |
C05 |
C04 |
C03 |
H15 |
179.6 |
180.0 |
C |
C05 |
C04 |
H16 |
180.0 |
179.7 |
C05 |
C04 |
C7 |
C8 |
0.2 |
113.0 |
C03 |
C04 |
C7 |
C05 |
179.9 |
180.0 |
C7 |
C04 |
C03 |
H15 |
359.7 |
0.0 |
C7 |
C04 |
C05 |
H16 |
0.1 |
360.0 |
C04 |
C7 |
C8 |
H18 |
208.3 |
249.7 |
HOP2 |
OP2 |
P |
OP3 |
|
300.0 |
H1' |
C1' |
N1 |
C6 |
144.6 |
146.7 |
H1' |
C1' |
N1 |
C2 |
328.5 |
326.4 |
H6 |
C6 |
N1 |
C2 |
179.4 |
180.2 |
N1 |
C6 |
H6 |
C5 |
180.0 |
180.2 |
H6 |
C6 |
C5 |
C1 |
0.4 |
0.2 |
H6 |
C6 |
C5 |
C4 |
180.7 |
180.1 |
C4 |
N4 |
H41 |
H42 |
180.0 |
180.0 |
C4 |
N4 |
H42 |
H41 |
180.0 |
180.0 |
H7 |
C4' |
C3' |
C2' |
75.4 |
82.5 |
H7 |
C4' |
C3' |
H3' |
194.0 |
200.4 |
H7 |
C4' |
C3' |
H3'' |
316.9 |
324.5 |
C4' |
C3' |
H3' |
C2' |
248.4 |
248.4 |
H3' |
C3' |
C4' |
H7 |
194.0 |
200.4 |
C4' |
C3' |
H3' |
H3'' |
124.2 |
124.2 |
C2' |
C3' |
H3' |
H3'' |
235.8 |
235.8 |
H3' |
C3' |
C2' |
H2' |
40.2 |
158.0 |
H3' |
C3' |
C2' |
H2'' |
162.9 |
34.4 |
C4' |
C3' |
H3'' |
C2' |
111.6 |
111.6 |
H3'' |
C3' |
C4' |
H7 |
316.9 |
324.5 |
C4' |
C3' |
H3'' |
H3' |
235.8 |
235.8 |
C2' |
C3' |
H3'' |
H3' |
124.2 |
124.2 |
H3'' |
C3' |
C2' |
H2' |
277.3 |
33.9 |
H3'' |
C3' |
C2' |
H2'' |
40.0 |
270.3 |
H2' |
C2' |
C3' |
H3' |
40.2 |
158.0 |
H2' |
C2' |
C3' |
H3'' |
277.3 |
33.9 |
C3' |
C2' |
H2' |
H2'' |
123.9 |
236.4 |
H2' |
C2' |
C1' |
H1' |
100.3 |
337.2 |
H2'' |
C2' |
C3' |
H3' |
162.9 |
34.4 |
H2'' |
C2' |
C3' |
H3'' |
40.0 |
270.3 |
C3' |
C2' |
H2'' |
H2' |
236.1 |
123.6 |
H2'' |
C2' |
C1' |
H1' |
337.6 |
101.0 |
H5' |
C5' |
C4' |
H7 |
294.6 |
187.1 |
H5'' |
C5' |
C4' |
H7 |
53.8 |
67.1 |
H14 |
C02 |
C01 |
C |
179.9 |
180.4 |
H14 |
C02 |
C03 |
C04 |
180.4 |
180.0 |
H14 |
C02 |
C03 |
H15 |
0.4 |
360.0 |
C02 |
C03 |
H15 |
C04 |
180.0 |
180.0 |
H15 |
C03 |
C02 |
H14 |
0.4 |
360.0 |
H15 |
C03 |
C04 |
C05 |
179.6 |
180.0 |
H15 |
C03 |
C04 |
C7 |
359.7 |
0.0 |
H16 |
C05 |
C04 |
C7 |
0.1 |
360.0 |
C01 |
C |
H17 |
C05 |
180.0 |
179.6 |
H17 |
C |
C05 |
H16 |
0.1 |
360.0 |
O5' |
P |
OP3 |
OP1 |
|
120.1 |