PDB Chemical Component 6OP
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 6OP
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| O4 |
C4 |
1.249 |
1.218 |
| N3 |
C4 |
1.348 |
1.349 |
| N3 |
C2 |
1.340 |
1.346 |
| O2 |
C2 |
1.204 |
1.215 |
| C4 |
C5 |
1.387 |
1.416 |
| C2 |
N1 |
1.337 |
1.346 |
| C5 |
C7 |
1.553 |
1.507 |
| C5 |
C6 |
1.397 |
1.350 |
| N1 |
C6 |
1.371 |
1.368 |
| N1 |
C1' |
1.514 |
1.465 |
| C1' |
O4' |
1.517 |
1.444 |
| C1' |
C2' |
1.233 |
1.545 |
| CB' |
CG' |
1.549 |
1.530 |
| CB' |
O2' |
1.440 |
1.429 |
| O4' |
C4' |
1.529 |
1.444 |
| CG' |
OD' |
1.454 |
1.429 |
| C2' |
O2' |
1.436 |
1.429 |
| C2' |
C3' |
1.640 |
1.545 |
| C4' |
C3' |
1.225 |
1.545 |
| C4' |
C5' |
1.596 |
1.507 |
| O3' |
C3' |
1.441 |
1.429 |
| OD' |
CE' |
1.417 |
1.429 |
| C6' |
C5' |
1.530 |
1.310 |
| C6' |
P |
1.782 |
1.814 |
| OP2 |
P |
1.481 |
1.480 |
| P |
OP1 |
1.602 |
1.610 |
| P |
OP3 |
1.541 |
1.610 |
| OP1 |
H1 |
0.950 |
0.968 |
| OP3 |
HOP3 |
0.950 |
0.967 |
| C6' |
H6' |
1.080 |
1.080 |
| C5' |
H5' |
1.080 |
1.080 |
| C4' |
H4' |
1.099 |
1.090 |
| C3' |
H3' |
1.100 |
1.090 |
| O3' |
HO3' |
0.949 |
0.967 |
| C2' |
H2' |
1.100 |
1.090 |
| C1' |
H1' |
1.099 |
1.090 |
| CB' |
H12 |
1.100 |
1.091 |
| CB' |
H13 |
1.100 |
1.090 |
| CG' |
H14 |
1.100 |
1.090 |
| CG' |
H15 |
1.100 |
1.089 |
| CE' |
H16 |
1.100 |
1.091 |
| CE' |
H17 |
1.100 |
1.090 |
| CE' |
H18 |
1.101 |
1.090 |
| N3 |
H3 |
1.000 |
0.970 |
| C7 |
H20 |
1.100 |
1.090 |
| C7 |
H21 |
1.100 |
1.090 |
| C7 |
H22 |
1.100 |
1.090 |
| C6 |
H6 |
1.080 |
1.080 |
Bond Angles for 6OP
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| O4 |
C4 |
C5 |
118.0 |
120.3 |
| N3 |
C4 |
C5 |
121.1 |
119.4 |
| C4 |
N3 |
H3 |
120.2 |
119.9 |
| C4 |
C5 |
C7 |
120.9 |
120.4 |
| C4 |
C5 |
C6 |
117.7 |
119.1 |
| C2 |
N1 |
C6 |
120.0 |
120.6 |
| C7 |
C5 |
C6 |
121.4 |
120.5 |
| C5 |
C7 |
H20 |
109.5 |
109.4 |
| C5 |
C7 |
H21 |
109.4 |
109.5 |
| C5 |
C7 |
H22 |
109.5 |
109.4 |
| N1 |
C6 |
C5 |
119.5 |
119.7 |
| C5 |
C6 |
H6 |
120.2 |
120.2 |
| N1 |
C6 |
H6 |
120.2 |
120.1 |
| N1 |
C1' |
H1' |
110.3 |
110.4 |
| C1' |
C2' |
H2' |
112.9 |
110.6 |
| CB' |
CG' |
OD' |
106.2 |
109.5 |
| CG' |
CB' |
H12 |
109.4 |
109.5 |
| CG' |
CB' |
H13 |
