PDB Chemical Component CY1
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 CY1
| Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
| N |
CA |
1.448 |
1.469 |
| N |
H |
1.021 |
1.008 |
| N |
H2 |
1.019 |
1.009 |
| CA |
CB |
1.520 |
1.529 |
| CA |
C |
1.520 |
1.506 |
| CA |
HA |
1.114 |
1.089 |
| CB |
SG |
1.891 |
1.813 |
| CB |
HB2 |
1.115 |
1.090 |
| CB |
HB3 |
1.115 |
1.090 |
| SG |
CD |
1.777 |
1.813 |
| CD |
NE |
1.466 |
1.465 |
| CD |
HD2 |
1.114 |
1.091 |
| CD |
HD3 |
1.115 |
1.090 |
| NE |
CZ |
1.332 |
1.347 |
| NE |
HE |
1.020 |
0.970 |
| CZ |
OAC |
1.232 |
1.212 |
| CZ |
CM |
1.533 |
1.507 |
| CM |
HM1 |
1.116 |
1.090 |
| CM |
HM2 |
1.115 |
1.088 |
| CM |
HM3 |
1.115 |
1.091 |
| C |
O |
1.244 |
1.208 |
| C |
OXT |
1.334 |
1.342 |
| OXT |
HXT |
0.950 |
0.968 |
Bond Angles for CY1
| Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
| CA |
N |
H |
108.8 |
106.8 |
| CA |
N |
H2 |
112.5 |
106.7 |
| N |
CA |
CB |
108.8 |
109.4 |
| N |
CA |
C |
110.7 |
109.5 |
| N |
CA |
HA |
108.5 |
109.4 |
| H |
N |
H2 |
112.5 |
106.7 |
| CB |
CA |
C |
107.4 |
109.5 |
| CB |
CA |
HA |
111.7 |
109.5 |
| CA |
CB |
SG |
107.2 |
109.5 |
| CA |
CB |
HB2 |
113.0 |
109.4 |
| CA |
CB |
HB3 |
113.1 |
109.5 |
| C |
CA |
HA |
109.8 |
109.5 |
| CA |
C |
O |
120.4 |
120.0 |
| CA |
C |
OXT |
116.6 |
120.0 |
| SG |
CB |
HB2 |
113.0 |
109.5 |
| SG |
CB |
HB3 |
113.0 |
109.4 |
| CB |
SG |
CD |
104.1 |
100.0 |
| HB2 |
CB |
HB3 |
97.4 |
109.5 |
| SG |
CD |
NE |
116.5 |
109.5 |
| SG |
CD |
HD2 |
109.7 |
109.5 |
| SG |
CD |
HD3 |
109.7 |
109.5 |
| NE |
CD |
HD2 |
109.6 |
109.4 |
| NE |
CD |
HD3 |
109.7 |
109.5 |
| CD |
NE |
CZ |
126.0 |
120.0 |
| CD |
NE |
HE |
122.4 |
120.0 |
| HD2 |
CD |
HD3 |
100.6 |
109.4 |
| CZ |
NE |
HE |
111.6 |
120.0 |
| NE |
CZ |
OAC |
123.8 |
120.0 |
| NE |
CZ |
CM |
115.5 |
120.0 |
| OAC |
CZ |
CM |
120.6 |
120.0 |
| CZ |
CM |
HM1 |
115.5 |
109.5 |
| CZ |
CM |
HM2 |
110.0 |
109.5 |
| CZ |
CM |
HM3 |
110.0 |
109.4 |
| HM1 |
CM |
HM2 |
110.0 |
109.5 |
| HM1 |
CM |
HM3 |
110.0 |
109.4 |
| HM2 |
CM |
HM3 |
100.2 |
109.5 |
| O |
C |
OXT |
123.0 |
120.0 |
| C |
OXT |
HXT |
116.6 |
120.0 |
Torsion Angles for CY1
| Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
| H |
N |
CA |
H2 |
125.3 |
113.8 |
| CB |
CA |
N |
C |
242.2 |
239.9 |
| CB |
CA |
N |
HA |
121.7 |
119.9 |
| N |
CA |
CB |
SG |
73.3 |
