PDB Chemical Component YF3
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 YF3
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| N1' |
C2' |
1.498 |
1.318 |
| N1' |
C6' |
1.499 |
1.326 |
| C2' |
CM2 |
1.460 |
1.508 |
| C2' |
N3' |
1.473 |
1.316 |
| CM2 |
HM21 |
1.115 |
1.089 |
| CM2 |
HM22 |
1.115 |
1.089 |
| CM2 |
HM23 |
1.115 |
1.090 |
| N3' |
C4' |
1.517 |
1.330 |
| C4' |
N4' |
1.353 |
1.385 |
| C4' |
C5' |
1.596 |
1.397 |
| N4' |
H4'1 |
1.020 |
0.970 |
| N4' |
H4'2 |
1.020 |
0.970 |
| C5' |
C6' |
1.411 |
1.380 |
| C5' |
C7' |
1.386 |
1.506 |
| C6' |
H6' |
1.103 |
1.079 |
| C7' |
N3 |
1.443 |
1.469 |
| C7' |
H7'1 |
1.115 |
1.090 |
| C7' |
H7'2 |
1.115 |
1.090 |
| N3 |
C4 |
1.342 |
1.469 |
| N3 |
HN3 |
1.020 |
1.008 |
| C4 |
CM4 |
1.544 |
1.530 |
| C4 |
C2 |
1.543 |
1.529 |
| C4 |
H4 |
1.116 |
1.089 |
| CM4 |
HM41 |
1.115 |
1.090 |
| CM4 |
HM42 |
1.115 |
1.090 |
| CM4 |
HM43 |
1.115 |
1.090 |
| S1 |
C2 |
1.776 |
1.814 |
| S1 |
HS1 |
0.950 |
1.344 |
| C2 |
H21 |
1.115 |
1.090 |
| C2 |
H22 |
1.115 |
1.089 |
Bond Angles for YF3
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2' |
N1' |
C6' |
125.2 |
121.0 |
| N1' |
C2' |
CM2 |
125.8 |
119.1 |
| N1' |
C2' |
N3' |
115.2 |
121.9 |
| N1' |
C6' |
C5' |
120.7 |
119.2 |
| N1' |
C6' |
H6' |
122.7 |
120.4 |
| CM2 |
C2' |
N3' |
119.0 |
119.1 |
| C2' |
CM2 |
HM21 |
106.4 |
109.4 |
| C2' |
CM2 |
HM22 |
125.8 |
109.5 |
| C2' |
CM2 |
HM23 |
106.4 |
109.4 |
| C2' |
N3' |
C4' |
122.1 |
120.7 |
| HM21 |
CM2 |
HM22 |
106.4 |
109.5 |
| HM21 |
CM2 |
HM23 |
103.1 |
109.5 |
| HM22 |
CM2 |
HM23 |
106.4 |
109.5 |
| N3' |
C4' |
N4' |
117.6 |
120.5 |
| N3' |
C4' |
C5' |
119.3 |
118.9 |
| N4' |
C4' |
C5' |
123.1 |
120.6 |
| C4' |
N4' |
H4'1 |
109.3 |
120.0 |
| C4' |
N4' |
H4'2 |
117.6 |
120.0 |
| C4' |
C5' |
C6' |
117.5 |
118.3 |
| C4' |
C5' |
C7' |
126.9 |
120.8 |
| H4'1 |
N4' |
H4'2 |
109.3 |
120.0 |
| C6' |
C5' |
C7' |
115.6 |
120.9 |
| C5' |
C6' |
H6' |
116.6 |
120.4 |
| C5' |
C7' |
N3 |
120.8 |
109.4 |
| C5' |
C7' |
