PDB Chemical Component NPL
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 NPL
Atom I |
Atom J |
Distance (Experimental Model) |
Distance (Ideal Model) |
N1 |
C1 |
1.502 |
1.465 |
N1 |
C2 |
1.403 |
1.318 |
N1 |
C6 |
1.362 |
1.318 |
C1 |
H11 |
1.116 |
1.089 |
C1 |
H12 |
1.115 |
1.090 |
C1 |
H13 |
1.114 |
1.089 |
C2 |
C2A |
1.503 |
1.507 |
C2 |
C3 |
1.376 |
1.388 |
C2A |
H21 |
1.114 |
1.090 |
C2A |
H22 |
1.115 |
1.090 |
C2A |
H23 |
1.116 |
1.090 |
C3 |
O3 |
1.397 |
1.359 |
C3 |
C4 |
1.390 |
1.391 |
O3 |
HO3 |
0.950 |
0.967 |
C4 |
C4A |
1.531 |
1.508 |
C4 |
C5 |
1.403 |
1.386 |
C4A |
N4 |
1.363 |
1.469 |
C4A |
H41 |
1.116 |
1.090 |
C4A |
H42 |
1.115 |
1.091 |
N4 |
HN41 |
1.020 |
1.009 |
N4 |
HN42 |
1.019 |
1.009 |
C5 |
C5A |
1.538 |
1.507 |
C5 |
C6 |
1.382 |
1.382 |
C5A |
O4P |
1.419 |
1.429 |
C5A |
H51 |
1.115 |
1.090 |
C5A |
H52 |
1.115 |
1.090 |
O4P |
P |
1.516 |
1.610 |
P |
O1P |
1.454 |
1.610 |
P |
O2P |
1.534 |
1.610 |
P |
O3P |
1.469 |
1.480 |
O2P |
HOP2 |
0.950 |
0.967 |
O3P |
HOP3 |
0.950 |
|
C6 |
H6 |
1.104 |
1.080 |
Bond Angles for NPL
Atom I |
Atom J |
Atom K |
Angle (Experimental Model) |
Angle (Ideal Model) |
C1 |
N1 |
C2 |
122.5 |
119.1 |
C1 |
N1 |
C6 |
117.8 |
119.1 |
N1 |
C1 |
H11 |
122.5 |
109.5 |
N1 |
C1 |
H12 |
107.6 |
109.4 |
N1 |
C1 |
H13 |
107.6 |
109.5 |
C2 |
N1 |
C6 |
119.7 |
121.8 |
N1 |
C2 |
C2A |
121.6 |
119.7 |
N1 |
C2 |
C3 |
121.3 |
120.7 |
N1 |
C6 |
C5 |
119.8 |
120.9 |
N1 |
C6 |
H6 |
119.4 |
119.6 |
H11 |
C1 |
H12 |
107.5 |
109.5 |
H11 |
C1 |
H13 |
107.6 |
109.5 |
H12 |
C1 |
H13 |
102.3 |
109.5 |
C2A |
C2 |
C3 |
116.8 |
119.6 |
C2 |
C2A |
H21 |
121.6 |
109.5 |
C2 |
C2A |
H22 |
107.9 |
109.5 |
C2 |
C2A |
H23 |
107.9 |
109.5 |
C2 |
C3 |
O3 |
118.4 |
120.5 |
C2 |
C3 |
C4 |
119.0 |
119.0 |
H21 |
C2A |
H22 |
107.9 |
109.4 |
H21 |
C2A |
H23 |
107.9 |
109.5 |
H22 |
C2A |
H23 |
102.0 |
109.5 |
O3 |
C3 |
C4 |
122.6 |
120.5 |
C3 |
O3 |
HO3 |
118.4 |
106.8 |
C3 |
C4 |