300.1 |
| N |
CA |
CB |
HB2 |
198.6 |
180.0 |
| N |
CA |
CB |
HB3 |
308.1 |
60.1 |
| C |
CA |
N |
HA |
239.5 |
240.0 |
| N |
CA |
C |
O |
324.3 |
330.0 |
| N |
CA |
C |
OXT |
141.5 |
150.0 |
| CA |
N |
H |
H2 |
234.7 |
246.2 |
| H |
N |
CA |
CB |
180.0 |
53.7 |
| H |
N |
CA |
C |
297.9 |
173.8 |
| H |
N |
CA |
HA |
58.4 |
293.8 |
| CA |
N |
H2 |
H |
123.3 |
113.9 |
| H2 |
N |
CA |
CB |
54.7 |
299.9 |
| H2 |
N |
CA |
C |
172.5 |
60.0 |
| H2 |
N |
CA |
HA |
293.0 |
180.0 |
| CB |
CA |
N |
H |
180.0 |
53.7 |
| CB |
CA |
N |
H2 |
54.7 |
299.9 |
| N |
CA |
CB |
C |
119.9 |
120.0 |
| N |
CA |
CB |
HA |
240.3 |
240.1 |
| C |
CA |
CB |
HA |
120.4 |
120.1 |
| CB |
CA |
C |
O |
82.9 |
89.9 |
| CB |
CA |
C |
OXT |
260.1 |
270.0 |
| SG |
CB |
CA |
HB2 |
234.8 |
120.0 |
| SG |
CB |
CA |
HB3 |
125.3 |
240.0 |
| CA |
CB |
SG |
CD |
201.1 |
180.0 |
| HB2 |
CB |
CA |
HB3 |
250.5 |
120.0 |
| C |
CA |
N |
H |
297.9 |
173.8 |
| C |
CA |
N |
H2 |
172.5 |
60.0 |
| N |
CA |
C |
CB |
241.4 |
240.0 |
| N |
CA |
C |
HA |
119.7 |
120.0 |
| CB |
CA |
C |
HA |
238.4 |
240.0 |
| C |
CA |
CB |
SG |
313.5 |
180.0 |
| C |
CA |
CB |
HB2 |
78.7 |
60.0 |
| C |
CA |
CB |
HB3 |
188.2 |
300.0 |
| O |
C |
CA |
OXT |
182.8 |
179.9 |
| CA |
C |
OXT |
HXT |
180.0 |
180.0 |
| HA |
CA |
N |
H |
58.4 |
293.8 |
| HA |
CA |
N |
H2 |
293.0 |
180.0 |
| N |
CA |
HA |
CB |
119.9 |
119.9 |
| N |
CA |
HA |
C |
238.9 |
240.0 |
| CB |
CA |
HA |
C |
119.0 |
120.1 |
| HA |
CA |
CB |
SG |
193.1 |
60.0 |
| HA |
CA |
CB |
HB2 |
318.3 |
299.9 |
| HA |
CA |
CB |
HB3 |
67.8 |
180.0 |
| HA |
CA |
C |
O |
204.5 |
210.0 |
| HA |
CA |
C |
OXT |
21.7 |
30.1 |
| SG |
CB |
CA |
C |
313.5 |
180.0 |
| SG |
CB |
CA |
HA |
193.1 |
60.0 |
| CA |
CB |
SG |
HB2 |
125.2 |
240.0 |
| CA |
CB |
SG |
HB3 |
234.7 |
120.1 |
| HB2 |
CB |
SG |
HB3 |
109.5 |
240.0 |
| CB |
SG |
CD |
NE |
233.3 |
180.0 |
| CB |
SG |
CD |
HD2 |
358.5 |
60.0 |
| CB |
SG |
CD |
HD3 |
108.0 |
300.0 |
| HB2 |
CB |
CA |
C |
78.7 |
60.0 |
| HB2 |
CB |
CA |
HA |
318.3 |
299.9 |
| CA |
CB |
HB2 |
SG |
238.0 |
120.0 |
| CA |
CB |
HB2 |
HB3 |
119.0 |
240.0 |
| SG |
CB |
HB2 |
HB3 |
241.0 |
119.9 |
| HB2 |
CB |
SG |
CD |
75.9 |
300.0 |
| HB3 |
CB |
CA |
C |
188.2 |
300.0 |
| HB3 |
CB |
CA |
HA |
67.8 |
180.0 |
| CA |
CB |
HB3 |
SG |
122.0 |
239.9 |
| CA |
CB |
HB3 |
HB2 |
241.0 |
120.0 |
| SG |
CB |
HB3 |
HB2 |
