PDB Chemical Component TPY
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 TPY
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
C |
CA |
1.499 |
1.508 |
C |
O |
1.222 |
1.207 |
C |
H |
1.103 |
1.080 |
CA |
CB |
1.480 |
1.530 |
CA |
CD |
1.507 |
1.530 |
CA |
HA |
1.115 |
1.090 |
CB |
CC |
1.496 |
1.507 |
CB |
CK |
1.489 |
1.530 |
CB |
HB |
1.115 |
1.090 |
CC |
OA |
1.257 |
1.342 |
CC |
OB |
1.253 |
1.208 |
CD |
CE |
1.515 |
1.530 |
CD |
HD2 |
1.116 |
1.089 |
CD |
HD1 |
1.115 |
1.090 |
CE |
HE3 |
1.114 |
1.090 |
CE |
HE2 |
1.115 |
1.091 |
CE |
HE1 |
1.116 |
1.089 |
OA |
HOA |
0.950 |
0.967 |
OC |
S |
1.412 |
1.421 |
OD |
S |
1.441 |
1.420 |
S |
N |
1.629 |
1.656 |
S |
CF |
1.763 |
1.763 |
N |
CK |
1.441 |
1.465 |
N |
HN1 |
1.019 |
0.970 |
CK |
HK2 |
1.115 |
1.091 |
CK |
HK1 |
1.115 |
1.090 |
CF |
CG1 |
1.380 |
1.382 |
CF |
CG2 |
1.379 |
1.382 |
CG1 |
CH1 |
1.386 |
1.382 |
CG1 |
HG1 |
1.103 |
1.081 |
CG2 |
CH2 |
1.381 |
1.383 |
CG2 |
HG2 |
1.103 |
1.080 |
CH1 |
CI |
1.383 |
1.382 |
CH1 |
HH1 |
1.103 |
1.080 |
CH2 |
CI |
1.377 |
1.383 |
CH2 |
HH2 |
1.103 |
1.080 |
CI |
NJ |
1.499 |
1.480 |
NJ |
OE |
1.243 |
1.218 |
NJ |
OF |
1.251 |
1.218 |
Bond Angles for TPY
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
CA |
C |
O |
131.1 |
120.0 |
CA |
C |
H |
127.1 |
120.0 |
C |
CA |
CB |
110.3 |
109.5 |
C |
CA |
CD |
109.0 |
109.5 |
C |
CA |
HA |
111.3 |
109.5 |
O |
C |
H |
101.8 |
120.0 |
CB |
CA |
CD |
115.0 |
109.5 |
CB |
CA |
HA |
104.7 |
109.5 |
CA |
CB |
CC |
111.7 |
109.4 |
CA |
CB |
CK |
117.4 |
109.5 |
CA |
CB |
HB |
102.5 |
109.4 |
CD |
CA |
HA |
106.3 |
109.5 |
CA |
CD |
CE |
112.2 |
109.5 |
CA |
CD |
HD2 |
111.2 |
109.5 |
CA |
CD |
HD1 |
111.2 |
109.5 |
CC |
CB |
CK |
110.9 |
109.5 |
CC |
CB |
HB |
110.2 |
109.5 |
CB |
CC |
OA |
116.1 |
120.0 |
CB |
CC |
OB |
122.1 |
120.1 |
CK |
CB |
HB |
103.4 |
109.5 |
CB |
CK |
N |
120.0 |
109.5 |
CB |
CK |
HK2 |
108.5 |
109.4 |
CB |
CK |
HK1 |
108.5 |
109.5 |
OA |
CC |
OB |
121.9 |
120.0 |
CC |
OA |
HOA |
116.1 |
120.0 |
CE |
CD |
HD2 |