C4A |
121.5 |
120.8 |
C3 |
C4 |
C5 |
119.4 |
118.4 |
C4A |
C4 |
C5 |
119.0 |
120.8 |
C4 |
C4A |
N4 |
121.0 |
109.5 |
C4 |
C4A |
H41 |
108.1 |
109.4 |
C4 |
C4A |
H42 |
108.1 |
109.4 |
C4 |
C5 |
C5A |
120.5 |
120.4 |
C4 |
C5 |
C6 |
120.8 |
119.2 |
N4 |
C4A |
H41 |
108.1 |
109.6 |
N4 |
C4A |
H42 |
108.1 |
109.5 |
C4A |
N4 |
HN41 |
121.0 |
106.6 |
C4A |
N4 |
HN42 |
108.0 |
106.6 |
H41 |
C4A |
H42 |
101.8 |
109.5 |
HN41 |
N4 |
HN42 |
108.1 |
106.7 |
C5A |
C5 |
C6 |
118.6 |
120.4 |
C5 |
C5A |
O4P |
108.1 |
109.5 |
C5 |
C5A |
H51 |
112.8 |
109.5 |
C5 |
C5A |
H52 |
112.7 |
109.5 |
C5 |
C6 |
H6 |
120.8 |
119.5 |
O4P |
C5A |
H51 |
112.7 |
109.5 |
O4P |
C5A |
H52 |
112.7 |
109.4 |
C5A |
O4P |
P |
119.1 |
106.8 |
H51 |
C5A |
H52 |
97.8 |
109.4 |
O4P |
P |
O1P |
95.3 |
109.5 |
O4P |
P |
O2P |
106.0 |
109.5 |
O4P |
P |
O3P |
113.8 |
109.5 |
O1P |
P |
O2P |
114.2 |
109.5 |
O1P |
P |
O3P |
117.5 |
109.5 |
O2P |
P |
O3P |
109.0 |
109.5 |
P |
O2P |
HOP2 |
106.0 |
106.8 |
P |
O3P |
HOP3 |
113.8 |
|
Torsion Angles for NPL
Atom I |
Atom J |
Atom K |
Atom L |
Angle (Experimental Model) |
Angle (Ideal Model) |
C2 |
N1 |
C1 |
C6 |
182.4 |
179.5 |
C1 |
N1 |
C2 |
C2A |
4.2 |
0.3 |
C1 |
N1 |
C2 |
C3 |
178.3 |
180.0 |
C1 |
N1 |
C6 |
C5 |
182.3 |
180.0 |
C1 |
N1 |
C6 |
H6 |
2.4 |
359.8 |
H11 |
C1 |
N1 |
H12 |
234.8 |
240.0 |
H11 |
C1 |
N1 |
H13 |
125.3 |
120.1 |
H12 |
C1 |
N1 |
H13 |
250.5 |
240.1 |
C1 |
N1 |
C2 |
C6 |
177.6 |
180.5 |
C2 |
N1 |
C1 |
H11 |
180.0 |
269.5 |
C2 |
N1 |
C1 |
H12 |
305.2 |
29.5 |
C2 |
N1 |
C1 |
H13 |
54.8 |
149.5 |
C2 |
N1 |
C6 |
C5 |
0.1 |
0.5 |
C2 |
N1 |
C6 |
H6 |
180.1 |
180.3 |
C2A |
C2 |
N1 |
C3 |
185.9 |
180.3 |
N1 |
C2 |
C2A |
H21 |
180.0 |
269.7 |
N1 |
C2 |
C2A |
H22 |
305.3 |
29.7 |
N1 |
C2 |
C2A |
H23 |
54.7 |
149.7 |
N1 |
C2 |
C3 |
O3 |
177.6 |
180.3 |
N1 |
C2 |
C3 |
C4 |
359.2 |
0.3 |
C1 |
N1 |
C6 |
C2 |
182.3 |
179.5 |
C6 |
N1 |
C1 |
H11 |
357.7 |
90.0 |
C6 |
N1 |
C1 |
H12 |
122.9 |
