PDB Chemical Component TCP
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 TCP
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
CP |
O5' |
1.410 |
1.429 |
CP |
HP1 |
1.090 |
1.089 |
CP |
HP2 |
1.091 |
1.090 |
CP |
HP3 |
1.114 |
1.090 |
O5' |
C5' |
1.410 |
1.428 |
C5' |
C4' |
1.526 |
1.529 |
C5' |
H5' |
1.090 |
1.090 |
C5' |
H5'' |
1.089 |
1.090 |
C4' |
O4' |
1.410 |
1.442 |
C4' |
C3' |
1.526 |
1.549 |
C4' |
H4' |
1.089 |
1.090 |
O4' |
C1' |
1.410 |
1.437 |
C3' |
O3' |
1.410 |
1.429 |
C3' |
C2' |
1.526 |
1.550 |
C3' |
H3' |
1.090 |
1.091 |
O3' |
HO3' |
0.950 |
0.967 |
C2' |
C1' |
1.525 |
1.541 |
C2' |
H2' |
1.090 |
1.091 |
C2' |
H2'' |
1.091 |
1.090 |
C1' |
N1 |
1.475 |
1.464 |
C1' |
H1' |
1.090 |
1.090 |
N1 |
C2 |
1.383 |
1.344 |
N1 |
C6 |
1.365 |
1.368 |
C2 |
O2 |
1.228 |
1.216 |
C2 |
N3 |
1.388 |
1.346 |
N3 |
C4 |
1.388 |
1.348 |
N3 |
HN3 |
1.010 |
0.970 |
C4 |
O4 |
1.229 |
1.217 |
C4 |
C5 |
1.444 |
1.415 |
C5 |
C5M |
1.510 |
1.508 |
C5 |
C6 |
1.350 |
1.350 |
C5M |
H71 |
1.090 |
1.090 |
C5M |
H72 |
1.090 |
1.089 |
C5M |
H73 |
1.090 |
1.090 |
C6 |
H6 |
1.081 |
1.080 |
Bond Angles for TCP
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
O5' |
CP |
HP1 |
109.8 |
109.5 |
O5' |
CP |
HP2 |
108.6 |
109.5 |
O5' |
CP |
HP3 |
110.0 |
109.4 |
CP |
O5' |
C5' |
115.7 |
106.8 |
HP1 |
CP |
HP2 |
108.0 |
109.5 |
HP1 |
CP |
HP3 |
3.3 |
109.5 |
HP2 |
CP |
HP3 |
105.0 |
109.4 |
O5' |
C5' |
C4' |
111.4 |
109.5 |
O5' |
C5' |
H5' |
109.8 |
109.5 |
O5' |
C5' |
H5'' |
110.9 |
109.4 |
C4' |
C5' |
H5' |
110.6 |
109.4 |
C4' |
C5' |
H5'' |
106.0 |
109.5 |
C5' |
C4' |
O4' |
109.3 |
110.7 |
C5' |
C4' |
C3' |
112.6 |
110.7 |
C5' |
C4' |
H4' |
110.1 |
110.5 |
H5' |
C5' |
H5'' |
108.1 |
109.5 |
O4' |
C4' |
C3' |
106.7 |
103.6 |
O4' |
C4' |
H4' |
108.0 |
110.6 |
C4' |
O4' |
C1' |
107.8 |
107.0 |
C3' |
C4' |
H4' |
109.9 |
110.6 |
C4' |
C3' |
O3' |
109.7 |
111.2 |
C4' |
C3' |
C2' |
102.6 |
102.1 |
C4' |
C3' |
H3' |
109.7 |
110.7 |
O4' |
C1' |
C2' |
104.9 |
107.3 |
O4' |
C1' |
N1 |
