PDB Chemical Component GF2
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 GF2
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
P |
O5' |
1.616 |
1.609 |
N1 |
C2 |
1.354 |
1.363 |
C2 |
N3 |
1.331 |
1.314 |
C2 |
N2 |
1.306 |
1.372 |
C4 |
N3 |
1.368 |
1.338 |
C5 |
C4 |
1.378 |
1.400 |
C6 |
N1 |
1.381 |
1.351 |
C6 |
C5 |
1.443 |
1.414 |
O6 |
C6 |
1.231 |
1.219 |
N7 |
C5 |
1.402 |
1.356 |
N7 |
C8 |
1.308 |
1.301 |
C8 |
N9 |
1.375 |
1.365 |
N9 |
C4 |
1.377 |
1.368 |
N9 |
C1' |
1.485 |
1.465 |
C1' |
O4' |
1.425 |
1.444 |
OP2 |
P |
1.487 |
1.610 |
C2' |
F |
1.390 |
1.399 |
C2' |
C1' |
1.528 |
1.545 |
OP1 |
P |
1.485 |
1.480 |
C3' |
C2' |
1.534 |
1.545 |
C3' |
C4' |
1.536 |
1.545 |
O3' |
C3' |
1.420 |
1.430 |
C4' |
O4' |
1.429 |
1.444 |
C5' |
C4' |
1.537 |
1.530 |
O5' |
C5' |
1.422 |
1.429 |
P |
OP3 |
1.720 |
1.610 |
N1 |
HN1 |
1.000 |
0.971 |
N2 |
HN2 |
1.000 |
0.969 |
N2 |
HN2A |
1.000 |
0.970 |
C8 |
H8 |
1.079 |
1.080 |
C1' |
H1' |
1.100 |
1.090 |
OP2 |
HOP2 |
0.950 |
0.967 |
C2' |
H2' |
1.100 |
1.089 |
C3' |
H3' |
1.100 |
1.090 |
O3' |
HO3' |
0.950 |
0.967 |
C4' |
H4' |
1.100 |
1.090 |
C5' |
H5' |
1.100 |
1.090 |
C5' |
H5'A |
1.100 |
1.090 |
OP3 |
HOP3 |
0.950 |
0.967 |
Bond Angles for GF2
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
OP2 |
P |
O5' |
108.5 |
109.4 |
OP1 |
P |
O5' |
107.6 |
109.5 |
P |
O5' |
C5' |
121.1 |
123.1 |
O5' |
P |
OP3 |
119.8 |
109.5 |
N1 |
C2 |
N3 |
125.0 |
121.9 |
N1 |
C2 |
N2 |
117.1 |
119.1 |
C2 |
N1 |
HN1 |
118.2 |
119.8 |
N2 |
C2 |
N3 |
117.8 |
119.0 |
C2 |
N2 |
HN2 |
120.0 |
120.0 |
C2 |
N2 |
HN2A |
120.0 |
120.0 |
C6 |
N1 |
HN1 |
118.1 |
119.8 |
N7 |
C8 |
N9 |
114.3 |
109.8 |
N7 |
C8 |
H8 |
122.9 |
125.1 |
C8 |
N9 |
C1' |
129.4 |
126.2 |
N9 |
C8 |
H8 |
122.8 |
125.1 |
N9 |
C1' |
O4' |
110.8 |
110.4 |
N9 |
C1' |
H1' |
106.8 |
110.3 |
C2' |
C1' |
O4' |
106.2 |
104.8 |
C1' |
O4' |
C4' |
109.0 |
105.3 |
O4' |
C1' |
H1' |
111.2 |
110.4 |
OP2 |
P |
OP3 |
101.1 |
109.5 |
C2' |
C1' |
H1' |
111.4 |
110.5 |
OP1 |
P |
OP3 |
102.0 |
109.5 |
C3' |
C2' |
H2' |
111.7 |
110.7 |
O3' |
C3' |
C4' |
113.6 |
110.4 |
C3' |
C4' |
O4' |
106.4 |