210.0 |
C6 |
N1 |
C1 |
H13 |
232.4 |
330.0 |
C6 |
N1 |
C2 |
C2A |
186.6 |
179.8 |
C6 |
N1 |
C2 |
C3 |
0.7 |
359.4 |
C4 |
C5 |
C6 |
N1 |
359.3 |
359.7 |
C5A |
C5 |
C6 |
N1 |
178.4 |
179.7 |
C5 |
C6 |
N1 |
H6 |
180.0 |
180.2 |
H11 |
C1 |
N1 |
C2 |
180.0 |
269.5 |
H11 |
C1 |
N1 |
C6 |
357.7 |
90.0 |
N1 |
C1 |
H11 |
H12 |
125.2 |
120.0 |
N1 |
C1 |
H11 |
H13 |
234.7 |
240.0 |
H12 |
C1 |
H11 |
H13 |
109.5 |
120.0 |
H12 |
C1 |
N1 |
C2 |
305.2 |
29.5 |
H12 |
C1 |
N1 |
C6 |
122.9 |
210.0 |
N1 |
C1 |
H12 |
H11 |
226.3 |
240.0 |
N1 |
C1 |
H12 |
H13 |
113.2 |
119.9 |
H11 |
C1 |
H12 |
H13 |
246.9 |
240.0 |
H13 |
C1 |
N1 |
C2 |
54.8 |
149.5 |
H13 |
C1 |
N1 |
C6 |
232.4 |
330.0 |
N1 |
C1 |
H13 |
H11 |
133.8 |
120.1 |
N1 |
C1 |
H13 |
H12 |
246.8 |
240.1 |
H11 |
C1 |
H13 |
H12 |
113.1 |
120.0 |
C2A |
C2 |
N1 |
C6 |
186.6 |
179.8 |
N1 |
C2 |
C2A |
C3 |
174.3 |
179.7 |
C2A |
C2 |
C3 |
O3 |
352.0 |
359.9 |
C2A |
C2 |
C3 |
C4 |
173.6 |
180.0 |
H21 |
C2A |
C2 |
H22 |
234.7 |
240.1 |
H21 |
C2A |
C2 |
H23 |
125.3 |
120.0 |
H22 |
C2A |
C2 |
H23 |
250.5 |
240.0 |
C3 |
C2 |
N1 |
C6 |
0.7 |
359.4 |
N1 |
C2 |
C3 |
C2A |
185.6 |
180.3 |
C3 |
C2 |
C2A |
H21 |
5.6 |
90.1 |
C3 |
C2 |
C2A |
H22 |
130.9 |
210.0 |
C3 |
C2 |
C2A |
H23 |
240.4 |
330.1 |
O3 |
C3 |
C2 |
C4 |
178.4 |
180.0 |
C2 |
C3 |
O3 |
HO3 |
180.0 |
90.0 |
C2 |
C3 |
C4 |
C4A |
183.8 |
180.0 |
C2 |
C3 |
C4 |
C5 |
0.1 |
359.9 |
H21 |
C2A |
C2 |
C3 |
5.6 |
90.1 |
C2 |
C2A |
H21 |
H22 |
125.2 |
120.0 |
C2 |
C2A |
H21 |
H23 |
234.8 |
240.0 |
H22 |
C2A |
H21 |
H23 |
109.5 |
120.0 |
H22 |
C2A |
C2 |
C3 |
130.9 |
210.0 |
C2 |
C2A |
H22 |
H21 |
227.0 |
240.0 |
C2 |
C2A |
H22 |
H23 |
113.4 |
120.1 |
H21 |
C2A |
H22 |
H23 |
246.5 |
240.0 |
H23 |
C2A |
C2 |
C3 |
240.4 |
330.1 |
C2 |
C2A |
H23 |
H21 |
133.0 |
120.0 |
C2 |
C2A |
H23 |
H22 |
246.6 |
239.9 |
H21 |
C2A |
H23 |
H22 |
113.5 |
119.9 |
C2 |
C3 |
O3 |
C4 |
181.7 |
180.0 |
O3 |
C3 |
C4 |
C4A |
5.5 |
0.1 |
O3 |
C3 |