110.8 |
109.9 |
O4' |
C1' |
H1' |
106.3 |
109.8 |
O3' |
C3' |
C2' |
114.9 |
110.9 |
O3' |
C3' |
H3' |
110.5 |
110.8 |
C3' |
O3' |
HO3' |
109.6 |
106.9 |
C2' |
C3' |
H3' |
109.1 |
110.9 |
C3' |
C2' |
C1' |
106.0 |
104.2 |
C3' |
C2' |
H2' |
108.9 |
110.3 |
C3' |
C2' |
H2'' |
113.4 |
110.7 |
C1' |
C2' |
H2' |
112.0 |
110.5 |
C1' |
C2' |
H2'' |
107.6 |
110.5 |
C2' |
C1' |
N1 |
112.5 |
110.0 |
C2' |
C1' |
H1' |
109.3 |
109.9 |
H2' |
C2' |
H2'' |
109.1 |
110.5 |
N1 |
C1' |
H1' |
112.5 |
109.9 |
C1' |
N1 |
C2 |
119.4 |
119.7 |
C1' |
N1 |
C6 |
119.8 |
119.7 |
C2 |
N1 |
C6 |
120.8 |
120.6 |
N1 |
C2 |
O2 |
123.3 |
119.5 |
N1 |
C2 |
N3 |
116.5 |
120.9 |
N1 |
C6 |
C5 |
122.3 |
119.7 |
N1 |
C6 |
H6 |
118.6 |
120.2 |
O2 |
C2 |
N3 |
120.1 |
119.5 |
C2 |
N3 |
C4 |
125.2 |
120.3 |
C2 |
N3 |
HN3 |
117.5 |
119.8 |
C4 |
N3 |
HN3 |
117.3 |
119.9 |
N3 |
C4 |
O4 |
120.6 |
120.4 |
N3 |
C4 |
C5 |
114.6 |
119.4 |
O4 |
C4 |
C5 |
124.9 |
120.3 |
C4 |
C5 |
C5M |
119.3 |
120.4 |
C4 |
C5 |
C6 |
120.3 |
119.1 |
C5M |
C5 |
C6 |
120.3 |
120.4 |
C5 |
C5M |
H71 |
111.7 |
109.4 |
C5 |
C5M |
H72 |
108.9 |
109.5 |
C5 |
C5M |
H73 |
110.5 |
109.5 |
C5 |
C6 |
H6 |
119.1 |
120.1 |
H71 |
C5M |
H72 |
108.6 |
109.5 |
H71 |
C5M |
H73 |
108.3 |
109.5 |
H72 |
C5M |
H73 |
108.7 |
109.5 |
Torsion Angles for TCP
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
HP1 |
CP |
O5' |
HP2 |
242.1 |
239.9 |
HP1 |
CP |
O5' |
HP3 |
356.5 |
120.1 |
HP2 |
CP |
O5' |
HP3 |
114.3 |
240.1 |
CP |
O5' |
C5' |
C4' |
158.6 |
180.1 |
CP |
O5' |
C5' |
H5' |
281.4 |
300.1 |
CP |
O5' |
C5' |
H5'' |
40.8 |
60.1 |
O5' |
CP |
HP1 |
HP2 |
118.3 |
120.1 |
O5' |
CP |
HP1 |
HP3 |
94.1 |
240.0 |
HP1 |
CP |
O5' |
C5' |
51.2 |
59.9 |
HP2 |
CP |
HP1 |
HP3 |
335.8 |
120.0 |
O5' |
CP |
HP2 |
HP1 |
241.0 |
239.9 |
O5' |
CP |
HP2 |
HP3 |
242.4 |
119.9 |
HP2 |
CP |
O5' |
C5' |
169.1 |
180.0 |
HP1 |
CP |
HP2 |
HP3 |
1.4 |
239.9 |
O5' |
CP |
HP3 |
HP1 |
272.9 |
120.0 |
O5' |
CP |
HP3 |
HP2 |
116.7 |
240.1 |
HP3 |
CP |
O5' |
C5' |
54.7 |
299.9 |
HP1 |
