Chemical Components in the PDB

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PDBeChem : Chemical Bonds

 Molecule : DJF    

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 B O1 B O sing 1.37 N N
2 B C12 B C sing 1.55 N N
3 B O2' B O sing 1.37 N N
4 B O3' B O sing 1.37 N N
5 P O5' P O sing 1.61 N N
6 P OP1 P O sing 1.61 N N
7 P OP2 P O doub 1.48 N N
8 N1 C2 N C doub 1.32 N Y
9 N1 C6 N C sing 1.33 N Y
10 O1 C10 O C sing 1.44 N N
11 C2 N3 C N sing 1.32 N Y
12 N3 C4 N C doub 1.33 N Y
13 C4 C5 C C sing 1.4 N Y
14 C4 N9 C N sing 1.37 N Y
15 C5 C6 C C doub 1.41 N Y
16 C5 N7 C N sing 1.35 N Y
17 C6 N6 C N sing 1.38 N N
18 N7 C8 N C doub 1.3 N Y
19 C8 N9 C N sing 1.36 N Y
20 N9 C1' N C sing 1.46 N N
21 C1' C2' C C sing 1.54 N N
22 C1' O4' C O sing 1.44 N N
23 C10 C11 C C sing 1.51 N N
24 C11 C12 C C doub 1.39 N Y
25 C11 C13 C C sing 1.38 N Y
26 C12 C16 C C sing 1.38 N Y
27 C13 C14 C C doub 1.38 N Y
28 C14 C15 C C sing 1.38 N Y
29 C15 C16 C C doub 1.39 N Y
30 C16 O17 C O sing 1.36 N N
31 O17 C18 O C sing 1.43 N N
32 C18 C19 C C sing 1.53 N N
33 C19 C20 C C sing 1.53 N N
34 C2' O2' C O sing 1.44 N N
35 C2' C3' C C sing 1.56 N N
36 C20 O21 C O sing 1.43 N N
37 C3' O3' C O sing 1.45 N N
38 C3' C4' C C sing 1.54 N N
39 C4' O4' C O sing 1.44 N N
40 C4' C5' C C sing 1.53 N N
41 C5' O5' C O sing 1.43 N N
42 C2 H2 C H sing 1.08 N N
43 N6 HN6 N H sing 0.97 N N
44 N6 HN6A N H sing 0.97 N N
45 C8 H8 C H sing 1.08 N N
46 C1' H1' C H sing 1.09 N N
47 C10 H10 C H sing 1.09 N N
48 C10 H10A C H sing 1.09 N N
49 C13 H13 C H sing 1.08 N N
50 C14 H14 C H sing 1.08 N N
51 C15 H15 C H sing 1.08 N N
52 C18 H18 C H sing 1.09 N N
53 C18 H18A C H sing 1.09 N N
54 C19 H19 C H sing 1.09 N N
55 C19 H19A C H sing 1.09 N N
56 C2' H2' C H sing 1.09 N N
57 C20 H20 C H sing 1.09 N N
58 C20 H20A C H sing 1.09 N N
59 O21 HO21 O H sing 0.97 N N
60 C3' H3' C H sing 1.09 N N
61 C4' H4' C H sing 1.09 N N
62 C5' H5' C H sing 1.09 N N
63 C5' H5'A C H sing 1.09 N N
64 HOP1 OP1 H O sing 0.97 N N
65 P OP3 P O sing 1.61 N N
66 HOP3 OP3 H O sing 0.97 N N