109.4 |
109.5 |
| CB' |
CG' |
H14 |
110.3 |
109.4 |
| CB' |
CG' |
H15 |
110.3 |
109.4 |
| O4' |
C4' |
C3' |
105.6 |
104.8 |
| O4' |
C4' |
H4' |
108.2 |
110.5 |
| CG' |
OD' |
CE' |
115.6 |
114.0 |
| OD' |
CG' |
H14 |
110.3 |
109.5 |
| OD' |
CG' |
H15 |
110.3 |
109.5 |
| O2' |
C2' |
H2' |
109.5 |
110.5 |
| C2' |
C3' |
H3' |
107.4 |
110.5 |
| C3' |
C4' |
H4' |
113.0 |
110.3 |
| C4' |
C3' |
H3' |
113.6 |
110.5 |
| C4' |
C5' |
H5' |
125.5 |
120.0 |
| O3' |
C3' |
H3' |
109.9 |
110.5 |
| OD' |
CE' |
H16 |
109.5 |
109.5 |
| OD' |
CE' |
H17 |
109.5 |
109.5 |
| OD' |
CE' |
H18 |
109.5 |
109.5 |
| C5' |
C6' |
H6' |
122.8 |
120.0 |
| C6' |
C5' |
H5' |
125.5 |
120.0 |
| OP2 |
P |
OP3 |
106.7 |
109.5 |
| OP1 |
P |
OP3 |
109.2 |
109.5 |
| P |
OP1 |
H1 |
109.5 |
114.0 |
| P |
OP3 |
HOP3 |
109.5 |
114.0 |
| H12 |
CB' |
H13 |
109.5 |
109.4 |
| H14 |
CG' |
H15 |
109.5 |
109.5 |
| H16 |
CE' |
H17 |
109.5 |
109.4 |
| H16 |
CE' |
H18 |
109.4 |
109.5 |
| H17 |
CE' |
H18 |
109.5 |
109.5 |
| H20 |
C7 |
H21 |
109.4 |
109.5 |
| H20 |
C7 |
H22 |
109.5 |
109.5 |
| H21 |
C7 |
H22 |
109.5 |
109.5 |
Torsion Angles for 6OP
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| N3 |
C4 |
O4 |
C5 |
179.9 |
180.0 |
| O4 |
C4 |
N3 |
H3 |
0.1 |
360.0 |
| O4 |
C4 |
C5 |
C7 |
359.7 |
360.0 |
| O4 |
C4 |
C5 |
C6 |
179.8 |
179.9 |
| O4 |
C4 |
N3 |
C5 |
180.1 |
180.0 |
| N3 |
C4 |
C5 |
C7 |
179.9 |
179.9 |
| N3 |
C4 |
C5 |
C6 |
359.9 |
359.9 |
| N3 |
C2 |
N1 |
C6 |
1.0 |
0.1 |
| O2 |
C2 |
N1 |
C6 |
180.4 |
180.1 |
| C5 |
C4 |
N3 |
H3 |
180.0 |
180.0 |
| C7 |
C5 |
C4 |
C6 |
180.0 |
180.0 |
| C4 |
C5 |
C7 |
H20 |
180.0 |
360.0 |
| C4 |
C5 |
C7 |
H21 |
300.0 |
120.0 |
| C4 |
C5 |
C7 |
H22 |
60.0 |
240.0 |
| N1 |
C6 |
C5 |
C4 |
0.7 |
0.1 |
| C4 |
C5 |
C6 |
H6 |
180.7 |
180.3 |
| C2 |
N1 |
C6 |
C5 |
358.9 |
359.9 |
| C2 |
N1 |
C6 |
H6 |
178.9 |
179.7 |
| C2 |
N1 |
C1' |
H1' |
4.7 |
176.2 |
| C4 |
C5 |
C7 |
C6 |
180.0 |
180.0 |
| N1 |
C6 |
C5 |
C7 |
180.7 |
180.1 |
| C7 |
C5 |
C6 |
H6 |
0.7 |
0.2 |
| H20 |
C7 |
C5 |
H21 |
240.0 |
240.0 |
| H20 |
C7 |
C5 |
H22 |
120.0 |
120.0 |
| H21 |
C7 |
C5 |
H22 |
240.0 |
240.0 |
| C4 |
C5 |
C6 |
C7 |
180.0 |
180.0 |
| C6 |
C5 |
C7 |
H20 |
0.0 |
180.0 |
| C6 |
C5 |
C7 |
H21 |
120.0 |
