PDB Chemical Component TDB
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 TDB
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| S1 |
C7 |
1.659 |
1.784 |
| S1 |
C14 |
1.610 |
1.778 |
| C7 |
C8 |
1.428 |
1.507 |
| C7 |
C12 |
1.425 |
1.346 |
| C8 |
H81 |
1.116 |
1.089 |
| C8 |
H82 |
1.114 |
1.089 |
| C8 |
H83 |
1.115 |
1.090 |
| C12 |
C13 |
1.450 |
1.404 |
| C12 |
H12 |
1.103 |
1.080 |
| C13 |
C14 |
1.386 |
1.403 |
| C13 |
B1 |
1.477 |
1.439 |
| C14 |
C2 |
1.400 |
1.394 |
| C2 |
N2 |
1.342 |
1.300 |
| C2 |
H2 |
1.102 |
1.080 |
| N2 |
N1 |
1.320 |
1.402 |
| N1 |
B1 |
1.425 |
1.511 |
| N1 |
S15 |
1.648 |
1.656 |
| B1 |
O1 |
1.561 |
1.419 |
| O1 |
HO1 |
0.950 |
0.967 |
| S15 |
O15 |
1.456 |
1.420 |
| S15 |
O16 |
1.492 |
1.421 |
| S15 |
C15 |
1.833 |
1.812 |
| C15 |
C16 |
1.417 |
1.530 |
| C15 |
H151 |
1.114 |
1.090 |
| C15 |
H152 |
1.115 |
1.089 |
| C16 |
C17 |
1.427 |
1.530 |
| C16 |
H161 |
1.115 |
1.089 |
| C16 |
H162 |
1.116 |
1.090 |
| C17 |
H171 |
1.115 |
1.090 |
| C17 |
H172 |
1.115 |
1.090 |
| C17 |
H173 |
1.115 |
1.090 |
Bond Angles for TDB
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C7 |
S1 |
C14 |
97.5 |
98.3 |
| S1 |
C7 |
C8 |
126.7 |
128.6 |
| S1 |
C7 |
C12 |
111.9 |
102.7 |
| S1 |
C14 |
C13 |
108.3 |
103.0 |
| S1 |
C14 |
C2 |
127.7 |
133.5 |
| C8 |
C7 |
C12 |
121.4 |
128.7 |
| C7 |
C8 |
H81 |
126.7 |
109.5 |
| C7 |
C8 |
H82 |
106.2 |
109.5 |
| C7 |
C8 |
H83 |
106.2 |
109.5 |
| C7 |
C12 |
C13 |
105.4 |
120.2 |
| C7 |
C12 |
H12 |
126.7 |
119.9 |
| H81 |
C8 |
H82 |
106.1 |
109.5 |
| H81 |
C8 |
H83 |
106.1 |
109.5 |
| H82 |
C8 |
H83 |
103.3 |
109.4 |
| C13 |
C12 |
H12 |
128.0 |
119.9 |
| C12 |
C13 |
C14 |
116.9 |
115.8 |
| C12 |
C13 |
B1 |
128.5 |
128.2 |
| C14 |
C13 |
B1 |
114.2 |
116.0 |
| C13 |
C14 |
C2 |
124.0 |
123.5 |
| C13 |
B1 |
N1 |
116.1 |
118.1 |
| C13 |
B1 |
O1 |
100.5 |
121.0 |
| C14 |
C2 |
N2 |
119.8 |
122.8 |
| C14 |
C2 |
H2 |
122.2 |
118.6 |
| N2 |
C2 |
H2 |
118.1 |
118.6 |
| C2 |
N2 |
N1 |
119.8 |
120.4 |
| N2 |
N1 |
B1 |
123.6 |
119.2 |
| N2 |
N1 |
S15 |
108.4 |
120.4 |
| B1 |
N1 |
S15 |
128.0 |
120.4 |
