Chemical Components in the PDB

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PDBeChem : Chemical Bonds

 Molecule : GDX    

Bonds between two atoms of the molecule

Total Number of Bonds: 66


Record First Atom Second Atom First Element Second Element Bond Order Type Bond Length Bond Stereochemistry Is Aromatic
1 N2 C2 N C sing 1.37 N N
2 N2 HN21 N H sing 0.97 N N
3 N2 HN22 N H sing 0.97 N N
4 C2 N1 C N sing 1.36 N N
5 C2 N3 C N doub 1.31 N N
6 N1 C6 N C sing 1.35 N N
7 N1 HN1 N H sing 0.97 N N
8 N3 C4 N C sing 1.34 N N
9 C4 C5 C C doub 1.4 N Y
10 C4 N9 C N sing 1.37 N Y
11 C5 C6 C C sing 1.41 N N
12 C5 N7 C N sing 1.35 N Y
13 C6 O6 C O doub 1.22 N N
14 N7 C8 N C doub 1.3 N Y
15 C8 N9 C N sing 1.36 N Y
16 C8 H8 C H sing 1.08 N N
17 N9 C1D N C sing 1.47 N N
18 C1D C2D C C sing 1.55 N N
19 C1D O4D C O sing 1.44 N N
20 C1D H1' C H sing 1.09 N N
21 C2D O2D C O sing 1.43 N N
22 C2D C3D C C sing 1.55 N N
23 C2D H2' C H sing 1.09 N N
24 O2D HO2A O H sing 0.97 N N
25 C3D O3D C O sing 1.43 N N
26 C3D C4D C C sing 1.54 N N
27 C3D H3' C H sing 1.09 N N
28 O3D HO3A O H sing 0.97 N N
29 C4D O4D C O sing 1.44 N N
30 C4D C5D C C sing 1.53 N N
31 C4D H4' C H sing 1.09 N N
32 C5D O5D C O sing 1.43 N N
33 C5D H5'2 C H sing 1.09 N N
34 C5D H5'1 C H sing 1.09 N N
35 O5D PA O P sing 1.61 N N
36 PA O1A P O doub 1.48 N N
37 PA O2A P O sing 1.61 N N
38 PA O3A P O sing 1.61 N N
39 O2A HOA2 O H sing 0.97 N N
40 O3A PB O P sing 1.61 N N
41 PB O2B P O sing 1.61 N N
42 PB O3B P O doub 1.48 N N
43 PB O1B P O sing 1.61 N N
44 O2B HOB2 O H sing 0.97 N N
45 O1B C1' O C sing 1.43 N N
46 C1' O5' C O sing 1.43 N N
47 C1' C2' C C sing 1.53 N N
48 C1' HC1' C H sing 1.09 N N
49 O5' C5' O C sing 1.43 N N
50 C5' C6' C C sing 1.51 N N
51 C5' C4' C C sing 1.53 N N
52 C5' HC5' C H sing 1.09 N N
53 C6' O6A C O doub 1.21 N N
54 C6' O6B C O sing 1.34 N N
55 O6B HO6B O H sing 0.97 N N
56 C2' O2' C O sing 1.43 N N
57 C2' C3' C C sing 1.53 N N
58 C2' HC2' C H sing 1.09 N N
59 O2' HO2' O H sing 0.97 N N
60 C3' O3' C O sing 1.43 N N
61 C3' C4' C C sing 1.53 N N
62 C3' HC3' C H sing 1.09 N N
63 O3' HO3' O H sing 0.97 N N
64 C4' O4' C O sing 1.43 N N
65 C4' HC4' C H sing 1.09 N N
66 O4' HO4' O H sing 0.97 N N