H7'1 |
108.2 |
109.6 |
| C5' |
C7' |
H7'2 |
108.2 |
109.5 |
| N3 |
C7' |
H7'1 |
108.1 |
109.5 |
| N3 |
C7' |
H7'2 |
108.1 |
109.4 |
| C7' |
N3 |
C4 |
148.4 |
106.7 |
| C7' |
N3 |
HN3 |
99.3 |
106.7 |
| H7'1 |
C7' |
H7'2 |
101.8 |
109.4 |
| C4 |
N3 |
HN3 |
99.3 |
106.7 |
| N3 |
C4 |
CM4 |
120.5 |
109.5 |
| N3 |
C4 |
C2 |
102.2 |
109.5 |
| N3 |
C4 |
H4 |
157.5 |
109.5 |
| CM4 |
C4 |
C2 |
137.2 |
109.4 |
| CM4 |
C4 |
H4 |
36.9 |
109.4 |
| C4 |
CM4 |
HM41 |
108.2 |
109.5 |
| C4 |
CM4 |
HM42 |
120.6 |
109.5 |
| C4 |
CM4 |
HM43 |
108.3 |
109.5 |
| C2 |
C4 |
H4 |
100.3 |
109.5 |
| C4 |
C2 |
S1 |
144.3 |
109.5 |
| C4 |
C2 |
H21 |
100.6 |
109.5 |
| C4 |
C2 |
H22 |
100.6 |
109.5 |
| HM41 |
CM4 |
HM42 |
108.3 |
109.5 |
| HM41 |
CM4 |
HM43 |
101.7 |
109.5 |
| HM42 |
CM4 |
HM43 |
108.2 |
109.5 |
| C2 |
S1 |
HS1 |
144.3 |
100.0 |
| S1 |
C2 |
H21 |
100.5 |
109.4 |
| S1 |
C2 |
H22 |
100.5 |
109.4 |
| H21 |
C2 |
H22 |
106.8 |
109.5 |
Torsion Angles for YF3
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2' |
N1' |
C6' |
C5' |
0.1 |
360.0 |
| C2' |
N1' |
C6' |
H6' |
180.1 |
180.0 |
| CM2 |
C2' |
N1' |
N3' |
180.0 |
180.0 |
| N1' |
C2' |
CM2 |
HM21 |
54.8 |
90.0 |
| N1' |
C2' |
CM2 |
HM22 |
180.0 |
210.0 |
| N1' |
C2' |
CM2 |
HM23 |
305.3 |
330.1 |
| N1' |
C2' |
N3' |
C4' |
359.9 |
359.7 |
| C6' |
N1' |
C2' |
CM2 |
179.9 |
180.0 |
| C6' |
N1' |
C2' |
N3' |
360.0 |
0.0 |
| C4' |
C5' |
C6' |
N1' |
0.0 |
0.3 |
| N1' |
C6' |
C5' |
C7' |
179.9 |
180.0 |
| C5' |
C6' |
N1' |
H6' |
180.0 |
179.9 |
| CM2 |
C2' |
N1' |
C6' |
179.9 |
180.0 |
| N1' |
C2' |
CM2 |
N3' |
180.0 |
180.0 |
| CM2 |
C2' |
N3' |
C4' |
180.0 |
179.8 |
| HM21 |
CM2 |
C2' |
HM22 |
234.7 |
240.0 |
| HM21 |
CM2 |
C2' |
HM23 |
109.5 |
120.0 |
| HM22 |
CM2 |
C2' |
HM23 |
234.8 |
239.9 |
| N3' |
C2' |
N1' |
C6' |
360.0 |
0.0 |
| N1' |
C2' |
N3' |
CM2 |
180.0 |
180.0 |
| N3' |
C2' |
CM2 |
HM21 |
234.7 |
270.0 |
| N3' |
C2' |
CM2 |
HM22 |
360.0 |
30.0 |
| N3' |
C2' |
CM2 |
HM23 |
125.2 |
150.0 |
| C2' |
N3' |
C4' |
N4' |
