Chemical Components in the PDB

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PDBeChem : Chemical Bonds

 Molecule : GDP    

Bonds between two atoms of the molecule

Total Number of Bonds: 45


Record First Atom Second Atom First Element Second Element Bond Order Type Bond Length Bond Stereochemistry Is Aromatic
1 PB O1B P O doub 1.48 N N
2 PB O2B P O sing 1.61 N N
3 PB O3B P O sing 1.61 N N
4 PB O3A P O sing 1.61 N N
5 O2B HOB2 O H sing 0.97 N N
6 O3B HOB3 O H sing 0.97 N N
7 O3A PA O P sing 1.61 N N
8 PA O1A P O doub 1.48 N N
9 PA O2A P O sing 1.61 N N
10 PA O5' P O sing 1.61 N N
11 O2A HOA2 O H sing 0.97 N N
12 O5' C5' O C sing 1.43 N N
13 C5' C4' C C sing 1.53 N N
14 C5' H5' C H sing 1.09 N N
15 C5' H5'' C H sing 1.09 N N
16 C4' O4' C O sing 1.44 N N
17 C4' C3' C C sing 1.54 N N
18 C4' H4' C H sing 1.09 N N
19 O4' C1' O C sing 1.44 N N
20 C3' O3' C O sing 1.43 N N
21 C3' C2' C C sing 1.55 N N
22 C3' H3' C H sing 1.09 N N
23 O3' HO3' O H sing 0.97 N N
24 C2' O2' C O sing 1.43 N N
25 C2' C1' C C sing 1.55 N N
26 C2' H2' C H sing 1.09 N N
27 O2' HO2' O H sing 0.97 N N
28 C1' N9 C N sing 1.47 N N
29 C1' H1' C H sing 1.09 N N
30 N9 C8 N C sing 1.36 N Y
31 N9 C4 N C sing 1.37 N Y
32 C8 N7 C N doub 1.3 N Y
33 C8 H8 C H sing 1.08 N N
34 N7 C5 N C sing 1.36 N Y
35 C5 C6 C C sing 1.41 N N
36 C5 C4 C C doub 1.4 N Y
37 C6 O6 C O doub 1.22 N N
38 C6 N1 C N sing 1.35 N N
39 N1 C2 N C sing 1.36 N N
40 N1 HN1 N H sing 0.97 N N
41 C2 N2 C N sing 1.37 N N
42 C2 N3 C N doub 1.31 N N
43 N2 HN21 N H sing 0.97 N N
44 N2 HN22 N H sing 0.97 N N
45 N3 C4 N C sing 1.34 N N