C4 |
C5 |
181.8 |
180.0 |
C2 |
C3 |
C4 |
O3 |
178.3 |
180.0 |
C4 |
C3 |
O3 |
HO3 |
358.3 |
270.0 |
C4A |
C4 |
C3 |
C5 |
183.7 |
180.1 |
C3 |
C4 |
C4A |
N4 |
341.0 |
89.9 |
C3 |
C4 |
C4A |
H41 |
106.2 |
210.0 |
C3 |
C4 |
C4A |
H42 |
215.7 |
329.9 |
C3 |
C4 |
C5 |
C5A |
181.5 |
180.0 |
C3 |
C4 |
C5 |
C6 |
0.7 |
0.0 |
HO3 |
O3 |
C3 |
C4 |
358.3 |
270.0 |
C3 |
C4 |
C4A |
C5 |
176.3 |
179.9 |
C4A |
C4 |
C5 |
C5A |
357.9 |
359.9 |
C4A |
C4 |
C5 |
C6 |
177.1 |
179.9 |
N4 |
C4A |
C4 |
H41 |
234.7 |
239.9 |
N4 |
C4A |
C4 |
H42 |
125.3 |
120.0 |
C4 |
C4A |
N4 |
HN41 |
180.0 |
66.3 |
C4 |
C4A |
N4 |
HN42 |
54.7 |
180.0 |
H41 |
C4A |
C4 |
H42 |
250.6 |
240.1 |
N1 |
C6 |
C5 |
C4 |
359.3 |
359.7 |
C3 |
C4 |
C5 |
C4A |
183.6 |
180.1 |
C5 |
C4 |
C4A |
N4 |
164.6 |
270.0 |
C5 |
C4 |
C4A |
H41 |
289.9 |
30.1 |
C5 |
C4 |
C4A |
H42 |
39.3 |
150.0 |
C5A |
C5 |
C4 |
C6 |
180.8 |
180.0 |
C4 |
C5 |
C5A |
O4P |
154.5 |
180.0 |
C4 |
C5 |
C5A |
H51 |
279.7 |
300.0 |
C4 |
C5 |
C5A |
H52 |
29.3 |
60.0 |
C4 |
C5 |
C6 |
H6 |
179.2 |
180.0 |
N4 |
C4A |
C4 |
C5 |
164.6 |
270.0 |
C4 |
C4A |
N4 |
H41 |
125.3 |
120.0 |
C4 |
C4A |
N4 |
H42 |
234.7 |
240.1 |
H41 |
C4A |
N4 |
H42 |
109.5 |
120.1 |
HN41 |
N4 |
C4A |
HN42 |
125.3 |
246.3 |
H41 |
C4A |
C4 |
C5 |
289.9 |
30.1 |
C4 |
C4A |
H41 |
N4 |
227.4 |
240.0 |
C4 |
C4A |
H41 |
H42 |
113.6 |
119.9 |
N4 |
C4A |
H41 |
H42 |
246.2 |
239.9 |
H41 |
C4A |
N4 |
HN41 |
54.7 |
306.3 |
H41 |
C4A |
N4 |
HN42 |
289.5 |
60.0 |
H42 |
C4A |
C4 |
C5 |
39.3 |
150.0 |
C4 |
C4A |
H42 |
N4 |
132.6 |
120.0 |
C4 |
C4A |
H42 |
H41 |
246.4 |
240.1 |
N4 |
C4A |
H42 |
H41 |
113.7 |
120.1 |
H42 |
C4A |
N4 |
HN41 |
305.2 |
186.2 |
H42 |
C4A |
N4 |
HN42 |
180.0 |
299.9 |
HN41 |
N4 |
C4A |
H41 |
54.7 |
306.3 |
HN41 |
N4 |
C4A |
H42 |
305.2 |
186.2 |
C4A |
N4 |
HN41 |
HN42 |
234.8 |
113.7 |
HN42 |
N4 |
C4A |
H41 |
289.5 |
60.0 |
HN42 |
N4 |
C4A |
H42 |
180.0 |
299.9 |
C4A |
N4 |
HN42 |
HN41 |
132.5 |
246.3 |
