PDB Chemical Component DCZ
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 DCZ
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| N1 |
C2 |
1.348 |
1.345 |
| N1 |
C6 |
1.333 |
1.363 |
| N1 |
C1' |
1.460 |
1.465 |
| C2 |
N3 |
1.333 |
1.332 |
| C2 |
O2 |
1.327 |
1.220 |
| N3 |
C4 |
1.332 |
1.326 |
| C4 |
C5 |
1.384 |
1.409 |
| C4 |
N4 |
1.397 |
1.376 |
| C5 |
C6 |
1.386 |
1.353 |
| C5 |
H5 |
1.103 |
1.081 |
| C6 |
H6 |
1.103 |
1.081 |
| N4 |
HN41 |
1.020 |
0.970 |
| N4 |
HN42 |
1.019 |
0.969 |
| C1' |
C2' |
1.518 |
1.541 |
| C1' |
O4' |
1.436 |
1.437 |
| C1' |
H1' |
1.116 |
1.090 |
| C2' |
C3' |
1.511 |
1.547 |
| C2' |
H2'1 |
1.116 |
1.090 |
| C2' |
H2'2 |
1.115 |
1.089 |
| C3' |
C4' |
1.524 |
1.549 |
| C3' |
O3' |
1.416 |
1.429 |
| C3' |
H3' |
1.116 |
1.089 |
| C4' |
O4' |
1.429 |
1.445 |
| C4' |
C5' |
1.508 |
1.530 |
| C4' |
H4' |
1.115 |
1.090 |
| O3' |
HO3' |
0.950 |
0.967 |
| C5' |
O5' |
1.333 |
1.428 |
| C5' |
H5'1 |
1.115 |
1.090 |
| C5' |
H5'2 |
1.114 |
1.090 |
| O5' |
HO51 |
0.949 |
0.966 |
Bond Angles for DCZ
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C2 |
N1 |
C6 |
120.6 |
120.3 |
| C2 |
N1 |
C1' |
119.1 |
119.9 |
| N1 |
C2 |
N3 |
120.9 |
121.1 |
| N1 |
C2 |
O2 |
119.9 |
119.5 |
| C6 |
N1 |
C1' |
120.3 |
119.9 |
| N1 |
C6 |
C5 |
119.3 |
119.3 |
| N1 |
C6 |
H6 |
118.4 |
120.3 |
| N1 |
C1' |
C2' |
111.9 |
109.8 |
| N1 |
C1' |
O4' |
110.8 |
109.9 |
| N1 |
C1' |
H1' |
106.1 |
109.9 |
| N3 |
C2 |
O2 |
119.2 |
119.4 |
| C2 |
N3 |
C4 |
120.7 |
120.7 |
| N3 |
C4 |
C5 |
119.7 |
119.6 |
| N3 |
C4 |
N4 |
120.1 |
120.2 |
| C5 |
C4 |
N4 |
120.2 |
120.2 |
| C4 |
C5 |
C6 |
118.8 |
119.0 |
| C4 |
C5 |
H5 |
120.5 |
120.5 |
| C4 |
N4 |
HN41 |
120.1 |
119.9 |
| C4 |
N4 |
HN42 |
108.4 |
120.0 |
| C6 |
C5 |
H5 |
120.7 |
120.5 |
| C5 |
C6 |
H6 |
122.3 |
120.4 |
| HN41 |
N4 |
HN42 |
108.5 |
120.0 |
| C2' |
C1' |
O4' |
107.1 |
107.4 |
| C2' |
C1' |
H1' |
109.8 |
109.9 |
| C1' |
C2' |
C3' |
101.1 |
104.2 |
| C1' |
C2' |
H2'1 |
115.4 |
110.4 |
| C1' |
C2' |
H2'2 |
115.5 |
110.5 |
| O4' |
C1' |
H1' |
111.1 |
109.9 |
| C1' |
O4' |
C4' |
109.8 |
106.9 |
| C3' |
C2' |
H2'1 |
115.4 |
110.5 |
| C3' |
C2' |
H2'2 |
115.4 |
110.6 |
| C2' |
C3' |