CP |
HP3 |
HP2 |
203.8 |
120.0 |
C5' |
O5' |
CP |
HP1 |
51.2 |
59.9 |
C5' |
O5' |
CP |
HP2 |
169.1 |
180.0 |
C5' |
O5' |
CP |
HP3 |
54.7 |
299.9 |
C4' |
C5' |
O5' |
H5' |
237.1 |
240.0 |
C4' |
C5' |
O5' |
H5'' |
117.7 |
120.0 |
O5' |
C5' |
C4' |
O4' |
316.8 |
63.6 |
O5' |
C5' |
C4' |
C3' |
75.2 |
177.9 |
O5' |
C5' |
C4' |
H4' |
198.3 |
300.7 |
H5' |
C5' |
O5' |
H5'' |
240.6 |
240.0 |
O5' |
C5' |
C4' |
H5' |
122.4 |
120.0 |
O5' |
C5' |
C4' |
H5'' |
239.3 |
240.0 |
H5' |
C5' |
C4' |
H5'' |
116.9 |
120.0 |
O4' |
C4' |
C5' |
C3' |
241.6 |
245.7 |
O4' |
C4' |
C5' |
H4' |
118.5 |
122.9 |
C5' |
C4' |
O4' |
C1' |
157.3 |
158.6 |
C3' |
C4' |
C5' |
H4' |
236.9 |
237.2 |
C5' |
C4' |
C3' |
O3' |
96.3 |
86.3 |
C5' |
C4' |
C3' |
C2' |
218.8 |
204.6 |
C5' |
C4' |
C3' |
H3' |
334.7 |
322.6 |
O5' |
C5' |
H5' |
C4' |
236.7 |
240.0 |
O5' |
C5' |
H5' |
H5'' |
121.1 |
120.0 |
C4' |
C5' |
H5' |
H5'' |
244.4 |
240.0 |
H5' |
C5' |
C4' |
O4' |
194.4 |
303.6 |
H5' |
C5' |
C4' |
C3' |
312.8 |
57.9 |
H5' |
C5' |
C4' |
H4' |
75.9 |
180.6 |
O5' |
C5' |
H5'' |
C4' |
121.0 |
120.0 |
O5' |
C5' |
H5'' |
H5' |
239.6 |
240.0 |
C4' |
C5' |
H5'' |
H5' |
118.6 |
120.0 |
H5'' |
C5' |
C4' |
O4' |
77.5 |
183.6 |
H5'' |
C5' |
C4' |
C3' |
195.9 |
297.9 |
H5'' |
C5' |
C4' |
H4' |
319.0 |
60.6 |
O4' |
C4' |
C5' |
H5' |
194.4 |
303.6 |
O4' |
C4' |
C5' |
H5'' |
77.5 |
183.6 |
C5' |
C4' |
O4' |
C3' |
122.0 |
118.6 |
C5' |
C4' |
O4' |
H4' |
240.2 |
237.2 |
C3' |
C4' |
O4' |
H4' |
118.2 |
118.5 |
O4' |
C4' |
C3' |
O3' |
216.2 |
204.9 |
O4' |
C4' |
C3' |
C2' |
338.7 |
323.3 |
O4' |
C4' |
C3' |
H3' |
94.6 |
81.3 |
C4' |
O4' |
C1' |
C2' |
326.3 |
333.5 |
C4' |
O4' |
C1' |
N1 |
204.6 |
213.9 |
C4' |
O4' |
C1' |
H1' |
82.1 |
92.9 |
C3' |
C4' |
C5' |
H5' |
312.8 |
57.9 |
C3' |
C4' |
C5' |
H5'' |
195.9 |
297.9 |
C5' |
C4' |
C3' |
O4' |
240.1 |
241.3 |
C5' |
C4' |
C3' |
H4' |
123.2 |
122.8 |
O4' |
C4' |
C3' |
H4' |
243.1 |
241.4 |
C3' |
C4' |
O4' |
C1' |
35.3 |
39.9 |
O3' |
C3' |
C4' |
C2' |
237.5 |
241.7 |
O3' |
C3' |
