PDB Chemical Component CMY
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 CMY
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
O1Y |
C1Y |
1.239 |
1.361 |
O1Y |
H1Y |
0.950 |
0.981 |
C1Y |
N1Y |
1.485 |
1.380 |
C1Y |
O1 |
|
1.225 |
N1Y |
C2Y |
1.483 |
1.437 |
N1Y |
H1 |
1.000 |
1.019 |
C2Y |
C3Y |
1.517 |
1.526 |
C2Y |
H2Y1 |
1.100 |
1.094 |
C2Y |
H2Y2 |
1.100 |
1.095 |
C3Y |
C4Y |
1.524 |
1.533 |
C3Y |
H3Y1 |
1.100 |
1.097 |
C3Y |
H3Y2 |
1.100 |
1.098 |
C4Y |
C5Y |
1.503 |
1.531 |
C4Y |
H4Y1 |
1.101 |
1.098 |
C4Y |
H4Y2 |
1.100 |
1.096 |
C5Y |
C6Y |
1.528 |
1.533 |
C5Y |
H5Y1 |
1.100 |
1.096 |
C5Y |
H5Y2 |
1.100 |
1.096 |
C6Y |
C7Y |
1.510 |
1.525 |
C6Y |
H6Y1 |
1.100 |
1.097 |
C6Y |
H6Y2 |
1.100 |
1.097 |
C7Y |
N2Y |
1.471 |
1.437 |
C7Y |
H7Y1 |
1.100 |
1.095 |
C7Y |
H7Y2 |
1.100 |
1.095 |
N2Y |
H11 |
1.001 |
1.008 |
N2Y |
H12 |
1.000 |
1.008 |
Bond Angles for CMY
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
C1Y |
O1Y |
H1Y |
109.5 |
111.8 |
O1Y |
C1Y |
N1Y |
125.9 |
110.9 |
O1Y |
C1Y |
O1 |
|
122.4 |
N1Y |
C1Y |
O1 |
|
126.8 |
C1Y |
N1Y |
C2Y |
117.1 |
123.8 |
C1Y |
N1Y |
H1 |
121.5 |
118.1 |
C2Y |
N1Y |
H1 |
121.5 |
118.1 |
N1Y |
C2Y |
C3Y |
113.8 |
112.6 |
N1Y |
C2Y |
H2Y1 |
107.1 |
107.9 |
N1Y |
C2Y |
H2Y2 |
108.1 |
106.8 |
C3Y |
C2Y |
H2Y1 |
107.1 |
111.8 |
C3Y |
C2Y |
H2Y2 |
108.0 |
109.8 |
C2Y |
C3Y |
C4Y |
104.9 |
114.9 |
C2Y |
C3Y |
H3Y1 |
112.0 |
108.7 |
C2Y |
C3Y |
H3Y2 |
111.0 |
108.9 |
H2Y1 |
C2Y |
H2Y2 |
112.9 |
107.6 |
C4Y |
C3Y |
H3Y1 |
112.0 |
109.2 |
C4Y |
C3Y |
H3Y2 |
111.0 |
108.2 |
C3Y |
C4Y |
C5Y |
111.1 |
113.4 |
C3Y |
C4Y |
H4Y1 |
108.6 |
107.9 |
C3Y |
C4Y |
H4Y2 |
108.9 |
110.0 |
H3Y1 |
C3Y |
H3Y2 |
106.0 |
106.6 |
C5Y |
C4Y |
H4Y1 |
108.5 |
109.0 |
C5Y |
C4Y |
H4Y2 |
109.0 |
109.8 |
C4Y |
C5Y |
C6Y |
106.8 |
111.1 |
C4Y |
C5Y |
H5Y1 |
110.9 |
109.6 |
C4Y |
C5Y |
H5Y2 |
110.4 |
109.8 |
H4Y1 |
C4Y |
H4Y2 |
110.8 |
106.5 |
C6Y |
C5Y |
H5Y1 |
110.9 |
109.5 |
C6Y |
C5Y |
H5Y2 |
110.4 |
109.3 |
C5Y |
C6Y |
C7Y |
109.4 |
112.5 |
C5Y |
C6Y |