C4' |
104.5 |
102.1 |
| C2' |
C3' |
O3' |
106.9 |
110.9 |
| C2' |
C3' |
H3' |
114.2 |
110.9 |
| H2'1 |
C2' |
H2'2 |
94.9 |
110.5 |
| C4' |
C3' |
O3' |
109.3 |
110.9 |
| C4' |
C3' |
H3' |
112.0 |
110.9 |
| C3' |
C4' |
O4' |
105.8 |
103.6 |
| C3' |
C4' |
C5' |
109.3 |
110.7 |
| C3' |
C4' |
H4' |
111.7 |
110.7 |
| O3' |
C3' |
H3' |
109.8 |
110.8 |
| C3' |
O3' |
HO3' |
106.9 |
106.7 |
| O4' |
C4' |
C5' |
109.1 |
110.8 |
| O4' |
C4' |
H4' |
112.0 |
110.5 |
| C5' |
C4' |
H4' |
108.7 |
110.5 |
| C4' |
C5' |
O5' |
119.7 |
109.5 |
| C4' |
C5' |
H5'1 |
108.5 |
109.4 |
| C4' |
C5' |
H5'2 |
108.6 |
109.4 |
| O5' |
C5' |
H5'1 |
108.5 |
109.5 |
| O5' |
C5' |
H5'2 |
108.5 |
109.5 |
| C5' |
O5' |
HO51 |
119.7 |
106.9 |
| H5'1 |
C5' |
H5'2 |
101.5 |
109.4 |
Torsion Angles for DCZ
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C6 |
N1 |
C2 |
C1' |
180.9 |
180.0 |
| C2 |
N1 |
C6 |
C5 |
359.9 |
359.7 |
| C2 |
N1 |
C6 |
H6 |
179.9 |
179.9 |
| C2 |
N1 |
C1' |
C2' |
102.0 |
300.3 |
| C2 |
N1 |
C1' |
O4' |
221.6 |
58.3 |
| C2 |
N1 |
C1' |
H1' |
342.2 |
179.3 |
| N3 |
C2 |
N1 |
O2 |
180.3 |
180.0 |
| N1 |
C2 |
N3 |
C4 |
359.5 |
359.9 |
| C2 |
N1 |
C6 |
C1' |
179.1 |
180.0 |
| C6 |
N1 |
C2 |
N3 |
0.3 |
0.0 |
| C6 |
N1 |
C2 |
O2 |
180.1 |
180.0 |
| C6 |
N1 |
C1' |
C2' |
281.2 |
120.3 |
| C6 |
N1 |
C1' |
O4' |
40.7 |
238.3 |
| C6 |
N1 |
C1' |
H1' |
161.3 |
359.3 |
| C4 |
C5 |
C6 |
N1 |
360.0 |
0.6 |
| N1 |
C6 |
C5 |
H5 |
180.0 |
180.0 |
| C5 |
C6 |
N1 |
H6 |
180.0 |
179.7 |
| C2 |
N1 |
C1' |
C6 |
180.9 |
180.0 |
| C1' |
N1 |
C2 |
N3 |
179.5 |
180.0 |
| C1' |
N1 |
C2 |
O2 |
359.2 |
360.0 |
| C1' |
N1 |
C6 |
C5 |
180.8 |
179.7 |
| C1' |
N1 |
C6 |
H6 |
0.8 |
359.9 |
| C2' |
C1' |
N1 |
O4' |
240.5 |
242.0 |
| C2' |
C1' |
N1 |
H1' |
119.8 |
121.0 |
| N1 |
C1' |
C2' |
C3' |
152.1 |
121.5 |
| N1 |
C1' |
C2' |
H2'1 |
277.4 |
240.1 |
| N1 |
C1' |
C2' |
H2'2 |
26.8 |
2.7 |
| O4' |
C1' |
N1 |
H1' |
239.3 |
238.9 |
| N1 |
C1' |
O4' |
C4' |
222.0 |
214.2 |
| N3 |
C2 |
N1 |
C6 |
0.3 |
0.0 |
| N3 |
C2 |
N1 |
C1' |
179.5 |
180.0 |
| N1 |
C2 |
N3 |
O2 |
179.7 |
180.0 |
| C2 |
N3 |
C4 |
C5 |
0.4 |
0.4 |
| C2 |
N3 |
C4 |
N4 |
180.0 |
180.0 |
| O2 |
C2 |
N1 |
C6 |
180.1 |
180.0 |