C4' |
H3' |
121.6 |
123.6 |
C4' |
C3' |
O3' |
HO3' |
179.9 |
174.3 |
C2' |
C3' |
C4' |
H3' |
244.1 |
242.0 |
C4' |
C3' |
C2' |
C1' |
1.3 |
20.6 |
C4' |
C3' |
C2' |
H2' |
121.9 |
262.0 |
C4' |
C3' |
C2' |
H2'' |
243.5 |
139.4 |
H4' |
C4' |
C5' |
H5' |
75.9 |
180.6 |
H4' |
C4' |
C5' |
H5'' |
319.0 |
60.6 |
C5' |
C4' |
H4' |
O4' |
119.3 |
122.9 |
C5' |
C4' |
H4' |
C3' |
235.4 |
237.1 |
O4' |
C4' |
H4' |
C3' |
116.1 |
114.2 |
H4' |
C4' |
O4' |
C1' |
277.1 |
281.4 |
H4' |
C4' |
C3' |
O3' |
333.1 |
323.5 |
H4' |
C4' |
C3' |
C2' |
95.6 |
81.8 |
H4' |
C4' |
C3' |
H3' |
211.5 |
199.9 |
C1' |
O4' |
C4' |
C3' |
35.3 |
39.9 |
C1' |
O4' |
C4' |
H4' |
277.1 |
281.4 |
C3' |
C2' |
C1' |
O4' |
19.0 |
2.2 |
O4' |
C1' |
C2' |
H2' |
260.4 |
120.7 |
O4' |
C1' |
C2' |
H2'' |
140.6 |
243.3 |
C2' |
C1' |
O4' |
N1 |
121.7 |
119.6 |
C2' |
C1' |
O4' |
H1' |
244.2 |
240.6 |
N1 |
C1' |
O4' |
H1' |
122.6 |
121.0 |
O4' |
C1' |
N1 |
C2 |
222.0 |
58.3 |
O4' |
C1' |
N1 |
C6 |
44.5 |
238.5 |
O3' |
C3' |
C4' |
H4' |
333.1 |
323.5 |
C4' |
C3' |
O3' |
C2' |
114.9 |
112.9 |
C4' |
C3' |
O3' |
H3' |
238.9 |
236.4 |
C2' |
C3' |
O3' |
H3' |
124.0 |
123.5 |
O3' |
C3' |
C2' |
C1' |
120.2 |
139.2 |
O3' |
C3' |
C2' |
H2' |
240.8 |
20.6 |
O3' |
C3' |
C2' |
H2'' |
2.4 |
257.9 |
C2' |
C3' |
C4' |
H4' |
95.6 |
81.8 |
C4' |
C3' |
C2' |
O3' |
241.1 |
241.4 |
C4' |
C3' |
C2' |
H3' |
116.3 |
117.9 |
O4' |
C1' |
C2' |
C3' |
19.0 |
2.2 |
O3' |
C3' |
C2' |
H3' |
235.2 |
236.5 |
C2' |
C3' |
O3' |
HO3' |
65.1 |
61.4 |
C1' |
C2' |
C3' |
H2' |
239.4 |
118.6 |
C1' |
C2' |
C3' |
H2'' |
117.8 |
241.2 |
C3' |
C2' |
C1' |
N1 |
139.5 |
121.7 |
C3' |
C2' |
C1' |
H1' |
265.3 |
242.8 |
H2' |
C2' |
C3' |
H2'' |
238.4 |
122.6 |
H3' |
C3' |
C4' |
H4' |
211.5 |
199.9 |
C4' |
C3' |
H3' |
O3' |
121.0 |
123.9 |
C4' |
C3' |
H3' |
C2' |
248.3 |
247.5 |
O3' |
C3' |
H3' |
C2' |
127.3 |
123.6 |
H3' |
C3' |
O3' |
HO3' |
301.0 |
297.9 |
H3' |
C3' |
C2' |
C1' |
245.0 |
262.7 |
H3' |
C3' |
C2' |
H2' |
5.6 |
144.0 |
H3' |
C3' |
C2' |
H2'' |
127.2 |