H6Y1 |
109.5 |
109.2 |
C5Y |
C6Y |
H6Y2 |
109.5 |
109.6 |
H5Y1 |
C5Y |
H5Y2 |
107.4 |
107.3 |
C7Y |
C6Y |
H6Y1 |
109.5 |
108.5 |
C7Y |
C6Y |
H6Y2 |
109.5 |
109.8 |
C6Y |
C7Y |
N2Y |
108.7 |
112.6 |
C6Y |
C7Y |
H7Y1 |
109.9 |
111.0 |
C6Y |
C7Y |
H7Y2 |
109.7 |
110.1 |
H6Y1 |
C6Y |
H6Y2 |
109.5 |
107.1 |
N2Y |
C7Y |
H7Y1 |
109.9 |
107.8 |
N2Y |
C7Y |
H7Y2 |
109.7 |
106.9 |
C7Y |
N2Y |
H11 |
109.4 |
119.2 |
C7Y |
N2Y |
H12 |
109.5 |
119.2 |
H7Y1 |
C7Y |
H7Y2 |
108.9 |
108.1 |
H11 |
N2Y |
H12 |
109.5 |
120.2 |
Torsion Angles for CMY
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
N1Y |
C1Y |
O1Y |
O1 |
|
180.0 |
O1Y |
C1Y |
N1Y |
C2Y |
0.6 |
180.0 |
O1Y |
C1Y |
N1Y |
H1 |
180.6 |
360.0 |
H1Y |
O1Y |
C1Y |
N1Y |
78.5 |
180.0 |
H1Y |
O1Y |
C1Y |
O1 |
|
0.0 |
N1Y |
C1Y |
O1Y |
H1Y |
78.5 |
180.0 |
O1Y |
C1Y |
N1Y |
O1 |
|
180.0 |
C2Y |
N1Y |
C1Y |
H1 |
180.0 |
180.0 |
C1Y |
N1Y |
C2Y |
C3Y |
61.8 |
90.0 |
C1Y |
N1Y |
C2Y |
H2Y1 |
303.6 |
326.2 |
C1Y |
N1Y |
C2Y |
H2Y2 |
181.8 |
210.6 |
O1 |
C1Y |
O1Y |
H1Y |
|
0.0 |
O1Y |
C1Y |
O1 |
N1Y |
|
180.0 |
O1 |
C1Y |
N1Y |
C2Y |
|
360.0 |
O1 |
C1Y |
N1Y |
H1 |
|
180.0 |
C2Y |
N1Y |
C1Y |
O1 |
|
360.0 |
C1Y |
N1Y |
C2Y |
H1 |
180.0 |
180.0 |
C3Y |
C2Y |
N1Y |
H2Y1 |
118.1 |
123.9 |
C3Y |
C2Y |
N1Y |
H2Y2 |
240.0 |
239.4 |
N1Y |
C2Y |
C3Y |
C4Y |
178.7 |
58.3 |
N1Y |
C2Y |
C3Y |
H3Y1 |
57.0 |
295.6 |
N1Y |
C2Y |
C3Y |
H3Y2 |
298.7 |
179.8 |
H2Y1 |
C2Y |
N1Y |
H2Y2 |
121.9 |
115.5 |
H1 |
N1Y |
C1Y |
O1 |
|
180.0 |
C1Y |
N1Y |
H1 |
C2Y |
180.0 |
180.0 |
H1 |
N1Y |
C2Y |
C3Y |
241.8 |
270.0 |
H1 |
N1Y |
C2Y |
H2Y1 |
123.7 |
146.2 |
H1 |
N1Y |
C2Y |
H2Y2 |
1.8 |
30.6 |
C3Y |
C2Y |
N1Y |
H1 |
241.8 |
270.0 |
N1Y |
C2Y |
C3Y |
H2Y1 |
241.9 |
238.3 |
N1Y |
C2Y |
C3Y |
H2Y2 |
120.0 |
118.9 |
H2Y1 |
C2Y |
C3Y |
H2Y2 |
238.2 |
240.6 |
C4Y |
C3Y |
C2Y |
H3Y1 |
121.7 |
122.7 |
C4Y |
C3Y |
C2Y |
H3Y2 |
240.0 |
238.5 |
C2Y |
C3Y |
C4Y |
C5Y |
181.2 |
177.5 |
C2Y |
C3Y |
C4Y |
H4Y1 |
61.9 |
56.7 |
C2Y |
C3Y |
C4Y |
H4Y2 |
301.2 |
300.9 |
H3Y1 |
C3Y |
C2Y |
H3Y2 |