| O2 |
C2 |
N1 |
C1' |
359.2 |
360.0 |
| N1 |
C2 |
O2 |
N3 |
180.3 |
180.0 |
| O2 |
C2 |
N3 |
C4 |
179.8 |
180.0 |
| C4 |
N3 |
C2 |
O2 |
179.8 |
180.0 |
| C5 |
C4 |
N3 |
N4 |
180.4 |
180.4 |
| N3 |
C4 |
C5 |
C6 |
359.8 |
359.4 |
| N3 |
C4 |
C5 |
H5 |
179.8 |
180.0 |
| N3 |
C4 |
N4 |
HN41 |
180.0 |
360.0 |
| N3 |
C4 |
N4 |
HN42 |
54.7 |
179.8 |
| N1 |
C6 |
C5 |
C4 |
360.0 |
0.6 |
| N3 |
C4 |
C5 |
N4 |
179.6 |
179.6 |
| C5 |
C4 |
N4 |
HN41 |
359.7 |
179.6 |
| C5 |
C4 |
N4 |
HN42 |
234.3 |
359.5 |
| C6 |
C5 |
C4 |
H5 |
180.0 |
179.3 |
| C4 |
C5 |
C6 |
H6 |
180.0 |
180.4 |
| N3 |
C4 |
N4 |
C5 |
180.4 |
180.4 |
| N4 |
C4 |
C5 |
C6 |
180.2 |
179.7 |
| N4 |
C4 |
C5 |
H5 |
0.2 |
0.4 |
| HN41 |
N4 |
C4 |
HN42 |
125.4 |
180.1 |
| C5 |
C6 |
N1 |
C1' |
180.8 |
179.7 |
| N1 |
C6 |
C5 |
H6 |
180.0 |
180.3 |
| C6 |
C5 |
C4 |
N4 |
180.2 |
179.7 |
| C4 |
C5 |
C6 |
H5 |
180.0 |
180.7 |
| H5 |
C5 |
C4 |
N4 |
0.2 |
0.4 |
| C4 |
C5 |
H5 |
C6 |
180.0 |
179.3 |
| H5 |
C5 |
C6 |
H6 |
0.0 |
359.7 |
| H6 |
C6 |
N1 |
C1' |
0.8 |
359.9 |
| N1 |
C6 |
H6 |
C5 |
180.0 |
179.7 |
| H6 |
C6 |
C5 |
H5 |
0.0 |
359.7 |
| C4 |
N4 |
HN41 |
HN42 |
234.7 |
179.9 |
| C4 |
N4 |
HN42 |
HN41 |
131.9 |
180.1 |
| N1 |
C1' |
C2' |
O4' |
121.7 |
119.5 |
| N1 |
C1' |
C2' |
H1' |
242.4 |
239.0 |
| O4' |
C1' |
C2' |
H1' |
120.7 |
119.5 |
| C2' |
C1' |
O4' |
C4' |
344.4 |
333.7 |
| C3' |
C2' |
C1' |
H2'1 |
234.7 |
241.4 |
| C3' |
C2' |
C1' |
H2'2 |
125.3 |
118.8 |
| C1' |
C2' |
C3' |
C4' |
326.6 |
20.8 |
| C1' |
C2' |
C3' |
O3' |
82.5 |
139.1 |
| C1' |
C2' |
C3' |
H3' |
204.0 |
262.6 |
| H2'1 |
C2' |
C1' |
H2'2 |
250.6 |
237.4 |
| N1 |
C1' |
O4' |
C2' |
237.6 |
240.5 |
| N1 |
C1' |
O4' |
H1' |
117.7 |
121.0 |
| C2' |
C1' |
O4' |
H1' |
240.1 |
240.5 |
| O4' |
C1' |
C2' |
C3' |
30.4 |
2.0 |
| O4' |
C1' |
C2' |
H2'1 |
155.7 |
120.6 |
| O4' |
C1' |
C2' |
H2'2 |
265.1 |
243.2 |
| C3' |
C4' |
O4' |
C1' |
353.8 |
39.9 |
| C1' |
O4' |
C4' |
C5' |
111.4 |
158.5 |
| C1' |
O4' |
C4' |
H4' |
231.8 |
281.3 |
| N1 |
C1' |
H1' |
C2' |
121.2 |
121.0 |
| N1 |
C1' |
H1' |
O4' |
239.5 |
238.9 |
| C2' |
C1' |
H1' |
O4' |
118.3 |
118.0 |
| H1' |
C1' |
C2' |
C3' |
269.7 |
242.5 |
| H1' |
C1' |
C2' |
H2'1 |
35.0 |