21.4 |
HO3' |
O3' |
C3' |
C2' |
65.1 |
61.4 |
HO3' |
O3' |
C3' |
H3' |
301.0 |
297.9 |
O4' |
C1' |
C2' |
N1 |
239.4 |
240.5 |
O4' |
C1' |
C2' |
H1' |
113.7 |
119.4 |
C1' |
C2' |
C3' |
H3' |
245.0 |
262.7 |
C3' |
C2' |
C1' |
H2' |
118.6 |
241.5 |
C3' |
C2' |
C1' |
H2'' |
238.4 |
118.9 |
H2' |
C2' |
C1' |
H2'' |
119.8 |
237.4 |
N1 |
C1' |
C2' |
H1' |
234.2 |
238.9 |
C2' |
C1' |
N1 |
C2 |
104.9 |
300.5 |
C2' |
C1' |
N1 |
C6 |
287.4 |
120.6 |
H2' |
C2' |
C3' |
H3' |
5.6 |
144.0 |
C3' |
C2' |
H2' |
C1' |
243.1 |
114.7 |
C3' |
C2' |
H2' |
H2'' |
124.2 |
237.3 |
C1' |
C2' |
H2' |
H2'' |
241.1 |
122.6 |
H2' |
C2' |
C1' |
N1 |
20.9 |
240.2 |
H2' |
C2' |
C1' |
H1' |
146.7 |
1.3 |
H2'' |
C2' |
C3' |
H3' |
127.2 |
21.4 |
C3' |
C2' |
H2'' |
C1' |
116.8 |
245.1 |
C3' |
C2' |
H2'' |
H2' |
238.5 |
122.5 |
C1' |
C2' |
H2'' |
H2' |
121.6 |
237.4 |
H2'' |
C2' |
C1' |
N1 |
261.1 |
2.8 |
H2'' |
C2' |
C1' |
H1' |
26.9 |
123.9 |
O4' |
C1' |
N1 |
C2' |
117.1 |
117.9 |
O4' |
C1' |
N1 |
H1' |
241.1 |
239.0 |
N1 |
C1' |
C2' |
H2' |
20.9 |
240.2 |
N1 |
C1' |
C2' |
H2'' |
261.1 |
2.8 |
C2' |
C1' |
N1 |
H1' |
124.0 |
121.2 |
C2 |
N1 |
C1' |
C6 |
177.5 |
179.8 |
C1' |
N1 |
C2 |
O2 |
356.0 |
0.2 |
C1' |
N1 |
C2 |
N3 |
176.6 |
179.7 |
C1' |
N1 |
C6 |
C5 |
182.8 |
180.1 |
C1' |
N1 |
C6 |
H6 |
2.7 |
360.0 |
O4' |
C1' |
H1' |
C2' |
247.2 |
242.2 |
O4' |
C1' |
H1' |
N1 |
121.5 |
121.0 |
H1' |
C1' |
C2' |
H2' |
146.7 |
1.3 |
H1' |
C1' |
C2' |
H2'' |
26.9 |
123.9 |
C2' |
C1' |
H1' |
N1 |
234.3 |
238.8 |
H1' |
C1' |
N1 |
C2 |
340.9 |
179.3 |
H1' |
C1' |
N1 |
C6 |
163.3 |
359.5 |
C2 |
N1 |
C1' |
H1' |
340.9 |
179.3 |
C1' |
N1 |
C2 |
C6 |
182.5 |
180.2 |
C2 |
N1 |
C6 |
C5 |
5.2 |
0.3 |
C2 |
N1 |
C6 |
H6 |
185.2 |
180.1 |
O2 |
C2 |
N1 |
N3 |
179.4 |
180.4 |
N1 |
C2 |
N3 |
C4 |
1.6 |
0.4 |
N1 |
C2 |
N3 |
HN3 |
179.2 |
180.2 |
C6 |
N1 |
C1' |
H1' |
163.3 |
359.5 |
C1' |
N1 |
C6 |
C2 |
177.5 |
179.8 |
C6 |
N1 |
C2 |
O2 |
173.5 |
180.0 |
C6 |
N1 |
C2 |
N3 |
354.1 |
359.6 |
C4 |
C5 |
C6 |
N1 |
359.9 |
359.9 |