119.0 |
240.0 |
| HB3 |
CB |
SG |
CD |
326.4 |
60.0 |
| CD |
SG |
CB |
HB2 |
75.9 |
300.0 |
| CD |
SG |
CB |
HB3 |
326.4 |
60.0 |
| NE |
CD |
SG |
HD2 |
234.8 |
120.0 |
| NE |
CD |
SG |
HD3 |
125.3 |
240.0 |
| SG |
CD |
NE |
CZ |
38.8 |
90.0 |
| SG |
CD |
NE |
HE |
218.9 |
269.9 |
| HD2 |
CD |
SG |
HD3 |
250.5 |
120.0 |
| SG |
CD |
NE |
HD2 |
125.2 |
240.0 |
| SG |
CD |
NE |
HD3 |
234.7 |
120.0 |
| HD2 |
CD |
NE |
HD3 |
109.5 |
240.1 |
| CZ |
NE |
CD |
HE |
179.9 |
180.1 |
| CD |
NE |
CZ |
OAC |
359.7 |
360.0 |
| CD |
NE |
CZ |
CM |
180.1 |
180.0 |
| SG |
CD |
HD2 |
NE |
230.9 |
120.0 |
| SG |
CD |
HD2 |
HD3 |
115.5 |
240.0 |
| NE |
CD |
HD2 |
HD3 |
244.5 |
119.9 |
| HD2 |
CD |
NE |
CZ |
273.6 |
210.1 |
| HD2 |
CD |
NE |
HE |
93.7 |
30.0 |
| SG |
CD |
HD3 |
NE |
129.1 |
239.9 |
| SG |
CD |
HD3 |
HD2 |
244.5 |
120.0 |
| NE |
CD |
HD3 |
HD2 |
115.4 |
240.1 |
| HD3 |
CD |
NE |
CZ |
164.1 |
330.0 |
| HD3 |
CD |
NE |
HE |
344.2 |
149.9 |
| CZ |
NE |
CD |
HD2 |
273.6 |
210.1 |
| CZ |
NE |
CD |
HD3 |
164.1 |
330.0 |
| CD |
NE |
CZ |
HE |
180.1 |
179.9 |
| OAC |
CZ |
NE |
CM |
179.6 |
180.0 |
| NE |
CZ |
CM |
HM1 |
180.0 |
179.9 |
| NE |
CZ |
CM |
HM2 |
305.3 |
300.0 |
| NE |
CZ |
CM |
HM3 |
54.8 |
60.1 |
| HE |
NE |
CD |
HD2 |
93.7 |
30.0 |
| HE |
NE |
CD |
HD3 |
344.2 |
149.9 |
| CD |
NE |
HE |
CZ |
179.9 |
180.1 |
| HE |
NE |
CZ |
OAC |
179.6 |
180.0 |
| HE |
NE |
CZ |
CM |
0.0 |
0.0 |
| OAC |
CZ |
NE |
HE |
179.6 |
180.0 |
| NE |
CZ |
OAC |
CM |
180.4 |
180.0 |
| OAC |
CZ |
CM |
HM1 |
0.4 |
359.9 |
| OAC |
CZ |
CM |
HM2 |
125.6 |
120.0 |
| OAC |
CZ |
CM |
HM3 |
235.1 |
240.1 |
| CM |
CZ |
NE |
HE |
0.0 |
0.0 |
| NE |
CZ |
CM |
OAC |
179.6 |
180.0 |
| HM1 |
CM |
CZ |
HM2 |
234.7 |
239.9 |
| HM1 |
CM |
CZ |
HM3 |
125.2 |
119.9 |
| HM2 |
CM |
CZ |
HM3 |
250.5 |
240.0 |
| CZ |
CM |
HM1 |
HM2 |
125.3 |
120.1 |
| CZ |
CM |
HM1 |
HM3 |
234.7 |
240.1 |
| HM2 |
CM |
HM1 |
HM3 |
109.5 |
120.0 |
| CZ |
CM |
HM2 |
HM1 |
231.6 |
239.9 |
| CZ |
CM |
HM2 |
HM3 |
115.8 |
120.0 |
| HM1 |
CM |
HM2 |
HM3 |
244.2 |
240.1 |
| CZ |
CM |
HM3 |
HM1 |
128.4 |
119.9 |
| CZ |
CM |
HM3 |
HM2 |
244.2 |
239.9 |
| HM1 |
CM |
HM3 |
HM2 |
115.8 |
120.0 |
| O |
C |
CA |
HA |
204.5 |
210.0 |
| CA |
C |
O |
OXT |
177.0 |
180.1 |
| O |
C |
OXT |
HXT |
357.1 |
0.1 |
| OXT |
C |
CA |
HA |
21.7 |
30.1 |
| CA |
C |
OXT |
O |
182.9 |
179.9 |