| N1 |
B1 |
O1 |
117.8 |
121.0 |
| N1 |
S15 |
O15 |
101.8 |
102.8 |
| N1 |
S15 |
O16 |
106.7 |
102.8 |
| N1 |
S15 |
C15 |
109.2 |
103.2 |
| B1 |
O1 |
HO1 |
100.5 |
106.9 |
| O15 |
S15 |
O16 |
129.8 |
122.1 |
| O15 |
S15 |
C15 |
118.7 |
111.6 |
| O16 |
S15 |
C15 |
89.5 |
111.7 |
| S15 |
C15 |
C16 |
134.9 |
109.5 |
| S15 |
C15 |
H151 |
103.5 |
109.5 |
| S15 |
C15 |
H152 |
103.5 |
109.5 |
| C16 |
C15 |
H151 |
103.5 |
109.5 |
| C16 |
C15 |
H152 |
103.5 |
109.5 |
| C15 |
C16 |
C17 |
120.2 |
109.5 |
| C15 |
C16 |
H161 |
108.4 |
109.5 |
| C15 |
C16 |
H162 |
108.4 |
109.5 |
| H151 |
C15 |
H152 |
105.2 |
109.4 |
| C17 |
C16 |
H161 |
108.4 |
109.5 |
| C17 |
C16 |
H162 |
108.4 |
109.4 |
| C16 |
C17 |
H171 |
120.2 |
109.5 |
| C16 |
C17 |
H172 |
108.4 |
109.5 |
| C16 |
C17 |
H173 |
108.4 |
109.5 |
| H161 |
C16 |
H162 |
101.5 |
109.4 |
| H171 |
C17 |
H172 |
108.3 |
109.5 |
| H171 |
C17 |
H173 |
108.4 |
109.5 |
| H172 |
C17 |
H173 |
101.6 |
109.5 |
Torsion Angles for TDB
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| C7 |
S1 |
C14 |
C13 |
1.3 |
359.9 |
| C7 |
S1 |
C14 |
C2 |
181.5 |
180.0 |
| C8 |
C7 |
S1 |
C12 |
180.3 |
180.0 |
| S1 |
C7 |
C8 |
H81 |
180.0 |
360.0 |
| S1 |
C7 |
C8 |
H82 |
305.3 |
120.1 |
| S1 |
C7 |
C8 |
H83 |
54.8 |
240.0 |
| S1 |
C7 |
C12 |
C13 |
1.5 |
359.9 |
| S1 |
C7 |
C12 |
H12 |
181.5 |
180.0 |
| C14 |
S1 |
C7 |
C8 |
178.5 |
180.0 |
| C14 |
S1 |
C7 |
C12 |
358.2 |
0.1 |
| C12 |
C13 |
C14 |
S1 |
359.4 |
0.0 |
| S1 |
C14 |
C13 |
B1 |
186.0 |
179.8 |
| C13 |
C14 |
S1 |
C2 |
179.9 |
179.9 |
| S1 |
C14 |
C2 |
N2 |
182.5 |
179.9 |
| S1 |
C14 |
C2 |
H2 |
2.5 |
0.0 |
| C8 |
C7 |
S1 |
C14 |
178.5 |
180.0 |
| S1 |
C7 |
C8 |
C12 |
179.7 |
180.0 |
| C8 |
C7 |
C12 |
C13 |
181.2 |
180.0 |
| C8 |
C7 |
C12 |
H12 |
1.3 |
0.1 |
| H81 |
C8 |
C7 |
H82 |
234.7 |
239.9 |
| H81 |
C8 |
C7 |
H83 |
125.2 |
120.0 |
| H82 |
C8 |
C7 |
H83 |
250.5 |
240.1 |
| C12 |
C7 |
S1 |
C14 |
358.2 |
0.1 |
| S1 |
C7 |
C12 |
C8 |
180.3 |
180.0 |
| C12 |
C7 |
C8 |
H81 |
0.3 |
179.9 |
| C12 |
C7 |
C8 |
H82 |
125.6 |
300.0 |
| C12 |
C7 |
C8 |
H83 |
235.1 |
59.9 |
| C13 |