111.2 |
109.4 |
CE |
CD |
HD1 |
111.2 |
109.5 |
CD |
CE |
HE3 |
112.1 |
109.5 |
CD |
CE |
HE2 |
111.2 |
109.4 |
CD |
CE |
HE1 |
111.2 |
109.5 |
HD2 |
CD |
HD1 |
99.2 |
109.5 |
HE3 |
CE |
HE2 |
111.3 |
109.4 |
HE3 |
CE |
HE1 |
111.2 |
109.5 |
HE2 |
CE |
HE1 |
99.1 |
109.5 |
OC |
S |
OD |
117.3 |
125.4 |
OC |
S |
N |
110.8 |
105.8 |
OC |
S |
CF |
115.6 |
105.8 |
OD |
S |
N |
108.6 |
105.8 |
OD |
S |
CF |
101.0 |
105.8 |
N |
S |
CF |
102.2 |
107.4 |
S |
N |
CK |
124.1 |
120.0 |
S |
N |
HN1 |
107.0 |
120.0 |
S |
CF |
CG1 |
120.3 |
120.0 |
S |
CF |
CG2 |
119.2 |
120.0 |
CK |
N |
HN1 |
107.1 |
120.0 |
N |
CK |
HK2 |
108.4 |
109.4 |
N |
CK |
HK1 |
108.4 |
109.5 |
HK2 |
CK |
HK1 |
101.5 |
109.5 |
CG1 |
CF |
CG2 |
120.5 |
120.0 |
CF |
CG1 |
CH1 |
118.6 |
120.0 |
CF |
CG1 |
HG1 |
120.5 |
120.0 |
CF |
CG2 |
CH2 |
120.2 |
120.0 |
CF |
CG2 |
HG2 |
119.9 |
120.1 |
CH1 |
CG1 |
HG1 |
120.9 |
120.0 |
CG1 |
CH1 |
CI |
121.5 |
120.0 |
CG1 |
CH1 |
HH1 |
119.4 |
120.0 |
CH2 |
CG2 |
HG2 |
120.0 |
120.0 |
CG2 |
CH2 |
CI |
120.4 |
120.0 |
CG2 |
CH2 |
HH2 |
120.0 |
120.0 |
CI |
CH1 |
HH1 |
119.1 |
120.1 |
CH1 |
CI |
CH2 |
118.9 |
120.0 |
CH1 |
CI |
NJ |
117.3 |
120.0 |
CI |
CH2 |
HH2 |
119.7 |
120.0 |
CH2 |
CI |
NJ |
123.8 |
120.0 |
CI |
NJ |
OE |
118.5 |
120.0 |
CI |
NJ |
OF |
110.4 |
120.0 |
OE |
NJ |
OF |
131.1 |
120.0 |
Torsion Angles for TPY
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
O |
C |
CA |
H |
179.9 |
179.9 |
CB |
CA |
C |
CD |
127.3 |
120.0 |
CB |
CA |
C |
HA |
244.2 |
240.0 |
C |
CA |
CB |
CC |
179.0 |
179.9 |
C |
CA |
CB |
CK |
49.4 |
59.9 |
C |
CA |
CB |
HB |
297.0 |
300.0 |
CD |
CA |
C |
HA |
116.9 |
120.0 |
C |
CA |
CD |
CE |
309.8 |
295.0 |
C |
CA |
CD |
HD2 |
75.0 |
55.0 |
C |
CA |
CD |
HD1 |
184.5 |
175.0 |
CA |
C |
O |
H |
180.0 |
180.1 |
O |
C |
CA |
CB |
69.1 |
240.0 |
O |
C |
CA |
CD |
301.9 |
120.0 |
O |
C |
CA |
HA |
185.0 |
360.0 |
CA |
C |
H |
O |
180.0 |
179.9 |
H |
C |
CA |
CB |
249.2 |
60.1 |
H |
C |
CA |
CD |
121.9 |
300.0 |
H |
C |
CA |
HA |
5.0 |
180.0 |
CB |
CA |
C |
O |