300.0 |
| C6 |
C5 |
C7 |
H22 |
240.0 |
60.0 |
| N1 |
C6 |
C5 |
H6 |
180.0 |
179.8 |
| C4 |
C5 |
C6 |
N1 |
0.7 |
0.1 |
| C7 |
C5 |
C6 |
N1 |
180.7 |
180.1 |
| C5 |
C6 |
N1 |
H6 |
180.0 |
180.2 |
| C6 |
N1 |
C1' |
H1' |
183.0 |
355.8 |
| N1 |
C1' |
C2' |
H2' |
39.7 |
24.1 |
| C1' |
O4' |
C4' |
H4' |
245.6 |
281.6 |
| O2' |
C2' |
C1' |
H2' |
234.7 |
237.3 |
| C1' |
C2' |
C3' |
H3' |
196.5 |
241.4 |
| CB' |
CG' |
OD' |
CE' |
215.5 |
180.0 |
| OD' |
CG' |
CB' |
H14 |
240.5 |
240.0 |
| OD' |
CG' |
CB' |
H15 |
119.5 |
120.1 |
| H12 |
CB' |
CG' |
H13 |
240.1 |
120.0 |
| H14 |
CG' |
CB' |
H15 |
238.9 |
240.0 |
| CB' |
O2' |
C2' |
H2' |
292.6 |
31.2 |
| C3' |
C4' |
O4' |
H4' |
121.2 |
118.9 |
| O4' |
C4' |
C3' |
H3' |
133.8 |
94.6 |
| O4' |
C4' |
C5' |
H5' |
274.9 |
189.7 |
| OD' |
CG' |
CB' |
H12 |
183.4 |
305.1 |
| OD' |
CG' |
CB' |
H13 |
303.3 |
185.1 |
| CB' |
CG' |
OD' |
H14 |
119.5 |
120.0 |
| CB' |
CG' |
OD' |
H15 |
240.5 |
240.0 |
| CG' |
OD' |
CE' |
H16 |
180.0 |
60.0 |
| CG' |
OD' |
CE' |
H17 |
300.0 |
179.9 |
| CG' |
OD' |
CE' |
H18 |
60.0 |
300.0 |
| H14 |
CG' |
OD' |
H15 |
121.0 |
120.0 |
| C1' |
C2' |
O2' |
H2' |
127.1 |
122.8 |
| O2' |
C2' |
C3' |
H3' |
74.8 |
122.8 |
| C2' |
C3' |
C4' |
H4' |
134.5 |
95.0 |
| C4' |
C3' |
C2' |
H3' |
121.4 |
118.6 |
| O3' |
C3' |
C2' |
H3' |
239.8 |
237.3 |
| O4' |
C4' |
C3' |
H4' |
241.9 |
241.0 |
| C2' |
C3' |
C4' |
H3' |
242.7 |
241.4 |
| C3' |
C4' |
C5' |
H5' |
32.4 |
305.1 |
| O3' |
C3' |
C4' |
H3' |
123.1 |
122.7 |
| C4' |
C5' |
C6' |
H6' |
355.6 |
0.1 |
| C6' |
C5' |
C4' |
H5' |
180.0 |
179.9 |
| C2' |
C3' |
O3' |
H3' |
118.7 |
122.7 |
| O3' |
C3' |
C4' |
H4' |
15.0 |
336.3 |
| C4' |
C3' |
O3' |
H3' |
234.7 |
237.4 |
| CE' |
OD' |
CG' |
H14 |
96.0 |
60.0 |
| CE' |
OD' |
CG' |
H15 |
335.0 |
300.0 |
| H16 |
CE' |
OD' |
H17 |
240.0 |
240.1 |
| H16 |
CE' |
OD' |
H18 |
120.0 |
120.0 |
| H17 |
CE' |
OD' |
H18 |
240.0 |
239.9 |
| C4' |
C5' |
C6' |
H5' |
180.0 |
180.1 |
| C6' |
P |
OP1 |
H1 |
120.1 |
60.0 |
| C6' |
P |
OP3 |
HOP3 |
241.3 |
180.1 |
| OP1 |
P |
OP2 |
OP3 |
241.0 |
120.0 |
| OP2 |
P |
OP1 |
H1 |
360.0 |
180.0 |
| OP2 |
P |
OP3 |
HOP3 |
0.0 |
60.0 |
| OP2 |
P |
OP1 |
OP3 |
117.5 |
240.0 |
| OP1 |
P |
OP3 |
HOP3 |
120.3 |
300.0 |