180.0 |
180.0 |
| C2' |
N3' |
C4' |
C5' |
0.1 |
0.5 |
| HM21 |
CM2 |
C2' |
N3' |
234.7 |
270.0 |
| C2' |
CM2 |
HM21 |
HM22 |
136.4 |
120.0 |
| C2' |
CM2 |
HM21 |
HM23 |
248.2 |
240.1 |
| HM22 |
CM2 |
HM21 |
HM23 |
111.8 |
120.1 |
| HM22 |
CM2 |
C2' |
N3' |
360.0 |
30.0 |
| C2' |
CM2 |
HM22 |
HM21 |
234.7 |
240.1 |
| C2' |
CM2 |
HM22 |
HM23 |
125.2 |
120.0 |
| HM21 |
CM2 |
HM22 |
HM23 |
250.5 |
239.9 |
| HM23 |
CM2 |
C2' |
N3' |
125.2 |
150.0 |
| C2' |
CM2 |
HM23 |
HM21 |
111.8 |
119.9 |
| C2' |
CM2 |
HM23 |
HM22 |
223.7 |
240.0 |
| HM21 |
CM2 |
HM23 |
HM22 |
111.8 |
120.1 |
| N4' |
C4' |
N3' |
C5' |
179.9 |
179.5 |
| N3' |
C4' |
N4' |
H4'1 |
54.7 |
360.0 |
| N3' |
C4' |
N4' |
H4'2 |
180.0 |
180.0 |
| N3' |
C4' |
C5' |
C6' |
359.9 |
359.4 |
| N3' |
C4' |
C5' |
C7' |
180.0 |
179.8 |
| N3' |
C4' |
N4' |
C5' |
180.1 |
180.5 |
| N4' |
C4' |
C5' |
C6' |
180.0 |
180.0 |
| N4' |
C4' |
C5' |
C7' |
0.1 |
0.3 |
| H4'1 |
N4' |
C4' |
H4'2 |
234.7 |
180.0 |
| N1' |
C6' |
C5' |
C4' |
0.0 |
0.3 |
| N3' |
C4' |
C5' |
N4' |
179.9 |
179.5 |
| C5' |
C4' |
N4' |
H4'1 |
234.6 |
179.4 |
| C5' |
C4' |
N4' |
H4'2 |
359.9 |
359.5 |
| C6' |
C5' |
C4' |
C7' |
179.9 |
179.7 |
| C4' |
C5' |
C6' |
H6' |
180.0 |
180.2 |
| C4' |
C5' |
C7' |
N3 |
349.8 |
179.7 |
| C4' |
C5' |
C7' |
H7'1 |
224.6 |
59.6 |
| C4' |
C5' |
C7' |
H7'2 |
115.1 |
299.7 |
| H4'1 |
N4' |
C4' |
C5' |
234.6 |
179.4 |
| C4' |
N4' |
H4'1 |
H4'2 |
130.0 |
180.0 |
| H4'2 |
N4' |
C4' |
C5' |
359.9 |
359.5 |
| C4' |
N4' |
H4'2 |
H4'1 |
234.7 |
180.0 |
| N1' |
C6' |
C5' |
H6' |
180.0 |
180.1 |
| C4' |
C5' |
C6' |
C7' |
180.1 |
180.3 |
| C6' |
C5' |
C7' |
N3 |
169.9 |
0.1 |
| C6' |
C5' |
C7' |
H7'1 |
44.7 |
240.0 |
| C6' |
C5' |
C7' |
H7'2 |
295.2 |
120.0 |
| C4' |
C5' |
C7' |
C6' |
179.9 |
179.7 |
| C7' |
C5' |
C6' |
H6' |
359.9 |
359.9 |
| N3 |
C7' |
C5' |
H7'1 |
125.3 |
120.1 |
| N3 |
C7' |
C5' |
H7'2 |
234.7 |
240.1 |
| C5' |
C7' |
N3 |
C4 |
284.1 |
180.0 |
| C5' |
C7' |
N3 |
HN3 |
158.8 |
66.2 |
| H7'1 |
C7' |
C5' |
H7'2 |
109.5 |