69.1 |
240.0 |
CB |
CA |
C |
H |
249.2 |
60.1 |
C |
CA |
CB |
CD |
236.2 |
240.0 |
C |
CA |
CB |
HA |
119.9 |
120.0 |
CD |
CA |
CB |
HA |
243.7 |
240.0 |
CB |
CA |
CD |
CE |
185.2 |
175.0 |
CB |
CA |
CD |
HD2 |
310.5 |
295.0 |
CB |
CA |
CD |
HD1 |
59.9 |
55.0 |
CC |
CB |
CA |
CK |
129.6 |
120.0 |
CC |
CB |
CA |
HB |
242.0 |
240.0 |
CA |
CB |
CC |
OA |
145.6 |
180.0 |
CA |
CB |
CC |
OB |
324.8 |
0.0 |
CK |
CB |
CA |
HB |
112.4 |
120.0 |
CA |
CB |
CK |
N |
304.2 |
185.0 |
CA |
CB |
CK |
HK2 |
69.5 |
65.1 |
CA |
CB |
CK |
HK1 |
179.0 |
305.0 |
CD |
CA |
C |
O |
301.9 |
120.0 |
CD |
CA |
C |
H |
121.9 |
300.0 |
C |
CA |
CD |
CB |
124.5 |
120.0 |
C |
CA |
CD |
HA |
239.9 |
240.0 |
CB |
CA |
CD |
HA |
115.4 |
120.0 |
CD |
CA |
CB |
CC |
302.9 |
300.0 |
CD |
CA |
CB |
CK |
173.3 |
180.0 |
CD |
CA |
CB |
HB |
60.9 |
60.0 |
CE |
CD |
CA |
HD2 |
234.7 |
240.0 |
CE |
CD |
CA |
HD1 |
125.3 |
120.0 |
CA |
CD |
CE |
HE3 |
180.0 |
60.0 |
CA |
CD |
CE |
HE2 |
305.3 |
300.0 |
CA |
CD |
CE |
HE1 |
54.7 |
180.0 |
HD2 |
CD |
CA |
HD1 |
250.5 |
240.0 |
HA |
CA |
C |
O |
185.0 |
360.0 |
HA |
CA |
C |
H |
5.0 |
180.0 |
C |
CA |
HA |
CB |
240.8 |
240.0 |
C |
CA |
HA |
CD |
118.6 |
120.0 |
CB |
CA |
HA |
CD |
237.8 |
240.0 |
HA |
CA |
CB |
CC |
59.1 |
60.0 |
HA |
CA |
CB |
CK |
289.5 |
300.0 |
HA |
CA |
CB |
HB |
177.1 |
180.0 |
HA |
CA |
CD |
CE |
69.8 |
55.0 |
HA |
CA |
CD |
HD2 |
195.1 |
175.0 |
HA |
CA |
CD |
HD1 |
304.6 |
295.0 |
CC |
CB |
CA |
CD |
302.9 |
300.0 |
CC |
CB |
CA |
HA |
59.1 |
60.0 |
CA |
CB |
CC |
CK |
227.1 |
240.0 |
CA |
CB |
CC |
HB |
113.2 |
120.0 |
CK |
CB |
CC |
HB |
246.2 |
240.0 |
CC |
CB |
CK |
N |
174.3 |
65.0 |
CC |
CB |
CK |
HK2 |
299.5 |
305.1 |
CC |
CB |
CK |
HK1 |
49.0 |
185.1 |
OA |
CC |
CB |
OB |
180.8 |
180.0 |
CB |
CC |
OA |
HOA |
180.0 |
180.1 |
CK |
CB |
CA |
CD |
173.3 |
180.0 |
CK |
CB |
CA |
HA |
289.5 |
300.0 |
CA |
CB |
CK |
CC |
130.0 |
120.0 |
CA |
CB |
CK |
HB |
248.1 |
240.0 |
CC |
CB |
CK |
HB |
118.1 |
120.1 |
CK |
CB |
CC |
OA |
278.5 |
300.0 |
CK |
CB |
CC |
OB |