C12 |
C7 |
H12 |
180.0 |
179.9 |
| C7 |
C12 |
C13 |
C14 |
359.4 |
0.0 |
| C7 |
C12 |
C13 |
B1 |
171.7 |
180.3 |
| H81 |
C8 |
C7 |
C12 |
0.3 |
179.9 |
| C7 |
C8 |
H81 |
H82 |
125.3 |
120.1 |
| C7 |
C8 |
H81 |
H83 |
234.8 |
240.0 |
| H82 |
C8 |
H81 |
H83 |
109.5 |
119.9 |
| H82 |
C8 |
C7 |
C12 |
125.6 |
300.0 |
| C7 |
C8 |
H82 |
H81 |
223.0 |
239.9 |
| C7 |
C8 |
H82 |
H83 |
111.5 |
120.0 |
| H81 |
C8 |
H82 |
H83 |
248.5 |
240.0 |
| H83 |
C8 |
C7 |
C12 |
235.1 |
59.9 |
| C7 |
C8 |
H83 |
H81 |
137.0 |
120.0 |
| C7 |
C8 |
H83 |
H82 |
248.5 |
240.0 |
| H81 |
C8 |
H83 |
H82 |
111.5 |
120.0 |
| S1 |
C14 |
C13 |
C12 |
359.4 |
0.0 |
| C7 |
C12 |
C13 |
H12 |
180.0 |
180.1 |
| C14 |
C13 |
C12 |
B1 |
187.7 |
179.7 |
| C12 |
C13 |
C14 |
C2 |
179.3 |
180.0 |
| C12 |
C13 |
B1 |
N1 |
171.9 |
180.2 |
| C12 |
C13 |
B1 |
O1 |
43.6 |
0.0 |
| C7 |
C12 |
H12 |
C13 |
180.0 |
179.9 |
| H12 |
C12 |
C13 |
C14 |
179.4 |
179.9 |
| H12 |
C12 |
C13 |
B1 |
351.7 |
0.2 |
| S1 |
C14 |
C13 |
C2 |
180.1 |
180.1 |
| C14 |
C13 |
C12 |
H12 |
179.4 |
179.9 |
| C12 |
C13 |
C14 |
B1 |
173.4 |
180.3 |
| C14 |
C13 |
B1 |
N1 |
344.4 |
0.5 |
| C14 |
C13 |
B1 |
O1 |
216.1 |
180.3 |
| C13 |
C14 |
C2 |
N2 |
2.6 |
360.0 |
| C13 |
C14 |
C2 |
H2 |
182.6 |
180.1 |
| B1 |
C13 |
C12 |
H12 |
351.7 |
0.2 |
| C12 |
C13 |
B1 |
C14 |
187.5 |
179.7 |
| B1 |
C13 |
C14 |
C2 |
5.8 |
359.7 |
| N2 |
N1 |
B1 |
C13 |
19.2 |
359.5 |
| C13 |
B1 |
N1 |
S15 |
202.5 |
179.7 |
| N1 |
B1 |
C13 |
O1 |
128.3 |
180.2 |
| C13 |
B1 |
O1 |
HO1 |
180.0 |
360.0 |
| S1 |
C14 |
C2 |
C13 |
179.8 |
179.9 |
| C2 |
C14 |
C13 |
B1 |
5.8 |
359.7 |
| N2 |
C2 |
C14 |
H2 |
180.0 |
179.8 |
| C14 |
C2 |
N2 |
N1 |
359.5 |
0.1 |
| C14 |
C2 |
N2 |
H2 |
180.0 |
180.2 |
| C2 |
N2 |
N1 |
B1 |
349.1 |
0.2 |
| C2 |
N2 |
N1 |
S15 |
166.4 |
179.9 |
| C14 |
C2 |
H2 |
N2 |
180.0 |
179.9 |
| H2 |
C2 |
N2 |
N1 |
179.5 |
180.0 |
| C13 |
B1 |
N1 |
N2 |
19.2 |
359.5 |
| N1 |
N2 |
C2 |
H2 |
179.5 |
180.0 |
| B1 |
N1 |
N2 |
S15 |
182.7 |
180.2 |
| N2 |
N1 |
B1 |
O1 |
138.5 |
179.7 |
| N2 |
N1 |
S15 |
O15 |
50.9 |
333.8 |
| N2 |
N1 |
S15 |
O16 |
189.0 |
206.2 |