1.1 |
| H1' |
C1' |
C2' |
H2'2 |
144.4 |
123.7 |
| H1' |
C1' |
O4' |
C4' |
104.3 |
93.2 |
| C3' |
C2' |
C1' |
O4' |
30.4 |
2.0 |
| C3' |
C2' |
C1' |
H1' |
269.7 |
242.5 |
| C1' |
C2' |
C3' |
H2'1 |
125.3 |
118.6 |
| C1' |
C2' |
C3' |
H2'2 |
234.7 |
241.2 |
| H2'1 |
C2' |
C3' |
H2'2 |
109.4 |
122.6 |
| C4' |
C3' |
C2' |
O3' |
244.2 |
241.8 |
| C4' |
C3' |
C2' |
H3' |
122.6 |
118.2 |
| C2' |
C3' |
C4' |
O4' |
25.5 |
323.1 |
| C2' |
C3' |
C4' |
C5' |
268.1 |
204.3 |
| C2' |
C3' |
C4' |
H4' |
147.7 |
81.5 |
| O3' |
C3' |
C2' |
H3' |
238.5 |
236.4 |
| C2' |
C3' |
O3' |
HO3' |
180.0 |
61.4 |
| H2'1 |
C2' |
C1' |
O4' |
155.7 |
120.6 |
| H2'1 |
C2' |
C1' |
H1' |
35.0 |
1.1 |
| C1' |
C2' |
H2'1 |
C3' |
242.5 |
245.3 |
| C1' |
C2' |
H2'1 |
H2'2 |
121.3 |
122.6 |
| C3' |
C2' |
H2'1 |
H2'2 |
238.8 |
237.3 |
| H2'1 |
C2' |
C3' |
C4' |
201.4 |
262.2 |
| H2'1 |
C2' |
C3' |
O3' |
317.2 |
20.4 |
| H2'1 |
C2' |
C3' |
H3' |
78.7 |
144.0 |
| H2'2 |
C2' |
C1' |
O4' |
265.1 |
243.2 |
| H2'2 |
C2' |
C1' |
H1' |
144.4 |
123.7 |
| C1' |
C2' |
H2'2 |
C3' |
117.5 |
114.8 |
| C1' |
C2' |
H2'2 |
H2'1 |
238.7 |
237.5 |
| C3' |
C2' |
H2'2 |
H2'1 |
121.2 |
122.6 |
| H2'2 |
C2' |
C3' |
C4' |
92.0 |
139.6 |
| H2'2 |
C2' |
C3' |
O3' |
207.8 |
257.8 |
| H2'2 |
C2' |
C3' |
H3' |
329.3 |
21.4 |
| C1' |
O4' |
C4' |
C3' |
353.8 |
39.9 |
| C4' |
C3' |
C2' |
H2'1 |
201.4 |
262.2 |
| C4' |
C3' |
C2' |
H2'2 |
92.0 |
139.6 |
| C2' |
C3' |
C4' |
O3' |
114.1 |
118.3 |
| C2' |
C3' |
C4' |
H3' |
235.9 |
241.8 |
| O3' |
C3' |
C4' |
H3' |
121.8 |
123.5 |
| C4' |
C3' |
O3' |
HO3' |
292.5 |
174.2 |
| O4' |
C4' |
C3' |
C5' |
117.4 |
118.8 |
| O4' |
C4' |
C3' |
H4' |
237.8 |
241.6 |
| C5' |
C4' |
C3' |
H4' |
120.4 |
122.8 |
| C3' |
C4' |
C5' |
O5' |
292.3 |
180.0 |
| C3' |
C4' |
C5' |
H5'1 |
57.6 |
300.0 |
| C3' |
C4' |
C5' |
H5'2 |
167.1 |
59.9 |
| O3' |
C3' |
C2' |
H2'1 |
317.2 |
20.4 |
| O3' |
C3' |
C2' |
H2'2 |
207.8 |
257.8 |
| C2' |
C3' |
O3' |
C4' |
247.4 |
247.2 |
| C2' |
C3' |
O3' |
H3' |
124.3 |
123.6 |
| C4' |
C3' |
O3' |
H3' |
236.8 |
236.4 |
| O3' |
C3' |
C4' |
O4' |
271.4 |
204.9 |
| O3' |
C3' |
C4' |
C5' |
154.0 |
86.1 |
| O3' |
C3' |
C4' |
H4' |
33.6 |
323.2 |
| H3' |
C3' |
C2' |