118.3 |
115.8 |
H2Y1 |
C2Y |
N1Y |
H1 |
123.7 |
146.2 |
N1Y |
C2Y |
H2Y1 |
C3Y |
122.4 |
124.4 |
N1Y |
C2Y |
H2Y1 |
H2Y2 |
241.2 |
245.0 |
C3Y |
C2Y |
H2Y1 |
H2Y2 |
118.8 |
120.6 |
H2Y1 |
C2Y |
C3Y |
C4Y |
296.8 |
180.0 |
H2Y1 |
C2Y |
C3Y |
H3Y1 |
175.1 |
57.3 |
H2Y1 |
C2Y |
C3Y |
H3Y2 |
56.8 |
301.5 |
H2Y2 |
C2Y |
N1Y |
H1 |
1.8 |
30.6 |
N1Y |
C2Y |
H2Y2 |
C3Y |
236.5 |
237.6 |
N1Y |
C2Y |
H2Y2 |
H2Y1 |
118.3 |
115.7 |
C3Y |
C2Y |
H2Y2 |
H2Y1 |
241.8 |
238.1 |
H2Y2 |
C2Y |
C3Y |
C4Y |
58.7 |
299.4 |
H2Y2 |
C2Y |
C3Y |
H3Y1 |
297.0 |
176.7 |
H2Y2 |
C2Y |
C3Y |
H3Y2 |
178.7 |
60.9 |
C4Y |
C3Y |
C2Y |
H2Y1 |
296.8 |
180.0 |
C4Y |
C3Y |
C2Y |
H2Y2 |
58.7 |
299.4 |
C2Y |
C3Y |
C4Y |
H3Y1 |
238.3 |
237.6 |
C2Y |
C3Y |
C4Y |
H3Y2 |
120.0 |
121.9 |
H3Y1 |
C3Y |
C4Y |
H3Y2 |
241.7 |
244.4 |
C5Y |
C4Y |
C3Y |
H4Y1 |
119.3 |
120.8 |
C5Y |
C4Y |
C3Y |
H4Y2 |
240.0 |
236.6 |
C3Y |
C4Y |
C5Y |
C6Y |
179.4 |
179.7 |
C3Y |
C4Y |
C5Y |
H5Y1 |
58.4 |
300.9 |
C3Y |
C4Y |
C5Y |
H5Y2 |
299.4 |
58.6 |
H4Y1 |
C4Y |
C3Y |
H4Y2 |
120.7 |
115.8 |
H3Y1 |
C3Y |
C2Y |
H2Y1 |
175.1 |
57.3 |
H3Y1 |
C3Y |
C2Y |
H2Y2 |
297.0 |
176.7 |
C2Y |
C3Y |
H3Y1 |
C4Y |
117.5 |
126.1 |
C2Y |
C3Y |
H3Y1 |
H3Y2 |
238.8 |
242.7 |
C4Y |
C3Y |
H3Y1 |
H3Y2 |
121.2 |
116.6 |
H3Y1 |
C3Y |
C4Y |
C5Y |
302.9 |
300.0 |
H3Y1 |
C3Y |
C4Y |
H4Y1 |
183.6 |
179.1 |
H3Y1 |
C3Y |
C4Y |
H4Y2 |
63.0 |
63.3 |
H3Y2 |
C3Y |
C2Y |
H2Y1 |
56.8 |
301.5 |
H3Y2 |
C3Y |
C2Y |
H2Y2 |
178.7 |
60.9 |
C2Y |
C3Y |
H3Y2 |
C4Y |
243.7 |
234.5 |
C2Y |
C3Y |
H3Y2 |
H3Y1 |
121.9 |
117.2 |
C4Y |
C3Y |
H3Y2 |
H3Y1 |
238.1 |
242.7 |
H3Y2 |
C3Y |
C4Y |
C5Y |
61.2 |
55.6 |
H3Y2 |
C3Y |
C4Y |
H4Y1 |
301.9 |
294.8 |
H3Y2 |
C3Y |
C4Y |
H4Y2 |
181.2 |
179.0 |
C5Y |
C4Y |
C3Y |
H3Y1 |
302.9 |
300.0 |
C5Y |
C4Y |
C3Y |
H3Y2 |
61.2 |
55.6 |
C3Y |
C4Y |
C5Y |
H4Y1 |
240.7 |
239.8 |
C3Y |
C4Y |
C5Y |
H4Y2 |
120.0 |
123.5 |
H4Y1 |
C4Y |
C5Y |
H4Y2 |
239.3 |
243.7 |
C6Y |
C5Y |
C4Y |
H5Y1 |
121.0 |
238.8 |
C6Y |
C5Y |
C4Y |
H5Y2 |
240.0 |
121.1 |
C4Y |
C5Y |
C6Y |
C7Y |
180.8 |