97.7 |
120.0 |
S |
N |
CK |
CB |
275.1 |
165.0 |
CB |
CK |
N |
HN1 |
40.3 |
345.0 |
N |
CK |
CB |
HK2 |
234.7 |
119.9 |
N |
CK |
CB |
HK1 |
125.2 |
240.0 |
HK2 |
CK |
CB |
HK1 |
250.5 |
120.0 |
HB |
CB |
CA |
CD |
60.9 |
60.0 |
HB |
CB |
CA |
HA |
177.1 |
180.0 |
CA |
CB |
HB |
CC |
241.0 |
240.0 |
CA |
CB |
HB |
CK |
122.4 |
120.0 |
CC |
CB |
HB |
CK |
241.4 |
239.9 |
HB |
CB |
CC |
OA |
32.4 |
60.0 |
HB |
CB |
CC |
OB |
211.5 |
240.0 |
HB |
CB |
CK |
N |
56.1 |
304.9 |
HB |
CB |
CK |
HK2 |
181.4 |
185.0 |
HB |
CB |
CK |
HK1 |
290.9 |
65.0 |
OA |
CC |
CB |
CK |
278.5 |
300.0 |
OA |
CC |
CB |
HB |
32.4 |
60.0 |
CB |
CC |
OA |
OB |
179.2 |
180.0 |
OB |
CC |
CB |
CK |
97.7 |
120.0 |
OB |
CC |
CB |
HB |
211.5 |
240.0 |
CB |
CC |
OB |
OA |
180.9 |
180.0 |
OB |
CC |
OA |
HOA |
0.8 |
0.0 |
CE |
CD |
CA |
HA |
69.8 |
55.0 |
CA |
CD |
CE |
HD2 |
125.2 |
120.0 |
CA |
CD |
CE |
HD1 |
234.7 |
240.0 |
HD2 |
CD |
CE |
HD1 |
109.5 |
120.0 |
HE3 |
CE |
CD |
HE2 |
234.7 |
120.0 |
HE3 |
CE |
CD |
HE1 |
125.2 |
240.0 |
HE2 |
CE |
CD |
HE1 |
250.6 |
120.0 |
HD2 |
CD |
CA |
HA |
195.1 |
175.0 |
CA |
CD |
HD2 |
CE |
234.2 |
240.0 |
CA |
CD |
HD2 |
HD1 |
117.1 |
120.0 |
CE |
CD |
HD2 |
HD1 |
242.9 |
240.0 |
HD2 |
CD |
CE |
HE3 |
54.7 |
300.0 |
HD2 |
CD |
CE |
HE2 |
180.1 |
180.0 |
HD2 |
CD |
CE |
HE1 |
289.5 |
60.0 |
HD1 |
CD |
CA |
HA |
304.6 |
295.0 |
CA |
CD |
HD1 |
CE |
125.8 |
120.0 |
CA |
CD |
HD1 |
HD2 |
242.9 |
240.0 |
CE |
CD |
HD1 |
HD2 |
117.1 |
120.0 |
HD1 |
CD |
CE |
HE3 |
305.2 |
180.0 |
HD1 |
CD |
CE |
HE2 |
70.6 |
60.0 |
HD1 |
CD |
CE |
HE1 |
180.0 |
300.0 |
HE3 |
CE |
CD |
HD2 |
54.7 |
300.0 |
HE3 |
CE |
CD |
HD1 |
305.2 |
180.0 |
CD |
CE |
HE3 |
HE2 |
125.3 |
240.0 |
CD |
CE |
HE3 |
HE1 |
234.8 |
120.0 |
HE2 |
CE |
HE3 |
HE1 |
109.5 |
240.0 |
HE2 |
CE |
CD |
HD2 |
180.1 |
180.0 |
HE2 |
CE |
CD |
HD1 |
70.6 |
60.0 |
CD |
CE |
HE2 |
HE3 |
234.2 |
120.0 |
CD |
CE |
HE2 |
HE1 |
117.0 |
240.0 |
HE3 |
CE |
HE2 |
HE1 |
242.8 |
120.0 |
HE1 |
CE |
CD |
HD2 |
289.5 |
60.0 |
HE1 |
CE |
CD |
HD1 |
180.0 |
300.0 |