C5M |
C5 |
C6 |
N1 |
183.6 |
180.0 |
C5 |
C6 |
N1 |
H6 |
180.0 |
180.1 |
O2 |
C2 |
N1 |
C6 |
173.5 |
180.0 |
N1 |
C2 |
O2 |
N3 |
180.6 |
179.6 |
O2 |
C2 |
N3 |
C4 |
182.2 |
180.0 |
O2 |
C2 |
N3 |
HN3 |
359.8 |
359.8 |
N3 |
C2 |
N1 |
C6 |
354.1 |
359.6 |
N1 |
C2 |
N3 |
O2 |
179.4 |
180.4 |
C4 |
N3 |
C2 |
HN3 |
182.4 |
180.2 |
C2 |
N3 |
C4 |
O4 |
182.6 |
179.8 |
C2 |
N3 |
C4 |
C5 |
3.1 |
359.7 |
C2 |
N3 |
C4 |
HN3 |
177.6 |
179.8 |
O4 |
C4 |
N3 |
C5 |
179.5 |
180.1 |
N3 |
C4 |
C5 |
C5M |
172.5 |
180.0 |
N3 |
C4 |
C5 |
C6 |
356.2 |
0.1 |
C2 |
N3 |
HN3 |
C4 |
182.2 |
180.2 |
HN3 |
N3 |
C4 |
O4 |
5.0 |
360.0 |
HN3 |
N3 |
C4 |
C5 |
185.5 |
179.9 |
O4 |
C4 |
N3 |
HN3 |
5.0 |
360.0 |
N3 |
C4 |
O4 |
C5 |
180.5 |
179.9 |
O4 |
C4 |
C5 |
C5M |
353.1 |
359.9 |
O4 |
C4 |
C5 |
C6 |
176.7 |
180.1 |
N1 |
C6 |
C5 |
C4 |
359.9 |
359.9 |
C5 |
C4 |
N3 |
HN3 |
185.5 |
179.9 |
N3 |
C4 |
C5 |
O4 |
179.5 |
180.1 |
C5M |
C5 |
C4 |
C6 |
176.4 |
179.8 |
C4 |
C5 |
C5M |
H71 |
164.2 |
0.1 |
C4 |
C5 |
C5M |
H72 |
284.2 |
120.1 |
C4 |
C5 |
C5M |
H73 |
43.6 |
240.1 |
C4 |
C5 |
C6 |
H6 |
179.9 |
180.0 |
N1 |
C6 |
C5 |
C5M |
183.6 |
180.0 |
C4 |
C5 |
C5M |
C6 |
183.6 |
180.2 |
C5M |
C5 |
C6 |
H6 |
3.6 |
0.2 |
H71 |
C5M |
C5 |
H72 |
240.0 |
240.0 |
H71 |
C5M |
C5 |
H73 |
120.7 |
120.0 |
H72 |
C5M |
C5 |
H73 |
240.7 |
240.0 |
N1 |
C6 |
C5 |
H6 |
180.0 |
179.9 |
C4 |
C5 |
C6 |
C5M |
176.3 |
179.8 |
C6 |
C5 |
C5M |
H71 |
340.6 |
179.9 |
C6 |
C5 |
C5M |
H72 |
100.6 |
299.9 |
C6 |
C5 |
C5M |
H73 |
219.9 |
59.9 |
H71 |
C5M |
C5 |
C6 |
340.6 |
179.9 |
C5 |
C5M |
H71 |
H72 |
120.2 |
120.0 |
C5 |
C5M |
H71 |
H73 |
238.1 |
240.0 |
H72 |
C5M |
H71 |
H73 |
117.9 |
120.0 |
H72 |
C5M |
C5 |
C6 |
100.6 |
299.9 |
C5 |
C5M |
H72 |
H71 |
238.1 |
240.1 |
C5 |
C5M |
H72 |
H73 |
120.5 |
120.0 |
H71 |
C5M |
H72 |
H73 |
242.3 |
239.9 |
H73 |
C5M |
C5 |
C6 |
219.9 |
59.9 |
C5 |
C5M |
H73 |
H71 |
122.7 |
120.0 |
C5 |
C5M |
H73 |
H72 |
240.5 |
240.0 |
H71 |
C5M |
H73 |
H72 |
117.8 |
120.1 |
N1 |
C6 |
H6 |
C5 |
180.0 |
180.1 |