180.5 |
C4Y |
C5Y |
C6Y |
H6Y1 |
60.8 |
60.0 |
C4Y |
C5Y |
C6Y |
H6Y2 |
300.8 |
303.0 |
H5Y1 |
C5Y |
C4Y |
H5Y2 |
119.0 |
242.3 |
H4Y1 |
C4Y |
C3Y |
H3Y1 |
183.6 |
179.1 |
H4Y1 |
C4Y |
C3Y |
H3Y2 |
301.9 |
294.8 |
C3Y |
C4Y |
H4Y1 |
C5Y |
120.9 |
123.6 |
C3Y |
C4Y |
H4Y1 |
H4Y2 |
240.5 |
241.9 |
C5Y |
C4Y |
H4Y1 |
H4Y2 |
119.6 |
118.4 |
H4Y1 |
C4Y |
C5Y |
C6Y |
298.7 |
299.9 |
H4Y1 |
C4Y |
C5Y |
H5Y1 |
177.7 |
61.1 |
H4Y1 |
C4Y |
C5Y |
H5Y2 |
58.8 |
178.8 |
H4Y2 |
C4Y |
C3Y |
H3Y1 |
63.0 |
63.3 |
H4Y2 |
C4Y |
C3Y |
H3Y2 |
181.2 |
179.0 |
C3Y |
C4Y |
H4Y2 |
C5Y |
238.6 |
234.5 |
C3Y |
C4Y |
H4Y2 |
H4Y1 |
119.3 |
116.7 |
C5Y |
C4Y |
H4Y2 |
H4Y1 |
240.7 |
242.2 |
H4Y2 |
C4Y |
C5Y |
C6Y |
59.4 |
56.2 |
H4Y2 |
C4Y |
C5Y |
H5Y1 |
298.4 |
177.4 |
H4Y2 |
C4Y |
C5Y |
H5Y2 |
179.4 |
295.1 |
C6Y |
C5Y |
C4Y |
H4Y1 |
298.7 |
299.9 |
C6Y |
C5Y |
C4Y |
H4Y2 |
59.4 |
56.2 |
C4Y |
C5Y |
C6Y |
H5Y1 |
239.0 |
121.2 |
C4Y |
C5Y |
C6Y |
H5Y2 |
120.0 |
238.6 |
H5Y1 |
C5Y |
C6Y |
H5Y2 |
241.0 |
117.4 |
C7Y |
C6Y |
C5Y |
H6Y1 |
120.0 |
120.5 |
C7Y |
C6Y |
C5Y |
H6Y2 |
240.0 |
237.5 |
C5Y |
C6Y |
C7Y |
N2Y |
60.1 |
181.0 |
C5Y |
C6Y |
C7Y |
H7Y1 |
299.8 |
60.0 |
C5Y |
C6Y |
C7Y |
H7Y2 |
180.1 |
300.3 |
H6Y1 |
C6Y |
C5Y |
H6Y2 |
120.0 |
117.0 |
H5Y1 |
C5Y |
C4Y |
H4Y1 |
177.7 |
61.1 |
H5Y1 |
C5Y |
C4Y |
H4Y2 |
298.4 |
177.4 |
C4Y |
C5Y |
H5Y1 |
C6Y |
118.6 |
237.9 |
C4Y |
C5Y |
H5Y1 |
H5Y2 |
239.3 |
119.2 |
C6Y |
C5Y |
H5Y1 |
H5Y2 |
120.7 |
241.4 |
H5Y1 |
C5Y |
C6Y |
C7Y |
301.8 |
59.3 |
H5Y1 |
C5Y |
C6Y |
H6Y1 |
181.8 |
298.8 |
H5Y1 |
C5Y |
C6Y |
H6Y2 |
61.8 |
181.8 |
H5Y2 |
C5Y |
C4Y |
H4Y1 |
58.8 |
178.8 |
H5Y2 |
C5Y |
C4Y |
H4Y2 |
179.4 |
295.1 |
C4Y |
C5Y |
H5Y2 |
C6Y |
242.1 |
122.2 |
C4Y |
C5Y |
H5Y2 |
H5Y1 |
121.1 |
240.9 |
C6Y |
C5Y |
H5Y2 |
H5Y1 |
238.9 |
118.8 |
H5Y2 |
C5Y |
C6Y |
C7Y |
60.8 |
301.9 |
H5Y2 |
C5Y |
C6Y |
H6Y1 |
300.8 |
181.4 |
H5Y2 |
C5Y |
C6Y |
H6Y2 |
180.8 |
64.4 |
C7Y |
C6Y |
C5Y |
H5Y1 |
301.8 |
59.3 |
C7Y |
C6Y |
C5Y |
H5Y2 |
60.8 |
301.9 |
C5Y |
C6Y |
C7Y |
H6Y1 |
240.0 |