| OP3 |
P |
OP1 |
H1 |
242.5 |
300.0 |
| H1 |
OP1 |
P |
OP3 |
242.5 |
300.0 |
| H6' |
C6' |
C5' |
H5' |
175.7 |
180.0 |
| H5' |
C5' |
C6' |
H6' |
175.7 |
180.0 |
| O4' |
C4' |
H4' |
C3' |
116.6 |
115.5 |
| H4' |
C4' |
C3' |
H3' |
251.9 |
213.6 |
| H4' |
C4' |
C5' |
H5' |
156.9 |
67.3 |
| H3' |
C3' |
C4' |
H4' |
251.9 |
213.6 |
| HO3' |
O3' |
C3' |
H3' |
61.2 |
61.1 |
| H2' |
C2' |
C3' |
H3' |
316.2 |
0.2 |
| H1' |
C1' |
C2' |
H2' |
168.1 |
146.4 |
| H12 |
CB' |
CG' |
OD' |
183.4 |
305.1 |
| CG' |
CB' |
H12 |
H13 |
119.9 |
240.0 |
| H12 |
CB' |
CG' |
H14 |
302.8 |
65.0 |
| H12 |
CB' |
CG' |
H15 |
63.9 |
185.0 |
| H13 |
CB' |
CG' |
OD' |
303.3 |
185.1 |
| CG' |
CB' |
H13 |
H12 |
240.2 |
120.0 |
| H13 |
CB' |
CG' |
H14 |
62.7 |
305.0 |
| H13 |
CB' |
CG' |
H15 |
183.8 |
65.0 |
| CB' |
CG' |
H14 |
OD' |
243.0 |
240.0 |
| H14 |
CG' |
CB' |
H12 |
302.8 |
65.0 |
| H14 |
CG' |
CB' |
H13 |
62.7 |
305.0 |
| CB' |
CG' |
H14 |
H15 |
121.5 |
119.9 |
| H14 |
CG' |
OD' |
CE' |
96.0 |
60.0 |
| OD' |
CG' |
H14 |
H15 |
238.5 |
240.0 |
| CB' |
CG' |
H15 |
OD' |
117.0 |
120.0 |
| H15 |
CG' |
CB' |
H12 |
63.9 |
185.0 |
| H15 |
CG' |
CB' |
H13 |
183.8 |
65.0 |
| CB' |
CG' |
H15 |
H14 |
238.5 |
240.1 |
| H15 |
CG' |
OD' |
CE' |
335.0 |
300.0 |
| OD' |
CG' |
H15 |
H14 |
121.5 |
120.0 |
| OD' |
CE' |
H16 |
H17 |
120.0 |
120.0 |
| OD' |
CE' |
H16 |
H18 |
240.0 |
240.0 |
| H17 |
CE' |
H16 |
H18 |
120.0 |
120.0 |
| OD' |
CE' |
H17 |
H16 |
240.0 |
240.0 |
| OD' |
CE' |
H17 |
H18 |
120.0 |
120.1 |
| H16 |
CE' |
H17 |
H18 |
240.0 |
240.0 |
| OD' |
CE' |
H18 |
H16 |
120.0 |
120.0 |
| OD' |
CE' |
H18 |
H17 |
240.0 |
239.9 |
| H16 |
CE' |
H18 |
H17 |
120.0 |
119.9 |
| H3 |
N3 |
C4 |
C5 |
180.0 |
180.0 |
| H20 |
C7 |
C5 |
C6 |
0.0 |
180.0 |
| C5 |
C7 |
H20 |
H21 |
120.0 |
120.0 |
| C5 |
C7 |
H20 |
H22 |
240.0 |
240.0 |
| H21 |
C7 |
H20 |
H22 |
120.0 |
120.1 |
| H21 |
C7 |
C5 |
C6 |
120.0 |
300.0 |
| C5 |
C7 |
H21 |
H20 |
240.0 |
240.0 |
| C5 |
C7 |
H21 |
H22 |
120.0 |
120.0 |
| H20 |
C7 |
H21 |
H22 |
240.0 |
239.9 |
| H22 |
C7 |
C5 |
C6 |
240.0 |
60.0 |
| C5 |
C7 |
H22 |
H20 |
120.0 |
120.0 |
| C5 |
C7 |
H22 |
H21 |
240.0 |
240.0 |
| H20 |
C7 |
H22 |
H21 |
120.0 |
120.1 |
| N1 |
C6 |
H6 |
C5 |
180.0 |
180.2 |