119.9 |
| N1' |
C6' |
H6' |
C5' |
180.0 |
179.9 |
| H6' |
C6' |
C5' |
C7' |
359.9 |
359.9 |
| C5' |
C7' |
N3 |
H7'1 |
234.7 |
239.9 |
| C5' |
C7' |
N3 |
H7'2 |
125.3 |
120.0 |
| H7'1 |
C7' |
N3 |
H7'2 |
250.5 |
240.1 |
| C4 |
N3 |
C7' |
HN3 |
125.3 |
113.8 |
| C7' |
N3 |
C4 |
CM4 |
136.5 |
90.0 |
| C7' |
N3 |
C4 |
C2 |
316.4 |
209.9 |
| C7' |
N3 |
C4 |
H4 |
135.8 |
330.0 |
| C5' |
C7' |
H7'1 |
N3 |
132.5 |
120.1 |
| C5' |
C7' |
H7'1 |
H7'2 |
246.2 |
240.0 |
| N3 |
C7' |
H7'1 |
H7'2 |
113.7 |
119.9 |
| H7'1 |
C7' |
N3 |
C4 |
49.4 |
300.1 |
| H7'1 |
C7' |
N3 |
HN3 |
284.1 |
186.3 |
| C5' |
C7' |
H7'2 |
N3 |
227.5 |
240.0 |
| C5' |
C7' |
H7'2 |
H7'1 |
113.8 |
120.1 |
| N3 |
C7' |
H7'2 |
H7'1 |
246.3 |
240.0 |
| H7'2 |
C7' |
N3 |
C4 |
158.8 |
60.0 |
| H7'2 |
C7' |
N3 |
HN3 |
33.6 |
306.2 |
| C4 |
N3 |
C7' |
H7'1 |
49.4 |
300.1 |
| C4 |
N3 |
C7' |
H7'2 |
158.8 |
60.0 |
| C7' |
N3 |
C4 |
HN3 |
234.7 |
246.2 |
| CM4 |
C4 |
N3 |
C2 |
180.1 |
240.0 |
| CM4 |
C4 |
N3 |
H4 |
0.7 |
120.0 |
| N3 |
C4 |
CM4 |
HM41 |
54.7 |
60.0 |
| N3 |
C4 |
CM4 |
HM42 |
180.0 |
180.0 |
| N3 |
C4 |
CM4 |
HM43 |
305.3 |
300.0 |
| C2 |
C4 |
N3 |
H4 |
180.6 |
239.9 |
| N3 |
C4 |
C2 |
S1 |
51.6 |
60.0 |
| N3 |
C4 |
C2 |
H21 |
286.3 |
180.0 |
| N3 |
C4 |
C2 |
H22 |
176.9 |
300.1 |
| HN3 |
N3 |
C7' |
H7'1 |
284.1 |
186.3 |
| HN3 |
N3 |
C7' |
H7'2 |
33.6 |
306.2 |
| C7' |
N3 |
HN3 |
C4 |
154.3 |
113.8 |
| HN3 |
N3 |
C4 |
CM4 |
261.7 |
203.8 |
| HN3 |
N3 |
C4 |
C2 |
81.7 |
323.7 |
| HN3 |
N3 |
C4 |
H4 |
261.0 |
83.8 |
| CM4 |
C4 |
N3 |
HN3 |
261.7 |
203.8 |
| N3 |
C4 |
CM4 |
C2 |
179.9 |
120.0 |
| N3 |
C4 |
CM4 |
H4 |
180.5 |
240.0 |
| C2 |
C4 |
CM4 |
H4 |
0.6 |
120.0 |
| CM4 |
C4 |
C2 |
S1 |
231.5 |
180.0 |
| CM4 |
C4 |
C2 |
H21 |
106.2 |
299.9 |
| CM4 |
C4 |
C2 |
H22 |
356.8 |
60.0 |
| HM41 |
CM4 |
C4 |
HM42 |
234.7 |
240.0 |
| HM41 |
CM4 |
C4 |
HM43 |
109.5 |
120.0 |
| HM42 |
CM4 |
C4 |
HM43 |
234.8 |
240.0 |
| C2 |
C4 |
N3 |
HN3 |
81.7 |
323.7 |
| N3 |
C4 |
C2 |
CM4 |
180.1 |
240.0 |
| N3 |