N1 |
C6 |
C5 |
C5A |
178.4 |
179.7 |
C4 |
C5 |
C5A |
C6 |
179.2 |
180.0 |
C5A |
C5 |
C6 |
H6 |
358.4 |
360.0 |
O4P |
C5A |
C5 |
H51 |
234.8 |
240.0 |
O4P |
C5A |
C5 |
H52 |
125.2 |
120.0 |
C5 |
C5A |
O4P |
P |
158.9 |
180.0 |
H51 |
C5A |
C5 |
H52 |
250.5 |
240.0 |
N1 |
C6 |
C5 |
H6 |
180.0 |
179.8 |
C4 |
C5 |
C6 |
C5A |
180.8 |
180.0 |
C6 |
C5 |
C5A |
O4P |
335.3 |
360.0 |
C6 |
C5 |
C5A |
H51 |
100.5 |
120.0 |
C6 |
C5 |
C5A |
H52 |
210.1 |
240.0 |
O4P |
C5A |
C5 |
C6 |
335.3 |
360.0 |
C5 |
C5A |
O4P |
H51 |
125.3 |
120.0 |
C5 |
C5A |
O4P |
H52 |
234.7 |
240.0 |
H51 |
C5A |
O4P |
H52 |
109.5 |
119.9 |
C5A |
O4P |
P |
O1P |
161.4 |
175.0 |
C5A |
O4P |
P |
O2P |
44.3 |
295.0 |
C5A |
O4P |
P |
O3P |
284.6 |
55.0 |
H51 |
C5A |
C5 |
C6 |
100.5 |
120.0 |
C5 |
C5A |
H51 |
O4P |
237.3 |
239.9 |
C5 |
C5A |
H51 |
H52 |
118.7 |
120.0 |
O4P |
C5A |
H51 |
H52 |
241.4 |
240.1 |
H51 |
C5A |
O4P |
P |
33.6 |
59.9 |
H52 |
C5A |
C5 |
C6 |
210.1 |
240.0 |
C5 |
C5A |
H52 |
O4P |
122.7 |
120.0 |
C5 |
C5A |
H52 |
H51 |
241.3 |
240.0 |
O4P |
C5A |
H52 |
H51 |
118.6 |
119.9 |
H52 |
C5A |
O4P |
P |
284.1 |
300.0 |
P |
O4P |
C5A |
H51 |
33.6 |
59.9 |
P |
O4P |
C5A |
H52 |
284.1 |
300.0 |
O1P |
P |
O4P |
O2P |
117.1 |
240.0 |
O1P |
P |
O4P |
O3P |
236.8 |
120.0 |
O2P |
P |
O4P |
O3P |
119.7 |
240.0 |
O4P |
P |
O2P |
HOP2 |
180.0 |
300.0 |
O4P |
P |
O3P |
HOP3 |
180.0 |
|
O4P |
P |
O1P |
O2P |
249.8 |
120.0 |
O4P |
P |
O1P |
O3P |
120.3 |
240.0 |
O2P |
P |
O1P |
O3P |
230.6 |
120.0 |
O1P |
P |
O2P |
HOP2 |
76.4 |
60.0 |
O1P |
P |
O3P |
HOP3 |
290.1 |
|
O4P |
P |
O2P |
O1P |
103.6 |
240.0 |
O4P |
P |
O2P |
O3P |
237.1 |
120.0 |
O1P |
P |
O2P |
O3P |
133.6 |
240.0 |
O2P |
P |
O3P |
HOP3 |
61.9 |
|
O4P |
P |
O3P |
O1P |
250.0 |
120.0 |
O4P |
P |
O3P |
O2P |
118.1 |
240.0 |
O1P |
P |
O3P |
O2P |
228.1 |
120.0 |
O3P |
P |
O2P |
HOP2 |
302.9 |
180.0 |
HOP2 |
O2P |
P |
O3P |
302.9 |
180.0 |
N1 |
C6 |
H6 |
C5 |
180.0 |
180.2 |