H2'1 |
78.7 |
144.0 |
| H3' |
C3' |
C2' |
H2'2 |
329.3 |
21.4 |
| C2' |
C3' |
H3' |
C4' |
118.5 |
112.8 |
| C2' |
C3' |
H3' |
O3' |
240.1 |
236.3 |
| C4' |
C3' |
H3' |
O3' |
121.6 |
123.6 |
| H3' |
C3' |
C4' |
O4' |
149.5 |
81.3 |
| H3' |
C3' |
C4' |
C5' |
32.1 |
322.6 |
| H3' |
C3' |
C4' |
H4' |
271.8 |
199.7 |
| H3' |
C3' |
O3' |
HO3' |
55.7 |
297.8 |
| C4' |
O4' |
C1' |
H1' |
104.3 |
93.2 |
| O4' |
C4' |
C3' |
O3' |
271.4 |
204.9 |
| O4' |
C4' |
C3' |
H3' |
149.5 |
81.3 |
| C3' |
C4' |
O4' |
C5' |
242.4 |
241.3 |
| C3' |
C4' |
O4' |
H4' |
122.0 |
118.5 |
| C5' |
C4' |
O4' |
H4' |
239.6 |
237.2 |
| O4' |
C4' |
C5' |
O5' |
177.0 |
65.7 |
| O4' |
C4' |
C5' |
H5'1 |
302.2 |
185.7 |
| O4' |
C4' |
C5' |
H5'2 |
51.7 |
305.6 |
| C5' |
C4' |
C3' |
O3' |
154.0 |
86.1 |
| C5' |
C4' |
C3' |
H3' |
32.1 |
322.6 |
| C3' |
C4' |
C5' |
O4' |
115.3 |
114.3 |
| C3' |
C4' |
C5' |
H4' |
237.8 |
237.1 |
| O4' |
C4' |
C5' |
H4' |
122.4 |
122.8 |
| O5' |
C5' |
C4' |
H5'1 |
234.8 |
239.9 |
| O5' |
C5' |
C4' |
H5'2 |
125.3 |
120.0 |
| C4' |
C5' |
O5' |
HO51 |
179.9 |
180.1 |
| H5'1 |
C5' |
C4' |
H5'2 |
250.5 |
240.1 |
| H4' |
C4' |
C3' |
O3' |
33.6 |
323.2 |
| H4' |
C4' |
C3' |
H3' |
271.8 |
199.7 |
| C3' |
C4' |
H4' |
O4' |
241.4 |
245.9 |
| C3' |
C4' |
H4' |
C5' |
120.7 |
122.9 |
| O4' |
C4' |
H4' |
C5' |
239.3 |
237.1 |
| H4' |
C4' |
C5' |
O5' |
54.6 |
302.9 |
| H4' |
C4' |
C5' |
H5'1 |
179.8 |
63.0 |
| H4' |
C4' |
C5' |
H5'2 |
289.3 |
182.9 |
| HO3' |
O3' |
C3' |
H3' |
55.7 |
297.8 |
| O5' |
C5' |
C4' |
H4' |
54.6 |
302.9 |
| C4' |
C5' |
O5' |
H5'1 |
125.2 |
120.0 |
| C4' |
C5' |
O5' |
H5'2 |
234.7 |
240.0 |
| H5'1 |
C5' |
O5' |
H5'2 |
109.5 |
120.0 |
| H5'1 |
C5' |
C4' |
H4' |
179.8 |
63.0 |
| C4' |
C5' |
H5'1 |
O5' |
228.5 |
239.9 |
| C4' |
C5' |
H5'1 |
H5'2 |
114.2 |
119.9 |
| O5' |
C5' |
H5'1 |
H5'2 |
245.8 |
240.0 |
| H5'1 |
C5' |
O5' |
HO51 |
54.7 |
60.0 |
| H5'2 |
C5' |
C4' |
H4' |
289.3 |
182.9 |
| C4' |
C5' |
H5'2 |
O5' |
131.6 |
120.1 |
| C4' |
C5' |
H5'2 |
H5'1 |
245.8 |
240.1 |
| O5' |
C5' |
H5'2 |
H5'1 |
114.2 |
120.0 |
| H5'2 |
C5' |
O5' |
HO51 |
305.2 |
300.1 |
| HO51 |
O5' |
C5' |
H5'1 |
54.7 |
60.0 |
| HO51 |
O5' |
C5' |
H5'2 |
305.2 |
300.1 |