C4 |
C2 |
H4 |
179.8 |
120.1 |
| CM4 |
C4 |
C2 |
H4 |
359.6 |
240.0 |
| C2 |
C4 |
CM4 |
HM41 |
234.9 |
300.0 |
| C2 |
C4 |
CM4 |
HM42 |
0.2 |
60.0 |
| C2 |
C4 |
CM4 |
HM43 |
125.4 |
180.0 |
| C4 |
C2 |
S1 |
HS1 |
180.0 |
180.0 |
| S1 |
C2 |
C4 |
H21 |
125.3 |
240.1 |
| S1 |
C2 |
C4 |
H22 |
234.7 |
119.9 |
| H21 |
C2 |
C4 |
H22 |
109.5 |
239.9 |
| H4 |
C4 |
N3 |
HN3 |
261.0 |
83.8 |
| N3 |
C4 |
H4 |
CM4 |
1.0 |
120.0 |
| N3 |
C4 |
H4 |
C2 |
180.6 |
239.9 |
| CM4 |
C4 |
H4 |
C2 |
179.6 |
120.0 |
| H4 |
C4 |
CM4 |
HM41 |
234.3 |
180.0 |
| H4 |
C4 |
CM4 |
HM42 |
359.6 |
300.0 |
| H4 |
C4 |
CM4 |
HM43 |
124.8 |
60.0 |
| H4 |
C4 |
C2 |
S1 |
231.9 |
299.9 |
| H4 |
C4 |
C2 |
H21 |
106.6 |
59.9 |
| H4 |
C4 |
C2 |
H22 |
357.1 |
180.0 |
| HM41 |
CM4 |
C4 |
C2 |
234.9 |
300.0 |
| HM41 |
CM4 |
C4 |
H4 |
234.3 |
180.0 |
| C4 |
CM4 |
HM41 |
HM42 |
132.3 |
120.0 |
| C4 |
CM4 |
HM41 |
HM43 |
246.1 |
240.0 |
| HM42 |
CM4 |
HM41 |
HM43 |
113.9 |
120.0 |
| HM42 |
CM4 |
C4 |
C2 |
0.2 |
60.0 |
| HM42 |
CM4 |
C4 |
H4 |
359.6 |
300.0 |
| C4 |
CM4 |
HM42 |
HM41 |
234.7 |
240.0 |
| C4 |
CM4 |
HM42 |
HM43 |
125.3 |
120.0 |
| HM41 |
CM4 |
HM42 |
HM43 |
250.5 |
240.0 |
| HM43 |
CM4 |
C4 |
C2 |
125.4 |
180.0 |
| HM43 |
CM4 |
C4 |
H4 |
124.8 |
60.0 |
| C4 |
CM4 |
HM43 |
HM41 |
113.9 |
120.0 |
| C4 |
CM4 |
HM43 |
HM42 |
227.8 |
240.0 |
| HM41 |
CM4 |
HM43 |
HM42 |
113.9 |
120.0 |
| S1 |
C2 |
C4 |
H4 |
231.9 |
299.9 |
| C4 |
C2 |
S1 |
H21 |
234.7 |
120.0 |
| C4 |
C2 |
S1 |
H22 |
125.3 |
240.0 |
| H21 |
C2 |
S1 |
H22 |
250.6 |
120.0 |
| HS1 |
S1 |
C2 |
H21 |
305.3 |
60.0 |
| HS1 |
S1 |
C2 |
H22 |
54.7 |
300.0 |
| H21 |
C2 |
C4 |
H4 |
106.6 |
59.9 |
| C4 |
C2 |
H21 |
S1 |
151.0 |
240.0 |
| C4 |
C2 |
H21 |
H22 |
255.5 |
120.1 |
| H21 |
C2 |
S1 |
HS1 |
305.3 |
60.0 |
| S1 |
C2 |
H21 |
H22 |
104.5 |
240.1 |
| H22 |
C2 |
C4 |
H4 |
357.1 |
180.0 |
| C4 |
C2 |
H22 |
S1 |
209.0 |
120.0 |
| C4 |
C2 |
H22 |
H21 |
104.5 |
239.9 |
| H22 |
C2 |
S1 |
HS1 |
54.7 |
300.0 |
| S1 |
C2 |
H22 |
H21 |
255.5 |
119.9 |