CD |
CE |
HE1 |
HE3 |
125.7 |
239.9 |
CD |
CE |
HE1 |
HE2 |
243.0 |
120.0 |
HE3 |
CE |
HE1 |
HE2 |
117.2 |
240.0 |
HOA |
OA |
CC |
OB |
0.8 |
0.0 |
OD |
S |
OC |
N |
234.6 |
236.9 |
OD |
S |
OC |
CF |
119.0 |
123.2 |
N |
S |
OC |
CF |
244.4 |
246.3 |
OC |
S |
N |
CK |
12.2 |
177.6 |
OC |
S |
N |
HN1 |
246.9 |
357.6 |
OC |
S |
CF |
CG1 |
302.1 |
337.4 |
OC |
S |
CF |
CG2 |
124.5 |
157.1 |
OC |
S |
OD |
N |
126.5 |
123.1 |
OC |
S |
OD |
CF |
233.5 |
236.8 |
N |
S |
OD |
CF |
107.0 |
113.7 |
OD |
S |
N |
CK |
142.4 |
312.4 |
OD |
S |
N |
HN1 |
17.1 |
132.4 |
OD |
S |
CF |
CG1 |
174.5 |
202.6 |
OD |
S |
CF |
CG2 |
356.9 |
22.3 |
CB |
CK |
N |
S |
275.1 |
165.0 |
OC |
S |
N |
OD |
229.8 |
225.2 |
OC |
S |
N |
CF |
123.7 |
112.6 |
OD |
S |
N |
CF |
253.8 |
247.4 |
N |
S |
CF |
CG1 |
62.5 |
90.0 |
N |
S |
CF |
CG2 |
244.9 |
269.7 |
CK |
N |
S |
HN1 |
125.3 |
180.0 |
S |
N |
CK |
HK2 |
149.7 |
285.0 |
S |
N |
CK |
HK1 |
40.3 |
45.0 |
OC |
S |
CF |
OD |
127.6 |
134.8 |
OC |
S |
CF |
N |
239.6 |
247.4 |
OD |
S |
CF |
N |
112.0 |
112.6 |
CF |
S |
N |
CK |
248.6 |
65.0 |
CF |
S |
N |
HN1 |
123.3 |
245.0 |
CG1 |
CF |
S |
CG2 |
177.5 |
180.3 |
S |
CF |
CG1 |
CH1 |
181.7 |
180.0 |
S |
CF |
CG1 |
HG1 |
1.7 |
359.9 |
S |
CF |
CG2 |
CH2 |
179.0 |
179.8 |
S |
CF |
CG2 |
HG2 |
359.0 |
0.3 |
N |
CK |
CB |
HB |
56.1 |
304.9 |
CB |
CK |
N |
HK2 |
125.3 |
240.1 |
CB |
CK |
N |
HK1 |
234.8 |
120.1 |
CK |
N |
S |
CF |
248.6 |
65.0 |
S |
N |
CK |
HN1 |
234.7 |
180.0 |
HK2 |
CK |
N |
HK1 |
109.4 |
240.0 |
HN1 |
N |
S |
CF |
123.3 |
245.0 |
S |
N |
HN1 |
CK |
135.0 |
180.0 |
HN1 |
N |
CK |
HK2 |
275.0 |
105.0 |
HN1 |
N |
CK |
HK1 |
165.6 |
225.0 |
HK2 |
CK |
CB |
HB |
181.4 |
185.0 |
CB |
CK |
HK2 |
N |
228.2 |
119.9 |
CB |
CK |
HK2 |
HK1 |
114.1 |
239.9 |
HK2 |
CK |
N |
HN1 |
275.0 |
105.0 |
N |
CK |
HK2 |
HK1 |
245.9 |
120.0 |
HK1 |
CK |
CB |
HB |
290.9 |
65.0 |
CB |
CK |
HK1 |
N |
131.8 |
240.0 |
CB |
CK |
HK1 |
HK2 |
245.9 |
120.0 |
HK1 |
CK |
N |
HN1 |
165.6 |
225.0 |
N |
CK |
HK1 |
HK2 |
114.1 |
240.0 |
S |
CF |