| N2 |
N1 |
S15 |
C15 |
284.5 |
90.0 |
| C13 |
B1 |
N1 |
O1 |
240.8 |
179.8 |
| N2 |
N1 |
B1 |
S15 |
176.7 |
179.8 |
| B1 |
N1 |
S15 |
O15 |
228.0 |
153.5 |
| B1 |
N1 |
S15 |
O16 |
6.2 |
25.9 |
| B1 |
N1 |
S15 |
C15 |
101.7 |
269.7 |
| N1 |
B1 |
O1 |
HO1 |
52.9 |
179.8 |
| N2 |
N1 |
S15 |
B1 |
182.9 |
180.2 |
| S15 |
N1 |
B1 |
O1 |
321.7 |
360.0 |
| O15 |
S15 |
N1 |
O16 |
221.8 |
127.6 |
| O15 |
S15 |
N1 |
C15 |
126.3 |
243.8 |
| O16 |
S15 |
N1 |
C15 |
264.5 |
116.2 |
| N1 |
S15 |
C15 |
C16 |
311.0 |
180.0 |
| N1 |
S15 |
C15 |
H151 |
76.3 |
60.0 |
| N1 |
S15 |
C15 |
H152 |
185.8 |
300.1 |
| C13 |
B1 |
O1 |
N1 |
127.2 |
180.2 |
| O1 |
B1 |
N1 |
S15 |
321.7 |
360.0 |
| N1 |
S15 |
O15 |
O16 |
123.8 |
245.8 |
| N1 |
S15 |
O15 |
C15 |
240.2 |
110.0 |
| O16 |
S15 |
O15 |
C15 |
116.4 |
224.2 |
| O15 |
S15 |
C15 |
C16 |
195.0 |
289.7 |
| O15 |
S15 |
C15 |
H151 |
320.3 |
169.7 |
| O15 |
S15 |
C15 |
H152 |
69.8 |
49.8 |
| N1 |
S15 |
O16 |
O15 |
238.1 |
114.2 |
| N1 |
S15 |
O16 |
C15 |
109.9 |
250.0 |
| O15 |
S15 |
O16 |
C15 |
231.8 |
135.8 |
| O16 |
S15 |
C15 |
C16 |
58.5 |
70.3 |
| O16 |
S15 |
C15 |
H151 |
183.8 |
310.2 |
| O16 |
S15 |
C15 |
H152 |
293.3 |
190.3 |
| N1 |
S15 |
C15 |
O15 |
115.9 |
250.3 |
| N1 |
S15 |
C15 |
O16 |
252.4 |
109.7 |
| O15 |
S15 |
C15 |
O16 |
136.5 |
219.5 |
| C16 |
C15 |
S15 |
H151 |
234.7 |
120.0 |
| C16 |
C15 |
S15 |
H152 |
125.2 |
239.9 |
| S15 |
C15 |
C16 |
C17 |
55.7 |
180.0 |
| S15 |
C15 |
C16 |
H161 |
181.0 |
60.0 |
| S15 |
C15 |
C16 |
H162 |
290.4 |
300.0 |
| H151 |
C15 |
S15 |
H152 |
250.5 |
119.9 |
| S15 |
C15 |
C16 |
H151 |
125.3 |
240.0 |
| S15 |
C15 |
C16 |
H152 |
234.8 |
120.1 |
| H151 |
C15 |
C16 |
H152 |
109.5 |
240.1 |
| C17 |
C16 |
C15 |
H161 |
234.7 |
120.1 |
| C17 |
C16 |
C15 |
H162 |
125.3 |
240.0 |
| C15 |
C16 |
C17 |
H171 |
180.0 |
180.0 |
| C15 |
C16 |
C17 |
H172 |
305.2 |
300.0 |
| C15 |
C16 |
C17 |
H173 |
54.7 |
60.0 |
| H161 |
C16 |
C15 |
H162 |
250.6 |
120.0 |
| S15 |
C15 |
H151 |
C16 |
216.5 |
120.0 |
| S15 |
C15 |
H151 |
H152 |
108.3 |
240.0 |
| C16 |
C15 |
H151 |
H152 |
251.8 |
119.9 |
| H151 |