104.8 |
C4' |
C3' |
H3' |
115.4 |
110.5 |
C3' |
C4' |
H4' |
109.2 |
110.4 |
O3' |
C3' |
H3' |
101.1 |
110.5 |
O4' |
C4' |
H4' |
111.7 |
110.4 |
C5' |
C4' |
H4' |
103.3 |
110.4 |
O5' |
C5' |
H5' |
108.3 |
109.4 |
O5' |
C5' |
H5'A |
108.3 |
109.5 |
P |
OP3 |
HOP3 |
109.5 |
114.0 |
HN2 |
N2 |
HN2A |
120.0 |
120.0 |
H5' |
C5' |
H5'A |
110.6 |
109.5 |
Torsion Angles for GF2
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
OP2 |
P |
O5' |
OP3 |
115.2 |
120.0 |
OP1 |
P |
O5' |
OP3 |
244.4 |
240.0 |
P |
O5' |
C5' |
H5' |
56.8 |
60.0 |
P |
O5' |
C5' |
H5'A |
296.8 |
300.1 |
O5' |
P |
OP3 |
HOP3 |
241.4 |
180.0 |
N2 |
C2 |
N1 |
N3 |
181.9 |
180.1 |
N1 |
C2 |
N2 |
HN2 |
178.2 |
359.9 |
N1 |
C2 |
N2 |
HN2A |
358.2 |
180.0 |
C6 |
N1 |
C2 |
HN1 |
180.0 |
180.2 |
N1 |
C2 |
N3 |
N2 |
181.9 |
180.1 |
N3 |
C2 |
N1 |
HN1 |
178.4 |
180.0 |
N3 |
C2 |
N2 |
HN2 |
0.0 |
180.0 |
N3 |
C2 |
N2 |
HN2A |
180.0 |
0.0 |
N1 |
C2 |
N2 |
N3 |
178.2 |
179.9 |
N2 |
C2 |
N1 |
HN1 |
0.4 |
0.0 |
HN2 |
N2 |
C2 |
HN2A |
180.0 |
180.0 |
C2 |
N1 |
C6 |
HN1 |
180.0 |
179.8 |
C5 |
C6 |
N1 |
HN1 |
181.4 |
179.8 |
O6 |
C6 |
N1 |
HN1 |
1.0 |
0.2 |
N7 |
C8 |
N9 |
C1' |
180.9 |
180.0 |
N9 |
C8 |
N7 |
H8 |
180.0 |
180.1 |
N7 |
C8 |
N9 |
H8 |
180.0 |
179.9 |
C8 |
N9 |
C1' |
O4' |
14.0 |
23.6 |
C8 |
N9 |
C1' |
H1' |
135.2 |
145.8 |
C1' |
N9 |
C8 |
H8 |
0.9 |
0.0 |
C2' |
C1' |
N9 |
O4' |
242.6 |
244.6 |
N9 |
C1' |
O4' |
C4' |
246.4 |
200.6 |
O4' |
C1' |
N9 |
H1' |
238.7 |
237.8 |
C2' |
C1' |
N9 |
H1' |
121.3 |
122.3 |
N9 |
C1' |
O4' |
H1' |
118.6 |
122.2 |
C2' |
C1' |
O4' |
H1' |
238.7 |
241.0 |
C3' |
C4' |
O4' |
C1' |
20.3 |
40.5 |
C1' |
O4' |
C4' |
H4' |
261.3 |
281.6 |
OP1 |
P |
OP2 |
O5' |
237.1 |
240.0 |
OP2 |
P |
O5' |
C5' |
43.0 |
295.0 |
O5' |
P |
OP2 |
OP3 |
233.1 |
240.0 |
OP1 |
P |
OP2 |
OP3 |
110.2 |
120.0 |
OP2 |
P |
OP3 |
HOP3 |
122.4 |
60.0 |
N9 |
C1' |
C2' |
O4' |
120.2 |
118.9 |
N9 |
C1' |
C2' |
H1' |
241.4 |
237.8 |
C2' |
C1' |
O4' |
C4' |
6.5 |
319.5 |
O4' |
C1' |
C2' |
H1' |
121.2 |
118.9 |
OP2 |
P |
OP1 |
O5' |
123.3 |
120.0 |
OP1 |
P |
O5' |
C5' |
172.2 |
55.0 |
O5' |
P |
OP1 |
OP3 |
126.9 |
