Chemical Components in the PDB

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PDBeChem : Chemical Bonds

 Molecule : PPD    

Bonds between two atoms of the molecule

Total Number of Bonds: 41


Record First Atom Second Atom First Element Second Element Bond Order Type Bond Length Bond Stereochemistry Is Aromatic
1 N1 C2 N C doub 1.32 N Y
2 N1 C6 N C sing 1.32 N Y
3 C2 C2A C C sing 1.51 N N
4 C2 C3 C C sing 1.39 N Y
5 C2A H2A1 C H sing 1.09 N N
6 C2A H2A2 C H sing 1.09 N N
7 C2A H2A3 C H sing 1.09 N N
8 C3 O3 C O sing 1.36 N N
9 C3 C4 C C doub 1.39 N Y
10 O3 HO3 O H sing 0.97 N N
11 C4 C4A C C sing 1.51 N N
12 C4 C5 C C sing 1.38 N Y
13 C4A N C N sing 1.47 N N
14 C4A H4A1 C H sing 1.09 N N
15 C4A H4A2 C H sing 1.09 N N
16 C5 C6 C C doub 1.38 N Y
17 C5 C5A C C sing 1.51 N N
18 C6 H6 C H sing 1.08 N N
19 C5A O4P C O sing 1.43 N N
20 C5A H5A1 C H sing 1.09 N N
21 C5A H5A2 C H sing 1.09 N N
22 O4P P O P sing 1.61 N N
23 P O1P P O doub 1.48 N N
24 P O2P P O sing 1.61 N N
25 P O3P P O sing 1.61 N N
26 O2P HOP2 O H sing 0.97 N N
27 O3P HOP3 O H sing 0.97 N N
28 N CA N C sing 1.47 N N
29 N HN N H sing 1.01 N N
30 CA CB C C sing 1.53 N N
31 CA C C C sing 1.51 N N
32 CA HA C H sing 1.09 N N
33 CB CG C C sing 1.51 N N
34 CB HB1 C H sing 1.09 N N
35 CB HB2 C H sing 1.09 N N
36 CG OD1 C O doub 1.21 N N
37 CG OD2 C O sing 1.34 N N
38 OD2 HOD O H sing 0.97 N N
39 C O C O doub 1.21 N N
40 C OXT C O sing 1.34 N N
41 OXT HXT O H sing 0.97 N N