C15 |
C16 |
C17 |
290.4 |
300.0 |
| H151 |
C15 |
C16 |
H161 |
55.7 |
180.0 |
| H151 |
C15 |
C16 |
H162 |
165.2 |
60.0 |
| S15 |
C15 |
H152 |
C16 |
143.5 |
239.9 |
| S15 |
C15 |
H152 |
H151 |
251.7 |
120.0 |
| C16 |
C15 |
H152 |
H151 |
108.3 |
240.1 |
| H152 |
C15 |
C16 |
C17 |
180.9 |
59.9 |
| H152 |
C15 |
C16 |
H161 |
306.2 |
299.9 |
| H152 |
C15 |
C16 |
H162 |
55.7 |
179.9 |
| C17 |
C16 |
C15 |
H151 |
290.4 |
300.0 |
| C17 |
C16 |
C15 |
H152 |
180.9 |
59.9 |
| C15 |
C16 |
C17 |
H161 |
125.3 |
239.9 |
| C15 |
C16 |
C17 |
H162 |
234.7 |
120.0 |
| H161 |
C16 |
C17 |
H162 |
109.4 |
240.1 |
| H171 |
C17 |
C16 |
H172 |
234.8 |
240.0 |
| H171 |
C17 |
C16 |
H173 |
125.3 |
120.0 |
| H172 |
C17 |
C16 |
H173 |
250.5 |
240.0 |
| H161 |
C16 |
C15 |
H151 |
55.7 |
180.0 |
| H161 |
C16 |
C15 |
H152 |
306.2 |
299.9 |
| C15 |
C16 |
H161 |
C17 |
228.0 |
120.1 |
| C15 |
C16 |
H161 |
H162 |
114.0 |
240.0 |
| C17 |
C16 |
H161 |
H162 |
246.0 |
119.9 |
| H161 |
C16 |
C17 |
H171 |
54.8 |
300.1 |
| H161 |
C16 |
C17 |
H172 |
180.0 |
60.1 |
| H161 |
C16 |
C17 |
H173 |
289.4 |
180.1 |
| H162 |
C16 |
C15 |
H151 |
165.2 |
60.0 |
| H162 |
C16 |
C15 |
H152 |
55.7 |
179.9 |
| C15 |
C16 |
H162 |
C17 |
132.0 |
240.0 |
| C15 |
C16 |
H162 |
H161 |
246.0 |
120.0 |
| C17 |
C16 |
H162 |
H161 |
114.0 |
240.0 |
| H162 |
C16 |
C17 |
H171 |
305.3 |
60.0 |
| H162 |
C16 |
C17 |
H172 |
70.5 |
180.0 |
| H162 |
C16 |
C17 |
H173 |
180.0 |
300.0 |
| H171 |
C17 |
C16 |
H161 |
54.8 |
300.1 |
| H171 |
C17 |
C16 |
H162 |
305.3 |
60.0 |
| C16 |
C17 |
H171 |
H172 |
125.2 |
120.0 |
| C16 |
C17 |
H171 |
H173 |
234.7 |
240.0 |
| H172 |
C17 |
H171 |
H173 |
109.5 |
120.0 |
| H172 |
C17 |
C16 |
H161 |
180.0 |
60.1 |
| H172 |
C17 |
C16 |
H162 |
70.5 |
180.0 |
| C16 |
C17 |
H172 |
H171 |
228.1 |
240.0 |
| C16 |
C17 |
H172 |
H173 |
114.0 |
120.0 |
| H171 |
C17 |
H172 |
H173 |
245.9 |
240.0 |
| H173 |
C17 |
C16 |
H161 |
289.4 |
180.1 |
| H173 |
C17 |
C16 |
H162 |
180.0 |
300.0 |
| C16 |
C17 |
H173 |
H171 |
132.0 |
120.0 |
| C16 |
C17 |
H173 |
H172 |
246.0 |
240.0 |
| H171 |
C17 |
H173 |
H172 |
114.0 |
120.0 |