239.1 |
C5Y |
C6Y |
C7Y |
H6Y2 |
120.0 |
122.4 |
H6Y1 |
C6Y |
C7Y |
H6Y2 |
240.0 |
243.3 |
N2Y |
C7Y |
C6Y |
H7Y1 |
120.3 |
121.0 |
N2Y |
C7Y |
C6Y |
H7Y2 |
240.0 |
240.8 |
C6Y |
C7Y |
N2Y |
H11 |
345.5 |
311.6 |
C6Y |
C7Y |
N2Y |
H12 |
225.5 |
145.0 |
H7Y1 |
C7Y |
C6Y |
H7Y2 |
119.7 |
119.7 |
H6Y1 |
C6Y |
C5Y |
H5Y1 |
181.8 |
298.8 |
H6Y1 |
C6Y |
C5Y |
H5Y2 |
300.8 |
181.4 |
C5Y |
C6Y |
H6Y1 |
C7Y |
120.0 |
122.9 |
C5Y |
C6Y |
H6Y1 |
H6Y2 |
240.0 |
241.4 |
C7Y |
C6Y |
H6Y1 |
H6Y2 |
120.0 |
118.5 |
H6Y1 |
C6Y |
C7Y |
N2Y |
180.1 |
301.9 |
H6Y1 |
C6Y |
C7Y |
H7Y1 |
59.9 |
180.9 |
H6Y1 |
C6Y |
C7Y |
H7Y2 |
300.1 |
61.2 |
H6Y2 |
C6Y |
C5Y |
H5Y1 |
61.8 |
181.8 |
H6Y2 |
C6Y |
C5Y |
H5Y2 |
180.8 |
64.4 |
C5Y |
C6Y |
H6Y2 |
C7Y |
240.0 |
235.9 |
C5Y |
C6Y |
H6Y2 |
H6Y1 |
120.0 |
118.3 |
C7Y |
C6Y |
H6Y2 |
H6Y1 |
240.0 |
242.4 |
H6Y2 |
C6Y |
C7Y |
N2Y |
300.1 |
58.7 |
H6Y2 |
C6Y |
C7Y |
H7Y1 |
179.9 |
297.6 |
H6Y2 |
C6Y |
C7Y |
H7Y2 |
60.1 |
177.9 |
N2Y |
C7Y |
C6Y |
H6Y1 |
180.1 |
301.9 |
N2Y |
C7Y |
C6Y |
H6Y2 |
300.1 |
58.7 |
C6Y |
C7Y |
N2Y |
H7Y1 |
239.7 |
237.1 |
C6Y |
C7Y |
N2Y |
H7Y2 |
120.0 |
121.0 |
H7Y1 |
C7Y |
N2Y |
H7Y2 |
240.3 |
243.9 |
H11 |
N2Y |
C7Y |
H12 |
120.0 |
166.6 |
H7Y1 |
C7Y |
C6Y |
H6Y1 |
59.9 |
180.9 |
H7Y1 |
C7Y |
C6Y |
H6Y2 |
179.9 |
297.6 |
C6Y |
C7Y |
H7Y1 |
N2Y |
119.6 |
123.8 |
C6Y |
C7Y |
H7Y1 |
H7Y2 |
239.8 |
239.1 |
N2Y |
C7Y |
H7Y1 |
H7Y2 |
120.2 |
115.3 |
H7Y1 |
C7Y |
N2Y |
H11 |
105.8 |
74.5 |
H7Y1 |
C7Y |
N2Y |
H12 |
345.8 |
267.9 |
H7Y2 |
C7Y |
C6Y |
H6Y1 |
300.1 |
61.2 |
H7Y2 |
C7Y |
C6Y |
H6Y2 |
60.1 |
177.9 |
C6Y |
C7Y |
H7Y2 |
N2Y |
240.6 |
237.3 |
C6Y |
C7Y |
H7Y2 |
H7Y1 |
120.3 |
121.4 |
N2Y |
C7Y |
H7Y2 |
H7Y1 |
239.7 |
244.1 |
H7Y2 |
C7Y |
N2Y |
H11 |
225.5 |
190.6 |
H7Y2 |
C7Y |
N2Y |
H12 |
105.5 |
24.0 |
H11 |
N2Y |
C7Y |
H7Y1 |
105.8 |
74.5 |
H11 |
N2Y |
C7Y |
H7Y2 |
225.5 |
190.6 |
C7Y |
N2Y |
H11 |
H12 |
240.0 |
193.5 |
H12 |
N2Y |
C7Y |
H7Y1 |
345.8 |
267.9 |
H12 |
N2Y |
C7Y |
H7Y2 |
105.5 |
24.0 |
C7Y |
N2Y |
H12 |
H11 |
120.0 |
166.5 |