120.0 |
OP2 |
P |
OP1 |
OP3 |
250.3 |
240.0 |
OP1 |
P |
OP3 |
HOP3 |
360.0 |
300.0 |
C3' |
C2' |
C1' |
O4' |
329.6 |
24.0 |
C3' |
C2' |
C1' |
H1' |
208.4 |
265.1 |
C1' |
O4' |
C4' |
C3' |
20.3 |
40.5 |
C4' |
C3' |
C2' |
H2' |
164.8 |
118.7 |
O3' |
C3' |
C4' |
H3' |
116.1 |
122.6 |
O4' |
C4' |
C3' |
H4' |
239.3 |
241.1 |
C5' |
C4' |
C3' |
H4' |
115.1 |
122.3 |
O3' |
C3' |
C2' |
H2' |
285.1 |
237.3 |
O3' |
C3' |
C4' |
O4' |
202.1 |
217.3 |
C4' |
C3' |
O3' |
H3' |
235.8 |
237.4 |
O3' |
C3' |
C4' |
H4' |
322.9 |
336.2 |
C4' |
O4' |
C1' |
H1' |
127.8 |
78.4 |
O4' |
C4' |
C3' |
H3' |
86.0 |
94.7 |
C3' |
C4' |
O4' |
H4' |
119.1 |
118.9 |
C5' |
C4' |
O4' |
H4' |
244.7 |
237.7 |
P |
O5' |
C5' |
C4' |
176.8 |
180.0 |
C5' |
C4' |
C3' |
H3' |
321.8 |
335.9 |
C3' |
C4' |
C5' |
H4' |
241.5 |
237.7 |
O4' |
C4' |
C5' |
H4' |
120.3 |
122.3 |
C5' |
O5' |
P |
OP3 |
287.8 |
175.0 |
O5' |
C5' |
C4' |
H4' |
180.7 |
307.3 |
H5' |
C5' |
O5' |
H5'A |
120.0 |
120.0 |
OP2 |
P |
OP3 |
O5' |
241.0 |
240.0 |
OP1 |
P |
OP3 |
O5' |
118.6 |
120.0 |
OP3 |
P |
O5' |
C5' |
287.8 |
175.0 |
HN1 |
N1 |
C2 |
N3 |
178.4 |
180.0 |
HN1 |
N1 |
C2 |
N2 |
0.4 |
0.0 |
HN2 |
N2 |
C2 |
N3 |
0.0 |
180.0 |
C2 |
N2 |
HN2 |
HN2A |
180.0 |
180.0 |
HN2A |
N2 |
C2 |
N3 |
180.0 |
0.0 |
C2 |
N2 |
HN2A |
HN2 |
180.0 |
180.0 |
N7 |
C8 |
H8 |
N9 |
180.0 |
180.1 |
H8 |
C8 |
N9 |
C1' |
0.9 |
0.0 |
N9 |
C1' |
H1' |
O4' |
239.0 |
237.7 |
C2' |
C1' |
H1' |
O4' |
118.2 |
115.5 |
H1' |
C1' |
O4' |
C4' |
127.8 |
78.4 |
HOP2 |
OP2 |
P |
O5' |
122.9 |
300.0 |
HOP2 |
OP2 |
P |
OP3 |
249.8 |
60.0 |
H2' |
C2' |
C1' |
O4' |
207.8 |
265.2 |
H2' |
C2' |
C1' |
H1' |
86.6 |
146.3 |
H3' |
C3' |
C2' |
H2' |
41.2 |
0.0 |
O3' |
C3' |
H3' |
C4' |
237.0 |
237.4 |
H3' |
C3' |
C4' |
O4' |
86.0 |
94.7 |
H3' |
C3' |
C4' |
H4' |
206.7 |
213.6 |
HO3' |
O3' |
C3' |
C4' |
291.3 |
176.1 |
HO3' |
O3' |
C3' |
H3' |
55.6 |
298.7 |
C3' |
C4' |
H4' |
O4' |
242.6 |
244.6 |
H4' |
C4' |
C3' |
H3' |
206.7 |
213.6 |
H5' |
C5' |
C4' |
H4' |
300.7 |
67.3 |
O5' |
C5' |
H5' |
H5'A |
241.4 |
240.0 |
H5'A |
C5' |
C4' |
H4' |
60.7 |
187.3 |
O5' |
C5' |
H5'A |
H5' |
118.6 |
119.9 |