CG1 |
CG2 |
182.5 |
179.7 |
CG1 |
CF |
CG2 |
CH2 |
1.5 |
359.5 |
CG1 |
CF |
CG2 |
HG2 |
181.5 |
180.0 |
CH1 |
CG1 |
CF |
HG1 |
180.0 |
180.1 |
CF |
CG1 |
CH1 |
CI |
359.9 |
359.9 |
CF |
CG1 |
CH1 |
HH1 |
179.9 |
180.0 |
S |
CF |
CG2 |
CG1 |
177.5 |
180.3 |
CG2 |
CF |
CG1 |
CH1 |
359.2 |
0.3 |
CG2 |
CF |
CG1 |
HG1 |
179.2 |
180.2 |
CH2 |
CG2 |
CF |
HG2 |
180.0 |
179.5 |
CF |
CG2 |
CH2 |
CI |
358.8 |
0.5 |
CF |
CG2 |
CH2 |
HH2 |
178.7 |
180.3 |
CH1 |
CG1 |
CF |
CG2 |
359.2 |
0.3 |
CF |
CG1 |
CH1 |
HG1 |
180.0 |
179.9 |
CI |
CH1 |
CG1 |
HH1 |
180.0 |
180.0 |
CG1 |
CH1 |
CI |
CH2 |
0.4 |
0.0 |
CG1 |
CH1 |
CI |
NJ |
180.1 |
179.9 |
HG1 |
CG1 |
CF |
CG2 |
179.2 |
180.2 |
CF |
CG1 |
HG1 |
CH1 |
180.0 |
180.1 |
HG1 |
CG1 |
CH1 |
CI |
179.9 |
180.0 |
HG1 |
CG1 |
CH1 |
HH1 |
359.9 |
0.0 |
CF |
CG2 |
CH2 |
HG2 |
180.0 |
180.5 |
CH1 |
CI |
CH2 |
CG2 |
0.3 |
359.8 |
CI |
CH2 |
CG2 |
HH2 |
180.0 |
180.2 |
CG2 |
CH2 |
CI |
NJ |
180.6 |
179.8 |
CF |
CG2 |
HG2 |
CH2 |
180.0 |
179.5 |
HG2 |
CG2 |
CH2 |
CI |
178.8 |
180.0 |
HG2 |
CG2 |
CH2 |
HH2 |
358.7 |
359.8 |
CI |
CH1 |
CG1 |
HG1 |
179.9 |
180.0 |
CG1 |
CH1 |
CI |
HH1 |
180.0 |
180.0 |
CG2 |
CH2 |
CI |
CH1 |
0.3 |
359.8 |
CH1 |
CI |
CH2 |
HH2 |
180.3 |
180.0 |
CH2 |
CI |
CH1 |
NJ |
180.2 |
180.1 |
CH1 |
CI |
NJ |
OE |
180.5 |
0.1 |
CH1 |
CI |
NJ |
OF |
0.6 |
180.0 |
HH1 |
CH1 |
CG1 |
HG1 |
359.9 |
0.0 |
CG1 |
CH1 |
HH1 |
CI |
180.0 |
180.0 |
HH1 |
CH1 |
CI |
CH2 |
180.3 |
180.0 |
HH1 |
CH1 |
CI |
NJ |
0.1 |
359.9 |
CI |
CH2 |
CG2 |
HG2 |
178.8 |
180.0 |
CG2 |
CH2 |
CI |
HH2 |
180.0 |
179.8 |
CH2 |
CI |
CH1 |
HH1 |
180.3 |
180.0 |
CH1 |
CI |
CH2 |
NJ |
179.7 |
179.9 |
CH2 |
CI |
NJ |
OE |
0.2 |
180.0 |
CH2 |
CI |
NJ |
OF |
180.3 |
359.9 |
HH2 |
CH2 |
CG2 |
HG2 |
358.7 |
359.8 |
CG2 |
CH2 |
HH2 |
CI |
180.0 |
180.2 |
HH2 |
CH2 |
CI |
NJ |
0.6 |
0.1 |
NJ |
CI |
CH1 |
HH1 |
0.1 |
359.9 |
CH1 |
CI |
NJ |
CH2 |
180.3 |
180.1 |
NJ |
CI |
CH2 |
HH2 |
0.6 |
0.1 |
OE |
NJ |
CI |
OF |
179.9 |
180.1 |
CI |
NJ |
OE |
OF |
180.1 |
179.9 |
CI |
NJ |
OF |
OE |
179.9 |
180.1 |